Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 96 of 204
Found at i:29330220 original size:17 final size:17
Alignment explanation
Indices: 29330193--29330238 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
29330183 CCAATATAAT
* * *
29330193 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
29330210 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
29330227 AAATATTTTTAA
1 AAATATTTTTAA
29330239 AATACTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:29330289 original size:30 final size:30
Alignment explanation
Indices: 29330233--29330296 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
29330223 TTTAAAATAT
** * *
29330233 TTTTAAAATACTTTTTTTATTATTTTTTAA
1 TTTTAAAATACTTTTTAAAATATTTTTAAA
29330263 TTTTAAAATA-TTTTTAAAATACTTTTTAAA
1 TTTTAAAATACTTTTTAAAATA-TTTTTAAA
29330293 TTTT
1 TTTT
29330297 TTTTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTAAAATACTTTTTAAAATATTTTTAAA
Found at i:29330290 original size:12 final size:11
Alignment explanation
Indices: 29330222--29330329 Score: 63
Period size: 11 Copynumber: 10.4 Consensus size: 11
29330212 ATTTTTTTAA
29330222 TTTTAAAATAT
1 TTTTAAAATAT
29330233 TTTTAAAATACT
1 TTTTAAAATA-T
** *
29330245 TTTTTTATTAT
1 TTTTAAAATAT
*
29330256 TTTT----TAA
1 TTTTAAAATAT
29330263 TTTTAAAATAT
1 TTTTAAAATAT
29330274 TTTTAAAATACT
1 TTTTAAAATA-T
29330286 TTTT-AAAT-T
1 TTTTAAAATAT
** *
29330295 TTTT--TTTAA
1 TTTTAAAATAT
29330304 TTTT-AAATAT
1 TTTTAAAATAT
29330314 TTTTAAAATACT
1 TTTTAAAATA-T
29330326 TTTT
1 TTTT
29330330 TTAATTTTTA
Statistics
Matches: 76, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
7 6 0.08
8 1 0.01
9 9 0.12
10 6 0.08
11 36 0.47
12 18 0.24
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:29330348 original size:41 final size:40
Alignment explanation
Indices: 29330204--29330338 Score: 202
Period size: 41 Copynumber: 3.4 Consensus size: 40
29330194 AATATATTTA
29330204 TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
* *
29330244 TTTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAAT-TTTTTTAATTTTAAAATATTTTTAAAATAC
29330285 -TTTTTAAATTTTTTTTTAATTTT-AAATATTTTTAAAATAC
1 TTTTTTAAA--TTTTTTTAATTTTAAAATATTTTTAAAATAC
*
29330325 TTTTTTTAATTTTT
1 TTTTTTAAATTTTT
29330339 AATAAATTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
39 5 0.06
40 31 0.36
41 49 0.57
42 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:29330936 original size:54 final size:57
Alignment explanation
Indices: 29330868--29331170 Score: 225
Period size: 65 Copynumber: 4.9 Consensus size: 57
29330858 TGGATTTGAT
* * * *
29330868 TAGGTTTTATGAAAAATTAAATTAGGGTATTATGTTTTTAATTGTATAGGGTTTT-A
1 TAGGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTAA
29330924 -A-GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTCTGGGCTTAA
1 TAGGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGG--T-T----TTAA
*
29330986 TTAGGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTGGGGTTTGA
1 -TAGGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTT-A-------GGGTTTTA
*
29331051 T
57 A
*** * * *
29331052 TAGGGTTTAGGAACTTTTAAATTACGGTATTAAGTTTTTAATTGTTTAGGGTTTTTGGGTTTGAT
1 TAGGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGG----T---TTT-AA
* * * *
29331117 TAAGGATTAGAAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTT
1 TAGGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTT
29331171 AATTACTTTT
Statistics
Matches: 199, Mismatches: 21, Indels: 52
0.73 0.08 0.19
Matches are distributed among these distances:
54 44 0.22
55 1 0.01
56 1 0.01
57 4 0.02
58 2 0.01
61 4 0.02
62 1 0.01
64 4 0.02
65 130 0.65
66 3 0.02
70 1 0.01
71 1 0.01
73 3 0.02
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (57 bp):
TAGGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTAA
Found at i:29331000 original size:65 final size:64
Alignment explanation
Indices: 29330925--29331170 Score: 357
Period size: 65 Copynumber: 3.8 Consensus size: 64
29330915 AGGGTTTTAA
* * *
29330925 GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTCTGGGCTTAATTAG
1 GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTT-TGGGTTTGATTAG
29330990 GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTGGGGTTTGATTAG
1 GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTT-GGGTTTGATTAG
*** * * * *
29331055 GGTTTAGGAACTTTTAAATTACGGTATTAAGTTTTTAATTGTTTAGGGTTTTTGGGTTTGATTAA
1 GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGG-TTTTGGGTTTGATTAG
* *
29331120 GGATTAGAAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTT
1 GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTT
29331171 AATTACTTTT
Statistics
Matches: 161, Mismatches: 18, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
64 4 0.02
65 153 0.95
66 4 0.02
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.45
Consensus pattern (64 bp):
GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTGGGTTTGATTAG
Found at i:29335993 original size:365 final size:366
Alignment explanation
Indices: 29335322--29336057 Score: 1411
Period size: 365 Copynumber: 2.0 Consensus size: 366
29335312 TCCTAAAAGT
29335322 TAATTCTATAAATAAGAAGCTTTTGTTTTGACTCAAACTCACCAAAGCATCAAAGAGAAGAAAAA
1 TAATTCTATAAATAAGAAGCTTTTGTTTTGACTCAAACTCACCAAAGCATCAAAGAGAAGAAAAA
* *
29335387 AAGAAAGAGCATATCAGCTGAAGAAGAGGACCCAAAGAAAGCTTTGGGTTGGGCAGCCCTGGGAC
66 AAGAAAGAGCATATCAGCTGAAGAAGAGCACCCAAAGAAAGCTTTGGGTTGGGCAGCCCAGGGAC
29335452 TCATCTGCTCACCTCGCTCCTTTTACATTCTCCAGAAGGTTTAAATTATTTACGGTGTTTTGTTT
131 TCATCTGCTCACCTCGCTCCTTTTACATTCTCCAGAAGGTTTAAATTATTTACGGTGTTTTGTTT
29335517 TCATAAGTAGTTCTTTTTTACTGCATTTGAACAAGATGATTATGATGAGAAATTGCAGGGAAACA
196 TCATAAGTAGTTCTTTTTTACTGCATTTGAACAAGATGATTATGATGAGAAATTGCAGGGAAACA
*
29335582 GGAGAGAGATGAGGCCTTCAAGGTGCTCTATTGTGGGATATGCCACTCTGATTTTCATATGATCA
261 GGAGAGAGATGAGGCCTTCAAGATGCTCTATTGTGGGATATGCCACTCTGATTTTCATATGATCA
29335647 AGAATGAATGGGGTAACACTGTTCATCCTTTTCTTCCTGGG
326 AGAATGAATGGGGTAACACTGTTCATCCTTTTCTTCCTGGG
*
29335688 TAATTCTATAAATAAGAAGCTTTTGTTTTGACTCAAACTCACCAAAGTATCAAAGAGAAGAAAAA
1 TAATTCTATAAATAAGAAGCTTTTGTTTTGACTCAAACTCACCAAAGCATCAAAGAGAAGAAAAA
*
29335753 AAGAATGAGCATATCAGCTGAAGAAGAGCACCCAAAGAAAGCTTTGGGTTGGGCAG-CCAGGGAC
66 AAGAAAGAGCATATCAGCTGAAGAAGAGCACCCAAAGAAAGCTTTGGGTTGGGCAGCCCAGGGAC
*
29335817 TCATCTGCTCACCTCTCTCCTTTTACATTCTCCAGAAGGTTTAAATTATTTACGGTGTTTTGTTT
131 TCATCTGCTCACCTCGCTCCTTTTACATTCTCCAGAAGGTTTAAATTATTTACGGTGTTTTGTTT
29335882 TCATAAGTAGTTCTTTTTTACTGCATTTGAACAAGATGATTATGATGAGAAATTGCAGGGAAACA
196 TCATAAGTAGTTCTTTTTTACTGCATTTGAACAAGATGATTATGATGAGAAATTGCAGGGAAACA
29335947 GGAGAGAGATGAGGCCTTCAAGATGCTCTATTGTGGGATATGCCACTCTGATTTTCATATGATCA
261 GGAGAGAGATGAGGCCTTCAAGATGCTCTATTGTGGGATATGCCACTCTGATTTTCATATGATCA
29336012 AGAATGAATGGGGTAACACTGTTCATCCTTTTCTTCCTGGG
326 AGAATGAATGGGGTAACACTGTTCATCCTTTTCTTCCTGGG
29336053 TAATT
1 TAATT
29336058 AATTTCTCTT
Statistics
Matches: 364, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
365 246 0.68
366 118 0.32
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (366 bp):
TAATTCTATAAATAAGAAGCTTTTGTTTTGACTCAAACTCACCAAAGCATCAAAGAGAAGAAAAA
AAGAAAGAGCATATCAGCTGAAGAAGAGCACCCAAAGAAAGCTTTGGGTTGGGCAGCCCAGGGAC
TCATCTGCTCACCTCGCTCCTTTTACATTCTCCAGAAGGTTTAAATTATTTACGGTGTTTTGTTT
TCATAAGTAGTTCTTTTTTACTGCATTTGAACAAGATGATTATGATGAGAAATTGCAGGGAAACA
GGAGAGAGATGAGGCCTTCAAGATGCTCTATTGTGGGATATGCCACTCTGATTTTCATATGATCA
AGAATGAATGGGGTAACACTGTTCATCCTTTTCTTCCTGGG
Found at i:29336608 original size:112 final size:113
Alignment explanation
Indices: 29336411--29336738 Score: 405
Period size: 113 Copynumber: 2.9 Consensus size: 113
29336401 AAAATAAGCA
* * * * *
29336411 TTAGCGGCGTTTTCGAGAAAGCGCCGCAAAACACCTAATCCCAACGACGCCGTTTTCTGAGCTTT
1 TTAGCGGCGTTTTCAACAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
* * *
29336476 TGGGGAATTAGCGGCGTTTTTTCTGAAGCGACGCTAATACCCA-GGCT
66 CGGGGATTTAGCGGCGTTTTTTCTGAAGCGCCGCTAATACCCAGGGCT
* * *
29336523 TTAGCGGCGTTTTCAACAAAGCGCCACAAAAAAAACTGAGCCCAACGATGCCGTTTTC-GAGCTT
1 TTAGCGGCGTTTTCAACAAAGCGCCAC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
29336587 TCGGGGATTTAGCGGCG-TTTTTCAAGTAAGCGCCGCTAATATCCAGGGCT
65 TCGGGGATTTAGCGGCGTTTTTTC-TG-AAGCGCCGCTAATACCCAGGGCT
* * * *
29336637 TTAGCGGCATTTT-AGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTCA-ACAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
29336701 TC-GGGATTTAGTGGCGTTTTTTGTAAAGCGCCGCTAAT
65 TCGGGGATTTAGCGGCGTTTTTTCTGAAGCGCCGCTAAT
29336739 GCTCAGTAAT
Statistics
Matches: 185, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
111 6 0.03
112 59 0.32
113 80 0.43
114 40 0.22
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (113 bp):
TTAGCGGCGTTTTCAACAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
CGGGGATTTAGCGGCGTTTTTTCTGAAGCGCCGCTAATACCCAGGGCT
Found at i:29337301 original size:15 final size:14
Alignment explanation
Indices: 29337283--29337357 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
29337273 AAGTTTTATA
29337283 GATTATGGAATTAAG
1 GATTATGG-ATTAAG
*
29337298 GATTATGGATTAGG
1 GATTATGGATTAAG
* *
29337312 GATTCTGGTTTAAG
1 GATTATGGATTAAG
*
29337326 GGTTAATGTGATTTAAG
1 GATT-ATG-GA-TTAAG
* *
29337343 GTTTATGGGTTAAG
1 GATTATGGATTAAG
29337357 G
1 G
29337358 GTTAGGGGTT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
14 25 0.52
15 11 0.23
16 4 0.08
17 8 0.17
ACGTcount: A:0.28, C:0.01, G:0.32, T:0.39
Consensus pattern (14 bp):
GATTATGGATTAAG
Found at i:29337357 original size:14 final size:14
Alignment explanation
Indices: 29337338--29337377 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
29337328 TTAATGTGAT
* *
29337338 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
29337352 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
29337366 TTAGGGGTTAGG
1 TTAAGGGTTAGG
29337378 TTAGGGGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.45, T:0.35
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:29337394 original size:14 final size:12
Alignment explanation
Indices: 29337350--29337388 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
29337340 AAGGTTTATG
*
29337350 GGTTAAGGGTTA
1 GGTTAGGGGTTA
29337362 GGGGTTAGGGGTTA
1 --GGTTAGGGGTTA
29337376 GGTTAGGGGTTA
1 GGTTAGGGGTTA
29337388 G
1 G
29337389 ATGTTAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.18, C:0.00, G:0.51, T:0.31
Consensus pattern (12 bp):
GGTTAGGGGTTA
Found at i:29337394 original size:19 final size:19
Alignment explanation
Indices: 29337357--29337394 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
29337347 ATGGGTTAAG
*
29337357 GGTTAGGGGTTAGGGGTTA
1 GGTTAGGGGTTAGAGGTTA
*
29337376 GGTTAGGGGTTAGATGTTA
1 GGTTAGGGGTTAGAGGTTA
29337395 AGAGTTAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.34
Consensus pattern (19 bp):
GGTTAGGGGTTAGAGGTTA
Found at i:29337615 original size:42 final size:42
Alignment explanation
Indices: 29337517--29337723 Score: 369
Period size: 42 Copynumber: 4.9 Consensus size: 42
29337507 TTTTGTATAA
29337517 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT-TTCT
*
29337560 AAGCGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCT
* *
29337602 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCT
29337644 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCT
*
29337686 AAGCGTCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
29337724 GTTTGTAAAC
Statistics
Matches: 157, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
42 120 0.76
43 37 0.24
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCT
Found at i:29338441 original size:16 final size:16
Alignment explanation
Indices: 29338392--29338432 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
29338382 GTTTGGTTCA
29338392 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
29338408 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
29338424 CTGTAATGG
1 CTGTAATGG
29338433 GATAAAGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:29340536 original size:26 final size:26
Alignment explanation
Indices: 29340504--29340872 Score: 427
Period size: 26 Copynumber: 14.2 Consensus size: 26
29340494 GTGTTGACCA
*
29340504 AAATACCCTCGATGGGTAAATTACCA
1 AAATACCCTCGATGGGTAAATTACCG
*
29340530 AAATACCCTCGATGGGTAAATTACTG
1 AAATACCCTCGATGGGTAAATTACCG
*
29340556 AAATACCCTCAATGGGTAAATTACCG
1 AAATACCCTCGATGGGTAAATTACCG
* * ** *
29340582 AAATATCCTCAATGGGTATGTTATCG
1 AAATACCCTCGATGGGTAAATTACCG
*
29340608 AAATACCCTCGATGGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTACCG
* * *
29340634 AAATATCGTCGATGGGTAAATTACTG
1 AAATACCCTCGATGGGTAAATTACCG
* *
29340660 AAATACCCTCAATCGGTAAATTACCG
1 AAATACCCTCGATGGGTAAATTACCG
* ** * *
29340686 AAATACCTTTAATAGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTACCG
* *
29340712 AATTACCCTCGAT-GGTAAATTGCCG
1 AAATACCCTCGATGGGTAAATTACCG
*
29340737 AAATACCCTCGATGGGTAAATTACCA
1 AAATACCCTCGATGGGTAAATTACCG
** *
29340763 AAATACCCTCGATGGGTAAAGAATCG
1 AAATACCCTCGATGGGTAAATTACCG
** * *
29340789 AAATACCCTTAATGGGTAAAGTACCA
1 AAATACCCTCGATGGGTAAATTACCG
* *
29340815 AAATATCCTCGATGGGTAAATTACTG
1 AAATACCCTCGATGGGTAAATTACCG
*
29340841 AAATA-CCTCCGATGGGTAAATTACTG
1 AAATACCCT-CGATGGGTAAATTACCG
29340867 AAATAC
1 AAATAC
29340873 GCCCAAAAGG
Statistics
Matches: 291, Mismatches: 49, Indels: 5
0.84 0.14 0.01
Matches are distributed among these distances:
25 25 0.09
26 266 0.91
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (26 bp):
AAATACCCTCGATGGGTAAATTACCG
Found at i:29341078 original size:27 final size:27
Alignment explanation
Indices: 29341027--29341091 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
29341017 TGTTATGAAG
* *
29341027 TACTGTTTCTGGTGGCTCGGCCACAGT-
1 TACTGTTACTGGTGGCTAGGCCACA-TA
* *
29341054 TACTGTTACTGGTGGCTATGTCACATA
1 TACTGTTACTGGTGGCTAGGCCACATA
29341081 TACTG-TACTGG
1 TACTGTTACTGG
29341092 CAGCTTGGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.21
27 26 0.79
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTAGGCCACATA
Found at i:29348310 original size:26 final size:26
Alignment explanation
Indices: 29348273--29348496 Score: 322
Period size: 26 Copynumber: 8.6 Consensus size: 26
29348263 GTGTTGATCA
*
29348273 AAATACCCTCGATGGGTAAATTATCA
1 AAATACCCTCGATGGGTAAATTATCG
***
29348299 AAATAAATTCGATGGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTATCG
* *
29348325 AAATACCTTCGATGGGTAAATTACCG
1 AAATACCCTCGATGGGTAAATTATCG
*
29348351 CAATACCCTCGATGGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTATCG
* *
29348377 AAATACCCTCGATGGGTAAATTACCA
1 AAATACCCTCGATGGGTAAATTATCG
*
29348403 AAATACCCTCGATGGGTAAATTATTG
1 AAATACCCTCGATGGGTAAATTATCG
*
29348429 AAATACCCTCGATTGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTATCG
* *
29348455 AAATACCCTCGATGGATAAAGTATCG
1 AAATACCCTCGATGGGTAAATTATCG
*
29348481 AAATACCTTCGATGGG
1 AAATACCCTCGATGGG
29348497 ACCCTCGATG
Statistics
Matches: 175, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 175 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (26 bp):
AAATACCCTCGATGGGTAAATTATCG
Found at i:29348337 original size:52 final size:52
Alignment explanation
Indices: 29348273--29348593 Score: 331
Period size: 52 Copynumber: 5.9 Consensus size: 52
29348263 GTGTTGATCA
* ***
29348273 AAATACCCTCGATGGGTAAATTATCAAAATAAATTCGATGGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATCG
* **
29348325 AAATACCTTCGATGGGTAAATTACCGCAATACCCTCGATGGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATCG
*
29348377 AAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATTG
1 AAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATCG
* * * * *
29348429 AAATACCCTCGATTGGTAAATTATCGAAATACCCTCGATGGATAAAGTATCG
1 AAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATCG
* ** *
29348481 AAATACCTTCGATGGGACCCTCGATGGGTAAAGTACTGAAATACCCTCGATAGGTAAATTA-CTG
1 --A-A------AT---ACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATC-G
**
29348545 AAATACCCTCGATGGGTAAATTACTGAAATACCC-CTGATGGGTAAATTA
1 AAATACCCTCGATGGGTAAATTACCAAAATACCCTC-GATGGGTAAATTA
29348594 CTAAAATACC
Statistics
Matches: 229, Mismatches: 26, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
51 1 0.00
52 180 0.79
54 1 0.00
55 3 0.01
61 3 0.01
62 1 0.00
63 1 0.00
64 39 0.17
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (52 bp):
AAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATCG
Found at i:29348407 original size:78 final size:78
Alignment explanation
Indices: 29348273--29348604 Score: 337
Period size: 78 Copynumber: 4.1 Consensus size: 78
29348263 GTGTTGATCA
* ***
29348273 AAATACCCTCGATGGGTAAATTATCAAAATAAATTCGATGGGTAAATTATCGAAATACCTTCGAT
1 AAATACCCTCGATGGGTAAATTATCGAAATACCCTCGATGGGTAAATTATCGAAATACCTTCGAT
29348338 GGGTAAATTACCG
66 GGGTAAATTACCG
* * * *
29348351 CAATACCCTCGATGGGTAAATTATCGAAATACCCTCGATGGGTAAATTACCAAAATACCCTCGAT
1 AAATACCCTCGATGGGTAAATTATCGAAATACCCTCGATGGGTAAATTATCGAAATACCTTCGAT
**
29348416 GGGTAAATTATTG
66 GGGTAAATTACCG
* * *
29348429 AAATACCCTCGATTGGTAAATTATCGAAATACCCTCGATGGATAAAGTATCGAAATACCTTCGAT
1 AAATACCCTCGATGGGTAAATTATCGAAATACCCTCGATGGGTAAATTATCGAAATA-C--C--T
* *
29348494 GGGACCCTCGATGGGTAAAGTACTG
61 -------TCGATGGGTAAATTACCG
* *
29348519 AAATACCCTCGATAGGTAAATTA-CTGAAATACCCTCGATGGGTAAATTA-CTGAAATACC-CCT
1 AAATACCCTCGATGGGTAAATTATC-GAAATACCCTCGATGGGTAAATTATC-GAAATACCTTC-
**
29348581 GATGGGTAAATTACTA
63 GATGGGTAAATTACCG
29348597 AAATACCC
1 AAATACCC
29348605 CAAAAGGGTA
Statistics
Matches: 214, Mismatches: 25, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
77 1 0.00
78 141 0.66
79 1 0.00
81 1 0.00
87 1 0.00
89 3 0.01
90 66 0.31
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (78 bp):
AAATACCCTCGATGGGTAAATTATCGAAATACCCTCGATGGGTAAATTATCGAAATACCTTCGAT
GGGTAAATTACCG
Found at i:29348513 original size:38 final size:38
Alignment explanation
Indices: 29348459--29348531 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
29348449 TTATCGAAAT
*
29348459 ACCCTCGATGGATAAAGTA-TCGAAATACCTTCGATGGG
1 ACCCTCGATGGATAAAGTACT-GAAATACCCTCGATGGG
*
29348497 ACCCTCGATGGGTAAAGTACTGAAATACCCTCGAT
1 ACCCTCGATGGATAAAGTACTGAAATACCCTCGAT
29348532 AGGTAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
38 31 0.97
39 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (38 bp):
ACCCTCGATGGATAAAGTACTGAAATACCCTCGATGGG
Found at i:29348548 original size:64 final size:64
Alignment explanation
Indices: 29348433--29348560 Score: 172
Period size: 64 Copynumber: 2.0 Consensus size: 64
29348423 TTATTGAAAT
* * *
29348433 ACCCTCGATTGGTAAATTATCGAAATACCCTCGATGGATAAAGTATCGAAATACCTTCGATGGG
1 ACCCTCGATGGGTAAAGTATCGAAATACCCTCGATGGATAAAGTATCGAAATACCCTCGATGGG
*
29348497 ACCCTCGATGGGTAAAGTA-CTGAAATACCCTCGATAGG-TAAATTA-CTGAAATACCCTCGATG
1 ACCCTCGATGGGTAAAGTATC-GAAATACCCTCGAT-GGATAAAGTATC-GAAATACCCTCGATG
29348559 GG
63 GG
29348561 TAAATTACTG
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
63 2 0.04
64 53 0.93
65 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (64 bp):
ACCCTCGATGGGTAAAGTATCGAAATACCCTCGATGGATAAAGTATCGAAATACCCTCGATGGG
Found at i:29348574 original size:90 final size:90
Alignment explanation
Indices: 29348407--29348577 Score: 265
Period size: 90 Copynumber: 1.9 Consensus size: 90
29348397 TTACCAAAAT
* * *
29348407 ACCCTCGATGGGTAAATTATTGAAATACCCTCGATTGGTAAATTATCGAAATACCCTCGATGGAT
1 ACCCTCGATGGGTAAAGTACTGAAATACCCTCGATAGGTAAATTATCGAAATACCCTCGATGGAT
29348472 AAAGTATCGAAATACCTTCGATGGG
66 AAAGTATCGAAATACCTTCGATGGG
*
29348497 ACCCTCGATGGGTAAAGTACTGAAATACCCTCGATAGGTAAATTA-CTGAAATACCCTCGATGGG
1 ACCCTCGATGGGTAAAGTACTGAAATACCCTCGATAGGTAAATTATC-GAAATACCCTCGATGGA
*
29348561 TAAATTA-CTGAAATACC
65 TAAAGTATC-GAAATACC
29348578 CCTGATGGGT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
89 2 0.03
90 72 0.97
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (90 bp):
ACCCTCGATGGGTAAAGTACTGAAATACCCTCGATAGGTAAATTATCGAAATACCCTCGATGGAT
AAAGTATCGAAATACCTTCGATGGG
Found at i:29348601 original size:116 final size:116
Alignment explanation
Indices: 29348381--29348603 Score: 317
Period size: 116 Copynumber: 1.9 Consensus size: 116
29348371 TTATCGAAAT
* * * *
29348381 ACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATTGAAATACCCTCGATTGGT
1 ACCCTCGATGGGTAAAGTACCAAAATACCCTCGATAGGTAAATTACTGAAATACCCTCGATGGGT
*
29348446 AAATTATCGAAATACCCTCGATGGATAAAGTATCGAAATACCTTCGATGGG
66 AAATTATCGAAATACCCTCGATGGATAAAGTATCAAAATACCTTCGATGGG
**
29348497 ACCCTCGATGGGTAAAGTACTGAAATACCCTCGATAGGTAAATTACTGAAATACCCTCGATGGGT
1 ACCCTCGATGGGTAAAGTACCAAAATACCCTCGATAGGTAAATTACTGAAATACCCTCGATGGGT
* *
29348562 AAATTA-CTGAAATACCC-CTGATGGGTAAATTA-CTAAAATACC
66 AAATTATC-GAAATACCCTC-GATGGATAAAGTATC-AAAATACC
29348604 CCAAAAGGGT
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
115 3 0.03
116 92 0.97
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (116 bp):
ACCCTCGATGGGTAAAGTACCAAAATACCCTCGATAGGTAAATTACTGAAATACCCTCGATGGGT
AAATTATCGAAATACCCTCGATGGATAAAGTATCAAAATACCTTCGATGGG
Found at i:29348605 original size:26 final size:26
Alignment explanation
Indices: 29348497--29348604 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
29348487 CTTCGATGGG
*
29348497 ACCCTCGATGGGTAAAGTACTGAAAT
1 ACCCTCGATGGGTAAATTACTGAAAT
*
29348523 ACCCTCGATAGGTAAATTACTGAAAT
1 ACCCTCGATGGGTAAATTACTGAAAT
29348549 ACCCTCGATGGGTAAATTACTGAAAT
1 ACCCTCGATGGGTAAATTACTGAAAT
*
29348575 ACCC-CTGATGGGTAAATTACTAAAAT
1 ACCCTC-GATGGGTAAATTACTGAAAT
29348601 ACCC
1 ACCC
29348605 CAAAAGGGTA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 1 0.01
26 76 0.99
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (26 bp):
ACCCTCGATGGGTAAATTACTGAAAT
Found at i:29349381 original size:21 final size:22
Alignment explanation
Indices: 29349357--29349400 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
29349347 TACAAATAAG
29349357 TTTTCACA-ACAAACAC-TATTT
1 TTTTCA-AGACAAACACGTATTT
29349378 TTTTCAAGACAAACACGTATTT
1 TTTTCAAGACAAACACGTATTT
29349400 T
1 T
29349401 CAACTACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 1 0.05
21 14 0.67
22 6 0.29
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTTCAAGACAAACACGTATTT
Found at i:29350016 original size:142 final size:146
Alignment explanation
Indices: 29349841--29350122 Score: 412
Period size: 146 Copynumber: 2.0 Consensus size: 146
29349831 TCCAAATCAC
* * * *
29349841 ATTTTATAGATCTATTATTAAGAAATGGGTTTTAGTTTT-AGTTTTTT-TGT-TT-TCTT-TTGT
1 ATTTTACAGATCTATTATTAAGAAATGAGTTTTAGTTTTAAATTTTTTAT-TATTATCTTCTTGG
*
29349901 AAATTGATTGAGAGTTGAAACTGTTGAGAAATGAATTTTTATTCTTTCTTCTTGTGTTCTACAAA
65 AAATTGATTGAGAGTTGAAACTGTTGAGAAATGAATTTTTATTCTTTCTTCTTATGTTCTACAAA
29349966 TTCATGGAGAGAAGAGA
130 TTCATGGAGAGAAGAGA
29349983 ATTTTACAGATCTATTATTAAGAAATGAGTTTTAGTTTTAAATTTTTTATTATTATCTTCTTGGA
1 ATTTTACAGATCTATTATTAAGAAATGAGTTTTAGTTTTAAATTTTTTATTATTATCTTCTTGGA
* * * * * *
29350048 AATTGATTGAGAGTTGAAAGTGTTGAGAAATGATTTTTTTTTCTTTCTTGTTATGTTGTAGAAAT
66 AATTGATTGAGAGTTGAAACTGTTGAGAAATGAATTTTTATTCTTTCTTCTTATGTTCTACAAAT
*
29350113 TGATGGAGAG
131 TCATGGAGAG
29350123 TAGAAGAGAA
Statistics
Matches: 123, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
142 37 0.30
143 8 0.07
144 3 0.02
145 4 0.03
146 71 0.58
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.48
Consensus pattern (146 bp):
ATTTTACAGATCTATTATTAAGAAATGAGTTTTAGTTTTAAATTTTTTATTATTATCTTCTTGGA
AATTGATTGAGAGTTGAAACTGTTGAGAAATGAATTTTTATTCTTTCTTCTTATGTTCTACAAAT
TCATGGAGAGAAGAGA
Found at i:29350167 original size:26 final size:26
Alignment explanation
Indices: 29350137--29350189 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
29350127 AGAGAATGAG
*
29350137 GAGTAAGATTAAAGTAAAAACAAGAT
1 GAGTAAGACTAAAGTAAAAACAAGAT
29350163 GAGTAAGACTAAAGTAAAAACAAGAT
1 GAGTAAGACTAAAGTAAAAACAAGAT
29350189 G
1 G
29350190 GAAACAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.57, C:0.06, G:0.21, T:0.17
Consensus pattern (26 bp):
GAGTAAGACTAAAGTAAAAACAAGAT
Found at i:29350809 original size:23 final size:24
Alignment explanation
Indices: 29350765--29350810 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
29350755 AATATAATTT
29350765 TTAAATATTTTTAAGAAATTAATA
1 TTAAATATTTTTAAGAAATTAATA
* *
29350789 TTAATTATTTTTAA-AATTTAAT
1 TTAAATATTTTTAAGAAATTAAT
29350811 TTGAACGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTAAATATTTTTAAGAAATTAATA
Found at i:29374623 original size:25 final size:25
Alignment explanation
Indices: 29374589--29374638 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
29374579 GTGTCTCGAG
29374589 AATGAGTGGGGGAATGGCACAGGCT
1 AATGAGTGGGGGAATGGCACAGGCT
29374614 AATGAGTGGGGGAATGGCACAGGCT
1 AATGAGTGGGGGAATGGCACAGGCT
29374639 GCGAATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.44, T:0.16
Consensus pattern (25 bp):
AATGAGTGGGGGAATGGCACAGGCT
Found at i:29383533 original size:182 final size:181
Alignment explanation
Indices: 29383202--29383564 Score: 600
Period size: 182 Copynumber: 2.0 Consensus size: 181
29383192 ATAAAGCGTA
* * *
29383202 AATATAGTATTTTTGTGTGAATATTTGATGCTAAGATTTAAGAATAATTTATATGAATGAATGGT
1 AATATAGTATTTTTGTGTGAATATATGATGCTAAGATTTAAGAATAAGTTATATGAATGAATGAT
* * *
29383267 TAGTGACGTCACACTAGTTATCCTTTATGTCCCAAAATTTAAGAAAGTTAGGATTAAATTGAATG
66 TAGCGACGTCACACCAATTATCCTTTATGTCCCAAAATTTAAGAAAGTTAGGATTAAATTGAATG
*
29383332 GATTGGCGAATTGTCGGGCTCCACTAAGAATTTTAGAAATTTTAGTGGTTG
131 GATTGGCGAACTGTCGGGCTCCACTAAGAATTTTAGAAATTTTAGTGGTTG
* * *
29383383 AATATAGTTTTTTTGTGTGAATATATGATGCTAAGATTTGAGAATAAGTTGTATGAATGAATGAT
1 AATATAGTATTTTTGTGTGAATATATGATGCTAAGATTTAAGAATAAGTTATATGAATGAATGAT
*
29383448 TAGCGATGTCACACCCAATTATCCTTTATGTCCCAAAATTTAAGAAAGTTAGGATTAAATTGAAT
66 TAGCGACGTCACA-CCAATTATCCTTTATGTCCCAAAATTTAAGAAAGTTAGGATTAAATTGAAT
* *
29383513 GGATTGGTGAACTGTCGGGCTCCACTGAGAATTTTAGAAATTTTAGTGGTTG
130 GGATTGGCGAACTGTCGGGCTCCACTAAGAATTTTAGAAATTTTAGTGGTTG
29383565 GATTGTGATT
Statistics
Matches: 168, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
181 70 0.42
182 98 0.58
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (181 bp):
AATATAGTATTTTTGTGTGAATATATGATGCTAAGATTTAAGAATAAGTTATATGAATGAATGAT
TAGCGACGTCACACCAATTATCCTTTATGTCCCAAAATTTAAGAAAGTTAGGATTAAATTGAATG
GATTGGCGAACTGTCGGGCTCCACTAAGAATTTTAGAAATTTTAGTGGTTG
Found at i:29384613 original size:68 final size:70
Alignment explanation
Indices: 29384539--29384723 Score: 230
Period size: 70 Copynumber: 2.7 Consensus size: 70
29384529 AGGTTTATGG
* * * *
29384539 TGTAAGACCATAGCTCGACTATGATAACCAATAGAGTCCGCTAGGA-AA-ATAAACATGAGGTTA
1 TGTAAGACCATAGCTCGACTATGACAACAAATAGAGTCCGCTAGGACAACAAAAACAAGAGGTTA
29384602 CATTA
66 CATTA
* * * * *
29384607 TGTAAGACCATGGCTCGTCCATGACAACAAATAGAGTCTGCTAGGACAACAAAAACAAGGGGTTA
1 TGTAAGACCATAGCTCGACTATGACAACAAATAGAGTCCGCTAGGACAACAAAAACAAGAGGTTA
*
29384672 CATTG
66 CATTA
* * *
29384677 TGTAAGACCCTAGCTCGACTATGGCAACAAATAAAAGTCCGCTAGGA
1 TGTAAGACCATAGCTCGACTATGACAACAAAT-AGAGTCCGCTAGGA
29384724 TAGTGAACCA
Statistics
Matches: 97, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
68 40 0.41
69 2 0.02
70 43 0.44
71 12 0.12
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (70 bp):
TGTAAGACCATAGCTCGACTATGACAACAAATAGAGTCCGCTAGGACAACAAAAACAAGAGGTTA
CATTA
Found at i:29387004 original size:13 final size:13
Alignment explanation
Indices: 29386944--29387004 Score: 61
Period size: 13 Copynumber: 4.7 Consensus size: 13
29386934 AGTTCTTCAT
29386944 TGCTTTTG-GAAAG
1 TGCTTTTGAG-AAG
*
29386957 TGCTTTTGAGAAT
1 TGCTTTTGAGAAG
* * *
29386970 TGCTGTGGAAAAG
1 TGCTTTTGAGAAG
*
29386983 TACTTTTGAGAAG
1 TGCTTTTGAGAAG
29386996 TGCTTTTGA
1 TGCTTTTGA
29387005 AAATTTTGAG
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
13 36 0.97
14 1 0.03
ACGTcount: A:0.25, C:0.08, G:0.28, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:29387006 original size:26 final size:26
Alignment explanation
Indices: 29386944--29387007 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
29386934 AGTTCTTCAT
* * *
29386944 TGCTTTTGGAAAGTGCTTTTGAGAAT
1 TGCTTTTGAAAAGTACTTTTGAGAAG
* *
29386970 TGCTGTGGAAAAGTACTTTTGAGAAG
1 TGCTTTTGAAAAGTACTTTTGAGAAG
29386996 TGCTTTTGAAAA
1 TGCTTTTGAAAA
29387008 TTTTGAGTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.28, C:0.08, G:0.27, T:0.38
Consensus pattern (26 bp):
TGCTTTTGAAAAGTACTTTTGAGAAG
Found at i:29387277 original size:8 final size:8
Alignment explanation
Indices: 29387264--29387291 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
29387254 TATATAAACT
29387264 ATATTTAA
1 ATATTTAA
29387272 ATATTTAA
1 ATATTTAA
29387280 ATATTTAA
1 ATATTTAA
29387288 ATAT
1 ATAT
29387292 AATAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTTAA
Found at i:29389150 original size:72 final size:73
Alignment explanation
Indices: 29389060--29389234 Score: 230
Period size: 72 Copynumber: 2.4 Consensus size: 73
29389050 AAAATCACAT
* * *
29389060 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATATCTAAA
1 ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
*
29389124 GACCAAAC
66 AACCAAAC
* * *
29389132 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAAATTCAATATCCAA
1 ATAAACAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAA
29389195 AAACCAAAC
65 AAACCAAAC
* * *
29389204 ATAAATAGCTATTGATAAAACTAGTTTAGCA
1 ATAAACAACTATTGATAAAACTAATTTAGCA
29389235 TTGTTGTTTA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
71 1 0.01
72 83 0.95
73 3 0.03
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (73 bp):
ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
AACCAAAC
Found at i:29389677 original size:18 final size:18
Alignment explanation
Indices: 29389656--29389720 Score: 105
Period size: 18 Copynumber: 3.7 Consensus size: 18
29389646 TCCATCAATT
29389656 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
29389674 TGAACATCATTAGAAATG
1 TGAACATCATTTGAAATG
*
29389692 TGAACATCATAT-AAATG
1 TGAACATCATTTGAAATG
29389709 TGAACATCATTT
1 TGAACATCATTT
29389721 CTCATATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
17 16 0.37
18 27 0.63
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:29392201 original size:19 final size:19
Alignment explanation
Indices: 29392177--29392253 Score: 109
Period size: 19 Copynumber: 4.1 Consensus size: 19
29392167 AGGGTGGAGA
*
29392177 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGTACCAGC
*
29392196 AGAGGAACAAATTACCAGC
1 AGAGGAACAAAGTACCAGC
*
29392215 AGAGGAACAAATTACCAGC
1 AGAGGAACAAAGTACCAGC
* *
29392234 AGAGGAATAAAGAACCAGC
1 AGAGGAACAAAGTACCAGC
29392253 A
1 A
29392254 CCAGCAGAGG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 53 1.00
ACGTcount: A:0.49, C:0.21, G:0.23, T:0.06
Consensus pattern (19 bp):
AGAGGAACAAAGTACCAGC
Found at i:29392256 original size:25 final size:25
Alignment explanation
Indices: 29392228--29392322 Score: 122
Period size: 25 Copynumber: 3.8 Consensus size: 25
29392218 GGAACAAATT
29392228 ACCAGCAGAGGAATAAAGAACCAGC
1 ACCAGCAGAGGAATAAAGAACCAGC
*
29392253 ACCAGCAGAGGTAA-AAAGAACTAGC
1 ACCAGCAGAGG-AATAAAGAACCAGC
* * *
29392278 ACCAGTAGAAGAACAAAGAACCAGC
1 ACCAGCAGAGGAATAAAGAACCAGC
29392303 ACCAGCAGAGG-ATCAAAGAA
1 ACCAGCAGAGGAAT-AAAGAA
29392323 GCAGTAGAGG
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
24 3 0.05
25 55 0.92
26 2 0.03
ACGTcount: A:0.49, C:0.22, G:0.23, T:0.05
Consensus pattern (25 bp):
ACCAGCAGAGGAATAAAGAACCAGC
Found at i:29392328 original size:44 final size:44
Alignment explanation
Indices: 29392209--29392346 Score: 134
Period size: 44 Copynumber: 3.0 Consensus size: 44
29392199 GGAACAAATT
* ** * *
29392209 ACCAGCAGAGGAACAAATTACCAGCAGAGGAATAAAGAACCAGC
1 ACCAGCAGAGGATCAAAGAAGCAGTAGAGGAATAAAGAACCAGC
* * *
29392253 ACCAGCAGAGG-TAAAAAGAACTAGCACCAGTAGAAGAACAAAGAACCAGC
1 ACCAGCAGAGGAT-CAAAG-A--AG---CAGTAGAGGAATAAAGAACCAGC
29392303 ACCAGCAGAGGATCAAAGAAGCAGTAGAGGAATAAAGAACCAGC
1 ACCAGCAGAGGATCAAAGAAGCAGTAGAGGAATAAAGAACCAGC
29392347 GATTAGAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
44 35 0.47
47 3 0.04
49 1 0.01
50 35 0.47
51 1 0.01
ACGTcount: A:0.49, C:0.21, G:0.24, T:0.07
Consensus pattern (44 bp):
ACCAGCAGAGGATCAAAGAAGCAGTAGAGGAATAAAGAACCAGC
Found at i:29396440 original size:29 final size:29
Alignment explanation
Indices: 29396403--29396489 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
29396393 ATAGAGATAG
*
29396403 ATAGCCACAAAGGCATCCACATAACAA-AT
1 ATAGCCACAAAGGCATCCACATAA-AATAA
* *
29396432 ATATCCACAAAGGC-TCTCATATAAAATTAA
1 ATAGCCACAAAGGCATC-CACATAAAA-TAA
* *
29396462 ATAGCTACAAAGGCATCCACATATAATA
1 ATAGCCACAAAGGCATCCACATAAAATA
29396490 GACTTCTCCA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
28 4 0.09
29 21 0.45
30 20 0.43
31 2 0.04
ACGTcount: A:0.47, C:0.23, G:0.09, T:0.21
Consensus pattern (29 bp):
ATAGCCACAAAGGCATCCACATAAAATAA
Found at i:29396584 original size:29 final size:30
Alignment explanation
Indices: 29396524--29396593 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 30
29396514 ACAGATACAA
* *
29396524 CCACAAAGACTCTTCATATAACAGAATCAG
1 CCACAAAGGCTCTTCATACAACAGAATCAG
* *
29396554 CCTCAAAGGCTCTT-ATACAACAGAATTAG
1 CCACAAAGGCTCTTCATACAACAGAATCAG
*
29396583 CCACGAAGGCT
1 CCACAAAGGCT
29396594 TTACTTTAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 22 0.65
30 12 0.35
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (30 bp):
CCACAAAGGCTCTTCATACAACAGAATCAG
Found at i:29396664 original size:30 final size:30
Alignment explanation
Indices: 29396628--29396685 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
29396618 TGGCTCCTTT
* *
29396628 TATCAGAGAATAGCCACAAAGGCTTCCACA
1 TATCAGAGAACAACCACAAAGGCTTCCACA
*
29396658 TATCAGAGAACAACTACAAAGGCTTCCA
1 TATCAGAGAACAACCACAAAGGCTTCCA
29396686 TTTTTCAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.26, G:0.16, T:0.17
Consensus pattern (30 bp):
TATCAGAGAACAACCACAAAGGCTTCCACA
Found at i:29398172 original size:20 final size:20
Alignment explanation
Indices: 29398147--29398195 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
29398137 ATTAATTATT
*
29398147 TATAAAATTTAATTCAAATA
1 TATAAAATATAATTCAAATA
* *
29398167 TATAAACTATAATTTAAATA
1 TATAAAATATAATTCAAATA
29398187 -ATAAAATAT
1 TATAAAATAT
29398196 GACCAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (20 bp):
TATAAAATATAATTCAAATA
Found at i:29398449 original size:18 final size:18
Alignment explanation
Indices: 29398426--29398466 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
29398416 TATTTAGCAT
29398426 TGCTTCTAGCTTCAAAAG
1 TGCTTCTAGCTTCAAAAG
29398444 TGCTTCTAGCTTCAAAAG
1 TGCTTCTAGCTTCAAAAG
29398462 TGCTT
1 TGCTT
29398467 TTGACCCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (18 bp):
TGCTTCTAGCTTCAAAAG
Found at i:29411694 original size:13 final size:13
Alignment explanation
Indices: 29411676--29411705 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
29411666 TTTCAATGAC
29411676 TTAATTAATGGAA
1 TTAATTAATGGAA
*
29411689 TTAATTAATGTAA
1 TTAATTAATGGAA
29411702 TTAA
1 TTAA
29411706 AAGATTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (13 bp):
TTAATTAATGGAA
Found at i:29413650 original size:5 final size:5
Alignment explanation
Indices: 29413640--29413664 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
29413630 TTGGGGGGTT
29413640 GGGAG GGGAG GGGAG GGGAG GGGAG
1 GGGAG GGGAG GGGAG GGGAG GGGAG
29413665 TAAAAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:29413778 original size:9 final size:9
Alignment explanation
Indices: 29413764--29413800 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
29413754 TATAGTTTGA
29413764 TATTCGAAT
1 TATTCGAAT
29413773 TATTCGAAT
1 TATTCGAAT
*
29413782 TATTCGAGT
1 TATTCGAAT
29413791 TATTCGAAT
1 TATTCGAAT
29413800 T
1 T
29413801 CAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:29413878 original size:18 final size:18
Alignment explanation
Indices: 29413852--29413886 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29413842 ATTCGAGTTG
29413852 ACTCAAATAACTCGATTA
1 ACTCAAATAACTCGATTA
*
29413870 ACTCGAATAACTCGATT
1 ACTCAAATAACTCGATT
29413887 CGTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:29417388 original size:100 final size:101
Alignment explanation
Indices: 29417205--29418575 Score: 978
Period size: 101 Copynumber: 14.3 Consensus size: 101
29417195 AAATCGGGCT
* * * * * **
29417205 GAAATGGACTATCATGCCAAACTACCCAGCCAAATTGTCCTGCAAAAATTTGATTGAATGC-ACT
1 GAAATGGACTGTCATGCCAAACTACCTAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAA
* * *
29417269 TTAAGAGGACATTTTTATAAGTATTCAAATTGGGAC
66 TTAAGAGGACATTTCTATAAGCATTCAAATTGGAAC
* * *
29417305 GAAATGGACTGTCATGCAAAACTACCTAGCCAAACTGCCCTACCAAAA-TTGATTGAAAGCAAAA
1 GAAATGGACTGTCATGCCAAACTACCTAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAA
* * * *
29417369 ATAAGAGGATATTTCTATAAGCAATCAAATTGAAAC
66 TTAAGAGGACATTTCTATAAGCATTCAAATTGGAAC
* ** * * * *
29417405 AAAATGGGTTGTCATGCTAAACTACCCCTA-CCAAACTCCCCTGCCAAAATTTGATTTAATGTAA
1 GAAATGGACTGTCATGCCAAACTA--CCTAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAA
* * *
29417469 AATTAAGAGGACATTTCTATAAGTATTCAATTTGGGAC
64 AATTAAGAGGACATTTCTATAAGCATTCAAATTGGAAC
* * * * * * *
29417507 GAAATGGACTGTCTTGTCAAACGAACCT-GCTAAACTACCCTGCCAATATTTGCTTGAATGCAAA
1 GAAATGGACTGTCATGCCAAAC-TACCTAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAA
* * * *
29417571 ATTAAGAGGACATTTCTGTTAGCATTTAAATTAGAAC
65 ATTAAGAGGACATTTCTATAAGCATTCAAATTGGAAC
* * *
29417608 AAAATAGACTGTCATGCCAAACTA--T--------T---CTGCCAAAATTTGATTTAATGCAAAA
1 GAAATGGACTGTCATGCCAAACTACCTAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAA
* * *
29417660 TTAAGAGGATATTTCTATAAGCACTCAAATTGGGAC
66 TTAAGAGGACATTTCTATAAGCATTCAAATTGGAAC
** * * * **
29417696 GAAATCAAC--T-AT-------TA---AGTCAAACTGTCCTGCTAAAATTT-ATTGAATGATAAA
1 GAAATGGACTGTCATGCCAAACTACCTAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAA
* * *
29417747 TTAAAAGGACAGTTCTATAACCATTCAAATTAGG-AC
66 TTAAGAGGACATTTCTATAAGCATTCAAATT-GGAAC
* * * * * * * * *
29417783 AAAATAGACTATCATGCCAAACTACCCAGCCAAACTGCCCTACCAAAAATTGGTTGAATGTAAAT
1 GAAATGGACTGTCATGCCAAACTACCTAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAA
* * *
29417848 TTAAAAGGACATTTTTATAAGCATTCAAATTGGGAC
66 TTAAGAGGACATTTCTATAAGCATTCAAATTGGAAC
*
29417884 GAAATGGACTGTCATGCCAAACTA-C-AG---AA--------CCAAAATTTGATTGAATGAAAAA
1 GAAATGGACTGTCATGCCAAACTACCTAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAA
* *
29417936 TTAAGAGGACATTTCTATAAGCATTCAATTTGGGAC
66 TTAAGAGGACATTTCTATAAGCATTCAAATTGGAAC
** * * * * * *
29417972 GAAATGGGTTGTCATGTCAAACTACCTTGCCAAACTACCCTGCTAATATTTGCTTGAATGCAAAA
1 GAAATGGACTGTCATGCCAAACTACCTAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAA
* * *
29418037 TTAAGAGAACATTTCTATTAGCATTCATATTAGG-AC
66 TTAAGAGGACATTTCTATAAGCATTCAAATT-GGAAC
* * * * * *
29418073 GACATGAACTGTTATACCAAA-T---T-GCTC-AA--------CAAAAATTTGATTGAATGAAAA
1 GAAATGGACTGTCATGCCAAACTACCTAGC-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAA
* * * *
29418124 ATTAAGAGAACATTTCTGTAAGCATTAAAATTAGG-AT
65 ATTAAGAGGACATTTCTATAAGCATTCAAATT-GGAAC
* * * *
29418161 GAAATGAACTGT-ACTGCCAAATTACCCT-GCCAAATTGCCCTGCCAAAATTAGATTGAATGCAA
1 GAAATGGACTGTCA-TGCCAAACTA-CCTAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAA
** * *
29418224 AATTAAGAACACATTTATATAAGCATTCAAATTAGG-AG
64 AATTAAGAGGACATTTCTATAAGCATTCAAATT-GGAAC
* * * *
29418262 GAAATTGACTATCAGGCCAAA-T---T-GCC---CTG--CT---AAAA-TTGATTGAATCCAAAA
1 GAAATGGACTGTCATGCCAAACTACCTAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAA
*
29418313 TTAAGAGGACATTTCTATAAGCATTCAAATTGGGAC
66 TTAAGAGGACATTTCTATAAGCATTCAAATTGGAAC
* * * * * * *
29418349 AAAAAGTAATGTCATGCCAAACTA-CTCAGCCAAACTGCCCTACCAAAATTGGGTTGAATGCAAA
1 GAAATGGACTGTCATGCCAAACTACCT-AGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAA
* * *
29418413 TTTAAGAGGACATTTTTATAAGCATTCAAATTGGGAC
65 ATTAAGAGGACATTTCTATAAGCATTCAAATTGGAAC
** * *
29418450 GAAATGGACTACCATGCAAAACTACCCAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAA
1 GAAATGGACTGTCATGCCAAACTACCTAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAA
* *
29418515 TTAAGAAGACATTTCTATAAGCATTCAATTTCGG-AC
66 TTAAGAGGACATTTCTATAAGCATTCAAATT-GGAAC
* *
29418551 GAAATGTAC-GTCATGTCAAACTACC
1 GAAATGGACTGTCATGCCAAACTACC
29418576 CTATTAATAT
Statistics
Matches: 1003, Mismatches: 187, Indels: 162
0.74 0.14 0.12
Matches are distributed among these distances:
78 2 0.00
85 3 0.00
86 3 0.00
87 102 0.10
88 216 0.22
89 3 0.00
90 4 0.00
91 3 0.00
92 4 0.00
93 9 0.01
95 3 0.00
96 10 0.01
97 6 0.01
98 1 0.00
99 13 0.01
100 132 0.13
101 420 0.42
102 68 0.07
103 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (101 bp):
GAAATGGACTGTCATGCCAAACTACCTAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAA
TTAAGAGGACATTTCTATAAGCATTCAAATTGGAAC
Found at i:29417690 original size:88 final size:88
Alignment explanation
Indices: 29417538--29417816 Score: 303
Period size: 88 Copynumber: 3.2 Consensus size: 88
29417528 CGAACCTGCT
* * * * * *
29417538 AAACTACCCTGCCAATATTTGCTTGAATGCAAAATTAAGAGGACATTTCTGTTAGCATTTAAATT
1 AAACTATCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATT
* *
29417603 AGAACAAAATAGACTGTCATGCC
66 AGGACAAAATAGACTATCATGCC
* * * *
29417626 AAACTATTCTGCCAAAATTTGATTTAATGCAAAATTAAGAGGATATTTCTATAAGCACTCAAATT
1 AAACTATCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATT
* * * * *
29417691 GGGACGAAATCA-ACTATTAAGTC
66 AGGACAAAAT-AGACTATCATGCC
* * * * *
29417714 AAACTGTCCTGCTAAAATTT-ATTGAATG-ATAAATTAAAAGGACAGTTCTATAACCATTCAAAT
1 AAACTATCCTGCCAAAATTTGATTGAATGCA-AAATTAAGAGGACATTTCTATAAGCATTCAAAT
29417777 TAGGACAAAATAGACTATCATGCC
65 TAGGACAAAATAGACTATCATGCC
* *
29417801 AAACTACCCAGCCAAA
1 AAACTATCCTGCCAAA
29417817 CTGCCCTACC
Statistics
Matches: 153, Mismatches: 35, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
86 2 0.01
87 64 0.42
88 86 0.56
89 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (88 bp):
AAACTATCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATT
AGGACAAAATAGACTATCATGCC
Found at i:29417997 original size:189 final size:189
Alignment explanation
Indices: 29417637--29420929 Score: 882
Period size: 188 Copynumber: 17.4 Consensus size: 189
29417627 AACTATTCTG
* * * * * * * * *
29417637 CCAAAATTTGATTTAATGCAAAATTAAGAGGATATTTCTATAAGCACTCAAATTGGGACGAAATC
1 CCAAAATTAGGTTGAATGCAAAATTAAAAGGACATTTTTATAAGCATTCAAATTAGGACGAAATG
* * * * * ** * * * *
29417702 AACTATTAAGTCAAACTGTC-CTGCTAAAATTT-ATTGAATGATAAATTAAAAGGACAGTTCTAT
66 GACTATCATGCCAAACT-ACACAACCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTAT
* * * *
29417765 AACCATTCAAATTAGGACAAAATAGACTATCATGCCAAACTACCCAGCCAAACTGCCCTA
130 AAGCATTCAAATTAGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTGCCCTA
* * *
29417825 CCAAAAATT-GGTTGAATGTAAATTTAAAAGGACATTTTTATAAGCATTCAAATTGGGACGAAAT
1 CC-AAAATTAGGTTGAATGCAAAATTAAAAGGACATTTTTATAAGCATTCAAATTAGGACGAAAT
* *
29417889 GGACTGTCATGCCAAACTACAGAACCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTAT
65 GGACTATCATGCCAAACTACACAACCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTAT
* * ** * ** * *
29417954 AAGCATTCAATTTGGGACGAAATGGGTTGTCATGTCAAACTACCTTGCCAAACTACCCTG
130 AAGCATTCAAATTAGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTGCCCTA
* * * * * * * * * *
29418014 CTAATATTTGCTTGAATGCAAAATTAAGAGAACATTTCTATTAGCATTCATATTAGGACGACATG
1 CCAAAATTAGGTTGAATGCAAAATTAAAAGGACATTTTTATAAGCATTCAAATTAGGACGAAATG
* * * * * * * * * *
29418079 AACTGTTATACCAAATTGCTCAACAAAAATTTGATTGAATGAAAAATTAAGAGAACATTTCTGTA
66 GACTATCATGCCAAACTACACAACCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTATA
* * * * * * *
29418144 AGCATTAAAATTAGGATGAAATGAACTGT-ACTGCCAAATTACCCTGCCAAATTGCCCTG
131 AGCATTCAAATTAGGACGAAATGGACTGTCA-TGCCAAACTACCCAGCCAAACTGCCCTA
* * * *
29418203 CCAAAATTAGATTGAATGCAAAATTAAGAA-CACATTTATATAAGCATTCAAATTAGGAGGAAAT
1 CCAAAATTAGGTTGAATGCAAAATTAA-AAGGACATTTTTATAAGCATTCAAATTAGGACGAAAT
* * * * * ** * **
29418267 TGACTATCAGGCCAAATTGCCCTGCTAAAA-TTGATTGAATCCAAAATTAAGAGGACATTTCTAT
65 GGACTATCATGCCAAACTACACAACCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTAT
* * * * * *
29418331 AAGCATTCAAATTGGGACAAAAAGTAATGTCATGCCAAACTACTCAGCCAAACTGCCCTA
130 AAGCATTCAAATTAGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTGCCCTA
* * * *
29418391 CCAAAATTGGGTTGAATGCAAATTTAAGAGGACATTTTTATAAGCATTCAAATTGGGACGAAATG
1 CCAAAATTAGGTTGAATGCAAAATTAAAAGGACATTTTTATAAGCATTCAAATTAGGACGAAATG
* * *
29418456 GACTACCATGCAAAACTACCCAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGA
66 GACTATCATGCCAAACTA--CA--C-AA--------CCAAAATTTGATTGAATGAAAAATTAAGA
* * * * * *
29418521 AGACATTTCTATAAGCATTCAATTTCGGACGAAATGTAC-GTCATGTCAAACTA--C--CC-TA-
118 GGACATTTCTATAAGCATTCAAATTAGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAAC
29418579 T----T-
183 TGCCCTA
* * * * * * * * * *
29418581 --AATATTTGCTTGAATGCACAGTTAATAGGACATTTCTATTAGAATTTAAATT-GGAACGAAAT
1 CCAAAATTAGGTTGAATGCAAAATTAAAAGGACATTTTTATAAGCATTCAAATTAGG-ACGAAAT
* * * * *** * * *
29418643 AGACTCTCATGCCAAACTACTCTACTTCAATTTGATTTATTGCAAAATTAAGAGGACATTTCTAT
65 GGACTATCATGCCAAACTACACAACCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTAT
* * * * *
29418708 AAGTATTCAAATT-GAGACAAAATTGATTGTCAAGCCAAACT----A-CC---CTG--CT-
130 AAGCATTCAAATTAG-GACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTGCCCTA
* * * * * **
29418757 --AAAATT-GATTGAGTG-ATAAATTAAGAGAAAATTTCAATAAGCATTCAAATTAGGACATTTT
1 CCAAAATTAGGTTGAATGCA-AAATTAAAAGGACATTTTTATAAGCATTCAAATTAGGAC-----
* ** * * * * * * ** * * *
29418818 TAAGAGGTTGAATGCAAAATTAAGCCAAGCTACCCAGCC-AAA-CTGCCCTG-CT-AATATTTCA
60 ---GA-----AATGGACTATCATGCCAAACTACACAACCAAAATTTG-ATTGAATGAAAAATT-A
* * ** * * ** **
29418879 ATAAG-CATTTAC-ATTGGGACATTTC-AA-TAAG-C-CAA--G-CTACCTA-GCCAAACCGCCC
115 AGAGGACATTT-CTA-TAAG-CA-TTCAAATTAGGACGAAATGGACTGTC-ATGCCAAACTACCC
* * * ****
29418934 TGCTAATATTTTGTTGAA
175 AGCCAA-A--CTGCCCTA
* * * * * *** * * ** ** * * * *
29418952 TGCAAATTTAAG-AGGA--CATTTTTATAAGCATTCA-AATTGGAA-CGATATGGACTATCATG-
1 -CCAAAATTAGGTTGAATGCAAAATTAAAAGGA--CATTTTTATAAGC-AT-T-CA-AATTAGGA
* * * ** * *
29419011 C-AAA---ACTAACCA-GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAAGACA
59 CGAAATGGACT-ATCATGCCAAACTACACAACCAAAATTTGATTGAATGAAAAATTAAGAGGACA
* * * * * * * *
29419071 TTTCTATGAGTGA-TC-AATTTGGAATGAAATGGATTGTCATGTCAAACTTCCCTAG-CAGACTG
123 TTTCTATAAG-CATTCAAATTAGG-ACGAAATGGACTGTCATGCCAAACTACCC-AGCCAAACTG
* *
29419133 CCTTG
185 CCCTA
* * * * * * * *
29419138 CCAATATTTGCTTCAATGCAAAATTAAAAGCACATTTCTATTAGCATTCAAATTGGGACGAAAT-
1 CCAAAATTAGGTTGAATGCAAAATTAAAAGGACATTTTTATAAGCATTCAAATTAGGACGAAATG
* * * ** * *
29419202 -A-GA-C-TGTC--ACTACTCTGCCAAAATTTGATTTAATGCAAAATTAAGAGGACATTTCTATA
66 GACTATCATGCCAAACTACACAACCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTATA
* * * * * *
29419261 AACATTTAAAATGGGACGAAATTGA-TAGTCAAGCCAAACT-----GCC---CTG--CT-
131 AGCATTCAAATTAGGACGAAATGGACT-GTCATGCCAAACTACCCAGCCAAACTGCCCTA
* * **
29419309 --AAAATT-GATTGAATG-ATAAATTAAGAGGACATTTCCATAAGCATTCAAATT-GAGACGAAA
1 CCAAAATTAGGTTGAATGCA-AAATTAAAAGGACATTTTTATAAGCATTCAAATTAG-GACGAAA
* * * ** *
29419369 TGAACTGTCTTGTTAAACTACCCAACCAAACTGCCCTGCCAAAATTTTG-TTGAATGAAAATTTA
64 TGGACTATCATGCCAAACTA--C-A-C-AA--------CCAAAA-TTTGATTGAATGAAAAATTA
* * *
29419433 AGAGGGCATTTTTATAAGCATTTAAATT-GAGACGAAATGGACTGTCATGCCAAACTACCCAGCC
115 AGAGGACATTTCTATAAGCATTCAAATTAG-GACGAAATGGACTGTCATGCCAAACTACCCAGCC
* *
29419497 AAATTGCCCTG
179 AAACTGCCCTA
* * * * * *
29419508 CCAAAATTTGATTGAATGC--ACTTGAAGAGGACATTTTTATAGGCATTCAAATTGGGACGAAAT
1 CCAAAATTAGGTTGAATGCAAAATT-AAAAGGACATTTTTATAAGCATTCAAATTAGGACGAAAT
* * *
29419571 GGACTATCATGCCAAACTACCCAGCCAAACTGCGCTACCAAAATTAATTGAATGCAAAAA-TAAT
65 GGACTATCATGCCAAACTA--CA--C-AA---C-C-A--AAATTTGATTGAATG-AAAAATTAAG
** * * * * * *
29419635 AGGGTATTTCTATAAGCATTCAAATTGGGACAAAATGGGCAGTCATGCAAAACTACCCAACCAAA
117 AGGACATTTCTATAAGCATTCAAATTAGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAA
* * *
29419700 CTACCTTG
182 CTGCCCTA
* * * * * * * *
29419708 TCAAAATTTGATTGAATGCAAAATTAACAGGACATTTCTATAAGTATTC-AATTTGGCAAGAAAT
1 CCAAAATTAGGTTGAATGCAAAATTAAAAGGACATTTTTATAAGCATTCAAATTAGG-ACGAAAT
* * * * * *
29419772 GGACTGTCATGTCGAACTACCCTGCCAAATTGCCCTTCAAATATTT-ATTTGAGTGCAAAATTAA
65 GGACTATCATGCCAAACTA--C--AC-AA-----C--CAAA-ATTTGA-TTGAATGAAAAATTAA
* * * * *
29419836 GATGACATTTCTATTAGCATTTAAATTAGAACGATATGGACTGTCATGCCAAACT----------
116 GAGGACATTTCTATAAGCATTCAAATTAGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAA
*
29419891 ACT---CTG
181 ACTGCCCTA
* * * * * * * * * *
29419897 CCAAAATTTGATTTAATGCAAAATTAAGAGAACATTTCTATAAGTATTCAAATTTGGACTAAATT
1 CCAAAATTAGGTTGAATGCAAAATTAAAAGGACATTTTTATAAGCATTCAAATTAGGACGAAATG
* * * * * * ** * * * *
29419962 GAATGTCAAGTCAAACTGCCCTGCTAAAA-TTGATTGAAT-AATAAATTAAGAGAACATTTTTTT
66 GACTATCATGCCAAACTACACAACCAAAATTTGATTGAATGAA-AAATTAAGAGGACATTTCTAT
* * * * * * * * * *
29420025 AAGCATTCAAATTTGGTA-GAAATAGACTATTATACAAAACTACCAAGCTC-AATTGCCTTG
130 AAGCATTCAAATTAGG-ACGAAATGGACTGTCATGCCAAACTACCCAGC-CAAACTGCCCTA
* * * * * * * *
29420085 CCAAAATT-GATTAAAAGCAAAACTAAGAGGACATTTATATAAGCGTTCAAATT-GCGACAAAAT
1 CCAAAATTAGGTTGAATGCAAAATTAAAAGGACATTTTTATAAGCATTCAAATTAG-GACGAAAT
* * * * *
29420148 CGACTGTCATGCAAAACTACCCAACCAGACTGCCCTGCCAAAATTTGATTAAATTG-AAAATTGA
65 GGACTATCATGCCAAACTA--C-A-CA-A--------CCAAAATTTGATTGAA-TGAAAAATTAA
* * * *
29420212 GAGGACATTTCTATAAGCAAT-AAATTTGCGACGAAATGGACTGTCATGCTAAACTACCCTGCCA
116 GAGGACATTTCTATAAGCATTCAAATTAG-GACGAAATGGACTGTCATGCCAAACTACCCAGCC-
* *
29420276 AAACTACCCTG
179 AAACTGCCCTA
* * * * * * *
29420287 CTAATATTTGCTTAAATGCAAAA-TAAAGAGAACATTTCTATTAA-CATTCAAATT-GGAACGAA
1 CCAAAATTAGGTTGAATGCAAAATTAAA-AGGACATTTTTA-TAAGCATTCAAATTAGG-ACGAA
* ** ****
29420349 ATGGACTGTCACACCAAACTACTTTTCC-AAATTTGATTGAATGAAAAATTAAGAGGACATTTCT
63 ATGGACTATCATGCCAAACTACACAACCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCT
* * * * * * *
29420413 ATACGTATTAAAATTGGGATGAAATGGACTGTAATGCCAAACTACCCAGCCAAACTGCCCTG
128 ATAAGCATTCAAATTAGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTGCCCTA
* * * *
29420475 CCAAAATTAGATTGAATGCAAAATTAATAA-GACATTTCTATAAGCATTCAAATTAGGAGGGAAT
1 CCAAAATTAGGTTGAATGCAAAATTAA-AAGGACATTTTTATAAGCATTCAAATTAGGACGAAAT
* * * * * ** * * * *
29420539 TGATTGTCAGGCCAAACTGC-CTTGCTAAAA-TTCATTGAATGCAAAATTAAGAGGACATTTCTC
65 GGACTATCATGCCAAACTACAC-AACCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTA
* * * * *
29420602 TAAGCATTCAAATTGGGACGAAATGGACTGTCTTGCCAAACTACTCATCCAAACTTCCCTA
129 TAAGCATTCAAATTAGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTGCCCTA
* * *** ** * *
29420663 CCAAAATTTGGTTGAATGCAAATTTTTTAGGACATTTTTATAATTATTCAAATTGGGACTAAATG
1 CCAAAATTAGGTTGAATGCAAAATTAAAAGGACATTTTTATAAGCATTCAAATTAGGACGAAATG
* * *
29420728 AACTATCATTCCAAACTACCCAGCAAACAGCCCTGCCAAAA-TTGATTGAAAGCAAAAA-TAAGA
66 GACTATCATGCCAAACTA--CA-C--A-A------CCAAAATTTGATTGAATG-AAAAATTAAGA
* * * * * ** * *
29420791 GGACGTTTATATAAGCATTCAAATT-GCGACAAAATGGCCTATCATGGAAAACTACCTAACCAAA
118 GGACATTTCTATAAGCATTCAAATTAG-GACGAAATGGACTGTCATGCCAAACTACCCAGCCAAA
* *
29420855 CTGCTCTG
182 CTGCCCTA
* * * * * * * *
29420863 CCAAAATTTGCTTAAATGGAAAATTAAGAGGACATTTTTATAAGCATTCGATTTGGGACGAAATG
1 CCAAAATTAGGTTGAATGCAAAATTAAAAGGACATTTTTATAAGCATTCAAATTAGGACGAAATG
29420928 GA
66 GA
29420930 TTGCCATGAC
Statistics
Matches: 2302, Mismatches: 571, Indels: 452
0.69 0.17 0.14
Matches are distributed among these distances:
167 2 0.00
168 45 0.02
169 5 0.00
170 1 0.00
172 2 0.00
173 3 0.00
174 7 0.00
175 147 0.06
176 23 0.01
177 5 0.00
179 2 0.00
181 11 0.00
182 87 0.04
183 17 0.01
184 22 0.01
185 35 0.02
186 26 0.01
187 79 0.03
188 603 0.26
189 460 0.20
190 21 0.01
191 2 0.00
192 7 0.00
193 3 0.00
195 1 0.00
196 14 0.01
197 8 0.00
198 11 0.00
199 6 0.00
200 247 0.11
201 201 0.09
202 140 0.06
203 55 0.02
204 4 0.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (189 bp):
CCAAAATTAGGTTGAATGCAAAATTAAAAGGACATTTTTATAAGCATTCAAATTAGGACGAAATG
GACTATCATGCCAAACTACACAACCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTATA
AGCATTCAAATTAGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTGCCCTA
Found at i:29418005 original size:88 final size:88
Alignment explanation
Indices: 29417824--29417996 Score: 256
Period size: 88 Copynumber: 2.0 Consensus size: 88
29417814 AAACTGCCCT
* * * *
29417824 ACCAAAAATTGGTTGAATGTAAATTTAAAAGGACATTTTTATAAGCATTCAAATTGGGACGAAAT
1 ACCAAAAATTGATTGAATGAAAAATTAAAAGGACATTTCTATAAGCATTCAAATTGGGACGAAAT
29417889 GGACTGTCATGCCAAACTACAGA
66 GGACTGTCATGCCAAACTACAGA
* * *
29417912 ACCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTATAAGCATTCAATTTGGGACGAAAT
1 ACCAAAAATTGATTGAATGAAAAATTAAAAGGACATTTCTATAAGCATTCAAATTGGGACGAAAT
** *
29417977 GGGTTGTCATGTCAAACTAC
66 GGACTGTCATGCCAAACTAC
29417997 CTTGCCAAAC
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (88 bp):
ACCAAAAATTGATTGAATGAAAAATTAAAAGGACATTTCTATAAGCATTCAAATTGGGACGAAAT
GGACTGTCATGCCAAACTACAGA
Found at i:29418192 original size:13 final size:13
Alignment explanation
Indices: 29418174--29418207 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
29418164 ATGAACTGTA
29418174 CTGCCAAATTACC
1 CTGCCAAATTACC
*
29418187 CTGCCAAATTGCC
1 CTGCCAAATTACC
29418200 CTGCCAAA
1 CTGCCAAA
29418208 ATTAGATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.38, G:0.12, T:0.21
Consensus pattern (13 bp):
CTGCCAAATTACC
Found at i:29418324 original size:465 final size:458
Alignment explanation
Indices: 29417448--29418542 Score: 1082
Period size: 465 Copynumber: 2.3 Consensus size: 458
29417438 AACTCCCCTG
* * *
29417448 CCAAAATTTGATTTAATGTAAAATTAAGAGGACATTTCTATAAGTATTCAATTTGGGACGAAATG
1 CCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTATAAGCATTCAATTTGGGACGAAATG
* * *
29417513 GACTGTCTTGTCAAACGAACCTGCTAAACTACCCTGCCAATATTTGCTTGAATGCAAAATTAAGA
66 GACTGTCATGTCAAAC-TACCTGCCAAACTACCCTGCCAATATTTGCTTGAATGCAAAATTAAGA
* * * * * ** *
29417578 GGACATTTCTGTTAGCATTTAAATTAGAACAAAATAGACTGTCATGCCAAACTATTCTGCCAAAA
130 GAACATTTCTATTAGCATTCAAATTAGAACAAAATAGACTGTCATACCAAACTACTCAACAAAAA
* * * * * *
29417643 TTTGATTTAATGCAAAATTAAGAGGATATTTCTATAAGCACTCAAATTGGGACGAAATCAACTAT
195 TTTGATTGAATGAAAAATTAAGAGAACATTTCTATAAGCACTAAAATTAGGACGAAATCAACTAT
* * * * * *
29417708 TAAGTCAAACTGTCCTGCTAAAATTTATTGAATGATAAATTAAAAGGACAGTTCTATAACCATTC
260 TAAGCCAAACTGCCCTGCCAAAATTGATTGAATGATAAATTAAAAGCACAGTTATATAACCATTC
* *
29417773 AAATTAGGACAAAATAGACTATCATGCCAAACTACCCAGCCAAACTGCCCTACCAAAAATTGGTT
325 AAATTAGGACAAAATAGACTATCAGGCCAAACT---CAGCC--ACTG-CCT---AAAAATTGATT
** * * * * *
29417838 GAATGTAAATTTAAAAGGACATTTTTATAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCA
381 GAATCCAAAATTAAAAGGACATTTCTATAAGCATTCAAATTGGGACAAAAAGGAATGTCATGCCA
29417903 AACTA-CAG-A-A
446 AACTACCAGAACA
29417913 CCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTATAAGCATTCAATTTGGGACGAAATG
1 CCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTATAAGCATTCAATTTGGGACGAAATG
** *
29417978 GGTTGTCATGTCAAACTACCTTGCCAAACTACCCTGCTAATATTTGCTTGAATGCAAAATTAAGA
66 GACTGTCATGTCAAACTACC-TGCCAAACTACCCTGCCAATATTTGCTTGAATGCAAAATTAAGA
* * * * * * *
29418043 GAACATTTCTATTAGCATTCATATTAGGACGACAT-GAACTGTTATACCAAATTGCTCAACAAAA
130 GAACATTTCTATTAGCATTCAAATTAGAACAAAATAG-ACTGTCATACCAAACTACTCAACAAAA
* * *
29418107 ATTTGATTGAATGAAAAATTAAGAGAACATTTCTGTAAGCATTAAAATTAGGATGAAATGAACTG
194 ATTTGATTGAATGAAAAATTAAGAGAACATTTCTATAAGCACTAAAATTAGGACGAAAT---C--
* * *
29418172 TACTGCCAAATTACCCTGCCAAATTGCCCTGCCAAAATTAGATTGAATGCA-AAATTAAGAA-CA
254 AACT-----ATTA---AGCCAAACTGCCCTGCCAAAATT-GATTGAATG-ATAAATTAA-AAGCA
* * ** * *
29418235 CATTTATATAAGCATTCAAATTAGGAGGAAATTGACTATCAGGCCAAA-T-TGCC-CTG-CT-AA
308 CAGTTATATAACCATTCAAATTAGGACAAAATAGACTATCAGGCCAAACTCAGCCACTGCCTAAA
* *
29418295 AATTGATTGAATCCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAAAGTAATG
373 AATTGATTGAATCCAAAATTAAAAGGACATTTCTATAAGCATTCAAATTGGGACAAAAAGGAATG
29418360 TCATGCCAAACTACTCAGCCAAACTGCCCTA
438 TCATGCCAAACTAC-CAG---AA-----C-A
* * * * * *
29418391 CCAAAATTGGGTTGAATGCAAATTTAAGAGGACATTTTTATAAGCATTCAAATTGGGACGAAATG
1 CCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTATAAGCATTCAATTTGGGACGAAATG
** * * * *
29418456 GACTACCATG-CAAAACTACCCAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAG
66 GACTGTCATGTC-AAACTA-CCTGCCAAACTACCCTGCCAATATTTGCTTGAATGCAAAATTAAG
*
29418520 A-AGACATTTCTATAAGCATTCAA
129 AGA-ACATTTCTATTAGCATTCAA
29418543 TTTCGGACGA
Statistics
Matches: 520, Mismatches: 76, Indels: 55
0.80 0.12 0.08
Matches are distributed among these distances:
464 4 0.01
465 284 0.55
467 3 0.01
468 1 0.00
469 2 0.00
470 3 0.01
471 4 0.01
474 3 0.01
475 4 0.01
477 2 0.00
478 148 0.28
479 59 0.11
480 3 0.01
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.28
Consensus pattern (458 bp):
CCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTATAAGCATTCAATTTGGGACGAAATG
GACTGTCATGTCAAACTACCTGCCAAACTACCCTGCCAATATTTGCTTGAATGCAAAATTAAGAG
AACATTTCTATTAGCATTCAAATTAGAACAAAATAGACTGTCATACCAAACTACTCAACAAAAAT
TTGATTGAATGAAAAATTAAGAGAACATTTCTATAAGCACTAAAATTAGGACGAAATCAACTATT
AAGCCAAACTGCCCTGCCAAAATTGATTGAATGATAAATTAAAAGCACAGTTATATAACCATTCA
AATTAGGACAAAATAGACTATCAGGCCAAACTCAGCCACTGCCTAAAAATTGATTGAATCCAAAA
TTAAAAGGACATTTCTATAAGCATTCAAATTGGGACAAAAAGGAATGTCATGCCAAACTACCAGA
ACA
Found at i:29418368 original size:87 final size:88
Alignment explanation
Indices: 29418188--29418369 Score: 233
Period size: 87 Copynumber: 2.1 Consensus size: 88
29418178 CAAATTACCC
*
29418188 TGCCAAATTGCCCTGCCAAAATTAGATTGAATGCAAAATTAAGAACACATTTATATAAGCATTCA
1 TGCCAAATTGCCCTGCCAAAATTAGATTGAATCCAAAATTAAGAACACATTTATATAAGCATTCA
** * *
29418253 AATTAGGAGGAAATTGACTATCA
66 AATTAGGAAAAAAGTGAATATCA
* * ** *
29418276 GGCCAAATTGCCCTGCTAAAATT-GATTGAATCCAAAATTAAGAGGACATTTCTATAAGCATTCA
1 TGCCAAATTGCCCTGCCAAAATTAGATTGAATCCAAAATTAAGAACACATTTATATAAGCATTCA
* *
29418340 AATTGGGACAAAAAGT-AATGTCA
66 AATTAGGA-AAAAAGTGAATATCA
29418363 TGCCAAA
1 TGCCAAA
29418370 CTACTCAGCC
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
87 55 0.69
88 25 0.31
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.26
Consensus pattern (88 bp):
TGCCAAATTGCCCTGCCAAAATTAGATTGAATCCAAAATTAAGAACACATTTATATAAGCATTCA
AATTAGGAAAAAAGTGAATATCA
Found at i:29418640 original size:87 final size:87
Alignment explanation
Indices: 29418495--29418812 Score: 286
Period size: 87 Copynumber: 3.6 Consensus size: 87
29418485 TGCCCTGCCA
* * *
29418495 AAATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAATTTCGGACGAAAT-GTA
1 AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGAATTCAAATT-GGACGAAATAG-A
* *
29418559 C-GTCATGTCAAACTACCCTA-TT
64 CTCTCATGCCAAACTACCCTACTT
* * * * * *
29418581 AATATTTGCTTGAATGCACAGTTAATAGGACATTTCTATTAGAATTTAAATTGGAACGAAATAGA
1 AA-ATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGAATTCAAATTGG-ACGAAATAGA
*
29418646 CTCTCATGCCAAACTACTCTACTT
64 CTCTCATGCCAAACTACCCTACTT
* * * * * * *
29418670 CAATTTGATTTATTGCAAAATTAAGAGGACATTTCTATAAGTATTCAAATTGAGACAAAATTGAT
1 AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGAATTCAAATTG-GACGAAATAGAC
* * *
29418735 TGTCAAGCCAAACTACCCTGC-T
65 TCTCATGCCAAACTACCCTACTT
* * * * * *
29418757 AAAATTGATTGAGTG-ATAAATTAAGAGAAAATTTCAATAAGCATTCAAATTAGGAC
1 AAATTTGATTGAATGCA-AAATTAAGAGGACATTTCTATAAGAATTCAAATT-GGAC
29418813 ATTTTTAAGA
Statistics
Matches: 187, Mismatches: 37, Indels: 15
0.78 0.15 0.06
Matches are distributed among these distances:
86 5 0.03
87 94 0.50
88 84 0.45
89 4 0.02
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (87 bp):
AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGAATTCAAATTGGACGAAATAGACT
CTCATGCCAAACTACCCTACTT
Found at i:29419057 original size:101 final size:101
Alignment explanation
Indices: 29418917--29419206 Score: 291
Period size: 101 Copynumber: 2.9 Consensus size: 101
29418907 AAGCCAAGCT
* * * * *
29418917 ACCTAGCCAAACCGCCCTGCTAATATTTTGTTGAATGCAAATTTAAGAGGACATTTTTATAAGCA
1 ACCTAGCCAAACTGCCCTGCCAA-AATTTGTTGAATGCAAAATTAAGAGGACATTTCTATAAGCA
*
29418982 TTCAAATTGGAACGATATGGACTATCATG-CAAAACTA
65 TTCAAATTGGAACGAAATGGACTATCATGTC-AAACTA
* * *
29419019 ACC-AGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAAGACATTTCTATGAGTG
1 ACCTAGCCAAACTGCCCTGCCAAAATTTG-TTGAATGCAAAATTAAGAGGACATTTCTATAAG-C
* * * * *
29419083 A-TCAATTTGGAATGAAATGGATTGTCATGTCAAACTT
64 ATTCAAATTGGAACGAAATGGACTATCATGTCAAACTA
* * * * * * * *
29419120 CCCTAG-CAGACTGCCTTGCCAATATTTGCTTCAATGCAAAATTAAAAGCACATTTCTATTAGCA
1 ACCTAGCCAAACTGCCCTGCCAAAATTTG-TTGAATGCAAAATTAAGAGGACATTTCTATAAGCA
* *
29419184 TTCAAATTGGGACGAAATAGACT
65 TTCAAATTGGAACGAAATGGACT
29419207 GTCACTACTC
Statistics
Matches: 153, Mismatches: 30, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
100 6 0.04
101 140 0.92
102 7 0.05
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (101 bp):
ACCTAGCCAAACTGCCCTGCCAAAATTTGTTGAATGCAAAATTAAGAGGACATTTCTATAAGCAT
TCAAATTGGAACGAAATGGACTATCATGTCAAACTA
Found at i:29419468 original size:101 final size:101
Alignment explanation
Indices: 29419292--29420528 Score: 940
Period size: 101 Copynumber: 12.7 Consensus size: 101
29419282 TTGATAGTCA
* *
29419292 AGCCAAACTGCCCTGCTAAAA-TTGATTGAATG-ATAAATTAAGAGGACATTTCCATAAGCATTC
1 AGCCAAACTGCCCTGCCAAAATTTGATTGAATGCA-AAATTAAGAGGACATTTCTATAAGCATTC
* * **
29419355 AAATTGAGACGAAATGAACTGTCTTGTTAAACTACCC
65 AAATTGAGACGAAATGGACTGTCATGCCAAACTACCC
* * *
29419392 AACCAAACTGCCCTGCCAAAATTTTG-TTGAATG-AAAATTTAAGAGGGCATTTTTATAAGCATT
1 AGCCAAACTGCCCTGCCAAAA-TTTGATTGAATGCAAAA-TTAAGAGGACATTTCTATAAGCATT
*
29419455 TAAATTGAGACGAAATGGACTGTCATGCCAAACTACCC
64 CAAATTGAGACGAAATGGACTGTCATGCCAAACTACCC
* * * *
29419493 AGCCAAATTGCCCTGCCAAAATTTGATTGAATGC--ACTTGAAGAGGACATTTTTATAGGCATTC
1 AGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATT-AAGAGGACATTTCTATAAGCATTC
* *
29419556 AAATTGGGACGAAATGGACTATCATGCCAAACTACCC
65 AAATTGAGACGAAATGGACTGTCATGCCAAACTACCC
* * * * * **
29419593 AGCCAAACTGCGCTACCAAAA-TTAATTGAATGCAAAAATAATAGGGTATTTCTATAAGCATTCA
1 AGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCA
* * * * *
29419657 AATTGGGACAAAATGGGCAGTCATGCAAAACTACCC
66 AATTGAGACGAAATGGACTGTCATGCCAAACTACCC
* * * * * *
29419693 AACCAAACTACCTTGTCAAAATTTGATTGAATGCAAAATTAACAGGACATTTCTATAAGTATTCA
1 AGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCA
* * * *
29419758 ATTTG-GCAAGAAATGGACTGTCATGTCGAACTACCC
66 AATTGAG-ACGAAATGGACTGTCATGCCAAACTACCC
* * * * * *
29419794 TGCCAAATTGCCCT-TCAAATATTT-ATTTGAGTGCAAAATTAAGATGACATTTCTATTAGCATT
1 AGCCAAACTGCCCTGCCAAA-ATTTGA-TTGAATGCAAAATTAAGAGGACATTTCTATAAGCATT
* *
29419857 TAAATT-AGAACGATATGGACTGTCATGCCAAACT----
64 CAAATTGAG-ACGAAATGGACTGTCATGCCAAACTACCC
* * *
29419891 ------ACT---CTGCCAAAATTTGATTTAATGCAAAATTAAGAGAACATTTCTATAAGTATTCA
1 AGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCA
* * *
29419947 AATTTG-GACTAAAT----TG-AATG------T--CA
66 AA-TTGAGACGAAATGGACTGTCATGCCAAACTACCC
* * *** * * *
29419970 AGTCAAACTGCCCTGCTAAAA-TTGATTGAATAATAAATTAAGAGAACATTTTTTTAAGCATTCA
1 AGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCA
* * * * * *
29420034 AATTTG-GTA-GAAATAGACTATTATACAAAACTACCA
66 AA-TTGAG-ACGAAATGGACTGTCATGCCAAACTACCC
* * * * * * *
29420070 AGCTC-AATTGCCTTGCCAAAA-TTGATTAAAAGCAAAACTAAGAGGACATTTATATAAGCGTTC
1 AGC-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTC
* * * *
29420133 AAATTGCGACAAAATCGACTGTCATGCAAAACTACCC
65 AAATTGAGACGAAATGGACTGTCATGCCAAACTACCC
* * * * *
29420170 AACCAGACTGCCCTGCCAAAATTTGATTAAATTG-AAAATTGAGAGGACATTTCTATAAGCAAT-
1 AGCCAAACTGCCCTGCCAAAATTTGATTGAA-TGCAAAATTAAGAGGACATTTCTATAAGCATTC
* *
29420233 AAATTTGCGACGAAATGGACTGTCATGCTAAACTACCC
65 AAA-TTGAGACGAAATGGACTGTCATGCCAAACTACCC
* * * * * * * *
29420271 TGCCAAAACTACCCTGCTAATATTTGCTTAAATGCAAAATAAAGAGAACATTTCTATTAA-CATT
1 AGCC-AAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA-TAAGCATT
29420335 CAAATTG-GAACGAAATGGACTG---T------C-A--C
64 CAAATTGAG-ACGAAATGGACTGTCATGCCAAACTACCC
* ** * * * * *
29420361 A-CCAAACTACTTTTCC-AAATTTGATTGAATGAAAAATTAAGAGGACATTTCTATACGTATTAA
1 AGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCA
* * *
29420424 AATTGGGATGAAATGGACTGTAATGCCAAACTACCC
66 AATTGAGACGAAATGGACTGTCATGCCAAACTACCC
* * *
29420460 AGCCAAACTGCCCTGCCAAAATTAGATTGAATGCAAAATTAATAAGACATTTCTATAAGCATTCA
1 AGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCA
29420525 AATT
66 AATT
29420529 AGGAGGGAAT
Statistics
Matches: 902, Mismatches: 165, Indels: 139
0.75 0.14 0.12
Matches are distributed among these distances:
77 1 0.00
83 3 0.00
84 2 0.00
85 3 0.00
86 2 0.00
87 99 0.11
88 64 0.07
89 10 0.01
90 2 0.00
91 3 0.00
92 3 0.00
93 1 0.00
96 1 0.00
97 1 0.00
98 1 0.00
99 21 0.02
100 277 0.31
101 339 0.38
102 63 0.07
103 6 0.01
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (101 bp):
AGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCA
AATTGAGACGAAATGGACTGTCATGCCAAACTACCC
Found at i:29419950 original size:88 final size:87
Alignment explanation
Indices: 29419820--29420037 Score: 224
Period size: 88 Copynumber: 2.5 Consensus size: 87
29419810 AAATATTTAT
* * * * * *
29419820 TTGAGTGCAAAATTAAGATG-ACATTTCTATTAGCATTTAAATTAGAACGATATGGACTGTCATG
1 TTGAATGCAAAATTAAGA-GAACATTTCTATAAGCATTCAAATTAGAACGAAATGGAATGTCAAG
*
29419884 CCAAACTACTCTGCCAAAATTTGA
65 CCAAACTACCCTGCCAAAA-TTGA
* * * * * * *
29419908 TTTAATGCAAAATTAAGAGAACATTTCTATAAGTATTCAAATTTGGACTAAATTGAATGTCAAGT
1 TTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTCAAATTAGAACGAAATGGAATGTCAAGC
* *
29419973 CAAACTGCCCTGCTAAAATTGA
66 CAAACTACCCTGCCAAAATTGA
* * *
29419995 TTGAAT-AATAAATTAAGAGAACATTTTTTTAAGCATTCAAATT
1 TTGAATGCA-AAATTAAGAGAACATTTCTATAAGCATTCAAATT
29420038 TGGTAGAAAT
Statistics
Matches: 107, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
86 1 0.01
87 41 0.38
88 65 0.61
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (87 bp):
TTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTCAAATTAGAACGAAATGGAATGTCAAGC
CAAACTACCCTGCCAAAATTGA
Found at i:29420196 original size:477 final size:477
Alignment explanation
Indices: 29419532--29420427 Score: 1142
Period size: 477 Copynumber: 1.9 Consensus size: 477
29419522 AATGCACTTG
* * * * * *
29419532 AAGAGGACATTTTTATAGGCATTCAAATTGGGACGAAATGGACTATCATGCCAAACTACCCAGCC
1 AAGAGAACATTTTTATAAGCATTCAAATTGGGACGAAATAGACTATCATACAAAACTACCAAGCC
* * * ** *
29419597 AAACTGCGCTACCAAAATTAATTGAATGCAAAAATAATAGGGTATTTCTATAAGCATTCAAATTG
66 AAACTGCGCTACCAAAATTAATTAAAAGCAAAAATAAGAGGACATTTATATAAGCATTCAAATTG
* * * * * *
29419662 GGACAAAATGGGCAGTCATGCAAAACTACCCAACCAAACTACCTTGTCAAAATTTGATTGAA-TG
131 CGACAAAATCGACAGTCATGCAAAACTACCCAACCAAACTACCCTGCCAAAATTTGATTAAATTG
* * * *
29419726 CAAAATTAACAGGACATTTCTATAAGTATTCAATTTG-GCAAGAAATGGACTGTCATG-TCGAAC
196 -AAAATTAACAGGACATTTCTATAAGCAATAAATTTGCG-AAGAAATGGACTGTCATGCT-AAAC
* * * * * * *
29419789 TACCCTGCC-AAATTGCCCTTCAAATATTTATTTGAGTGCAAAATTAAGATG-ACATTTCTATTA
258 TACCCTGCCAAAACTACCCTGCAAATATTTACTTAAATGCAAAATAAAGA-GAACATTTCTATTA
* * * ** * *
29419852 GCATTTAAATTAGAACGATATGGACTGTCATGCCAAACTACTCTGCCAAAATTTGATTTAATGCA
322 ACATTCAAATTAGAACGAAATGGACTGTCACACCAAACTACTCTGCC-AAATTTGATTGAATGAA
*
29419917 AAATTAAGAGAACATTTCTATAAGTATTCAAATTTGGACTAAATTGAATGTCAAGTCAAACTGCC
386 AAATTAAGAGAACATTTCTATAAGTATTAAAATTTGGACTAAATTGAATGTCAAGTCAAACTGCC
29419982 CTGCTAAAATTGATTGAATAATAAATT
451 CTGCTAAAATTGATTGAATAATAAATT
* * *
29420009 AAGAGAACATTTTTTTAAGCATTCAAATTTGGTA-GAAATAGACTATTATACAAAACTACCAAGC
1 AAGAGAACATTTTTATAAGCATTCAAA-TTGGGACGAAATAGACTATCATACAAAACTACCAAGC
* * * * *
29420073 TC-AATTGC-CTTGCCAAAATTGATTAAAAGCAAAACTAAGAGGACATTTATATAAGCGTTCAAA
65 -CAAACTGCGC-TACCAAAATTAATTAAAAGCAAAAATAAGAGGACATTTATATAAGCATTCAAA
* * *
29420136 TTGCGACAAAATCGACTGTCATGCAAAACTACCCAACCAGACTGCCCTGCCAAAATTTGATTAAA
128 TTGCGACAAAATCGACAGTCATGCAAAACTACCCAACCAAACTACCCTGCCAAAATTTGATTAAA
* * *
29420201 TTGAAAATTGAGAGGACATTTCTATAAGCAATAAATTTGCGACGAAATGGACTGTCATGCTAAAC
193 TTGAAAATTAACAGGACATTTCTATAAGCAATAAATTTGCGAAGAAATGGACTGTCATGCTAAAC
* *
29420266 TACCCTGCCAAAACTACCCTGCTAATATTTGCTTAAATGCAAAATAAAGAGAACATTTCTATTAA
258 TACCCTGCCAAAACTACCCTGCAAATATTTACTTAAATGCAAAATAAAGAGAACATTTCTATTAA
* * *
29420331 CATTCAAATTGGAACGAAATGGACTGTCACACCAAACTACTTTTCCAAATTTGATTGAATGAAAA
323 CATTCAAATTAGAACGAAATGGACTGTCACACCAAACTACTCTGCCAAATTTGATTGAATGAAAA
* *
29420396 ATTAAGAGGACATTTCTATACGTATTAAAATT
388 ATTAAGAGAACATTTCTATAAGTATTAAAATT
29420428 GGGATGAAAT
Statistics
Matches: 353, Mismatches: 58, Indels: 16
0.83 0.14 0.04
Matches are distributed among these distances:
476 1 0.00
477 260 0.74
478 92 0.26
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (477 bp):
AAGAGAACATTTTTATAAGCATTCAAATTGGGACGAAATAGACTATCATACAAAACTACCAAGCC
AAACTGCGCTACCAAAATTAATTAAAAGCAAAAATAAGAGGACATTTATATAAGCATTCAAATTG
CGACAAAATCGACAGTCATGCAAAACTACCCAACCAAACTACCCTGCCAAAATTTGATTAAATTG
AAAATTAACAGGACATTTCTATAAGCAATAAATTTGCGAAGAAATGGACTGTCATGCTAAACTAC
CCTGCCAAAACTACCCTGCAAATATTTACTTAAATGCAAAATAAAGAGAACATTTCTATTAACAT
TCAAATTAGAACGAAATGGACTGTCACACCAAACTACTCTGCCAAATTTGATTGAATGAAAAATT
AAGAGAACATTTCTATAAGTATTAAAATTTGGACTAAATTGAATGTCAAGTCAAACTGCCCTGCT
AAAATTGATTGAATAATAAATT
Found at i:29420453 original size:87 final size:87
Alignment explanation
Indices: 29420292--29420457 Score: 201
Period size: 87 Copynumber: 1.9 Consensus size: 87
29420282 CCCTGCTAAT
* * *
29420292 ATTTGCTTAAATGCAAAATAAAGAGAACATTTCTATTAACATTCAAATTGGAACGAAATGGACTG
1 ATTTGATTAAATGAAAAATAAAGAGAACATTTCTATTAACATTAAAATTGGAACGAAATGGACTG
*
29420357 TCACACCAAACTACTTTTCCAA
66 TAACACCAAACTACTTTTCCAA
* * * * *
29420379 ATTTGATTGAATGAAAAATTAAGAGGACATTTCTA-T-ACGTATTAAAATTGGGATGAAATGGAC
1 ATTTGATTAAATGAAAAATAAAGAGAACATTTCTATTAAC--ATTAAAATTGGAACGAAATGGAC
**
29420442 TGTAATGCCAAACTAC
64 TGTAACACCAAACTAC
29420458 CCAGCCAAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 2 0.03
86 1 0.02
87 63 0.95
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (87 bp):
ATTTGATTAAATGAAAAATAAAGAGAACATTTCTATTAACATTAAAATTGGAACGAAATGGACTG
TAACACCAAACTACTTTTCCAA
Found at i:29420466 original size:87 final size:87
Alignment explanation
Indices: 29420271--29420466 Score: 198
Period size: 87 Copynumber: 2.2 Consensus size: 87
29420261 TAAACTACCC
* * * *
29420271 TGCCAAAACTACCCTGCTAATATTTGCTTAAATGCAAAATAAAGAGAACATTTCTATTAACATTC
1 TGCC-AAACTACCCTGCCAA-ATTTGATTAAATGAAAAATAAAGAGAACATTTCTATTAACATTA
*
29420336 AAATTGGAACGAAATGGACTGTCA
64 AAATTGGAACGAAATGGACTGTAA
** ** * * * *
29420360 CACCAAACTACTTTTCCAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTA-T-ACGTATTA
1 TGCCAAACTACCCTGCCAAATTTGATTAAATGAAAAATAAAGAGAACATTTCTATTAAC--ATTA
* *
29420423 AAATTGGGATGAAATGGACTGTAA
64 AAATTGGAACGAAATGGACTGTAA
*
29420447 TGCCAAACTACCCAGCCAAA
1 TGCCAAACTACCCTGCCAAA
29420467 CTGCCCTGCC
Statistics
Matches: 84, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
85 2 0.02
86 1 0.01
87 68 0.81
88 11 0.13
89 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (87 bp):
TGCCAAACTACCCTGCCAAATTTGATTAAATGAAAAATAAAGAGAACATTTCTATTAACATTAAA
ATTGGAACGAAATGGACTGTAA
Found at i:29420640 original size:87 final size:88
Alignment explanation
Indices: 29420461--29420643 Score: 242
Period size: 87 Copynumber: 2.1 Consensus size: 88
29420451 AAACTACCCA
* *
29420461 GCCAAACTGCCCTGCCAAAATTAGATTGAATGCAAAATTAATAAGACATTTCTATAAGCATTCAA
1 GCCAAACTGCCCTGCCAAAATTACATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAA
* * * *
29420526 ATTAGGAGGGAATTGATTGTCAG
66 ATTAGGACGAAATGGACTGTCAG
* * * *
29420549 GCCAAACTGCCTTGCTAAAATT-CATTGAATGCAAAATTAAGAGGACATTTCTCTAAGCATTCAA
1 GCCAAACTGCCCTGCCAAAATTACATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAA
* **
29420613 ATTGGGACGAAATGGACTGTCTT
66 ATTAGGACGAAATGGACTGTCAG
29420636 GCCAAACT
1 GCCAAACT
29420644 ACTCATCCAA
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
87 62 0.76
88 20 0.24
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (88 bp):
GCCAAACTGCCCTGCCAAAATTACATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAA
ATTAGGACGAAATGGACTGTCAG
Found at i:29420927 original size:101 final size:101
Alignment explanation
Indices: 29420550--29421043 Score: 370
Period size: 101 Copynumber: 4.9 Consensus size: 101
29420540 GATTGTCAGG
* * * * * *
29420550 CCAAACTGCCTTGCTAAAA-TTCATTGAATGCAAAATTAAGAGGACATTTCTCTAAGCATTCAAA
1 CCAAACTGCCCTGCCAAAATTTGATTAAATGCAAAATTAAGAGGACATTTTTATAAGCATTCAAA
* * *
29420614 TTGGGACGAAATGGACTGTCTTGCCAAACTA-CTCAT
66 TTGGGACGAAATGGACTATCATGCCAAACTACCT-AA
* * * * * *** **
29420650 CCAAACTTCCCTACCAAAATTTGGTTGAATGCAAATTTTTTAGGACATTTTTATAATTATTCAAA
1 CCAAACTGCCCTGCCAAAATTTGATTAAATGCAAAATTAAGAGGACATTTTTATAAGCATTCAAA
* * * *
29420715 TTGGGACTAAATGAACTATCATTCCAAACTACC-CA
66 TTGGGACGAAATGGACTATCATGCCAAACTACCTAA
* * * * *
29420750 GCAAACAGCCCTGCCAAAA-TTGATTGAAA-GCAAAAATAAGAGGACGTTTATATAAGCATTCAA
1 CCAAACTGCCCTGCCAAAATTTGATT-AAATGCAAAATTAAGAGGACATTTTTATAAGCATTCAA
* * * **
29420813 ATTGCGACAAAATGGCCTATCATGGAAAACTACCTAA
65 ATTGGGACGAAATGGACTATCATGCCAAACTACCTAA
* * * * *
29420850 CCAAACTGCTCTGCCAAAATTTGCTTAAATGGAAAATTAAGAGGACATTTTTATAAGCATTCGAT
1 CCAAACTGCCCTGCCAAAATTTGATTAAATGCAAAATTAAGAGGACATTTTTATAAGCATTCAAA
* ** * * *
29420915 TTGGGACGAAATGGATTGCCATGACAAACTGCCCT-G
66 TTGGGACGAAATGGACTATCATGCCAAACT-ACCTAA
* * ** * * ** * * * *
29420951 CCAAACTACCCTGCCAATATTTGCCTGAATGCAAAATAAAGAAAAAATGTCTATTAGCATTCAAA
1 CCAAACTGCCCTGCCAAAATTTGATTAAATGCAAAATTAAGAGGACATTTTTATAAGCATTCAAA
* * ** *
29421016 TTGGAACAAAATAAACTGTCATGCCAAA
66 TTGGGACGAAATGGACTATCATGCCAAA
29421044 ATTTGATTTA
Statistics
Matches: 301, Mismatches: 86, Indels: 13
0.75 0.22 0.03
Matches are distributed among these distances:
99 57 0.19
100 52 0.17
101 188 0.62
102 4 0.01
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (101 bp):
CCAAACTGCCCTGCCAAAATTTGATTAAATGCAAAATTAAGAGGACATTTTTATAAGCATTCAAA
TTGGGACGAAATGGACTATCATGCCAAACTACCTAA
Found at i:29421395 original size:100 final size:101
Alignment explanation
Indices: 29421202--29421395 Score: 268
Period size: 100 Copynumber: 1.9 Consensus size: 101
29421192 GTTGCAATGA
* * ** *
29421202 CAAACTACCCAGCCAAACTGCCATGCCAAAATTTGGTTGAATGCAAATTTAAGAGGACATTTTTA
1 CAAACTACCCAGCCAAACTGCCATGCCAAAATTTGATTGAAAGCAAAAATAAGAGGACATTTATA
* *
29421267 TAAGCATTCAAATTGAGACGAAACGGACTATTATTC
66 TAAACATTCAAATTGAGACAAAACGGACTATTATTC
29421303 CAAACTACCCAGCCAAACTGCTC-TGCCAAAA-TTGATTGAAAGCAAAAATAAGAGGACATTTAT
1 CAAACTACCCAGCCAAACTGC-CATGCCAAAATTTGATTGAAAGCAAAAATAAGAGGACATTTAT
* *
29421366 ATAAATATTCAAATTGTA-ACAAAATGGACT
65 ATAAACATTCAAATTG-AGACAAAACGGACT
29421396 GTCATGCAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
100 51 0.62
101 30 0.37
102 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.25
Consensus pattern (101 bp):
CAAACTACCCAGCCAAACTGCCATGCCAAAATTTGATTGAAAGCAAAAATAAGAGGACATTTATA
TAAACATTCAAATTGAGACAAAACGGACTATTATTC
Found at i:29421408 original size:100 final size:97
Alignment explanation
Indices: 29421112--29422558 Score: 399
Period size: 101 Copynumber: 15.1 Consensus size: 97
29421102 TTGTCTATTA
* * *
29421112 AGCCAAACTGCCCTGCTAAAAGTGATTGAATG-ATAAATTAAGAGGATATTTATATAAGAATTCA
1 AGCCAAACTG-CCTGCCAAAATTGATTGAATGCA-AAATTAAGAGGACATTTATATAA-AATTCA
* * **
29421176 AATTAGGATGAAATGGGTTG-CAATG-ACAAACTACCC
63 AATT-GAACGAAATGGACTGTC-ATGCA-AAACTACCC
* * * *
29421212 AGCCAAACTGCCATGCCAAAATTTGGTTGAATGCAAATTTAAGAGGACATTTTTATAAGCATTCA
1 AGCCAAACTGCC-TGCCAAAA-TTGATTGAATGCAAAATTAAGAGGACATTTATATAA-AATTCA
* * * * *
29421277 AATTGAGACGAAACGGACTATTATTCCAAACTACCC
63 AATTGA-ACGAAATGGACTGTCATGCAAAACTACCC
* *
29421313 AGCCAAACTGCTCTGCCAAAATTGATTGAAAGCAAAAATAAGAGGACATTTATATAAATATTCAA
1 AGCCAAACTGC-CTGCCAAAATTGATTGAATGCAAAATTAAGAGGACATTTATATAAA-ATTCAA
*
29421378 ATTGTAACAAAATGGACTGTCATGCAAAACT----
64 ATTG-AACGAAATGGACTGTCATGCAAAACTACCC
* ** * * * ** *
29421409 -G-----C-G-CTGCCAATATTTGCGTGAGA-GAAAAACTAAGAGGACATTTTTACTACCATTTA
1 AGCCAAACTGCCTGCCAA-AATTGATTGA-ATGCAAAATTAAGAGGACATTTATA-TAAAATTCA
** *
29421465 AATTGGAAAAAAATGGACTGTCATGCCAAACT----
63 AATT-GAACGAAATGGACTGTCATGCAAAACTACCC
* * * * * * *
29421497 ------ACT--TTGCCAAAATTTGATTTAATGCAGAATTAATAGGACAATTCTATAAGCATTCAA
1 AGCCAAACTGCCTGCCAAAA-TTGATTGAATGCAAAATTAAGAGGACATTTATATAA-AATTCAA
** * *
29421554 ATTGAGACGAAATTAACTGTCAAGCCAAACT----
64 ATTGA-ACGAAATGGACTGTCATGCAAAACTACCC
* * *
29421585 A--C---CT---TACTAAAATTGATTGAATG-ATAAATTAAGAGGACATTTCTATAAGCAA-TCA
1 AGCCAAACTGCCTGCCAAAATTGATTGAATGCA-AAATTAAGAGGACATTTATATAA--AATTCA
* * *
29421640 AATTGGGACGAAATGGACTGTCATGCCAAACTAACC
63 AATT-GAACGAAATGGACTGTCATGCAAAACTACCC
* * * *
29421676 AGCCAAACTGCCCTGCTAAAATTTTG-TTCAATGCAAATTTAAGAGGACATTTTTATAAACATTC
1 AGCCAAACTG-CCTGCCAAAA--TTGATTGAATGCAAAATTAAGAGGACATTTATATAAA-ATTC
* * *
29421740 AAATTTGGACGAAATGGACTGTCAAT-CCAAACTATCC
62 AAA-TTGAACGAAATGGACTGTC-ATGCAAAACTACCC
* * * ** * * *
29421777 AGCCAAACTGCCCTACCAATATTAATCAAAAGCAAAAAT-A-A-GACATTTATATAAGGATTCAA
1 AGCCAAACTG-CCTGCCAAAATTGATTGAATGCAAAATTAAGAGGACATTTATATAA-AATTCAA
* *
29421839 ATTGTGAA-AAAATAGACTGTCATGCAAAACTACCC
64 A-T-TGAACGAAATGGACTGTCATGCAAAACTACCC
* * * * * *
29421874 AACCAAACTGCCTTGCCAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATGCA
1 AGCCAAACTGCC-TGCCAAAA-TTGATTGAATGCAAAATTAAGAGGACATTTATATAA-AATTCA
* * * *
29421939 ATTTGGGATGAAATGGATTGTCATG------T----
63 AATT-GAACGAAATGGACTGTCATGCAAAACTACCC
* * ** *** ** ** * ** * *
29421965 ---CAACCTGCCCTGCCAAGATTTTCTTGAATGCAAAATAAAGAGAACATTTCTACTA-GCATTC
1 AGCCAAACTG-CCTGCCAA-AATTGATTGAATGC-AAA-ATTAAGAGGACATTTA-TATAAAATT
* * * * *
29422026 AAATTGGAACGAAATGGACTTTCATGCCAAACT----
61 CAAATTGAACGAAATGGACTGTCATGCAAAACTACCC
* ** * * * * *
29422059 ------ACT--CTGCCAATATTTGATTGAATAAAAAATT-AGAAGACATTTTTGTAAGCATTCAG
1 AGCCAAACTGCCTGCCAA-AATTGATTGAATGCAAAATTAAGAGGACATTTATATAA-AATTCAA
* *
29422115 ATTGGGACGAAATGGACTGTAATGCAAAACTACCC
64 ATT-GAACGAAATGGACTGTCATGCAAAACTACCC
** ** * * *
29422150 AGCCAAACCACCCTGCCAAAATATGAATT-AATGC-ACTTTAAGAGAACATTTTTATAAGCATTC
1 AGCCAAA-CTGCCTGCCAAAAT-TG-ATTGAATGCAAAATTAAGAGGACATTTATATAA-AATTC
* * * * *
29422213 AAATTGGGACAAAATGGACTATAATGAAAAACTACCC
62 AAATT-GAACGAAATGGACTGTCATGCAAAACTACCC
* * * **
29422250 AGCCAAACTGCCATGCCAAAATTGATTGAATGCAAAAAT-AGAAGAATATTTATATAAGCTTTCA
1 AGCCAAACTGCC-TGCCAAAATTGATTGAATGCAAAATTAAG-AGGACATTTATATAA-AATTCA
* **
29422314 AATTGAGACAAAATGGGTTGTCATGCAAAACTACCC
63 AATTGA-ACGAAATGGACTGTCATGCAAAACTACCC
* ** * * *
29422350 AACCAAACTGCCCTATCAAAATTTGATTGAATGTAAAATTAAGAGGACATTTCTATAAGCATTCA
1 AGCCAAACTG-CCTGCCAAAA-TTGATTGAATGCAAAATTAAGAGGACATTTATATAA-AATTCA
* * * * *
29422415 ATTTGGGAGGAAATTGACTGTCATGTC-AAACTACCT
63 AATT-GAACGAAATGGACTGTCATG-CAAAACTACCC
* * * * * * * *
29422451 TGCCAAACTTCCCTGCCAATATTTGCTTGAGTGCAAAATTAAGAGGACTTTTCCAT-TAACATTT
1 AGCCAAAC-TGCCTGCCAA-AATTGATTGAATGCAAAATTAAGAGGACATTT--ATATAAAATTC
* * * *
29422515 AAATTGGAACGAAATAGACTATCATGCCAAACTACTC
62 AAATT-GAACGAAATGGACTGTCATGCAAAACTACCC
*
29422552 TGCCAAA
1 AGCCAAA
29422559 ATTTGATTTA
Statistics
Matches: 1025, Mismatches: 222, Indels: 199
0.71 0.15 0.14
Matches are distributed among these distances:
84 1 0.00
85 7 0.01
86 5 0.00
87 98 0.10
88 178 0.17
89 18 0.02
90 8 0.01
91 5 0.00
93 1 0.00
94 1 0.00
95 2 0.00
96 6 0.01
97 57 0.06
98 21 0.02
99 26 0.03
100 245 0.24
101 326 0.32
102 19 0.02
103 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (97 bp):
AGCCAAACTGCCTGCCAAAATTGATTGAATGCAAAATTAAGAGGACATTTATATAAAATTCAAAT
TGAACGAAATGGACTGTCATGCAAAACTACCC
Found at i:29421507 original size:464 final size:461
Alignment explanation
Indices: 29421037--29421869 Score: 1199
Period size: 464 Copynumber: 1.8 Consensus size: 461
29421027 TAAACTGTCA
* * *
29421037 TGCCAAAATTTGATTTAATGCAAAATT-ATAAGGACATTTATATAAGCATTCGAATTGGGACGAA
1 TGCCAAAATTTGATTTAATGCAAAATTAAT-AGGACAATTATATAAGCATTCAAATTGAGACGAA
** * * * *
29421101 ATTGTCTATTAAGCCAAACTGCCCTGCTAAAAGTGATTGAATGATAAATTAAGAGGATATTTATA
65 ATTAACTATCAAGCCAAACTACCCTACTAAAAGTGATTGAATGATAAATTAAGAGGACATTTATA
* ** *
29421166 TAAG-AATTCAAATTAGGATGAAATGGGTTG-CAATGACAAACTACCCAGCCAAACTGCCATGCC
130 TAAGCAA-TCAAATTAGGACGAAATGGACTGTC-ATGACAAACTAACCAGCCAAACTGCCATGCC
* *
29421229 AAAATTTGGTTGAATGCAAATTTAAGAGGACATTTTTATAAGCATTCAAA-TTGAGACGAAACGG
193 AAAATTTGGTTCAATGCAAATTTAAGAGGACATTTTTATAAACATTCAAATTTG-GACGAAACGG
* * * * * **
29421293 ACTATTATTCCAAACTACCCAGCCAAACTGCTCTGCCAAAATTGATTGAAAGCAAAAATAAGAGG
257 ACTATCAATCCAAACTACCCAGCCAAACTGCCCTACCAAAATTAATCAAAAGCAAAAAT-A-A-G
* *
29421358 ACATTTATATAAATATTCAAATTGT-AACAAAATGGACTGTCATGCAAAACTGCGCTGCCAATAT
319 ACATTTATATAAAGATTCAAATTGTGAA-AAAATAGACTGTCATGCAAAACTGCGCTGCCAATAT
29421422 TTGCGTGAGAGAAAAACTAAGAGGACATTTTTACTACCATTTAAATTGGAAAAAAATGGACTGTC
383 TTGCGTGAGAGAAAAACTAAGAGGACATTTTTACTACCATTTAAATTGGAAAAAAATGGACTGTC
29421487 ATGCCAAACTACTT
448 ATGCCAAACTACTT
* *
29421501 TGCCAAAATTTGATTTAATGCAGAATTAATAGGACAATTCTATAAGCATTCAAATTGAGACGAAA
1 TGCCAAAATTTGATTTAATGCAAAATTAATAGGACAATTATATAAGCATTCAAATTGAGACGAAA
* * * *
29421566 TTAACTGTCAAGCCAAACTACCTTACTAAAATTGATTGAATGATAAATTAAGAGGACATTTCTAT
66 TTAACTATCAAGCCAAACTACCCTACTAAAAGTGATTGAATGATAAATTAAGAGGACATTTATAT
* * * *
29421631 AAGCAATCAAATTGGGACGAAATGGACTGTCATGCCAAACTAACCAGCCAAACTGCCCTGCTAAA
131 AAGCAATCAAATTAGGACGAAATGGACTGTCATGACAAACTAACCAGCCAAACTGCCATGCCAAA
* * *
29421696 ATTTTGTTCAATGCAAATTTAAGAGGACATTTTTATAAACATTCAAATTTGGACGAAATGGACTG
196 ATTTGGTTCAATGCAAATTTAAGAGGACATTTTTATAAACATTCAAATTTGGACGAAACGGACTA
* *
29421761 TCAATCCAAACTATCCAGCCAAACTGCCCTACCAATATTAATCAAAAGCAAAAATAAGACATTTA
261 TCAATCCAAACTACCCAGCCAAACTGCCCTACCAAAATTAATCAAAAGCAAAAATAAGACATTTA
*
29421826 TATAAGGATTCAAATTGTGAAAAAATAGACTGTCATGCAAAACT
326 TATAAAGATTCAAATTGTGAAAAAATAGACTGTCATGCAAAACT
29421870 ACCCAACCAA
Statistics
Matches: 324, Mismatches: 40, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
461 46 0.14
462 3 0.01
463 1 0.00
464 266 0.82
465 8 0.02
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (461 bp):
TGCCAAAATTTGATTTAATGCAAAATTAATAGGACAATTATATAAGCATTCAAATTGAGACGAAA
TTAACTATCAAGCCAAACTACCCTACTAAAAGTGATTGAATGATAAATTAAGAGGACATTTATAT
AAGCAATCAAATTAGGACGAAATGGACTGTCATGACAAACTAACCAGCCAAACTGCCATGCCAAA
ATTTGGTTCAATGCAAATTTAAGAGGACATTTTTATAAACATTCAAATTTGGACGAAACGGACTA
TCAATCCAAACTACCCAGCCAAACTGCCCTACCAAAATTAATCAAAAGCAAAAATAAGACATTTA
TATAAAGATTCAAATTGTGAAAAAATAGACTGTCATGCAAAACTGCGCTGCCAATATTTGCGTGA
GAGAAAAACTAAGAGGACATTTTTACTACCATTTAAATTGGAAAAAAATGGACTGTCATGCCAAA
CTACTT
Found at i:29421535 original size:88 final size:87
Alignment explanation
Indices: 29421328--29421672 Score: 288
Period size: 88 Copynumber: 3.9 Consensus size: 87
29421318 AACTGCTCTG
* * * ** * *
29421328 CCAAAATTGATTGAAAGCA-AAAATAAGAGGACATTTATATAAATATTCAAATTGTAACAAAATG
1 CCAAAATTGATTGAATG-ATAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGAACGAAATG
* * *
29421392 GACTGTCATGCAAAACTGCGC-TG
65 GACTGTCATGCCAAACTAC-CTTA
* ** * * * * * **
29421415 CCAATATTTGCGTGAGA-GAAAAACTAAGAGGACATTTTTACT-ACCATTTAAATTGGAAAAAAA
1 CCAA-AATTGATTGA-ATGATAAATTAAGAGGACATTTCTA-TAAGCATTCAAATTGGAACGAAA
* *
29421478 TGGACTGTCATGCCAAACTACTTTG
63 TGGACTGTCATGCCAAACTACCTTA
* * * *
29421503 CCAAAATTTGATTTAATGCA-GAATTAATAGGACAATTCTATAAGCATTCAAATT-GAGACGAAA
1 CCAAAA-TTGATTGAATG-ATAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGA-ACGAAA
** *
29421566 TTAACTGTCAAGCCAAACTACCTTA
63 TGGACTGTCATGCCAAACTACCTTA
* * *
29421591 CTAAAATTGATTGAATGATAAATTAAGAGGACATTTCTATAAGCAATCAAATTGGGACGAAATGG
1 CCAAAATTGATTGAATGATAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGAACGAAATGG
29421656 ACTGTCATGCCAAACTA
66 ACTGTCATGCCAAACTA
29421673 ACCAGCCAAA
Statistics
Matches: 205, Mismatches: 41, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
86 1 0.00
87 73 0.36
88 128 0.62
89 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (87 bp):
CCAAAATTGATTGAATGATAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGAACGAAATGG
ACTGTCATGCCAAACTACCTTA
Found at i:29421635 original size:87 final size:88
Alignment explanation
Indices: 29421475--29421672 Score: 256
Period size: 87 Copynumber: 2.3 Consensus size: 88
29421465 AATTGGAAAA
* * * * * *
29421475 AAATGGACTGTCATGCCAAACTACTTTGCCAAAATTTGATTTAATGCAGAATTAATAGGACAATT
1 AAATGAACTGTCATGCCAAACTACCTTACCAAAATTTGATTGAATGCAAAATTAAGAGGACAATT
*
29421540 CTATAAGCATTCAAATTGAGACG
66 CTATAAGCAATCAAATTGAGACG
* * * *
29421563 AAATTAACTGTCAAGCCAAACTACCTTACTAAAA-TTGATTGAATG-ATAAATTAAGAGGACATT
1 AAATGAACTGTCATGCCAAACTACCTTACCAAAATTTGATTGAATGCA-AAATTAAGAGGACAAT
*
29421626 TCTATAAGCAATCAAATTGGGACG
65 TCTATAAGCAATCAAATTGAGACG
*
29421650 AAATGGACTGTCATGCCAAACTA
1 AAATGAACTGTCATGCCAAACTA
29421673 ACCAGCCAAA
Statistics
Matches: 94, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
86 1 0.01
87 65 0.69
88 28 0.30
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (88 bp):
AAATGAACTGTCATGCCAAACTACCTTACCAAAATTTGATTGAATGCAAAATTAAGAGGACAATT
CTATAAGCAATCAAATTGAGACG
Found at i:29422066 original size:88 final size:87
Alignment explanation
Indices: 29421876--29422155 Score: 251
Period size: 88 Copynumber: 3.2 Consensus size: 87
29421866 AACTACCCAA
* * * * * * * *
29421876 CCAAACTGCCTTGCCAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATGCAAT
1 CCAAACTACCCTGCCAAGATTTGATTGAAT-GAAAAATAAGAGAACATTTCTATAAGCATTCAAA
*
29421941 TTGGGATGAAATGGA-TTGTCATG
65 TTGGGACGAAATGGACTT-TCATG
* * * ** *
29421964 TCAACCTGCCCTGCCAAGATTTTCTTGAATGCAAAATAAAGAGAACATTTCTACT-AGCATTCAA
1 CCAAACTACCCTGCCAAGATTTGATTGAATGAAAAAT-AAGAGAACATTTCTA-TAAGCATTCAA
*
29422028 ATTGGAACGAAATGGACTTTCATG
64 ATTGGGACGAAATGGACTTTCATG
* * * * * * *
29422052 CCAAACTACTCTGCCAATATTTGATTGAATAAAAAATTAGA-AGACATTTTTGTAAGCATTCAGA
1 CCAAACTACCCTGCCAAGATTTGATTGAATGAAAAATAAGAGA-ACATTTCTATAAGCATTCAAA
* *
29422116 TTGGGACGAAATGGACTGTAATG
65 TTGGGACGAAATGGACTTTCATG
* *
29422139 CAAAACTACCCAGCCAA
1 CCAAACTACCCTGCCAA
29422156 ACCACCCTGC
Statistics
Matches: 154, Mismatches: 33, Indels: 11
0.78 0.17 0.06
Matches are distributed among these distances:
86 2 0.01
87 58 0.38
88 91 0.59
89 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (87 bp):
CCAAACTACCCTGCCAAGATTTGATTGAATGAAAAATAAGAGAACATTTCTATAAGCATTCAAAT
TGGGACGAAATGGACTTTCATG
Found at i:29422446 original size:101 final size:100
Alignment explanation
Indices: 29422051--29422913 Score: 473
Period size: 100 Copynumber: 8.9 Consensus size: 100
29422041 GGACTTTCAT
* * * ** * * * *
29422051 GCCAAACTACTCTGCCAATATTTGATTGAATAAAAAATT-AGAAGACATTTTTGTAAGCATTCAG
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
*
29422115 ATTGGGACGAAATGGACTGTAATGCAAAACTACCCA
66 ATTGGGACGAAATGGACTGTCATGC-AAACTACCCA
** * ** * *
29422151 GCCAAACCACCCTGCCAAAATATGAATT-AATGC-ACTTTAAGAGAACATTTTTATAAGCATTCA
1 GCCAAACTGCCCTGCCAAAATTTG-ATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCA
* * * *
29422214 AATTGGGACAAAATGGACTATAATGAAAAACTACCCA
65 AATTGGGACGAAATGGACTGTCATG-CAAACTACCCA
* * * * * *
29422251 GCCAAACTGCCATGCCAAAA-TTGATTGAATGCAAAAAT-AGAAGAATATTTATATAAGCTTTCA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAG-AGGACATTTCTATAAGCATTCA
* * **
29422314 AATTGAGACAAAATGGGTTGTCATGCAAAACTACCCA
65 AATTGGGACGAAATGGACTGTCATGC-AAACTACCCA
* ** *
29422351 ACCAAACTGCCCTATCAAAATTTGATTGAATGTAAAATTAAGAGGACATTTCTATAAGCATTCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * * **
29422416 TTTGGGAGGAAATTGACTGTCATGTCAAACTACCTT
66 ATTGGGACGAAATGGACTGTCATG-CAAACTACCCA
* * * * * * *
29422452 GCCAAACTTCCCTGCCAATATTTGCTTGAGTGCAAAATTAAGAGGACTTTTCCATTAA-CATTTA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA-TAAGCATTCA
* *
29422516 AATTGGAACGAAATAGAC--T-AT-C--A-T-----
65 AATTGGGACGAAATGGACTGTCATGCAAACTACCCA
* * * *
29422540 GCCAAACTACTCTGCCAAAATTTGATTTAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * *
29422605 ATTGGAATG-AA---ACTGAC-TG---AC-A---A
66 ATTGGGACGAAATGGACTGTCATGCAAACTACCCA
* * * * ** ** * * *
29422628 GCCAAACTACCTTGCTAAAA-TTGATTGATTGATAAATTAAGATAACATTTTTACAAACATTCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * * *
29422692 ATTGGGACAAAATGGACTGTAATGCCAAACAACCTA
66 ATTGGGACGAAATGGACTGTCATG-CAAACTACCCA
* * * * * * * * *
29422728 GTCAAATTGCCCTGCCAATATTTGCTTGAGTGTAAAATTAAAAAAAGACATTTTTA-ATAGCATT
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATT--AAGAGGACATTTCTATA-AGCATT
* * *
29422792 TAAATTGGAATGAAATGGAC--T-AT-C--A-T-----
63 CAAATTGGGACGAAATGGACTGTCATGCAAACTACCCA
* * * * * *
29422818 GCCAAACTACTCTGGCAAAATTTGATTTAATGCAAAATTAAAAGGAAATTTCTATAAGCATTCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * * *
29422883 ATTGGGACAAAATTGTCTGTCAAGCCAAACT
66 ATTGGGACGAAATGGACTGTCATG-CAAACT
29422914 GCCCTGCTAA
Statistics
Matches: 585, Mismatches: 133, Indels: 94
0.72 0.16 0.12
Matches are distributed among these distances:
84 2 0.00
86 2 0.00
87 46 0.08
88 110 0.19
89 1 0.00
90 30 0.05
91 5 0.01
92 2 0.00
93 2 0.00
94 1 0.00
95 1 0.00
96 5 0.01
97 1 0.00
98 6 0.01
99 13 0.02
100 177 0.30
101 141 0.24
102 7 0.01
103 33 0.06
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (100 bp):
GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
ATTGGGACGAAATGGACTGTCATGCAAACTACCCA
Found at i:29422719 original size:87 final size:88
Alignment explanation
Indices: 29422451--29422998 Score: 268
Period size: 88 Copynumber: 6.1 Consensus size: 88
29422441 CAAACTACCT
* * * * * * * ** *
29422451 TGCCAAACTTCC-CTGCCAATATTTGCTTGAGTGCAAAATTAAGAGGACTTTTCCATTAACATTT
1 TGCCAAACTACCTCTGCCAAAATTTGATTGAATGCAAAATTAAGAAGACATTTCTACAAACATTC
* * *
29422515 AAATTGGAACGAAATAGACTATCA
66 AAATTGGAACAAAAT-GACTGTAA
* * *
29422539 TGCCAAACTA-CTCTGCCAAAATTTGATTTAATGCAAAATTAAGAAGACATTTCTATAAGCATTC
1 TGCCAAACTACCTCTGCCAAAATTTGATTGAATGCAAAATTAAGAAGACATTTCTACAAACATTC
* *
29422603 AAATTGGAATGAAACTGACTG-ACA
66 AAATTGGAA-CAAAATGACTGTA-A
* * * *
29422627 AGCCAAACTACCT-TGCTAAAA-TTGATTGATTG-ATAAATTAAGATA-ACATTTTTACAAACAT
1 TGCCAAACTACCTCTGCCAAAATTTGATTGAATGCA-AAATTAAGA-AGACATTTCTACAAACAT
*
29422688 TCAAATTGGGACAAAATGGACTGTAA
64 TCAAATTGGAACAAAAT-GACTGTAA
* * * * * *
29422714 TGCCAAACAACCTAGTCAAATTGCCCTGCCAATATTTGCTTGAGTGTAAAATTAAAAAAAGACAT
1 TGCC--A-AA-CTA--C------CTCTGCCAAAATTTGATTGAATGCAAAATT--AAGAAGACAT
* * * ** * *
29422779 TTTTA-ATAGCATTTAAATTGGAATGAAATGGACTATCA
52 TTCTACA-AACATTCAAATTGGAACAAAAT-GACTGTAA
* * * * *
29422817 TGCCAAACTA-CTCTGGCAAAATTTGATTTAATGCAAAATTAA-AAGGAAATTTCTATAAGCATT
1 TGCCAAACTACCTCTGCCAAAATTTGATTGAATGCAAAATTAAGAA-GACATTTCTACAAACATT
* *
29422880 CAAATTGGGACAAAATTGTCTGTCAA
65 CAAATTGGAACAAAA-TGACTGT-AA
* * * * *
29422906 -GCCAAACTGCC-CTG-CTAAA-TTGAATG-AT---AAATTAAGAGGACATTTCTACAAGCATTC
1 TGCCAAACTACCTCTGCCAAAATTTGATTGAATGCAAAATTAAGAAGACATTTCTACAAACATTC
* ** *
29422963 AAATTGGGATGAAATGGACTGTCA
66 AAATTGGAACAAAAT-GACTGTAA
29422987 TGCCAAACTACC
1 TGCCAAACTACC
29422999 AAGCCAAACA
Statistics
Matches: 357, Mismatches: 68, Indels: 76
0.71 0.14 0.15
Matches are distributed among these distances:
81 2 0.01
82 51 0.14
83 1 0.00
85 2 0.01
86 10 0.03
87 57 0.16
88 125 0.35
89 10 0.03
90 25 0.07
91 3 0.01
93 1 0.00
99 4 0.01
100 8 0.02
101 15 0.04
102 3 0.01
103 40 0.11
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (88 bp):
TGCCAAACTACCTCTGCCAAAATTTGATTGAATGCAAAATTAAGAAGACATTTCTACAAACATTC
AAATTGGAACAAAATGACTGTAA
Found at i:29422745 original size:577 final size:573
Alignment explanation
Indices: 29421613--29422725 Score: 1226
Period size: 577 Copynumber: 1.9 Consensus size: 573
29421603 GAATGATAAA
* * * * **
29421613 TTAAGAGGACATTTCTATAAGCAATCAAATTGGGACGAAATGGACTGTCATGCCAAACTAACCAG
1 TTAAGAGAACATTTCTATAAGCAATCAAATTGGGACAAAATGGACTATAATGAAAAACTAACCAG
* * ** *
29421678 CCAAACTGCCCTGCTAAAATTTTGTTCAATGCAAATTTAAGAGGACATTTTTATAAACATTCAAA
66 CCAAACTGCCATGCCAAAA-TTTGTTCAATGCAAAAATAAGAAGACATTTTTATAAACATTCAAA
* * * * *
29421743 TTTGGACGAAATGGACTGTCAATCCAAACTATCCAGCCAAACTGCCCTACCAATATTAATCAAAA
130 TTTGGACAAAATGGACTGTCAATCAAAACTACCCAACCAAACTGCCCTACCAAAATTAATCAAAA
* *
29421808 GCAAAAATAAGACATTTATATAAGGATTCAAATTGTGAAAAAATAGACTGTCATGCAAAACTACC
195 GCAAAAATAAGACATTTATATAAGCATTCAAATTGGGAAAAAATAGACTGTCATGCAAAACTACC
* * *
29421873 CAACCAAACTGCCTTGCCAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATGC
260 CAACCAAACTGCCCTGCCAAAATTTGATTAAATGCAAAATTAAGAGGACATTTCCATAAGCATGC
* * * * * * * * * * **
29421938 AATTTGGGATGAAATGGATTGTCATGTCAACCTGCCCTGCCAAGATTTTCTTGAATGCAAAATAA
325 AAATTGGAACGAAATAGACTATCATGCCAAACTACCCTGCCAAAATTTGATTGAATGCAAAATAA
** *
29422003 AGAGAACATTTCTACTAGCATTCAAATTGGAACGAAATGGACTTTCATGCCAAACTACTCTGCCA
390 AGAGAACATTTCTACTAGCATTCAAATTGGAACGAAATGGACTGACAAGCCAAACTACTCTGCCA
* ** * * *
29422068 ATATTTGATTGAATAAAAAATTAGAAGACATTTTTGTAAGCATTCAGATTGGGACGAAATGGACT
455 ATAATTGATTGAATAAAAAATTAGAAGACATTTTTACAAACATTCAAATTGGGACAAAATGGACT
*
29422133 GTAATGCAAAACTACCCAGCCAAACCACCCTGCCAAAATATGAATTAATGCACT
520 GTAATGCAAAACAACCCAGCCAAACCACCCTGCCAAAATATGAATTAATGCACT
* * *
29422187 TTAAGAGAACATTTTTATAAGCATTCAAATTGGGACAAAATGGACTATAATGAAAAACTACCCAG
1 TTAAGAGAACATTTCTATAAGCAATCAAATTGGGACAAAATGGACTATAATGAAAAACTAACCAG
* * *
29422252 CCAAACTGCCATGCCAAAA-TTGATTGAATGCAAAAAT-AGAAGA-ATATTTATATAAGCTTTCA
66 CCAAACTGCCATGCCAAAATTTG-TTCAATGCAAAAATAAGAAGACAT-TTT-TATAAACATTCA
** * *
29422314 AA-TTGAGACAAAATGGGTTGTC-ATGCAAAACTACCCAACCAAACTGCCCTATCAAAATTTGAT
128 AATTTG-GACAAAATGGACTGTCAAT-CAAAACTACCCAACCAAACTGCCCTACCAAAA-TTAAT
** * * * * * ** *
29422377 TGAATGTAAAATTAAGAGGACATTTCTATAAGCATTCAATTTGGGAGGAAATTGACTGTCATGTC
190 CAAAAGCAAAAAT-A-A-GACATTTATATAAGCATTCAAATTGGGAAAAAATAGACTGTCATG-C
*** * * * * * *
29422442 -AAACTACCTTGCCAAACTTCCCTGCCAATATTTGCTTGAGTGCAAAATTAAGAGGACTTTTCCA
251 AAAACTACCCAACCAAACTGCCCTGCCAAAATTTGATTAAATGCAAAATTAAGAGGACATTTCCA
** * *
29422506 TTAA-CATTTAAATTGGAACGAAATAGACTATCATGCCAAACTACTCTGCCAAAATTTGATTTAA
316 -TAAGCATGCAAATTGGAACGAAATAGACTATCATGCCAAACTACCCTGCCAAAATTTGATTGAA
* *
29422570 TGCAAAATTAAGA-AGACATTTCTA-TAAGCATTCAAATTGGAATGAAACT-GACTGACAAGCCA
380 TGCAAAATAAAGAGA-ACATTTCTACT-AGCATTCAAATTGGAACGAAA-TGGACTGACAAGCCA
* * * *
29422632 AACTAC-CTTGCTAA-AATTGATTGATTGATAAATTAAGATA-ACATTTTTACAAACATTCAAAT
442 AACTACTC-TGCCAATAATTGATTGAATAAAAAATT-AGA-AGACATTTTTACAAACATTCAAAT
*
29422694 TGGGACAAAATGGACTGTAATGCCAAACAACC
504 TGGGACAAAATGGACTGTAATGCAAAACAACC
29422726 TAGTCAAATT
Statistics
Matches: 439, Mismatches: 83, Indels: 31
0.79 0.15 0.06
Matches are distributed among these distances:
571 2 0.00
572 16 0.04
573 63 0.14
574 85 0.19
575 1 0.00
576 20 0.05
577 246 0.56
578 6 0.01
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (573 bp):
TTAAGAGAACATTTCTATAAGCAATCAAATTGGGACAAAATGGACTATAATGAAAAACTAACCAG
CCAAACTGCCATGCCAAAATTTGTTCAATGCAAAAATAAGAAGACATTTTTATAAACATTCAAAT
TTGGACAAAATGGACTGTCAATCAAAACTACCCAACCAAACTGCCCTACCAAAATTAATCAAAAG
CAAAAATAAGACATTTATATAAGCATTCAAATTGGGAAAAAATAGACTGTCATGCAAAACTACCC
AACCAAACTGCCCTGCCAAAATTTGATTAAATGCAAAATTAAGAGGACATTTCCATAAGCATGCA
AATTGGAACGAAATAGACTATCATGCCAAACTACCCTGCCAAAATTTGATTGAATGCAAAATAAA
GAGAACATTTCTACTAGCATTCAAATTGGAACGAAATGGACTGACAAGCCAAACTACTCTGCCAA
TAATTGATTGAATAAAAAATTAGAAGACATTTTTACAAACATTCAAATTGGGACAAAATGGACTG
TAATGCAAAACAACCCAGCCAAACCACCCTGCCAAAATATGAATTAATGCACT
Found at i:29422850 original size:278 final size:275
Alignment explanation
Indices: 29422367--29423023 Score: 844
Period size: 278 Copynumber: 2.4 Consensus size: 275
29422357 CTGCCCTATC
* * * *
29422367 AAAATTTGATTGAATG-TAAAATTAAGAGGACATTTCTATAAGCATTCAATTTGGGAGGAAATTG
1 AAAA-TTGATTG-ATGAT-AAATTAAGAGGACATTTCTACAAGCATTCAAATTGGGACGAAATGG
* * *
29422431 ACTGTCATGTCAAACTACCTTGCCAAACTT-CCCTGCCAATATTTGCTTGAGTGCAAAATTAAGA
63 ACTGTCATGCCAAACTACCTAGCCAAA-TTGCCCTGCCAATATTTGCTTGAGTGCAAAATTAAAA
* *
29422495 GGACTTTTCCATTAACATTTAAATTGGAACGAAATAGACTATCATGCCAAACTACTCTGCCAAAA
127 AGACTTTTCCAATAACATTTAAATTGGAACGAAATAGACTATCATGCCAAACTACTCTGCCAAAA
* **
29422560 TTTGATTTAATGCAAAATTAAGAA-GACATTTCTATAAGCATTCAAATTGGAATGAAACTGACTG
192 TTTGATTTAATGCAAAATTAA-AAGGAAATTTCTATAAGCATTCAAATTGGAACAAAACTGACTG
*
29422624 ACAAGCCAAACTACCTTGCT
256 ACAAGCCAAACTACCCTGCT
** * * *
29422644 AAAATTGATTGATTGATAAATTAAGATAACATTTTTACAAACATTCAAATTGGGACAAAATGGAC
1 AAAATTGATTGA-TGATAAATTAAGAGGACATTTCTACAAGCATTCAAATTGGGACGAAATGGAC
* * * *
29422709 TGTAATGCCAAACAACCTAGTCAAATTGCCCTGCCAATATTTGCTTGAGTGTAAAATTAAAAAAA
65 TGTCATGCCAAACTACCTAGCCAAATTGCCCTGCCAATATTTGCTTGAGTGCAAAATT--AAAAA
* * * * *
29422774 GACATTTT-TAATAGCATTTAAATTGGAATGAAATGGACTATCATGCCAAACTACTCTGGCAAAA
128 GAC-TTTTCCAATAACATTTAAATTGGAACGAAATAGACTATCATGCCAAACTACTCTGCCAAAA
* * * *
29422838 TTTGATTTAATGCAAAATTAAAAGGAAATTTCTATAAGCATTCAAATTGGGACAAAATTGTCTGT
192 TTTGATTTAATGCAAAATTAAAAGGAAATTTCTATAAGCATTCAAATTGGAACAAAACTGACTGA
*
29422903 CAAGCCAAACTGCCCTGCT
257 CAAGCCAAACTACCCTGCT
*
29422922 -AAATTGA---ATGATAAATTAAGAGGACATTTCTACAAGCATTCAAATTGGGATGAAATGGACT
1 AAAATTGATTGATGATAAATTAAGAGGACATTTCTACAAGCATTCAAATTGGGACGAAATGGACT
* ** *
29422983 GTCATGCCAAACTACCAAGCCAAACAGCCCTGCCAAAATTT
66 GTCATGCCAAACTACCTAGCCAAATTGCCCTGCCAATATTT
29423024 TGTTCAATGC
Statistics
Matches: 328, Mismatches: 45, Indels: 18
0.84 0.12 0.05
Matches are distributed among these distances:
273 81 0.25
274 1 0.00
275 3 0.01
276 97 0.30
277 14 0.04
278 128 0.39
279 4 0.01
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (275 bp):
AAAATTGATTGATGATAAATTAAGAGGACATTTCTACAAGCATTCAAATTGGGACGAAATGGACT
GTCATGCCAAACTACCTAGCCAAATTGCCCTGCCAATATTTGCTTGAGTGCAAAATTAAAAAGAC
TTTTCCAATAACATTTAAATTGGAACGAAATAGACTATCATGCCAAACTACTCTGCCAAAATTTG
ATTTAATGCAAAATTAAAAGGAAATTTCTATAAGCATTCAAATTGGAACAAAACTGACTGACAAG
CCAAACTACCCTGCT
Found at i:29423315 original size:188 final size:186
Alignment explanation
Indices: 29422833--29425566 Score: 566
Period size: 188 Copynumber: 14.4 Consensus size: 186
29422823 ACTACTCTGG
* * * * *
29422833 CAAAATTTGATTTAATGCAAAATTAAAAGGAAATTTCTATAAGCATTCAAATTGGGACAAAATTG
1 CAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGG
* * * * * *
29422898 -TCTGTCAAGCCAAACTGCCCTGCTAAATTGAAT-GAT--AAATTAAGAGGACATTTCTACAAGC
66 AT-TGTCATGTCAAACTGCCCTGCCAAATTGATTGGATGAAAAATAAGAGGACATTTCTATAAGC
* ** * *
29422959 ATTCAAATTGGGATGAAATGGACTGTCATGCCAAACTACCAAGCCAAACAGCCCTGC
130 ATTCAAATTGCGACAAAATGGAATGTCATGCAAAACTACCAAGCCAAACAGCCCTGC
* * *
29423016 CAAAATTTTG-TTCAATGCG-AATTTAAGAGGACATTTTTATAAGCATTCAAATTGGGACAAAAT
1 CAAAA-TTTGATTAAATG-GAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAAT
* * * * ** * * * * * *
29423079 GGAATGTC-TTTCCAAATTACCCAACCGAACTTAATAGAAAGAAAAAATAAGAGGACATTTATAT
64 GGATTGTCATGT-CAAACTGCCCTGCC-AAATTGATTGGATG-AAAAATAAGAGGACATTTCTAT
* *
29423143 AAGCATTCAAATTGCGACAAAATGGAATGTCATGCAAAACTGCCCAA-CCAAACTGCCCTGC
126 AAGCATTCAAATTGCGACAAAATGGAATGTCATGCAAAACT-ACCAAGCCAAACAGCCCTGC
* * * * *
29423204 CGAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAATTTAGGACTAAGTGG
1 CAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGG
* * * *
29423269 ATTGTCATGTCAAACTGCCCTGCCAATATTTGCTTGGATGAAAAATAAAGAGAACCTTTCTATTA
66 ATTGTCATGTCAAACTGCCCTGCCAA-A-TTGATTGGATGAAAAAT-AAGAGGACATTTCTATAA
* * * *
29423334 GCATTCAAATTG-GAACGAAATAGACT-T--T-C---A-T-----GCCAAACTGCTCCT-C
128 GCATTCAAATTGCG-ACAAAATGGAATGTCATGCAAAACTACCAAGCCAAACAGC-CCTGC
* * * * *
29423380 CAACATTTGATTGAAT-GAAAAGTTAAGAGGACATTTCTGTAAGCATTTAAATTGGGACGAAATG
1 CAAAATTTGATTAAATGGAAAA-TTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATG
* * * *
29423444 TATTGTAATG-CAAAACT-ACCTAGCCAAACCGCTCTGCGAAAATTAGATTGAATACAAAATTAA
65 GATTGTCATGTC-AAACTGCCCT-GCCAAA----T-T--G---ATTGGA-TG---A-AAAA-TAA
* * * * * ** *
29423507 GAAGATATTCCTATAAGCATTCAAATTG-G----GAGGGAA--T--TG----ACTGTCAGGCCAA
112 GAGGACATTTCTATAAGCATTCAAATTGCGACAAAATGGAATGTCATGCAAAACTACCAAGCCAA
* *
29423559 GCTGCCCTGC
177 ACAGCCCTGC
* * * * *
29423569 TAAAA-TTCATTTAAA-GCAAAATTAATAGGACATTTCTATAAGCATTCAAATTGGGACTAAATG
1 CAAAATTTGA-TTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATG
* * ***
29423632 GATTGTCATG-CAAAACTACCCAGCCAAATTTCCCTGCCACAATTTGATTGAATGCACTTTAAGA
65 GATTGTCATGTC-AAACT-----G--------CCCTGCCA-AA-TTGATTGGATGAAAAATAAGA
* * * * * * * * * * *
29423696 GGACATTTTTATCAGCATTCAGATTGAGACGAAATGGACTATAAAGCAAAATTACGC-AGCCAAC
114 GGACATTTCTATAAGCATTCAAATTGCGACAAAATGGAATGTCATGCAAAACTAC-CAAGCCAAA
29423760 CTA-CCCTGC
178 C-AGCCCTGC
* * * * * * *
29423769 CAAAA-TTGATTGAATGCAAAAATAGGAGAATATTTCTATAAGCATTCAAATTGGGACAAAAAGG
1 CAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGG
** * * *
29423833 GCTGTCATG-CAAAACTACCCAACCAAATTGCCTTGTCAAAATTTGATTGAATGCAAAATTAAGA
66 ATTGTCATGTC-AAACT--GC--CC----TG-C----C-AAA-TTGATTGGATG-AAAAATAAGA
* * ** **
29423897 GGACATTTCTATAAACATTC-AATT-CGAGAAGAAATGGTCTGTCATGTC-AAACTACCCTGCCA
114 GGACATTTCTATAAGCATTCAAATTGCGA-CA-AAATGGAATGTCATG-CAAAACTACCAAGCCA
*
29423959 AACTGCCCTGC
176 AACAGCCCTGC
* * * * * ** * *
29423970 CAATATTTGCTTAAGTGTAAAATTAAGAGAACATTTCTATTAATAATT-AAATTGGAACGAAATG
1 CAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTA-TAAGCATTCAAATTGGGACAAAATG
* * * * * * ** * * *
29424034 GAATGTCAAGCCAAACTACTCTGTCAAAATTTGATTTAATGCAAAATTAAAAAGACATTTCTATA
65 GATTGTCATGTCAAACTGCCCTG-CCAAA-TTGATTGGATG-AAAAATAAGAGGACATTTCTATA
* * * * * * *
29424099 AGAATTCAAATTGGGACAAAAT----T-T-A--C--TA-TA--GAGCCAAGCTGCCCTAC
127 AGCATTCAAATTGCGACAAAATGGAATGTCATGCAAAACTACCAAGCCAAACAGCCCTGC
* * * * * * * * *
29424146 TAAAA-TTAATT-GATTGATAAATTAAAATGACATTTCAATAAACATTCAAATTGGGACGAAATG
1 CAAAATTTGATTAAATGGA-AAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATG
* * * * **
29424209 GACTGTCATGCCAAACTACCAAGCCAAGCTGCCCTACTAATATTTGGTTGAATGCAAATTTAAGA
65 GATTGTCATGTCAAACT-----GCC---CTG--C--C-AA-A-TTGATTGGATG-AAAAATAAGA
* * ** * *
29424274 GGACATTTTTATAAGTATTCAAATTG-GA-ATGAAATGGGCTGTCATGCCAAACTACCCAGCCAA
114 GGACATTTCTATAAGCATTCAAATTGCGACA--AAATGGAATGTCATGCAAAACTACCAAGCCAA
*
29424337 ACTGCCCTGC
177 ACAGCCCTGC
* * * ** * * * * * *
29424347 CAAAATTTGATTGAACGTAAAATTAAGAGGATGTTTCTATGAGTAATCAATTTGGAACGAAATGG
1 CAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGG
* ** *
29424412 ATTGTCATGTTAAACTTCCCTAGCAAACTGCCCTGCCAATATTTGCTTCAATGCAAAATTAAGAG
66 ATTGTCATG-----------T--CAAACTGCCCTGCCAA-A-TTGATTGGATG-AAAAATAAGAG
* * * * *
29424477 CACATTTCTATTATG-ATTCAAATTGGGAC---A---AA----ATGC---ACTATCATGCC-AAC
115 GACATTTCTA-TAAGCATTCAAATTGCGACAAAATGGAATGTCATGCAAAACTACCAAGCCAAAC
*
29424527 TA-CTCTGC
179 -AGCCCTGC
* * * * * **
29424535 CAAAATTTGATTTAATGCAAAATTAAGAGAACAATTCTATAAGCATTAAAATTGGGACAAAATTA
1 CAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGG
* * * * *
29424600 ACTGTTAAGCCAAACTACCCGGCCAAACTGCCCTTCCAAAATTGATTGAAAGTAAAAATAAGAGG
66 A---TT--GTC--A-T-----GTCAAACTGCCCTGCC-AAATTGATTGGATG-AAAAATAAGAGG
* * * * * *
29424665 AAATTTATATAAGCATTCAAATTGCAACAAAATGGACTGTCACGCAAAACTACCCAA-CCAAACT
116 ACATTTCTATAAGCATTCAAATTGCGACAAAATGGAATGTCATGCAAAACTA-CCAAGCCAAACA
29424729 GCCCTGC
180 GCCCTGC
** * * *
29424736 CAATGTTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTTAATTTGGGACGAAATGG
1 CAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGG
* * * * * * * * **
29424801 ATTCTCATGTCAAACTACCCTGTCAATATTTACTTGAATGCAGAATAAAGAGAACATTTCTATTT
66 ATTGTCATGTCAAACTGCCCTGCCAA-ATTGA-TTGGATGAAAAAT-AAGAGGACATTTCTATAA
* * * * **
29424866 GCATT-AGAATTG-GAACGAAATAGATTGTCATGCCAAACT----A--C-TTCA------C
128 GCATTCA-AATTGCG-ACAAAATGGAATGTCATGCAAAACTACCAAGCCAAACAGCCCTGC
* * * *
29424912 CAAAATTTGATTGAATGAAAAATTAAGAGGACATTTTTGTAAGCATTCAAATTGGGA-AAAATGG
1 CAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGG
* * * * * * *
29424976 ACTGTAATGCCAAACTGCCCTGCCAAAATTAGATTGAATGCAATACTAAGAAGACATTTCTATAA
66 ATTGTCATGTCAAACTGCCCTGCC-AAATT-GATTGGATG-AAAAATAAGAGGACATTTCTATAA
* * * *
29425041 GCATTCAAATTAG-G-----AGGGAA--T--TG----ACTATC-AGAACAAACTGCCCTGC
128 GCATTCAAATT-GCGACAAAATGGAATGTCATGCAAAACTACCAAG-CCAAACAGCCCTGC
* * * * * ** **
29425087 TAAAA-TTCATTGAATGCAAAATTAAGAGGACATTTATATAAGCATTCAAATCAGGATGAAATGG
1 CAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGG
* * ***
29425151 ACTGTCAT-TCCAAACTATCAAGCCAAATTGCCCTGCCAAAATTTGATTGAATGAACTTTAAGAG
66 ATTGTCATGT-----C-A--AA--C----TGCCCTGCC-AAA-TTGATTGGATGAAAAATAAGAG
* * * * * *
29425215 GATATTTTTATAAGCATTCAAATTAG-GACAAAATAGACTGTCATGCCAAACGACCCAA-CCAAA
115 GACATTTCTATAAGCATTCAAATT-GCGACAAAATGGAATGTCATGCAAAACTA-CCAAGCCAAA
*
29425278 CTGCCCTGC
178 CAGCCCTGC
* * * * * *
29425287 C-AAACTTGATTGAATGCAAAAATAAGAGGTCATTTCTATAAGCATTTAAATTGGGACAAAATGG
1 CAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGG
* * * * *
29425351 ATGGTCATGCCAAACTACCTAGCCAAATTGCCATTCTAAAATTGATTGAATGATAAATTAAGAGG
66 ATTGTCATGTC-AA--A-CT-GCC---CTG-C---C--AAATTGATTGGATGA-AAAATAAGAGG
* * * * *
29425416 ACATCTCTATAAGCATTCAAATTAG-GACGAAATGGACTGTCATGCAACACTACCCAA-CCAAAT
116 ACATTTCTATAAGCATTCAAATT-GCGACAAAATGGAATGTCATGCAAAACTA-CCAAGCCAAAC
* * *
29425479 TGACCAGC
179 AGCCCTGC
* * * * **
29425487 CAAAA-TCGATTGAATGCAAAATTCAGAGGACATTTCTATAATAATTCAAATTGGGACAAAATGG
1 CAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGG
* *
29425551 ACTGTCATGCCAAACT
66 ATTGTCATGTCAAACT
29425567 ACCAAGCCAA
Statistics
Matches: 1893, Mismatches: 408, Indels: 487
0.68 0.15 0.17
Matches are distributed among these distances:
162 3 0.00
165 1 0.00
166 2 0.00
168 2 0.00
169 1 0.00
170 3 0.00
174 53 0.03
175 135 0.07
176 152 0.08
177 3 0.00
178 3 0.00
179 3 0.00
180 3 0.00
181 2 0.00
182 4 0.00
183 73 0.04
184 21 0.01
185 5 0.00
186 5 0.00
187 107 0.06
188 364 0.19
189 204 0.11
190 7 0.00
191 7 0.00
192 17 0.01
193 9 0.00
194 8 0.00
195 7 0.00
196 14 0.01
197 4 0.00
198 5 0.00
199 28 0.01
200 310 0.16
201 151 0.08
202 149 0.08
203 15 0.01
205 1 0.00
207 3 0.00
210 3 0.00
215 6 0.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (186 bp):
CAAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGG
ATTGTCATGTCAAACTGCCCTGCCAAATTGATTGGATGAAAAATAAGAGGACATTTCTATAAGCA
TTCAAATTGCGACAAAATGGAATGTCATGCAAAACTACCAAGCCAAACAGCCCTGC
Found at i:29423365 original size:88 final size:86
Alignment explanation
Indices: 29423190--29423460 Score: 278
Period size: 88 Copynumber: 3.1 Consensus size: 86
29423180 AACTGCCCAA
* * *
29423190 CCAAACTGCCCTGCCGAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAAT
1 CCAAACTGCCCTGCC-AAATTTGATTGAATGAAAAATTAAGAGGACATTTCTATAAGCATTCAAA
* * *
29423255 TTAGGACTAAGTGGATTGTCATG
65 TT-GGACGAAATAGATTGTCATG
* * * * * * *
29423278 TCAAACTGCCCTGCCAATATTTGCTTGGATGAAAAATAAAGAGAACCTTTCTATTAGCATTCAAA
1 CCAAACTGCCCTGCCAA-ATTTGATTGAATGAAAAATTAAGAGGACATTTCTATAAGCATTCAAA
29423343 TTGGAACGAAATAGACTT-TCATG
65 TTGG-ACGAAATAGA-TTGTCATG
* * *
29423366 CCAAACTGCTCCT-CCAACATTTGATTGAATGAAAAGTTAAGAGGACATTTCTGTAAGCATTTAA
1 CCAAACTGC-CCTGCCAA-ATTTGATTGAATGAAAAATTAAGAGGACATTTCTATAAGCATTCAA
*
29423430 ATTGGGACGAAAT-GTATTGTAATG
64 ATT-GGACGAAATAG-ATTGTCATG
*
29423454 CAAAACT
1 CCAAACT
29423461 ACCTAGCCAA
Statistics
Matches: 150, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
87 7 0.05
88 136 0.91
89 7 0.05
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (86 bp):
CCAAACTGCCCTGCCAAATTTGATTGAATGAAAAATTAAGAGGACATTTCTATAAGCATTCAAAT
TGGACGAAATAGATTGTCATG
Found at i:29423910 original size:101 final size:101
Alignment explanation
Indices: 29423554--29425722 Score: 1212
Period size: 100 Copynumber: 22.5 Consensus size: 101
29423544 TGACTGTCAG
* * * * * *
29423554 GCCAAGCTGCCCTGCTAAAA-TTCATTTAAAGCAAAATTAATAGGACATTTCTATAAGCATTCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * *
29423618 ATTGGGACTAAATGGATTGTCATGCAAAACTACCCA
66 ATTGAGACAAAATGGACTGTCATGCAAAACTACCCA
* * * ** * * *
29423654 GCCAAATTTCCCTGCCACAATTTGATTGAATGC-ACTTTAAGAGGACATTTTTATCAGCATTCAG
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * * * * *
29423718 ATTGAGACGAAATGGACTATAAAGCAAAATTACGCA
66 ATTGAGACAAAATGGACTGTCATGCAAAACTACCCA
* * * * * *
29423754 GCCAACCTACCCTGCCAAAA-TTGATTGAATGCAAAAATAGGAGAATATTTCTATAAGCATTCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * *
29423818 ATTGGGACAAAAAGGGCTGTCATGCAAAACTACCCA
66 ATTGAGACAAAATGGACTGTCATGCAAAACTACCCA
* * * * *
29423854 ACCAAATTGCCTTGTCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTC-A
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* *
29423918 ATTCGAGA-AGAAATGGTCTGTCATGTC-AAACTACCCT
66 ATT-GAGACA-AAATGGACTGTCATG-CAAAACTACCCA
* * * * **
29423955 GCCAAACTGCCCTGCCAATATTTGCTT-AAGTGTAAAATTAAGAGAACATTTCTATTAATAATT-
1 GCCAAACTGCCCTGCCAAAATTTGATTGAA-TGCAAAATTAAGAGGACATTTCTA-TAAGCATTC
* *
29424018 AAATTG-GAACGAAATGGA-----ATG------T--CAA
64 AAATTGAG-ACAAAATGGACTGTCATGCAAAACTACCCA
* * * * * * *
29424043 GCCAAACTACTCTGTCAAAATTTGATTTAATGCAAAATTAAAAAGACATTTCTATAAGAATTCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * *
29424108 ATTGGGACAAAAT----T-T-A--C--TA-TA--GA
66 ATTGAGACAAAATGGACTGTCATGCAAAACTACCCA
* * * * * ** * * * *
29424131 GCCAAGCTGCCCTACTAAAA-TTAATTGATTGATAAATTAAAATGACATTTCAATAAACATTCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * * *
29424195 ATTGGGACGAAATGGACTGTCATGCCAAACTACCAA
66 ATTGAGACAAAATGGACTGTCATGCAAAACTACCCA
* * * * * * * *
29424231 GCCAAGCTGCCCTACTAATATTTGGTTGAATGCAAATTTAAGAGGACATTTTTATAAGTATTCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* *
29424296 ATTG-GA-ATGAAATGGGCTGTCATGCCAAACTACCCA
66 ATTGAGACA--AAATGGACTGTCATGCAAAACTACCCA
* * ** * * *
29424332 GCCAAACTGCCCTGCCAAAATTTGATTGAACGTAAAATTAAGAGGATGTTTCTATGAGTAATCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * * ** *
29424397 TTTG-GAACGAAATGGATTGTCATGTTAAACTTCCCTA
66 ATTGAG-ACAAAATGGACTGTCATGCAAAACTACCC-A
* * * * *
29424434 G-CAAACTGCCCTGCCAATATTTGCTTCAATGCAAAATTAAGAGCACATTTCTATTATG-ATTCA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA-TAAGCATTCA
* *
29424497 AATTGGGACAAAATGCAC--T-AT-C---A-T-----
65 AATTGAGACAAAATGGACTGTCATGCAAAACTACCCA
* * * * * *
29424521 GCC-AACTACTCTGCCAAAATTTGATTTAATGCAAAATTAAGAGAACAATTCTATAAGCATTAAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* ** * * * *
29424585 ATTGGGACAAAATTAACTGTTAAGCCAAACTACCCG
66 ATTGAGACAAAATGGACTGTCATGCAAAACTACCCA
* * * * * *
29424621 GCCAAACTGCCCTTCCAAAA-TTGATTGAAAGTAAAAATAAGAGGAAATTTATATAAGCATTCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
*
29424685 ATTGCA-ACAAAATGGACTGTCACGCAAAACTACCCA
66 ATTG-AGACAAAATGGACTGTCATGCAAAACTACCCA
* ** * * *
29424721 ACCAAACTGCCCTGCCAATGTTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTTAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * *
29424786 TTTGGGACGAAATGGA-T-TC-T-C---A-T-----
66 ATTGAGACAAAATGGACTGTCATGCAAAACTACCCA
* * * * * * * **
29424809 GTCAAACTACCCTGTCAATATTT-ACTTGAATGCAGAATAAAGAGAACATTTCTATTTGCATT-A
1 GCCAAACTGCCCTGCCAAAATTTGA-TTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCA
* * * *
29424872 GAATTG-GAACGAAATAGATTGTCATGCCAAACT-----
65 -AATTGAG-ACAAAATGGACTGTCATGCAAAACTACCCA
* * * * *
29424905 -----ACT--TC-ACCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTTTGTAAGCATTCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
*
29424962 ATTGGGA-AAAATGGACTG---T----AA-T-----
66 ATTGAGACAAAATGGACTGTCATGCAAAACTACCCA
* * * *
29424984 GCCAAACTGCCCTGCCAAAATTAGATTGAATGCAATACTAAGAAGACATTTCTATAAGCATTCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * * *
29425049 ATT-AG----GAGGGA--AT--TG----ACTA-TCA
66 ATTGAGACAAAATGGACTGTCATGCAAAACTACCCA
* * * *
29425071 GAACAAACTGCCCTGCTAAAA-TTCATTGAATGCAAAATTAAGAGGACATTTATATAAGCATTCA
1 G-CCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCA
* ** * * * *
29425135 AA-TCAGGATGAAATGGACTGTCATTCCAAACTATCAA
65 AATTGA-GACAAAATGGACTGTCATGCAAAACTACCCA
* ** * *
29425172 GCCAAATTGCCCTGCCAAAATTTGATTGAATG-AACTTTAAGAGGATATTTTTATAAGCATTCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * *
29425236 ATT-AGGACAAAATAGACTGTCATGCCAAACGACCCA
66 ATTGA-GACAAAATGGACTGTCATGCAAAACTACCCA
* * * * *
29425272 ACCAAACTGCCCTGCC-AAACTTGATTGAATGCAAAAATAAGAGGTCATTTCTATAAGCATTTAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * *
29425336 ATTGGGACAAAATGGA-TGGTCATGCCAAACTACCTA
66 ATTGAGACAAAATGGACT-GTCATGCAAAACTACCCA
* * * * *
29425372 GCCAAATTGCCATTCTAAAA-TTGATTGAATG-ATAAATTAAGAGGACATCTCTATAAGCATTCA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCA-AAATTAAGAGGACATTTCTATAAGCATTCA
* *
29425435 AATT-AGGACGAAATGGACTGTCATGCAACACTACCCA
65 AATTGA-GACAAAATGGACTGTCATGCAAAACTACCCA
* * * * * * **
29425472 ACCAAATTGACCAGCCAAAA-TCGATTGAATGCAAAATTCAGAGGACATTTCTATAATAATTCAA
1 GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
* * *
29425536 ATTGGGACAAAATGGACTGTCATGCCAAACTACCAA
66 ATTGAGACAAAATGGACTGTCATGCAAAACTACCCA
* * * * * *
29425572 GCCAAACT---ATCCCACAAATATTGATTGAACGCAAAATTAATAAGACATTTGTATAAG-AGTT
1 GCCAAACTGCCCTGCCA-AAAT-TTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCA-TT
** * * * * * *
29425633 TTAATTGGGACGAAATAGACTGTCATGCCAAATTATCCA
63 CAAATTGAGACAAAATGGACTGTCATGCAAAACTACCCA
* * * * *
29425672 GCCAAATTACCTTG-GAAGAATTTGATTGAATGCAAAATTAAGAAGACATTT
1 GCCAAACTGCCCTGCCAA-AATTTGATTGAATGCAAAATTAAGAGGACATTT
29425723 GATAAACCAT
Statistics
Matches: 1604, Mismatches: 341, Indels: 247
0.73 0.16 0.11
Matches are distributed among these distances:
79 1 0.00
80 2 0.00
82 2 0.00
83 5 0.00
84 4 0.00
86 6 0.00
87 218 0.14
88 193 0.12
89 9 0.01
90 4 0.00
91 6 0.00
92 6 0.00
93 3 0.00
94 4 0.00
95 3 0.00
96 5 0.00
97 5 0.00
98 7 0.00
99 32 0.02
100 638 0.40
101 429 0.27
102 21 0.01
103 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (101 bp):
GCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAA
ATTGAGACAAAATGGACTGTCATGCAAAACTACCCA
Found at i:29424612 original size:87 final size:88
Alignment explanation
Indices: 29424435--29424626 Score: 226
Period size: 87 Copynumber: 2.2 Consensus size: 88
29424425 ACTTCCCTAG
* * * * * * *
29424435 CAAACTGCCCTGCCAATATTTGCTTCAATGCAAAATTAAGAGCACATTTCTATTATGATTCAAAT
1 CAAACTACCCTGCCAAAATTTGATTCAATGCAAAATTAAGAGAACAATTCTATTAAGATTAAAAT
* *
29424500 TGGGACAAAATGCACTATCATGC
66 TGGGACAAAATGAACTATCAAGC
* *
29424523 C-AACTACTCTGCCAAAATTTGATTTAATGCAAAATTAAGAGAACAATTCTA-TAAGCATTAAAA
1 CAAACTACCCTGCCAAAATTTGATTCAATGCAAAATTAAGAGAACAATTCTATTAAG-ATTAAAA
* * *
29424586 TTGGGACAAAATTAACTGTTAAGC
65 TTGGGACAAAATGAACTATCAAGC
*
29424610 CAAACTACCCGGCCAAA
1 CAAACTACCCTGCCAAA
29424627 CTGCCCTTCC
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
86 3 0.03
87 69 0.80
88 14 0.16
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (88 bp):
CAAACTACCCTGCCAAAATTTGATTCAATGCAAAATTAAGAGAACAATTCTATTAAGATTAAAAT
TGGGACAAAATGAACTATCAAGC
Found at i:29424685 original size:577 final size:566
Alignment explanation
Indices: 29423126--29424702 Score: 1352
Period size: 577 Copynumber: 2.7 Consensus size: 566
29423116 AAAGAAAAAA
* * * *
29423126 TAAGAGGACATTTATATAAGCATTCAAATTGCGACA-AAATGGAATGTCATGCAAAACTGCCCAA
1 TAAGAGGACATTTTTATAAGCATTCAAATTG-GACAGAAATGGACTGTCATGCAAAACTACCCAG
* * * *
29423190 CCAAACTGCCCTGCCGAAATTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTCAAT
65 CCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGATATTTCTATAAGCATTCAAT
* * * *
29423255 TTAGGACTAAGTGGATTGTCATG--------T-CAAACTGCCCTGCCAATATTTGCTTGGATGAA
130 TT-GGACAAAATGGATTGTCATGAAACTCCCTACAAACTGCCCTGCCAATATTTGCTTGAATGCA
* * * *
29423311 AAATAAAGAGAACCTTTCTATTAGCATTCAAATTGGAACGAAATAG-ACTTTCATGCCAAACTGC
194 AAATTAAGAGAACATTTCTATTAG-ATTCAAATTGGAACAAAAT-GCACTATCATGCCAAACTGC
* * * *
29423375 TCCT-CCAACATTTGATTGAATGAAAAGTTAAGAGGACATTTCTGTAAGCATTTAAATTGGGACG
257 T-CTGCCAAAATTTGATTTAATGAAAA-TTAAGAGAACATTTCTATAAGCA-TTAAATTGGGACG
* * * * *
29423439 AAATGTATTG-TAATGCAAAACTACCTAGCCAAACCGCTCTGCGAAAATTAGATTG-AA-TACAA
319 AAATGTAATGTTAA-GCCAAACTACC--GCCAAACTGC-CTTCCAAAATT-GATTGAAAGTA-AA
* * *** *
29423501 AATTAAGAAGATATTCCTATAAGCATTCAAATTGGGAGGGAATTGACTGTCAGGCCAAGCTGCCC
378 AA-TAAGAAGAAATTTCTATAAGCATTCAAATTGGGACAAAATTGACTATCAGGCCAAGCTGCCC
* * * * * * *
29423566 TGCTAAAATTCATTTAAAGCAAAATTAATAGGACATTTCTATAAGCATTCAAATTGGGACTAAAT
442 TACTAAAATTAATTGAAAGCAAAATTAAAAGGACATTTCAATAAACATTCAAATTGGGACGAAAT
* * * * * *
29423631 GGATTGTCATGCAAAACTACCCAGCCAAATTTCCCTGCCACAATTTGATTGAATGCACTT
507 GGACTGTCATGCAAAACTACCAAGCCAAACTGCCCTACCACAATTTGATTGAATGCAATT
* * * * * * *
29423691 TAAGAGGACATTTTTATCAGCATTCAGATTGAGAC-GAAATGGACTATAAAGCAAAATTACGCAG
1 TAAGAGGACATTTTTATAAGCATTCAAATTG-GACAGAAATGGACTGTCATGCAAAACTACCCAG
* * * * *
29423755 CCAACCTACCCTGCCAAAA-TTGATTGAATGCAAAAATAGGAGAATATTTCTATAAGCATTCAAA
65 CCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGATATTTCTATAAGCATTC-AA
* * ** * * * * * *
29423819 TTGGGACAAAAAGGGCTGTCATGCAAAACTACCCAACCAAATTGCCTTGTCAAAATTTGATTGAA
129 TTTGGACAAAATGGATTGTCATG--AAACT-CCCTA-CAAACTGCCCTGCCAATATTTGCTTGAA
* * * *
29423884 TGCAAAATTAAGAGGACATTTCTATAAACATTC-AATTCGAGAAGAAATGGTCTGTCATGTCAAA
190 TGCAAAATTAAGAGAACATTTCTAT-TAGATTCAAATT-G-GAACAAA---------ATG-C--A
* * * * *
29423948 CTACCCTGCCAAACTGCCCTGCCAATATTTG-CTTAAGTGTAAAATTAAGAGAACATTTCTATTA
240 CTATCATGCCAAACTGCTCTGCCAAAATTTGATTTAA-TG-AAAATTAAGAGAACATTTCTA-TA
** * * * *
29424012 ATAATTAAATTGGAACGAAATGGAATGTCAAGCCAAACTA----C--TCTG---T-CAAAATTTG
302 AGCATTAAATTGGGACGAAATGTAATGTTAAGCCAAACTACCGCCAAACTGCCTTCCAAAA-TTG
* * * * * * * *
29424067 ATTTAATGCAAAATTAAAAAGACATTTCTATAAGAATTCAAATTGGGACAAAATTTACTAT-AGA
366 ATTGAAAGTAAAAATAAGAAGAAATTTCTATAAGCATTCAAATTGGGACAAAATTGACTATCAG-
** *
29424131 GCCAAGCTGCCCTACTAAAATTAATTGATTG-ATAAATTAAAATGACATTTCAATAAACATTCAA
430 GCCAAGCTGCCCTACTAAAATTAATTGAAAGCA-AAATTAAAAGGACATTTCAATAAACATTCAA
* * * *
29424195 ATTGGGACGAAATGGACTGTCATGCCAAACTACCAAGCCAAGCTGCCCTACTA-ATATTTGGTTG
494 ATTGGGACGAAATGGACTGTCATGCAAAACTACCAAGCCAAACTGCCCTACCACA-ATTTGATTG
29424259 AATGCAAATT
558 AATGC-AATT
* * *
29424269 TAAGAGGACATTTTTATAAGTATTCAAATTGGA-ATGAAATGGGCTGTCATGCCAAACTACCCAG
1 TAAGAGGACATTTTTATAAGCATTCAAATTGGACA-GAAATGGACTGTCATGCAAAACTACCCAG
* * * * * *
29424333 CCAAACTGCCCTGCCAAAATTTGATTGAACGTAAAATTAAGAGGATGTTTCTATGAGTAATCAAT
65 CCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGATATTTCTATAAGCATTCAAT
* *
29424398 TTGGAACGAAATGGATTGTCATGTTAAACTTCCCTAGCAAACTGCCCTGCCAATATTTGCTTCAA
130 TTGG-ACAAAATGGATTGTCATG--AAAC-TCCCTA-CAAACTGCCCTGCCAATATTTGCTTGAA
* *
29424463 TGCAAAATTAAGAGCACATTTCTATTATGATTCAAATTGGGACAAAATGCACTATCATGCC-AAC
190 TGCAAAATTAAGAGAACATTTCTATTA-GATTCAAATTGGAACAAAATGCACTATCATGCCAAAC
* *
29424527 TACTCTGCCAAAATTTGATTTAATGCAAAATTAAGAGAACAATTCTATAAGCATTAAAATTGGGA
254 TGCTCTGCCAAAATTTGATTTAATG-AAAATTAAGAGAACATTTCTATAAGCATT-AAATTGGGA
*
29424592 CAAAAT-TAACTGTTAAGCCAAACTACCCGGCCAAACTGCCCTTCCAAAATTGATTGAAAGTAAA
317 CGAAATGTAA-TGTTAAGCCAAACTA-CC-GCCAAACTG-CCTTCCAAAATTGATTGAAAGTAAA
* * ** *
29424656 AATAAGAGGAAATTTATATAAGCATTCAAATTGCAACAAAATGGACT
378 AATAAGAAGAAATTTCTATAAGCATTCAAATTGGGACAAAATTGACT
29424703 GTCACGCAAA
Statistics
Matches: 782, Mismatches: 164, Indels: 120
0.73 0.15 0.11
Matches are distributed among these distances:
564 59 0.08
565 137 0.18
566 13 0.02
568 1 0.00
569 3 0.00
571 1 0.00
573 3 0.00
576 8 0.01
577 256 0.33
578 99 0.13
579 107 0.14
580 5 0.01
582 2 0.00
584 1 0.00
586 1 0.00
587 2 0.00
589 5 0.01
590 69 0.09
591 10 0.01
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (566 bp):
TAAGAGGACATTTTTATAAGCATTCAAATTGGACAGAAATGGACTGTCATGCAAAACTACCCAGC
CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGATATTTCTATAAGCATTCAATT
TGGACAAAATGGATTGTCATGAAACTCCCTACAAACTGCCCTGCCAATATTTGCTTGAATGCAAA
ATTAAGAGAACATTTCTATTAGATTCAAATTGGAACAAAATGCACTATCATGCCAAACTGCTCTG
CCAAAATTTGATTTAATGAAAATTAAGAGAACATTTCTATAAGCATTAAATTGGGACGAAATGTA
ATGTTAAGCCAAACTACCGCCAAACTGCCTTCCAAAATTGATTGAAAGTAAAAATAAGAAGAAAT
TTCTATAAGCATTCAAATTGGGACAAAATTGACTATCAGGCCAAGCTGCCCTACTAAAATTAATT
GAAAGCAAAATTAAAAGGACATTTCAATAAACATTCAAATTGGGACGAAATGGACTGTCATGCAA
AACTACCAAGCCAAACTGCCCTACCACAATTTGATTGAATGCAATT
Found at i:29425026 original size:87 final size:87
Alignment explanation
Indices: 29424722--29425166 Score: 360
Period size: 88 Copynumber: 5.1 Consensus size: 87
29424712 AACTACCCAA
** * * * * *
29424722 CCAAACTGCCCTGCCAATGTTTGATTAAATGGAAAATTAAGAGGACATTTCTATAAGCATTTAAT
1 CCAAACTGCCCTGCCAA-AATTGATTGAATGCAAAATTAAGAGGACATTTATATAAGCATTCAAA
* * * *
29424787 TTGGGACGAAATGGATTCTCATG
65 TTAGGAGGAAATGGACTGTCATG
* * * * * * * * * **
29424810 TCAAACTACCCTGTCAATATTTACTTGAATGCAGAATAAAGAGAACATTTCTATTTGCATT-AGA
1 CCAAACTGCCCTGCCAAAATTGA-TTGAATGCAAAATTAAGAGGACATTTATATAAGCATTCA-A
* * *
29424874 ATT-GGAACGAAATAGATTGTCATG
64 ATTAGG-AGGAAATGGACTGTCATG
* * * * * *
29424898 CCAAACT-ACTTCACCAAAATTTGATTGAATGAAAAATTAAGAGGACATTTTTGTAAGCATTCAA
1 CCAAACTGCCCT-GCCAAAA-TTGATTGAATGCAAAATTAAGAGGACATTTATATAAGCATTCAA
* * *
29424962 ATTGGGA-AAAATGGACTGTAATG
64 ATTAGGAGGAAATGGACTGTCATG
* * * *
29424985 CCAAACTGCCCTGCCAAAATTAGATTGAATGCAATACTAAGAAGACATTTCTATAAGCATTCAAA
1 CCAAACTGCCCTGCCAAAATT-GATTGAATGCAAAATTAAGAGGACATTTATATAAGCATTCAAA
* * *
29425050 TTAGGAGGGAATTGACTATCA-G
65 TTAGGAGGAAATGGACTGTCATG
* * *
29425072 AACAAACTGCCCTGCTAAAATTCATTGAATGCAAAATTAAGAGGACATTTATATAAGCATTCAAA
1 -CCAAACTGCCCTGCCAAAATTGATTGAATGCAAAATTAAGAGGACATTTATATAAGCATTCAAA
* * *
29425137 TCAGGATGAAATGGACTGTCATT
65 TTAGGAGGAAATGGACTGTCATG
29425160 CCAAACT
1 CCAAACT
29425167 ATCAAGCCAA
Statistics
Matches: 281, Mismatches: 64, Indels: 25
0.76 0.17 0.07
Matches are distributed among these distances:
86 2 0.01
87 136 0.48
88 137 0.49
89 6 0.02
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.29
Consensus pattern (87 bp):
CCAAACTGCCCTGCCAAAATTGATTGAATGCAAAATTAAGAGGACATTTATATAAGCATTCAAAT
TAGGAGGAAATGGACTGTCATG
Found at i:29427121 original size:100 final size:101
Alignment explanation
Indices: 29426947--29427322 Score: 470
Period size: 101 Copynumber: 3.7 Consensus size: 101
29426937 GTGACCATCA
* * * * * *
29426947 ACATTTTTATAAACATTCAAATTGGCACGAAATAGACTGTAATGTCAAACTACCCAACCAAACTG
1 ACATTTCTATAAACATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTG
* *
29427012 TCTTGCCAAAA-TTGATTGAATGCAAAATTAAGAGG
66 CCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGG
* * * * *
29427047 ACATTTTTATAAGCATTCAAATTGTGACGAAATGGACTGTTA-GACCAAATTACCCAGCCAAACT
1 ACATTTCTATAAACATTCAAATTGGGACGAAATGGACTGTCATG-CCAAACTACCCAGCCAAACT
* * * * *
29427111 GCCCTTCCAAAATTTTATTAAATACAAAATTAATAGG
65 GCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGG
* * *
29427148 ACATTTCTATAAGA-GTTCAAATTGGGACGAAATGGACTGTCATGCCTAACTACCCAGCCAAATT
1 ACATTTCTATAA-ACATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACT
* * *
29427212 GCTCGGCAAAAATTTGATTGAATGCAAAATTAAGAGG
65 GCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGG
* * *
29427249 ACATTTCGATAAACATTCAAATTGGGAGGAAATGGACTGTCATGCCAAACTACCTAGCCAAACTG
1 ACATTTCTATAAACATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTG
29427314 CCCTGCCAA
66 CCCTGCCAA
29427323 TGTCATAACA
Statistics
Matches: 231, Mismatches: 40, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
99 1 0.00
100 64 0.28
101 165 0.71
102 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (101 bp):
ACATTTCTATAAACATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTG
CCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGG
Found at i:29430194 original size:101 final size:101
Alignment explanation
Indices: 29430019--29430382 Score: 336
Period size: 101 Copynumber: 3.8 Consensus size: 101
29430009 GTGTCTACAA
* * *
29430019 CCAATATTTGATTGAATGCAAAATTAATAGGACATTTCTATAAGCATTCAAATTGGGAAGAAATG
1 CCAATATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAACATTCAAATTGGGAAGAAATG
29430084 GACTATCATGCCAAACTAACCAGCCAAATTTCCCTG
66 GACTATCATGCCAAACTAACCAGCCAAATTTCCCTG
* * * *
29430120 CCAATGTTTGATTGAATGCAAAATTAAGAAGTCATTTCTATAAACATT-ATACTTGGGATGAAAT
1 CCAATATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAACATTCA-AATTGGGAAGAAAT
*
29430184 GGACTGTCATGCCAAACT-----G--------CCCTG
65 GGACTATCATGCCAAACTAACCAGCCAAATTTCCCTG
* * * *
29430208 CCAA-AATTGATTGAACGCAAAATTAAGAGGACATTAT-TATAAGCATTCAAATTGGGACA-AAA
1 CCAATATTTGATTGAATGCAAAATTAAGAAGACATT-TCTATAAACATTCAAATTGGGA-AGAAA
* * * *
29430270 TGGA-TGTCATGCAAAACT-ACCTAGCCAAACTACCCTG
64 TGGACTATCATGCCAAACTAACC-AGCCAAATTTCCCTG
* ** * * * * *
29430307 CCAA-AATTGATTGAACACAAAATTAAGAGGACATTTCTATAAGCATTCAAATTTGGACGAAATA
1 CCAATATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAACATTCAAATTGGGAAGAAATG
29430371 GACTATCATGCC
66 GACTATCATGCC
29430383 TGTAACACCC
Statistics
Matches: 220, Mismatches: 23, Indels: 41
0.77 0.08 0.14
Matches are distributed among these distances:
86 13 0.06
87 49 0.22
88 11 0.05
91 1 0.00
96 1 0.00
98 1 0.00
99 64 0.29
100 8 0.04
101 72 0.33
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (101 bp):
CCAATATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAACATTCAAATTGGGAAGAAATG
GACTATCATGCCAAACTAACCAGCCAAATTTCCCTG
Found at i:29430263 original size:87 final size:86
Alignment explanation
Indices: 29430127--29430287 Score: 209
Period size: 87 Copynumber: 1.9 Consensus size: 86
29430117 CTGCCAATGT
* * * **
29430127 TTGATTGAATGCAAAATTAAGAAGTCATTTCTATAAACATTATACTTGGGATGAAATGGACTGTC
1 TTGATTGAACGCAAAATTAAGAAGACATTTCTATAAACATTATAATTGGGACAAAATGGA-TGTC
*
29430192 ATGCCAAACTGCCCTGCCAAAA
65 ATGCAAAACTGCCCTGCCAAAA
* *
29430214 TTGATTGAACGCAAAATTAAGAGGACATTAT-TATAAGCATTCA-AATTGGGACAAAATGGATGT
1 TTGATTGAACGCAAAATTAAGAAGACATT-TCTATAAACATT-ATAATTGGGACAAAATGGATGT
29430277 CATGCAAAACT
64 CATGCAAAACT
29430288 ACCTAGCCAA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
86 13 0.20
87 49 0.77
88 2 0.03
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (86 bp):
TTGATTGAACGCAAAATTAAGAAGACATTTCTATAAACATTATAATTGGGACAAAATGGATGTCA
TGCAAAACTGCCCTGCCAAAA
Found at i:29434509 original size:101 final size:101
Alignment explanation
Indices: 29434324--29436708 Score: 2241
Period size: 101 Copynumber: 24.1 Consensus size: 101
29434314 ATTACAATGT
* * * *
29434324 CAAACTACCAAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGATGATATTTCTA
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
29434389 TAAG-AGTTCAAATAT-GGACGAAATAGG-CTGTCATGC
66 TAAGCA-TTCAAAT-TGGGACGAAAT-GGACTGTCATGC
* * *
29434425 CAAACTACCCAGCTAAACTTCCCTGCCAAAATTTGATTGAATTCAAAATTAAGAGGACATTTCAA
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* *
29434490 TACA-CATTAAAATTGGGACGAAAT--A--GACATGC
66 TA-AGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * * * *
29434522 CAAACTACCCAGCTAAA-TATCGCTGCCTAAATTTGATTCAATGCAAAATTAAGAGGACATTTCG
1 CAAACTACCCAGCCAAACT-TCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCT
* *
29434586 ATACA-CATTCAAATTGGGATGAAAAGGACTGTCATGC
65 ATA-AGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * * *
29434623 CAAACTACCCAGCTAAATTTCCCTACCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCAA
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
*
29434688 TACA-CATTCAAATTGGGACGAAAT--A--GACATGC
66 TA-AGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * * *
29434720 CAAACTACCCAGCTAAA-TATCGCTGCCAAAATTTGATTCAATGCAAAATTAAGAGGACATTTCG
1 CAAACTACCCAGCCAAACT-TCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCT
* *
29434784 ATGCA-CATTCAAATTGGGATGAAATGGACTGTCATGC
65 AT-AAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * * *
29434821 CAAACTGCCCAGCCAAACTTCCCTGCCAAAA-TTGATTGAATGTAAAATTAAAAGGAAATTTCTA
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * *
29434885 TAAGCATCCAAATTGGGTCGAAATGGACTGTCAAGC
66 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* ** **
29434921 CAAATTACCCAGCCAAACAGCCCTGCCAATTTTTGATTGAATGCAAAATTAAGAGGACATTTCTA
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * *
29434986 TAAGCATTCAAATTGAGACAAAATGGACTATCATGC
66 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * * * * * *
29435022 AAAACCATCCAACCAAACTGT-CCTGCCAAAATTTGATTGAATGCAAAATTAAGAGTACTTTTCA
1 CAAACTACCCAGCCAAACT-TCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCT
* * * *
29435086 ATAAACATTCAAATTGGTACGAAATGAACTGTCATGT
65 ATAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * * * *
29435123 CAAACT-CCCAGCCAAA-TTGCCATG-CAAAAATTGATTGAATGCAAAATTAAGAGAATATTTTT
1 CAAACTACCCAGCCAAACTT-CCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCT
* * *
29435185 CTAAGCATTAAAATTGGGACGAAATGGAATGTCATGC
65 ATAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * * * *
29435222 CAAACTACCTAGCCAAACTACCCTGCCAAAATTTGATTGAATGCAGAATTAAGAAGAAATTTCTA
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* *
29435287 TAAGCATTCAAATTGGGACAAAATGGACAGTCATGC
66 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * *
29435323 CAAACTACACTATG--AAACTGCCCTG-CAAAACTTTGATTGAATGCAATATTAAGAGGACATTT
1 CAAACTAC-CCA-GCCAAACTTCCCTGCCAAAA-TTTGATTGAATGCAAAATTAAGAGGACATTT
** * * * * *
29435385 AAATAGGCACTCCAATTGGGACGAAATAGATTGTCATGC
63 CTATAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * * *
29435424 CAAACTACCCAACCAAACTGCCCTTCCCAAATTTGATTGAATGCAACAA-TAAGAGGACATTTCT
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAA-AATTAAGAGGACATTTCT
* * * *
29435488 ATAAGCACTCAAATTGGGATGAAATAGACGGTCATGC
65 ATAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * * *
29435525 CAAACTACCCAGCCAAA-TTGCCATGCTAAAA-TTGATTGAATGCAAAATTAATAGGATATTTCT
1 CAAACTACCCAGCCAAACTT-CCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCT
* *
29435588 ATAAGCATTCAAATTGGGACAAAATGGACTGTTATGC
65 ATAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * * * * * *
29435625 AAAACTACCCAGCCAAACTACCTTGGC---A-TTGATTGAATGCCAAATTCAGAGGACAATTCTA
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* *
29435686 AAAGCATTCAAATTGGGACGAAATGGATTGTCATGC
66 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * * * *** * * *
29435722 CAAACTA-TCTGACCAAA-TTACGTAGCC-AAA-TTG--CCCA-GCCCAAATT-TGATTGA-A-T
1 CAAACTACCCAG-CCAAACTTCCCT-GCCAAAATTTGATTGAATG-CAAAATTAAGA-GGACATT
* * * **
29435777 GC-A-AA--ACT-AAGA--GGAATCGAAATGGACAATCATGC
62 TCTATAAGCATTCAA-ATTGGGA-CGAAATGGACTGTCATGC
* * * *
29435812 AAAAATACCCAGCCAAATTTCCCTACCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * * *
29435877 TAAGTAGTCAAATTGAGACGAAATGGACTGTCAAGC
66 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * ** * * * *
29435913 CAAACTTCCAAGCCAAACGGCCCTGCCAATATTTGATTGAATGAAAAATTAAGAAGTCATTTCTA
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * *
29435978 TAAGCATTGAAATTTGGACGAAATGGACGGTCATGC
66 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* ** * * * * * *
29436014 CAAACTACCCAGCCAAACTACCCTGCCTTAATTTGAGTAAATGAAAAATTAATATGACATTTCTG
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* *
29436079 TAAG-AGTTCAAATAT-GGATGAAATGGACAGTCATGC
66 TAAGCA-TTCAAAT-TGGGACGAAATGGACTGTCATGC
* * * *
29436115 CAAACTACCCAGCCAAATTTCCCAGCCAAAATTTTATTGAATGCAAAATTAAGAGGACATTTCGA
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * ** *
29436180 TAAACTTTCAAATTTTGACGAAATGCACTGTCATGC
66 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * * ** *
29436216 CAAACTACCCAACCAACCTTCTCTGCTGAAA-TTGATTGAATGCAAAATTAAGAGAACATTTCTA
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * *
29436280 TAAGCATTCAAATTGGGACGAAATGAACTGCCACGC
66 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * * * * * * *
29436316 CAAACTACCTAGGCAAACTGCTC-GACCAATATTTTATTGAATGAAAAATTATGAGGACATTT-T
1 CAAACTACCCAGCCAAACTTCCCTG-CCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCT
* * * *
29436379 AATAAACATTCATATTAGGACGAAATGAACTGTCATGC
65 -ATAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * * ** * * *
29436417 CAAACTATCAAGCCAAACTACCCTGGGAATATTTGATTGATTGTAAAATTAAGAGGACATTTCTA
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* *
29436482 TAAGCATTCAAATTGGGACAAAATGAACTG---TGC
66 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* * *
29436515 CAAACT----A--C---C-T---TGTCAAAATTTGATTGAATGTAAAATTAAGAGGACATTACTA
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* *
29436567 TAAACATTCAAATTGGTACGAAATGGACTGTCATGC
66 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
* ** * * * *
29436603 CAAACTACCTAGCCAAACTAACATGCCATAA-TTGATTGAATGCAAAATTACGAGAACATTTCTA
1 CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
29436667 TAAGCATT-AAATTTGGGACGAAATGGACTGTCATGC
66 TAAGCATTCAAA-TTGGGACGAAATGGACTGTCATGC
29436703 CAAACT
1 CAAACT
29436709 GCCCTACAAA
Statistics
Matches: 1872, Mismatches: 326, Indels: 173
0.79 0.14 0.07
Matches are distributed among these distances:
85 63 0.03
88 9 0.00
89 4 0.00
90 29 0.02
91 12 0.01
92 5 0.00
93 2 0.00
94 12 0.01
95 6 0.00
96 13 0.01
97 257 0.14
98 12 0.01
99 83 0.04
100 344 0.18
101 1003 0.54
102 17 0.01
103 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (101 bp):
CAAACTACCCAGCCAAACTTCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
TAAGCATTCAAATTGGGACGAAATGGACTGTCATGC
Found at i:29435430 original size:202 final size:201
Alignment explanation
Indices: 29434324--29439821 Score: 4259
Period size: 202 Copynumber: 28.0 Consensus size: 201
29434314 ATTACAATGT
* * *
29434324 CAAACTACCAAGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGATGATATTTCTA
1 CAAACTACCCAG-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* *
29434389 TAAG-AGTTCAAATAT-GGACGAAATAGG-CTGTCATGCCAAACTACCCAGCTAAACTTCCCTGC
65 TAAGCA-TTCAAAT-TGGGACGAAAT-GGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGC
* * * *
29434451 CAAAATTTGATTGAATTCAAAATTAAGAGGACATTTCAATACA-CATTAAAATTGGGACGAAAT-
127 CAAAATTTGATTGAATGCAAAATTAAGAAGACATTTCTATA-AGCATTCAAATTGGGACGAAATG
*
29434514 -A--GACATGC
191 GACTGTCATGC
* * * * *
29434522 CAAACTACCCAGCTAAA-TATCGCTGCCTAAATTTGATTCAATGCAAAATTAAGAGGACATTTCG
1 CAAACTACCCAGC-AAACT-GCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCT
* * * * * *
29434586 ATACA-CATTCAAATTGGGATGAAAAGGACTGTCATGCCAAACTACCCAGCTAAATTTCCCTACC
64 ATA-AGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCC
* *
29434650 AAAATTTGATTGAATGCAAAATTAAGAGGACATTTCAATACA-CATTCAAATTGGGACGAAAT--
128 AAAATTTGATTGAATGCAAAATTAAGAAGACATTTCTATA-AGCATTCAAATTGGGACGAAATGG
*
29434712 A--GACATGC
192 ACTGTCATGC
* * * *
29434720 CAAACTACCCAGCTAAA-TATCGCTGCCAAAATTTGATTCAATGCAAAATTAAGAGGACATTTCG
1 CAAACTACCCAGC-AAACT-GCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCT
* * * *
29434784 ATGCA-CATTCAAATTGGGATGAAATGGACTGTCATGCCAAACTGCCCAGCCAAACTTCCCTGCC
64 AT-AAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCC
* * * *
29434848 AAAA-TTGATTGAATGTAAAATTAA-AAGGAAATTTCTATAAGCATCCAAATTGGGTCGAAATGG
128 AAAATTTGATTGAATGCAAAATTAAGAA-GACATTTCTATAAGCATTCAAATTGGGACGAAATGG
*
29434911 ACTGTCAAGC
192 ACTGTCATGC
* * **
29434921 CAAATTACCCAGCCAAACAGCCCTGCCAATTTTTGATTGAATGCAAAATTAAGAGGACATTTCTA
1 CAAACTACCCAG-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * * * * * * **
29434986 TAAGCATTCAAATTGAGACAAAATGGACTATCATGCAAAACCATCCAACCAAACTGTCCTGCCAA
65 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCAA
* * * * *
29435051 AATTTGATTGAATGCAAAATTAAG-AGTACTTTTCAATAAACATTCAAATTGGTACGAAATGAAC
130 AATTTGATTGAATGCAAAATTAAGAAG-ACATTTCTATAAGCATTCAAATTGGGACGAAATGGAC
*
29435115 TGTCATGT
194 TGTCATGC
* * * * * * *
29435123 CAAACT-CCCAGCCAAATTGCCATG-CAAAAATTGATTGAATGCAAAATTAAGAGAATATTTTTC
1 CAAACTACCCAG-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * *
29435186 TAAGCATTAAAATTGGGACGAAATGGAATGTCATGCCAAACTACCTAGCCAAACTACCCTGCCAA
65 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCAA
* * * *
29435251 AATTTGATTGAATGCAGAATTAAGAAGAAATTTCTATAAGCATTCAAATTGGGACAAAATGGACA
130 AATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAAATTGGGACGAAATGGACT
29435316 GTCATGC
195 GTCATGC
* * *
29435323 CAAACTACACTATG-AAACTGCCCTG-CAAAACTTTGATTGAATGCAATATTAAGAGGACATTTA
1 CAAACTAC-CCA-GCAAACTGCCCTGCCAAAA-TTTGATTGAATGCAAAATTAAGAGGACATTTC
* * * * * * * * *
29435386 AATAGGCACTCCAATTGGGACGAAATAGATTGTCATGCCAAACTACCCAACCAAACTGCCCTTCC
63 TATAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCC
* * * * *
29435451 CAAATTTGATTGAATGCAACAA-TAAGAGGACATTTCTATAAGCACTCAAATTGGGATGAAATAG
128 AAAATTTGATTGAATGCAA-AATTAAGAAGACATTTCTATAAGCATTCAAATTGGGACGAAATGG
*
29435515 ACGGTCATGC
192 ACTGTCATGC
* * * * *
29435525 CAAACTACCCAGCCAAATTGCCATGCTAAAA-TTGATTGAATGCAAAATTAATAGGATATTTCTA
1 CAAACTACCCAG-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * * * *
29435589 TAAGCATTCAAATTGGGACAAAATGGACTGTTATGCAAAACTACCCAGCCAAACTACCTTGGC--
65 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCAA
* * * * * *
29435652 -A-TTGATTGAATGCCAAATTCAGAGGACAATTCTAAAAGCATTCAAATTGGGACGAAATGGATT
130 AATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAAATTGGGACGAAATGGACT
29435715 GTCATGC
195 GTCATGC
* * * *
29435722 CAAACTATCTGACCAAATTACGTAGCCAAATTGCCCAGCCCAAATTTGATTGAATGCAAAACTAA
1 C-AA--A-CT-ACC------C--AG-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAA
* * * * * * *
29435787 GAGGA-A--TCGA-AATGGA--C-AATCAT-GCA-AAAAT--AC--CCA-GCCAAATTTCCCTA-
52 GAGGACATTTCTATAA-GCATTCAAAT--TGGGACGAAATGGACTGTCATGCCAAACTACCC-AG
* * *
29435837 CC-AA--A----------ATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGTAGTCAAA
113 CCAAACTACCCTGCCAAAATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAAA
* *
29435889 TTGAGACGAAATGGACTGTCAAGC
178 TTGGGACGAAATGGACTGTCATGC
* * * * * * *
29435913 CAAACTTCCAAGCCAAACGGCCCTGCCAATATTTGATTGAATGAAAAATTAAGAAGTCATTTCTA
1 CAAACTACCCAG-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * * **
29435978 TAAGCATTGAAATTTGGACGAAATGGACGGTCATGCCAAACTACCCAGCCAAACTACCCTGCCTT
65 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCAA
* * * * * * *
29436043 AATTTGAGTAAATGAAAAATTAATATGACATTTCTGTAAG-AGTTCAAATAT-GGATGAAATGGA
130 AATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCA-TTCAAAT-TGGGACGAAATGGA
*
29436106 CAGTCATGC
193 CTGTCATGC
* * * * *
29436115 CAAACTACCCAGCCAAATTTCCCAGCCAAAATTTTATTGAATGCAAAATTAAGAGGACATTTCGA
1 CAAACTACCCAG-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * ** * * * * * **
29436180 TAAACTTTCAAATTTTGACGAAATGCACTGTCATGCCAAACTACCCAACCAACCTTCTCTGCTGA
65 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCAA
*
29436245 AA-TTGATTGAATGCAAAATTAAG-AGAACATTTCTATAAGCATTCAAATTGGGACGAAATGAAC
130 AATTTGATTGAATGCAAAATTAAGAAG-ACATTTCTATAAGCATTCAAATTGGGACGAAATGGAC
* *
29436308 TGCCACGC
194 TGTCATGC
* * * * * *
29436316 CAAACTACCTAGGCAAACTGCTC-GACCAATATTTTATTGAATGAAAAATTATGAGGACATTT-T
1 CAAACTACCCA-GCAAACTGCCCTG-CCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCT
* * * * * * **
29436379 AATAAACATTCATATTAGGACGAAATGAACTGTCATGCCAAACTATCAAGCCAAACTACCCTGGG
64 -ATAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCC
* * * * * *
29436444 AATATTTGATTGATTGTAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGAA
128 AAAATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAAATTGGGACGAAATGGA
29436509 CTG---TGC
193 CTGTCATGC
* * *
29436515 CAAACT----A-C---CT----TGTCAAAATTTGATTGAATGTAAAATTAAGAGGACATTACTAT
1 CAAACTACCCAGCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTAT
* * * * * *
29436568 AAACATTCAAATTGGTACGAAATGGACTGTCATGCCAAACTACCTAGCCAAACTAACATGCCATA
66 AAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCAAA
*
29436633 A-TTGATTGAATGCAAAATTACG-AGAACATTTCTATAAGCATT-AAATTTGGGACGAAATGGAC
131 ATTTGATTGAATGCAAAATTAAGAAG-ACATTTCTATAAGCATTCAAA-TTGGGACGAAATGGAC
29436695 TGTCATG-
194 TGTCATGC
* * *
29436702 ---------C--CAAACTGCCCT-ACAAAATTTGATTGAATGCAAAATTAAGAGGATATTTCCAT
1 CAAACTACCCAGCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTAT
* * * * ** *
29436755 AAGCGTTTAAATTAGGATGAAATAAAC--T-AT--C--A-T-----GCCACACTACCCTGCC-AA
66 AAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCAAA
* * * * *
29436806 ACTTGATTGAATGCTAAATTAAG-AGAACATTTCTATAAGCATTCAAATTGCGACGAAATAGACA
131 ATTTGATTGAATGCAAAATTAAGAAG-ACATTTCTATAAGCATTCAAATTGGGACGAAATGGACT
* *
29436870 ATCAAGC
195 GTCATGC
* * * * *
29436877 CAAACTACCCAGTCAAACTGTCCTGCGAATATTTGATTGAATGCACAATTAAGAGGCCATTTCTA
1 CAAACTACCCAG-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* ** * * * * * *
29436942 TAAACATTCAAATTAAGACGAAATGGAC-GTTCATGCCAAAATAACAAGCCAAACTATCTTGTCA
65 TAAGCATTCAAATTGGGACGAAATGGACTG-TCATGCCAAACTACCCAGCCAAACTACCCTGCCA
* * * * *
29437006 ATATTTGATTGAATGCAAAATTAAGAGGACATTTCT-TAAAGCGTTCAAATTTGGACAAAATGGA
129 AAATTTGATTGAATGCAAAATTAAGAAGACATTTCTAT-AAGCATTCAAATTGGGACGAAATGGA
* *
29437070 CTTTTATGC
193 CTGTCATGC
* *
29437079 CAAA-T-----------TACCCTGCCAAAATTTGATTGAATGTAAAATTAAGAGGACATTTCTAT
1 CAAACTACCCAGCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTAT
* * * * * * * *
29437132 -AGACATTCAAATTGGTACGAAGTTGACTATAATGCCAAACTACCCAGCCAAACTGCTCTACCAA
66 AAG-CATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCAA
* * * * * *
29437196 AATTT-ATTGAATGCAAAATTAAGAAGACATTTTTATAAGTAATAAAATTAGGACGAAATTGACT
130 AATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAAATTGGGACGAAATGGACT
29437260 GTCATGC
195 GTCATGC
* * * * *
29437267 CAAACTACCCAGCCAAACTTCACTGCCAAAATTTGATTAAATGCAAAATTAAGAAGACAATTCTA
1 CAAACTACCCAG-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * * * * ** * * ** *
29437332 TAATCGTTTAAATTGGGACTAAATGGACTGTCATGACAAACTGTCTAACCAAACTTTCCTACCAA
65 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCAA
* * * * * * * *
29437397 AATTTGATTGAATTCGAACTTACGAGGACATTTCTATAAACATTCAAATTAGGACGAAATTGACT
130 AATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAAATTGGGACGAAATGGACT
*
29437462 GTCATGG
195 GTCATGC
* * ** *
29437469 CAAACTACCCAACCAAACTACGGTGCCAAAA-TTGATTGAATGCAAAATTAAGAGAACATTTCTA
1 CAAACTACCC-AGCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * * *
29437533 TAAGAATTCAAATTGGGACGAAATGGACGGTCATGCCAAACTACCCAGCCAAAATACCATGCCAA
65 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCAA
* *
29437598 AA-TTGATTGAATGCAAAATTAAG-AGAACATTTCTATAAGAATTCAAATTGGGACAAAATGGAC
130 AATTTGATTGAATGCAAAATTAAGAAG-ACATTTCTATAAGCATTCAAATTGGGACGAAATGGAC
*
29437661 GGTCATGC
194 TGTCATGC
* * * *
29437669 CAAACTACCCAACCAAACTGCCATGCTACAA-TTGATTGAATGCAAAATTAAGAGGACATTTCTA
1 CAAACTACCC-AGCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * * * * * * *
29437733 TAAGCATTCAAATTGGTACGAAATTGACTGTCATACTAAACTGCCCAGCCAAATTGCCCTACCAA
65 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCAA
* * * * * * * *
29437798 AA-TTGATT-AATGCAAATTTTAGAGGGCATTTCTATAAGCATTTAAATAGGGACAAAATGGATT
130 AATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAAATTGGGACGAAATGGACT
* *
29437861 GACACG-
195 GTCATGC
* * * *
29437867 C---CTA---A-C-TACTG---AGCCAAAATTTGATTGCATGCATAATTAAGAGGACATTTCTAT
1 CAAACTACCCAGCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTAT
* * * * * * * *
29437921 AA-TAGTTCAAATTGGGACGAAGA-GGACAGTCATGCAAAAATACCCAACCAAATTTCCTTGCCA
66 AAGCA-TTCAAATTGGGACGAA-ATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCA
* * * * *
29437984 AAATTTG-TTTAATTGC-AAATTAAAAATGACATTTCGATACA-CAATCAAATTGGGATGAAATG
129 AAATTTGATTGAA-TGCAAAATTAAGAA-GACATTTCTATA-AGCATTCAAATTGGGACGAAATG
29438046 GACTGTCATGC
191 GACTGTCATGC
* * * * *
29438057 AAAACAACCCAGCCAAACTTCCCTGCCAAAA-TTGATTGAATGCAAAACTAAGAGGACATTTCTG
1 CAAACTACCCAG-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * * * * * * *
29438121 TAAACATTCAAATTGGTACGAAAT-TAATAGTCATGCCAAACAACCCAACCAAATTGCCCTGCCA
65 TAAGCATTCAAATTGGGACGAAATGGACT-GTCATGCCAAACTACCCAGCCAAACTACCCTGCCA
* * * * * * **
29438185 ATATTTGATTGTATGCAAAATTAAGAGGACATTTCTATAGGTATTCAAATTAGGACGAAATAAAC
129 AAATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAAATTGGGACGAAATGGAC
29438250 TGTCATGC
194 TGTCATGC
* * * * * * *
29438258 CAAACAACCCAGCCAAACAGCCCTTCCAATATTTGCTTGAATGAAAAATTAAGTA-GTCATTTCT
1 CAAACTACCCAG-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAG-AGGACATTTCT
* *
29438322 ATAAGCATT-ATAATTGGGACGAAATGGACTGTCATGCCAAACT-----G------T--TCTACC
64 ATAAGCATTCA-AATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCC
* * * *
29438373 AAAA-TTAAATGAACGCAAAATTAA-AAGGACATTTCTATAAGCATTCAAATTGGTACGAAATGG
128 AAAATTTGATTGAATGCAAAATTAAGAA-GACATTTCTATAAGCATTCAAATTGGGACGAAATGG
*** *
29438436 AAAATCATAC
192 ACTGTCATGC
* * * * * * *
29438446 CAAACTACTCAGCTAAATTGTCCTGCCAATATTTGATTTAATGTAAAATCAAGAGGACATTTCTA
1 CAAACTACCCAGC-AAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* *
29438511 TAGGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCTAGCCAAAC-AGCCCTGCCA
65 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTA-CCCTGCCA
** ** *
29438575 ATGTTTGATTGAATGCAAAATTAAGAACTCATTTCTATAAGCATT-ATACTTGGGACGAAATGGA
129 AAATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCA-AATTGGGACGAAATGGA
*
29438639 TTGTCATGC
193 CTGTCATGC
* * * *
29438648 CAAACTACCCCGCCAAACTACCTTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
1 CAAACTACCCAG-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * * * * * * *
29438713 TAAACATTCAAATTTGGACAAAATGAATTGTC--G------T-----GACAAACTTCCATGCCAA
65 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCAA
* * * *
29438765 AA-TTGATTGAATGCAAAATTAA-AATGACATTTTTATAAGCACTAAAATTGGGACAAAATGGAC
130 AATTTGATTGAATGCAAAATTAAGAA-GACATTTCTATAAGCATTCAAATTGGGACGAAATGGAC
* *
29438828 TATCAAGC
194 TGTCATGC
* *
29438836 CAAACTACCCAGCTAAACTGCCCTGCCAATATTTTATTGAATGCAAAATTAAGAGGACATTTCTA
1 CAAACTACCCAGC-AAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * * *
29438901 TAAGCATTCAAATTGGG-CTGAAATGGAATGTCATGCCAAACTACCCAGCCAAACAACCTTGCTA
65 TAAGCATTCAAATTGGGAC-GAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCA
* * * * *
29438965 GAATTTGATTGAATGCAAAATTAAGAGGATC-TTTCTATAAGCATTAAAATTGGAACAAAATGGA
129 AAATTTGATTGAATGCAAAATTAAGAAGA-CATTTCTATAAGCATTCAAATTGGGACGAAATGGA
29439029 CTGTCATGC
193 CTGTCATGC
* * * * * ** *
29439038 CAAACTATCCAGCCATACTGCCCTGCCAAAATTTCATTGAATTCAAAATTAAGAGAATTTTTTTA
1 CAAACTACCCAG-CAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * *
29439103 TAAACATTCAAATTGGGACAAAATGGACTATCATGCCAAACT-----G------T--CCTGCCAA
65 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCAA
* * *
29439155 AATTTGATGGAATGCAAAATTAAGAAGAGATTTCTATAAGCATTCAAATTAGGACGAAATGGAC-
130 AATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAAATTGGGACGAAATGGACT
29439219 -T-AT--
195 GTCATGC
*** *
29439222 --AA-T--GTTG--AAC-GACCCAGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
1 CAAACTACCCAGCAAACTG-CCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* * * * * * ** *
29439279 TAAGTATTCAAAATTGGGTCAAAATGTACTGTAATGTCAAACTACCCAATCAAACTGCCCTGCCA
65 TAAGCATTC-AAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCA
* * * * * *
29439344 AAATTAGATTGAATGTAAAATTAA-AAGAAATTTCTATAAGCATTAAAATTGGGATGAAATTGAC
129 AAATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAAATTGGGACGAAATGGAC
*
29439408 TATCATGC
194 TGTCATGC
*
29439416 TAAACTACCCAGCAAAACTACCTAGCAAAACTTACTTGCCAAAATTTGATTGAATGCAAAATTAA
1 CAAACTACCCAGC--AA--A-CT-GC----C---C-TGCCAAAATTTGATTGAATGCAAAATTAA
* * * * * * * **
29439481 GAGGACATTTCTATAAACATTAAAAATGGGACGAAATGTACAGTCACAG-GAAACTACATAGCCA
52 GAGGACATTTCTATAAGCATTCAAATTGGGACGAAATGGACTGTCA-TGCCAAACTACCCAGCCA
* * * * * * *
29439545 AA-TAGCCATACCAAAA-TTGGTGGAATTCAAAATT---AAGACATTTCTATATGTATTCAAATT
116 AACTA-CCCTGCCAAAATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAAATT
*
29439605 GGGACGAAATGCACATG-CATG-
180 GGGACGAAATGGAC-TGTCATGC
* *
29439626 -----T----A--AAACTGCCCTGCCAAAATTTGATTGAAAGCAAAATTAAGTA-GACATTTTTA
1 CAAACTACCCAGCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAG-AGGACATTTCTA
* * ** *
29439679 TAAGGATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAG-CAAATTTGTCCTACCA
65 TAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAA-CTACCCTGCCA
* * *
29439743 AAATTTGATT-AGATTCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACGAAATGTA
129 AAATTTGATTGA-ATGCAAAATTAAGAAGACATTTCTATAAGCATTCAAATTGGGACGAAATGGA
*
29439807 CTATCATGC
193 CTGTCATGC
29439816 CAAACT
1 CAAACT
29439822 GCCCTATCGG
Statistics
Matches: 4242, Mismatches: 766, Indels: 587
0.76 0.14 0.10
Matches are distributed among these distances:
173 2 0.00
174 70 0.02
175 4 0.00
176 47 0.01
177 28 0.01
178 38 0.01
179 3 0.00
180 1 0.00
181 7 0.00
182 6 0.00
183 2 0.00
184 21 0.00
185 136 0.03
186 116 0.03
187 161 0.04
188 413 0.10
189 303 0.07
190 39 0.01
191 66 0.02
192 3 0.00
193 7 0.00
194 3 0.00
195 7 0.00
196 9 0.00
197 115 0.03
198 300 0.07
199 66 0.02
200 346 0.08
201 744 0.18
202 947 0.22
203 24 0.01
205 10 0.00
206 4 0.00
207 4 0.00
208 7 0.00
210 18 0.00
211 61 0.01
212 1 0.00
213 14 0.00
214 41 0.01
215 48 0.01
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (201 bp):
CAAACTACCCAGCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTAT
AAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACTACCCTGCCAAA
ATTTGATTGAATGCAAAATTAAGAAGACATTTCTATAAGCATTCAAATTGGGACGAAATGGACTG
TCATGC
Found at i:29436030 original size:13 final size:13
Alignment explanation
Indices: 29436012--29436036 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29436002 GGACGGTCAT
29436012 GCCAAACTACCCA
1 GCCAAACTACCCA
29436025 GCCAAACTACCC
1 GCCAAACTACCC
29436037 TGCCTTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.48, G:0.08, T:0.08
Consensus pattern (13 bp):
GCCAAACTACCCA
Found at i:29436575 original size:85 final size:86
Alignment explanation
Indices: 29436428--29436864 Score: 272
Period size: 87 Copynumber: 4.9 Consensus size: 86
29436418 AAACTATCAA
* * * * * *
29436428 GCCAAACTACCCTGGGAATATTTGATTGATTGTAAAATTAAGAGGACATTTCTATAAGCATTCAA
1 GCCAAACTACCTTGGCAAAATTTGATTGAATGTAAAATTAAGAGGACATTACTATAAACATTCAA
29436493 ATTGGGACAAAATGAACTG-T
66 ATTGGGACAAAATGAACTGAT
*
29436513 GCCAAACTACCTTGTCAAAATTTGATTGAATGTAAAATTAAGAGGACATTACTATAAACATTCAA
1 GCCAAACTACCTTGGCAAAATTTGATTGAATGTAAAATTAAGAGGACATTACTATAAACATTCAA
* * *
29436578 ATTGGTACGAAATGGACTGTCAT
66 ATTGGGACAAAATGAACTG--AT
* * * * * *
29436601 GCCAAACTACCTAGCCAAACTAACATGCCATAATTGATTGAATGCAAAATTACGAGAACATTTCT
1 GCCAAACTACCTTG----GC-AA-A----AT--TTGATTGAATGTAAAATTAAGAGGACATTACT
* * *
29436666 ATAAGCATT-AAATTTGGGACGAAATGGACTGTCAT
54 ATAAACATTCAAA-TTGGGACAAAATGAACTG--AT
* * * * * * * * * *
29436701 GCCAAACTGCCCT-ACAAAATTTGATTGAATGCAAAATTAAGAGGATATTTCCATAAGCGTTTAA
1 GCCAAACTACCTTGGCAAAATTTGATTGAATGTAAAATTAAGAGGACATTACTATAAACATTCAA
* ** * *
29436765 ATTAGGATGAAATAAACTATCAT
66 ATTGGGACAAAATGAAC--TGAT
* * * * * * *
29436788 GCCACACTACCCT-GCCAAACTTGATTGAATGCT-AAATTAAGAGAACATTTCTATAAGCATTCA
1 GCCAAACTACCTTGGCAAAATTTGATTGAATG-TAAAATTAAGAGGACATTACTATAAACATTCA
* *
29436851 AATTGCGACGAAAT
65 AATTGGGACAAAAT
29436865 AGACAATCAA
Statistics
Matches: 287, Mismatches: 45, Indels: 38
0.78 0.12 0.10
Matches are distributed among these distances:
85 74 0.26
87 112 0.39
88 17 0.06
89 3 0.01
92 1 0.00
93 3 0.01
94 3 0.01
95 2 0.01
98 2 0.01
99 3 0.01
100 67 0.23
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (86 bp):
GCCAAACTACCTTGGCAAAATTTGATTGAATGTAAAATTAAGAGGACATTACTATAAACATTCAA
ATTGGGACAAAATGAACTGAT
Found at i:29436729 original size:87 final size:86
Alignment explanation
Indices: 29436634--29436886 Score: 308
Period size: 87 Copynumber: 2.9 Consensus size: 86
29436624 CATGCCATAA
* * *
29436634 TTGATTGAATGCAAAATTACGAGAACATTTCTATAAGCATTAAATTTGGGACGAAATGGACTGTC
1 TTGATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTAAA-TTGGGACGAAATAGACTATC
* *
29436699 ATGCCAAACTGCCCTACAAAAT
65 ATGCCAAACTACCCTACAAAAC
* * * * * * *
29436721 TTGATTGAATGCAAAATTAAGAGGATATTTCCATAAGCGTTTAAATTAGGATGAAATAAACTATC
1 TTGATTGAATGCAAAATTAAGAGAACATTTCTATAAGC-ATTAAATTGGGACGAAATAGACTATC
* * *
29436786 ATGCCACACTACCCTGCCAAAC
65 ATGCCAAACTACCCTACAAAAC
* * *
29436808 TTGATTGAATGCTAAATTAAGAGAACATTTCTATAAGCATTCAAATTGCGACGAAATAGACAATC
1 TTGATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATT-AAATTGGGACGAAATAGACTATC
*
29436873 AAGCCAAACTACCC
65 ATGCCAAACTACCC
29436887 AGTCAAACTG
Statistics
Matches: 137, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
86 2 0.01
87 130 0.95
88 5 0.04
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (86 bp):
TTGATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTAAATTGGGACGAAATAGACTATCA
TGCCAAACTACCCTACAAAAC
Found at i:29436995 original size:101 final size:100
Alignment explanation
Indices: 29436798--29439821 Score: 1951
Period size: 101 Copynumber: 30.9 Consensus size: 100
29436788 GCCACACTAC
* * * * *
29436798 CCTGCCAA-ACTTGATTGAATGCTAAATTAAGAGAACATTTCTATAAGCATTCAAATTGCGACGA
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACGA
* * * *
29436862 AATAGACAATCAAGCCAAACTACCCAGTCAAACTGT
66 AATGGAC-TTCATGCCAAACTACCCAGCCAAACTGT
* * * **
29436898 CCTGCGAATATTTGATTGAATGCACAATTAAGAGGCCATTTCTATAAACATTCAAATTAAGACGA
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACGA
* * * *
29436963 AATGGACGTTCATGCCAAAATAACAAGCCAAACTAT
66 AATGGAC-TTCATGCCAAACTACCCAGCCAAACTGT
* * * * *
29436999 CTTGTCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCT-TAAAGCGTTCAAATTTGGACA
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAA-CATTCAAATTGGGACG
* *
29437063 AAATGGACTTTTATGCCAAA-T---------TAC---
65 AAATGGAC-TTCATGCCAAACTACCCAGCCAAACTGT
* * * *
29437087 CCTGCCAAAATTTGATTGAATGTAAAATTAAGAGGACATTTCTATAGACATTCAAATTGGTACGA
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACGA
* * *
29437152 AGTTGACTATAATGCCAAACTACCCAGCCAAACTG-
66 AATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
* * * * ** * * *
29437187 CTCTACCAAAATTT-ATTGAATGCAAAATTAAGAAGACATTTTTATAAGTAATAAAATTAGGACG
1 C-CTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACG
*
29437251 AAATTGACTGTCATGCCAAACTACCCAGCCAAACT-T
65 AAATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
* * * * * * * *
29437287 CACTGCCAAAATTTGATTAAATGCAAAATTAAGAAGACAATTCTATAATCGTTTAAATTGGGACT
1 C-CTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACG
* ** * * *
29437352 AAATGGACTGTCATGACAAACTGTCTAACCAAACTTT
65 AAATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
* * * * * * *
29437389 CCTACCAAAATTTGATTGAATTCGAACTTACGAGGACATTTCTATAAACATTCAAATTAGGACGA
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACGA
* * * *
29437454 AATTGACTGTCATGGCAAACTACCCAACCAAACT-A
66 AATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
* * *
29437489 CGGTGCCAA-AATTGATTGAATGCAAAATTAAGAGAACATTTCTATAAGA-ATTCAAATTGGGAC
1 C-CTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAA-ACATTCAAATTGGGAC
* * *
29437552 GAAATGGACGGTCATGCCAAACTACCCAGCCAAAAT-A
64 GAAATGGAC-TTCATGCCAAACTACCCAGCCAAACTGT
* *
29437589 CCATGCCAA-AATTGATTGAATGCAAAATTAAGAGAACATTTCTATAAGA-ATTCAAATTGGGAC
1 CC-TGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAA-ACATTCAAATTGGGAC
* * *
29437652 AAAATGGACGGTCATGCCAAACTACCCAACCAAACTG-
64 GAAATGGAC-TTCATGCCAAACTACCCAGCCAAACTGT
* * *
29437689 CCATGCTACA-A-TTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGTAC
1 CC-TGCCA-ATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGAC
* * * * * *
29437752 GAAATTGACTGTCATACTAAACTGCCCAGCCAAATTGC
64 GAAATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
* * * * * * * * *
29437790 CCTACCAA-AATTGATT-AATGCAAATTTTAGAGGGCATTTCTATAAGCATTTAAATAGGGACAA
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACGA
* *
29437853 AATGGA--T--TG----AC-A--C-GCCTAACT-A
66 AATGGACTTCATGCCAAACTACCCAGCCAAACTGT
** * * * *
29437875 CTGAGCCAAAATTTGATTGCATGCATAATTAAGAGGACATTTCTATAATA-GTTCAAATTGGGAC
1 C-CTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAA-ACATTCAAATTGGGAC
* * * * *
29437939 GAAGA-GGACAGTCATGCAAAAATACCCAACCAAA-TTT
64 GAA-ATGGAC-TTCATGCCAAACTACCCAGCCAAACTGT
* * * * * * *
29437976 CCTTGCCAAAATTTG-TTTAATTGC-AAATTAAAAATGACATTTCGATACACAATCAAATTGGGA
1 CC-TGCCAATATTTGATTGAA-TGCAAAATT-AAGAGGACATTTCTATAAACATTCAAATTGGGA
* * *
29438039 TGAAATGGACTGTCATGCAAAACAACCCAGCCAAACT-T
63 CGAAATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
* * * *
29438077 CCCTGCCAA-AATTGATTGAATGCAAAACTAAGAGGACATTTCTGTAAACATTCAAATTGGTACG
1 -CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACG
* * * * * *
29438141 AAAT-TAATAGTCATGCCAAACAACCCAACCAAATTGC
65 AAATGGACT--TCATGCCAAACTACCCAGCCAAACTGT
* *** *
29438178 CCTGCCAATATTTGATTGTATGCAAAATTAAGAGGACATTTCTATAGGTATTCAAATTAGGACGA
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACGA
** * * *
29438243 AATAAACTGTCATGCCAAACAACCCAGCCAAACAGC
66 AATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
* * * * *
29438279 CCTTCCAATATTTGCTTGAATGAAAAATTAAGTA-GTCATTTCTATAAGCATT-ATAATTGGGAC
1 CCTGCCAATATTTGATTGAATGCAAAATTAAG-AGGACATTTCTATAAACATTCA-AATTGGGAC
29438342 GAAATGGACTGTCATGCCAAACT-----G------T-T
64 GAAATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
* * * * * * * *
29438368 -CTACCAA-AATTAAATGAACGCAAAATTAAAAGGACATTTCTATAAGCATTCAAATTGGTACGA
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACGA
** * * * *
29438431 AATGGAAAATCATACCAAACTACTCAGCTAAATTGT
66 AATGG-ACTTCATGCCAAACTACCCAGCCAAACTGT
* * * **
29438467 CCTGCCAATATTTGATTTAATGTAAAATCAAGAGGACATTTCTATAGGCATTCAAATTGGGACGA
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACGA
* * *
29438532 AATGGACTGTCATGCCAAACTACCTAGCCAAACAGC
66 AATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
* *** * *
29438568 CCTGCCAATGTTTGATTGAATGCAAAATTAAGAACTCATTTCTATAAGCATT-ATACTTGGGACG
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCA-AATTGGGACG
* * *
29438632 AAATGGATTGTCATGCCAAACTACCCCGCCAAACT-A
65 AAATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
* *
29438668 CCTTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTTGGACA
1 CC-TGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACG
* ** *
29438733 AAAT-GA-AT--TG------T--CGTGACAAACT-T
65 AAATGGACTTCATGCCAAACTACCCAGCCAAACTGT
* * * * * * * *
29438756 CCATGCCAA-AATTGATTGAATGCAAAATTAAAATGACATTTTTATAAGCACTAAAATTGGGACA
1 CC-TGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACG
* * *
29438820 AAATGGACTATCAAGCCAAACTACCCAGCTAAACTGC
65 AAATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
* *
29438857 CCTGCCAATATTTTATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGG-CTG
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGAC-G
* **
29438921 AAATGGAATGTCATGCCAAACTACCCAGCCAAAC-AA
65 AAATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
* * * *
29438957 CCTTGCTAGA-ATTTGATTGAATGCAAAATTAAGAGGATC-TTTCTATAAGCATTAAAATTGGAA
1 CC-TGCCA-ATATTTGATTGAATGCAAAATTAAGAGGA-CATTTCTATAAACATTCAAATTGGGA
* * * *
29439020 CAAAATGGACTGTCATGCCAAACTATCCAGCCATACTGC
63 CGAAATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
* * * * ** * *
29439059 CCTGCCAAAATTTCATTGAATTCAAAATTAAGAGAATTTTTTTATAAACATTCAAATTGGGACAA
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACGA
29439124 AATGGAC-T-AT--C--A-T-----GCCAAACTGT
66 AATGGACTTCATGCCAAACTACCCAGCCAAACTGT
* * * * * *
29439147 CCTGCCAAAATTTGATGGAATGCAAAATTAAGAAGAGATTTCTATAAGCATTCAAATTAGGACGA
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACGA
* *** *
29439212 AATGGACTATAATGTTGAACGACCCAGCC--A----
66 AATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
** * *
29439242 ------AA-ATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGTATTCAAAATTGGGTCA
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTC-AAATTGGGACG
* * * ** *
29439300 AAATGTACTGTAATGTCAAACTACCCAATCAAACTGC
65 AAATGGACT-TCATGCCAAACTACCCAGCCAAACTGT
* * * * * * * *
29439337 CCTGCCAAAATTAGATTGAATGTAAAATTAA-AAGAAATTTCTATAAGCATTAAAATTGGGATGA
1 CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACGA
* * *
29439401 AATTGACTATCATGCTAAACTACCCAGCAAAACTACCTAGCAAAACTT
66 AATGGACT-TCATGCCAAACTACCCAGC-CAA--A-CT-G-------T
* * * *
29439449 ACTTGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTAAAAATGGGACG
1 -CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACG
* * * * **
29439514 AAATGTACAGTCACAG-GAAACTACATAGCCAAA-TAG-
65 AAATGGAC-TTCA-TGCCAAACTACCCAGCCAAACT-GT
* * * * * ***
29439550 CCATACCAA-AATTGGTGGAATTCAAAATT-A-A-GACATTTCTATATGTATTCAAATTGGGACG
1 CC-TGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACG
* ** *
29439611 AAAT-G-C-ACATG-C--A-T-----GTAAAACTGC
65 AAATGGACTTCATGCCAAACTACCCAGCCAAACTGT
* * * **
29439635 CCTGCCAAAATTTGATTGAAAGCAAAATTAAGTA-GACATTTTTATAAGGATTCAAATTGGGACG
1 CCTGCCAATATTTGATTGAATGCAAAATTAAG-AGGACATTTCTATAAACATTCAAATTGGGACG
*
29439699 AAATGGACTGTCATGCCAAACTACCCAG-CAAATTTGT
65 AAATGGACT-TCATGCCAAACTACCCAGCCAAA-CTGT
* * * *
29439736 CCTACCAAAATTTGATT-AGATTCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGACG
1 CCTGCCAATATTTGATTGA-ATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACG
*
29439800 AAATGTACTATCATGCCAAACT
65 AAATGGACT-TCATGCCAAACT
29439822 GCCCTATCGG
Statistics
Matches: 2322, Mismatches: 427, Indels: 349
0.75 0.14 0.11
Matches are distributed among these distances:
84 10 0.00
85 19 0.01
86 12 0.01
87 119 0.05
88 273 0.12
89 40 0.02
90 7 0.00
91 6 0.00
92 7 0.00
93 6 0.00
94 2 0.00
95 3 0.00
96 6 0.00
97 30 0.01
98 9 0.00
99 53 0.02
100 521 0.22
101 1080 0.47
102 34 0.01
103 1 0.00
104 2 0.00
105 1 0.00
109 3 0.00
111 1 0.00
113 30 0.01
114 46 0.02
115 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (100 bp):
CCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTGGGACGA
AATGGACTTCATGCCAAACTACCCAGCCAAACTGT
Found at i:29437167 original size:88 final size:88
Alignment explanation
Indices: 29437008--29437183 Score: 230
Period size: 88 Copynumber: 2.0 Consensus size: 88
29436998 TCTTGTCAAT
* *
29437008 ATTTGATTGAATGCAAAATTAAGAGGACATTTCTTAAAGCGTTCAAATTTGGACAAAATGGACTT
1 ATTTGATTGAATGCAAAATTAAGAGGACATTTCTTAAAGCATTCAAATTTGGACAAAATGGACTA
* * *
29437073 TTATGCCAAATTACCCTGCCAAA
66 TAATGCCAAACTACCCAGCCAAA
* * * * *
29437096 ATTTGATTGAATGTAAAATTAAGAGGACATTTC-TATAGACATTCAAA-TTGGTACGAAGTTGAC
1 ATTTGATTGAATGCAAAATTAAGAGGACATTTCTTAAAG-CATTCAAATTTGG-ACAAAATGGAC
29437159 TATAATGCCAAACTACCCAGCCAAA
64 TATAATGCCAAACTACCCAGCCAAA
29437184 CTGCTCTACC
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
87 8 0.11
88 68 0.89
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (88 bp):
ATTTGATTGAATGCAAAATTAAGAGGACATTTCTTAAAGCATTCAAATTTGGACAAAATGGACTA
TAATGCCAAACTACCCAGCCAAA
Found at i:29437219 original size:100 final size:99
Alignment explanation
Indices: 29437077--29438364 Score: 1111
Period size: 100 Copynumber: 12.9 Consensus size: 99
29437067 GGACTTTTAT
* * *
29437077 GCCAAATTACCCTGCCAAAATTTGATTGAATGTAAAATTAAGAGGACATTTCTATAGACATTCAA
1 GCCAAACTGCCCTGCCAAAATTT-ATTGAATGCAAAATTAAGAGGACATTTCTATA-ACATTCAA
* * * * *
29437142 ATTGGTACGAAGTTGACTATAATGCCAAACTACCCA
64 ATTGGGACGAAATGGACTGTCATGCCAAACTACCCA
* * * * * * *
29437178 GCCAAACTGCTCTACCAAAATTTATTGAATGCAAAATTAAGAAGACATTTTTATAAGTAATAAAA
1 GCCAAACTGCCCTGCCAAAATTTATTGAATGCAAAATTAAGAGGACATTTCTATAA-CATTCAAA
* *
29437243 TTAGGACGAAATTGACTGTCATGCCAAACTACCCA
65 TTGGGACGAAATGGACTGTCATGCCAAACTACCCA
* * * * * * *
29437278 GCCAAACTTCACTGCCAAAATTTGATTAAATGCAAAATTAAGAAGACAATTCTATAATCGTTTAA
1 GCCAAACTGCCCTGCCAAAATTT-ATTGAATGCAAAATTAAGAGGACATTTCTATAA-CATTCAA
* * ** *
29437343 ATTGGGACTAAATGGACTGTCATGACAAACTGTCTA
64 ATTGGGACGAAATGGACTGTCATGCCAAACTACCCA
* ** * * * * *
29437379 ACCAAACTTTCCTACCAAAATTTGATTGAATTCGAACTTACGAGGACATTTCTATAAACATTCAA
1 GCCAAACTGCCCTGCCAAAATTT-ATTGAATGCAAAATTAAGAGGACATTTCTAT-AACATTCAA
* * *
29437444 ATTAGGACGAAATTGACTGTCATGGCAAACTACCCA
64 ATTGGGACGAAATGGACTGTCATGCCAAACTACCCA
* * ** * * *
29437480 ACCAAACTACGGTGCCAAAATTGATTGAATGCAAAATTAAGAGAACATTTCTATAAGAATTCAAA
1 GCCAAACTGCCCTGCCAAAATTTATTGAATGCAAAATTAAGAGGACATTTCTATAA-CATTCAAA
*
29437545 TTGGGACGAAATGGACGGTCATGCCAAACTACCCA
65 TTGGGACGAAATGGACTGTCATGCCAAACTACCCA
* * * * * *
29437580 GCCAAAATACCATGCCAAAATTGATTGAATGCAAAATTAAGAGAACATTTCTATAAGAATTCAAA
1 GCCAAACTGCCCTGCCAAAATTTATTGAATGCAAAATTAAGAGGACATTTCTATAA-CATTCAAA
* *
29437645 TTGGGACAAAATGGACGGTCATGCCAAACTACCCA
65 TTGGGACGAAATGGACTGTCATGCCAAACTACCCA
* * * * *
29437680 ACCAAACTGCCATGCTACAATTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAA
1 GCCAAACTGCCCTGCCAAAATTTATTGAATGCAAAATTAAGAGGACATTTCTATAA-CATTCAAA
* * * * *
29437745 TTGGTACGAAATTGACTGTCATACTAAACTGCCCA
65 TTGGGACGAAATGGACTGTCATGCCAAACTACCCA
* * * * * * *
29437780 GCCAAATTGCCCTACCAAAATTGATT-AATGCAAATTTTAGAGGGCATTTCTATAAGCATTTAAA
1 GCCAAACTGCCCTGCCAAAATTTATTGAATGCAAAATTAAGAGGACATTTCTATAA-CATTCAAA
* *
29437844 TAGGGACAAAATGGA---T--TG----AC-A--C-
65 TTGGGACGAAATGGACTGTCATGCCAAACTACCCA
* * *** * * *
29437866 GCCTAACTACTGAGCCAAAATTTGATTGCATGCATAATTAAGAGGACATTTCTATAATAGTTCAA
1 GCCAAACTGCCCTGCCAAAATTT-ATTGAATGCAAAATTAAGAGGACATTTCTATAACA-TTCAA
* * *
29437931 ATTGGGACGAAGA-GGACAGTCATGCAAAAATACCCA
64 ATTGGGACGAA-ATGGACTGTCATGCCAAACTACCCA
* * * * * * * * * *
29437967 ACCAAATTTCCTTGCCAAAATTTGTTTAATTGC-AAATTAAAAATGACATTTCGATACACAATCA
1 GCCAAACTGCCCTGCCAAAATTTATTGAA-TGCAAAATT-AAGAGGACATTTCTATA-ACATTCA
* * *
29438031 AATTGGGATGAAATGGACTGTCATGCAAAACAACCCA
63 AATTGGGACGAAATGGACTGTCATGCCAAACTACCCA
* * * *
29438068 GCCAAACTTCCCTGCCAAAATTGATTGAATGCAAAACTAAGAGGACATTTCTGTAAACATTCAAA
1 GCCAAACTGCCCTGCCAAAATTTATTGAATGCAAAATTAAGAGGACATTTCTAT-AACATTCAAA
* * * *
29438133 TTGGTACGAAAT-TAATAGTCATGCCAAACAACCCA
65 TTGGGACGAAATGGACT-GTCATGCCAAACTACCCA
* * * * **
29438168 ACCAAATTGCCCTGCCAATATTTGATTGTATGCAAAATTAAGAGGACATTTCTATAGGTATTCAA
1 GCCAAACTGCCCTGCCAAAATTT-ATTGAATGCAAAATTAAGAGGACATTTCTATA-ACATTCAA
* ** *
29438233 ATTAGGACGAAATAAACTGTCATGCCAAACAACCCA
64 ATTGGGACGAAATGGACTGTCATGCCAAACTACCCA
* * * * * *
29438269 GCCAAACAGCCCTTCCAATATTTGCTTGAATGAAAAATTAAGTA-GTCATTTCTATAAGCATT-A
1 GCCAAACTGCCCTGCCAAAATTT-ATTGAATGCAAAATTAAG-AGGACATTTCTATAA-CATTCA
29438332 TAATTGGGACGAAATGGACTGTCATGCCAAACT
63 -AATTGGGACGAAATGGACTGTCATGCCAAACT
29438365 GTTCTACCAA
Statistics
Matches: 966, Mismatches: 187, Indels: 68
0.79 0.15 0.06
Matches are distributed among these distances:
86 15 0.02
87 5 0.01
88 40 0.04
89 1 0.00
90 2 0.00
91 1 0.00
93 2 0.00
94 1 0.00
96 1 0.00
97 1 0.00
98 1 0.00
99 50 0.05
100 428 0.44
101 411 0.43
102 7 0.01
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (99 bp):
GCCAAACTGCCCTGCCAAAATTTATTGAATGCAAAATTAAGAGGACATTTCTATAACATTCAAAT
TGGGACGAAATGGACTGTCATGCCAAACTACCCA
Found at i:29437253 original size:289 final size:288
Alignment explanation
Indices: 29435933--29439243 Score: 1737
Period size: 289 Copynumber: 11.3 Consensus size: 288
29435923 AGCCAAACGG
* * * * *
29435933 CCCTGCCAATATTTGATTGAATGAAAAATTAAGAAGTCATTTCTATAAGCATTGAAATTTGGACG
1 CCCTGCCAAAATTTGATTGAATGTAAAATTAAGAGGACATTTCTATAAGCATTCAAA-TTGGACG
* ** * * * * * * * * *
29435998 AAATGGACGGTCATGCCAAACTACCCAGCCAAACTACCCTGCCTTAATTTGAGTAAATGAAAAAT
65 AAATTGACTATAATGCCAAACTACCCAGCCAAACTGCTCTACC-AAAATTGATTGAATGCAAAAT
* * * * *
29436063 TAATATGACATTTCTGTAAGAGTTCAAA-TATGGATGAAATGGACAG-TCATGCCAAACTACCCA
129 TAAGAAGACATTTCTATAAGA-ATCAAATTA-GGACGAAATGGAC-GTTCATGCCAAACTACCCA
* * * * *
29436126 GCCAAA-TTTCCCA-GCCAAAATTTTATTGAATGCAAAATTAAGAGGACATTTCGATAAACTTTC
191 GCCAAACTAT--CATGCC-AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCGTTC
** * * *
29436189 AAATTTTGACGAAATGCACTGTCATGCCAAACTACCCAACCAA
253 AAATTGGGACAAAATGGACTGTCATGCCAAACT-------CTA
** * *
29436232 CCTTCTCTGCTGAAA-TTGATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTCAAATTGG
1 -C--C-CTGCCAAAATTTGATTGAATGTAAAATTAAGAGGACATTTCTATAAGCATTCAAATT-G
*** * * * * * * *
29436296 GACGAAA-TGAACTGCCACGCCAAACTACCTAGGCAAACTGCTCGACCAATATTTTATTGAATGA
61 GACGAAATTG-ACTATAATGCCAAACTACCCAGCCAAACTGCTCTACCAA-AATTGATTGAATGC
* * * *
29436360 AAAATTATGAGGACATTT-TAATAA-ACATTCATATTAGGACGAAATGAAC-TGTCATGCCAAAC
124 AAAATTAAGAAGACATTTCT-ATAAGA-A-TCAAATTAGGACGAAATGGACGT-TCATGCCAAAC
* * * * ** * *
29436422 TATCAAGCCAAACTACCCTGGGAATATTTGATTGATTGTAAAATTAAGAGGACATTTCTATAAGC
185 TACCCAGCCAAACTATCATGCCAA-ATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGC
* *
29436487 ATTCAAATTGGGACAAAATGAACTG---TGCCAAA--CTA
249 GTTCAAATTGGGACAAAATGGACTGTCATGCCAAACTCTA
* * * *
29436522 CCTTGTCAAAATTTGATTGAATGTAAAATTAAGAGGACATTACTATAAACATTCAAATTGGTACG
1 CCCTGCCAAAATTTGATTGAATGTAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGG-ACG
* * * * * * * *
29436587 AAATGGACTGTCATGCCAAACTACCTAGCCAAACTAAC-ATGCCATAATTGATTGAATGCAAAAT
65 AAATTGACTATAATGCCAAACTACCCAGCCAAACT-GCTCTACCAAAATTGATTGAATGCAAAAT
* * * *
29436651 TACG-AGAACATTTCTATAAGCATTAAATTTGGGACGAAATGGAC-TGTCATGCCAAACT-----
129 TAAGAAG-ACATTTCTATAAGAATCAAA-TTAGGACGAAATGGACGT-TCATGCCAAACTACCCA
* * *
29436709 GCC---CTA-CA----AAATTTGATTGAATGCAAAATTAAGAGGATATTTCCATAAGCGTTTAAA
191 GCCAAACTATCATGCCAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCGTTCAAA
* ** ** * *
29436766 TTAGGATGAAATAAACTATCATGCC--ACACTA
256 TTGGGACAAAATGGACTGTCATGCCAAACTCTA
* *
29436797 CCCTGCC-AAACTTGATTGAATGCT-AAATTAAGAGAACATTTCTATAAGCATTCAAATTGCGAC
1 CCCTGCCAAAATTTGATTGAATG-TAAAATTAAGAGGACATTTCTATAAGCATTCAAATTG-GAC
* * * * * * *
29436860 GAAATAGACAATCAA-GCCAAACTACCCAGTCAAACTG-TCCTGCGAATATTTGATTGAATGCAC
64 GAAATTGACTAT-AATGCCAAACTACCCAGCCAAACTGCT-CTACCAA-AATTGATTGAATGCAA
* * * * *
29436923 AATTAAGAGGCCATTTCTATAA-ACATTCAAATTAAGACGAAATGGACGTTCATGCCAAAATAAC
126 AATTAAGAAGACATTTCTATAAGA-A-TCAAATTAGGACGAAATGGACGTTCATGCCAAACTACC
* * *
29436987 AAGCCAAACTATCTTGTCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCT-TAAAGCGTT
189 CAGCCAAACTATCATGCCAA-ATTTGATTGAATGCAAAATTAAGAGGACATTTCTAT-AAGCGTT
* * *
29437051 CAAATTTGGACAAAATGGACTTTTATGCCAAA-T-TA
252 CAAATTGGGACAAAATGGACTGTCATGCCAAACTCTA
29437086 CCCTGCCAAAATTTGATTGAATGTAAAATTAAGAGGACATTTCTAT-AGACATTCAAATTGGTAC
1 CCCTGCCAAAATTTGATTGAATGTAAAATTAAGAGGACATTTCTATAAG-CATTCAAATTGG-AC
* *
29437150 GAAGTTGACTATAATGCCAAACTACCCAGCCAAACTGCTCTACCAAAATTTATTGAATGCAAAAT
64 GAAATTGACTATAATGCCAAACTACCCAGCCAAACTGCTCTACCAAAATTGATTGAATGCAAAAT
* * *
29437215 TAAGAAGACATTTTTATAAGTAATAAAATTAGGACGAAATTGAC-TGTCATGCCAAACTACCCAG
129 TAAGAAGACATTTCTATAAG-AATCAAATTAGGACGAAATGGACGT-TCATGCCAAACTACCCAG
* * * * *
29437279 CCAAACT-TCACTGCCAAAATTTGATTAAATGCAAAATTAAGAAGACAATTCTATAATCGTTTAA
192 CCAAACTATCA-TGCC-AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCGTTCAA
* *
29437343 ATTGGGACTAAATGGACTGTCATGACAAACTGTCTAACCAAA
255 ATTGGGACAAAATGGACTGTCATGCCAAAC--TCT------A
* * * * *
29437385 CTTTCCTACCAAAATTTGATTGAAT-TCGAACTTACGAGGACATTTCTATAAACATTCAAATTAG
1 C---CCTGCCAAAATTTGATTGAATGT-AAAATTAAGAGGACATTTCTATAAGCATTCAAATT-G
* * * * * ** *
29437449 GACGAAATTGACTGTCATGGCAAACTACCCAACCAAACTACGGTGCCAAAATTGATTGAATGCAA
61 GACGAAATTGACTATAATGCCAAACTACCCAGCCAAACTGCTCTACCAAAATTGATTGAATGCAA
* *
29437514 AATTAAG-AGAACATTTCTATAAGAATTCAAATTGGGACGAAATGGACGGTCATGCCAAACTACC
126 AATTAAGAAG-ACATTTCTATAAGAA-TCAAATTAGGACGAAATGGACGTTCATGCCAAACTACC
* * * * **
29437578 CAGCCAAAATACCATGCCAAAATTGATTGAATGCAAAATTAAGAGAACATTTCTATAAGAATTCA
189 CAGCCAAACTATCATGCCAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCGTTCA
* *
29437643 AATTGGGACAAAATGGACGGTCATGCCAAACTACCCAA
254 AATTGGGACAAAATGGACTGTCATGCCAAACT---CTA
*
29437681 CCAAACTGCCATGCTACAA-TTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAA
1 CC---CTGCCA----A-AATTTGATTGAATGTAAAATTAAGAGGACATTTCTATAAGCATTCAAA
* * * * * * *
29437745 TTGGTACGAAATTGACTGTCATACTAAACTGCCCAGCCAAATTGCCCTACCAAAATTGATT-AAT
58 TTGG-ACGAAATTGACTATAATGCCAAACTACCCAGCCAAACTGCTCTACCAAAATTGATTGAAT
* * * * * * *
29437809 GCAAATTTTAGAGGGCATTTCTATAAGCATTTAAA-TAGGGACAAAATGGA---T--TG----AC
122 GCAAAATTAAGAAGACATTTCTATAAG-AATCAAATTA-GGACGAAATGGACGTTCATGCCAAAC
* * * * *
29437864 -A--C-GCCTAACTACTGA-GCCAAAATTTGATTGCATGCATAATTAAGAGGACATTTCTATAAT
185 TACCCAGCCAAACTA-TCATGCC-AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAG
* * * * * *
29437924 AGTTCAAATTGGGACGAAGA-GGACAGTCATGCAAAAATACCCAA
248 CGTTCAAATTGGGAC-AAAATGGACTGTCATGC--CAA-ACTCTA
* * * * * *
29437968 CCAAATTTCCTTGCCAAAATTTG-TTTAAT-TGCAAATTAAAAATGACATTTCGATACA-CAATC
1 -C------CC-TGCCAAAATTTGATTGAATGT-AAAATT-AAGAGGACATTTCTATA-AGCATTC
* * * * * * * * *
29438030 AAATTGGGATGAAATGGACTGTCATGCAAAACAACCCAGCCAAACTTCCCTGCCAAAATTGATTG
55 AAATT-GGACGAAATTGACTATAATGCCAAACTACCCAGCCAAACTGCTCTACCAAAATTGATTG
* * * ** *
29438095 AATGCAAAACTAAGAGGACATTTCTGTAA-ACATTCAAATT-GGTACGAAATTAATAG-TCATGC
119 AATGCAAAATTAAGAAGACATTTCTATAAGA-A-TCAAATTAGG-ACGAAATGGA-CGTTCATGC
* * * ** * *
29438157 CAAACAACCCAACCAAATTGCCCTGCCAATATTTGATTGTATGCAAAATTAAGAGGACATTTCTA
180 CAAACTACCCAGCCAAACTATCATGCCAA-ATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
* ** * * ** * *
29438222 TAGGTATTCAAATTAGGACGAAATAAACTGTCATGCCAAACAACCCAGCCAAACA
244 TAAGCGTTCAAATTGGGACAAAATGGACTGTCATGCC--A-AA--C--TC---TA
* * * * *
29438277 GCCCTTCCAATATTTGCTTGAATGAAAAATTAAGTA-GTCATTTCTATAAGCATT-ATAATTGGG
1 -CCCTGCCAAAATTTGATTGAATGTAAAATTAAG-AGGACATTTCTATAAGCATTCA-AATT-GG
* * * * * *
29438340 ACGAAATGGAC-----TGTC--A-T-----GCCAAACTGTTCTACCAAAATTAAATGAACGCAAA
62 ACGAAATTGACTATAATGCCAAACTACCCAGCCAAACTGCTCTACCAAAATTGATTGAATGCAAA
* *** * *
29438392 ATTAA-AAGGACATTTCTATAAGCATTCAAATT-GGTACGAAATGGAAAATCATACCAAACTACT
127 ATTAAGAA-GACATTTCTATAAG-AATCAAATTAGG-ACGAAATGGACGTTCATGCCAAACTACC
* * * * * * * * *
29438455 CAGCTAAATTGTCCTGCCAATATTTGATTTAATGTAAAATCAAGAGGACATTTCTATAGGCATTC
189 CAGCCAAACTATCATGCCAA-ATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCGTTC
*
29438520 AAATTGGGACGAAATGGACTGTCATGCCAAACTACCTAGCCAAACA
253 AAATTGGGACAAAATGGACTGTCATGCCAAACT--CT--------A
** * *** *
29438566 GCCCTGCCAATGTTTGATTGAATGCAAAATTAAGAACTCATTTCTATAAGCATT-ATACTTGGGA
1 -CCCTGCCAAAATTTGATTGAATGTAAAATTAAGAGGACATTTCTATAAGCATTCA-AATT-GGA
* * * * * * * *
29438630 CGAAATGGATTGTCATGCCAAACTACCCCGCCAAACTAC-CTTGCCAATATTTGATTGAATGCAA
63 CGAAATTGACTATAATGCCAAACTACCCAGCCAAACTGCTC-TACCAA-AATTGATTGAATGCAA
* * * *
29438694 AATTAAGAGGACATTTCTATAA-ACATTCAAATTTGGACAAAAT-GA--AT--TG------T--C
126 AATTAAGAAGACATTTCTATAAGA-A-TCAAATTAGGACGAAATGGACGTTCATGCCAAACTACC
** * * * * * ** *
29438745 GTGACAAACT-TCCATGCCAAAATTGATTGAATGCAAAATTAAAATGACATTTTTATAAGCACTA
189 CAGCCAAACTAT-CATGCCAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCGTTC
* *
29438809 AAATTGGGACAAAATGGACTATCAAGCCAAACTACCCAGCTAAA
253 AAATTGGGACAAAATGGACTGTCATGCCAAACT------CT--A
* * * *
29438853 CTGCCCTGCCAATATTTTATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGG
1 ---CCCTGCCAAAATTTGATTGAATGTAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGA
* * * * ** * * *
29438918 CTGAAATGGAATGTCATGCCAAACTACCCAGCCAAACAAC-CTTGCTAGAATTTGATTGAATGCA
63 C-GAAATTGACTATAATGCCAAACTACCCAGCCAAACTGCTC-TACCA-AAATTGATTGAATGCA
* * * *
29438982 AAATTAAGAGGATC-TTTCTATAAGCATTAAAATT-GGAACAAAATGGAC-TGTCATGCCAAACT
125 AAATTAAGAAGA-CATTTCTATAAG-AATCAAATTAGG-ACGAAATGGACGT-TCATGCCAAACT
* * ** * * * * ** * * *
29439044 ATCCAGCCATACTGCCCTGCCAAAATTTCATTGAATTCAAAATTAAGAGAATTTTTTTATAAACA
186 ACCCAGCCAAACTATCATGCC-AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCG
* *
29439109 TTCAAATTGGGACAAAATGGACTATCATGCCAAACTGT-
250 TTCAAATTGGGACAAAATGGACTGTCATGCCAAACTCTA
* * * *
29439147 -CCTGCCAAAATTTGATGGAATGCAAAATTAAGAAGAGATTTCTATAAGCATTCAAATTAGGACG
1 CCCTGCCAAAATTTGATTGAATGTAAAATTAAGAGGACATTTCTATAAGCATTCAAATT-GGACG
* *** *
29439211 AAATGGACTATAATGTTGAACGACCCAGCCAAA
65 AAATTGACTATAATGCCAAACTACCCAGCCAAA
29439244 ATTTGATTGA
Statistics
Matches: 2381, Mismatches: 409, Indels: 452
0.73 0.13 0.14
Matches are distributed among these distances:
272 54 0.02
273 3 0.00
274 80 0.03
275 72 0.03
276 6 0.00
277 1 0.00
278 3 0.00
280 3 0.00
281 3 0.00
283 3 0.00
284 3 0.00
285 4 0.00
286 77 0.03
287 162 0.07
288 96 0.04
289 684 0.29
290 190 0.08
291 9 0.00
292 9 0.00
293 5 0.00
294 10 0.00
295 1 0.00
296 9 0.00
297 4 0.00
298 4 0.00
299 52 0.02
300 94 0.04
301 91 0.04
302 502 0.21
303 139 0.06
304 4 0.00
306 2 0.00
309 2 0.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (288 bp):
CCCTGCCAAAATTTGATTGAATGTAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGACGA
AATTGACTATAATGCCAAACTACCCAGCCAAACTGCTCTACCAAAATTGATTGAATGCAAAATTA
AGAAGACATTTCTATAAGAATCAAATTAGGACGAAATGGACGTTCATGCCAAACTACCCAGCCAA
ACTATCATGCCAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCGTTCAAATTGGG
ACAAAATGGACTGTCATGCCAAACTCTA
Found at i:29437596 original size:13 final size:14
Alignment explanation
Indices: 29437564--29437600 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
29437554 AATGGACGGT
*
29437564 CATGCCAAACTACC
1 CATGCCAAAATACC
29437578 CA-GCCAAAATA-C
1 CATGCCAAAATACC
29437590 CATGCCAAAAT
1 CATGCCAAAAT
29437601 TGATTGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 16 0.76
14 2 0.10
ACGTcount: A:0.43, C:0.35, G:0.08, T:0.14
Consensus pattern (14 bp):
CATGCCAAAATACC
Found at i:29438502 original size:390 final size:384
Alignment explanation
Indices: 29434446--29439821 Score: 2357
Period size: 390 Copynumber: 13.7 Consensus size: 384
29434436 GCTAAACTTC
* * * * * *
29434446 CCTGCCAAAATTTGATTGAATTCAAAATTAAGAGGACATTTCAATACA-CATTAAAATTGGGACG
1 CCTGCCAAAA-TTAAATGAATGCAAAATTAA-AAGACATTTCTATA-AGCATTCAAATT-GGACG
* * * * *
29434510 AAAT---AGA-CATGCCAAACTACCCAGCTAAA-TATCGCTGCCTAA-ATTTGATTCAATGCAAA
62 AAATGGAAAATCAAGCCAAACTACCCAGCTAAACT-GCCCTGCC-AATATTTGATTGAATGCAAA
* * * * *
29434569 ATTAAGAGGACATTTCGATACA-CATTCAAATTGGGATGAAAAGGACTGTCATGCCAAACTACCC
125 ATCAAGAGGACATTTCTATA-AGCATTCAAATT-GGACGAAATGGAATGTCATGCCAAACTACCC
* *** * * *
29434633 AGCTAAATTTCCCTACCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCAATACA-CATTC
188 AGCCAAACAGCCCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATA-AGCATT-
* * * * * * * *
29434697 AAATTGGGACGAAAT--A--GACATGCCAAACTACCCAGCTAAATATCGCTGCCAAAATTTGATT
251 AAATT-GGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACAGCCCTTCCAATATTTGCTT
* * * ** **
29434758 CAATGCAAAATTAAGAGGACATTTCGATGCACATTCAAATTGGGATGAAATGGACTGTCATGCCA
315 GAATGCAAAATTAAGA-GTCATTTCTATAAACATTCAAATTGGGACAAAATGGACTGTCATGCCA
29434823 AACTGCCCAGCCAAACTT
379 AACT-----G-------T
* * * * * *
29434841 CCCTGCCAAAATTGATTGAATGTAAAATTAAAAGGAAATTTCTATAAGCATCCAAATTGGGTCGA
1 -CCTGCCAAAATTAAATGAATGCAAAATTAAAA-GACATTTCTATAAGCATTCAAATT-GGACGA
*** * * * * *
29434906 AATGGACTGTCAAGCCAAATTACCCAGCCAAACAGCCCTGCCAATTTTTGATTGAATGCAAAATT
63 AATGGAAAATCAAGCCAAACTACCCAGCTAAACTGCCCTGCCAATATTTGATTGAATGCAAAATC
* * * * * * *
29434971 AAGAGGACATTTCTATAAGCATTCAAATTGAGACAAAATGGACTATCATGCAAAACCATCCAACC
128 AAGAGGACATTTCTATAAGCATTCAAATTG-GACGAAATGGAATGTCATGCCAAACTACCCAGCC
* * * * * * *
29435036 AAACTGTCCTGCCAAAATTTGATTGAATGCAAAATTAAGAGTACTTTTCAATAAACATTCAAATT
192 AAACAGCCCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATT-AAATT
* * ** * * * * *
29435101 GGTACGAAATGAACTGTCATGTCAAACT-CCCAGCCAAATTG-CCATGCAAAAATTGATTGAATG
256 GG-ACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACAGCCCTTCCAATATTTGCTTGAATG
* * * * * *
29435164 CAAAATTAAGAGAAT-ATTTTTCTAAGCATTAAAATTGGGACGAAATGGAATGTCATGCCAAACT
320 CAAAATTAAGAG--TCATTTCTATAAACATTCAAATTGGGACAAAATGGACTGTCATGCC-AA--
29435228 ACCTAGCCAAACT
380 A-CT-G------T
* * * *
29435241 ACCCTGCCAAAATTTGATTGAATGCAGAATTAAGAAGAAATTTCTATAAGCATTCAAATTGGGAC
1 --CCTGCCAAAA-TTAAATGAATGCAAAATTAA-AAGACATTTCTATAAGCATTCAAATT-GGAC
* * * * * *
29435306 AAAATGGACAGTCATGCCAAACTACACTA--TGAAACTGCCCTG-CAAAACTTTGATTGAATGCA
61 GAAATGGAAAATCAAGCCAAACTAC-CCAGCT-AAACTGCCCTGCCAATA-TTTGATTGAATGCA
* * ** * * * * *
29435368 ATATTAAGAGGACATTTAAATAGGCACTCCAATTGGGACGAAATAGATTGTCATGCCAAACTACC
123 AAATCAAGAGGACATTTCTATAAGCATTCAAATT-GGACGAAATGGAATGTCATGCCAAACTACC
* * *
29435433 CAACCAAACTGCCCTTCCCAA-ATTTGATTGAATGCAACAA-TAAGAGGACATTTCTATAAGCAC
187 CAGCCAAACAGCCC-TGCCAATATTTGATTGAATGCAA-AATTAAGAGGACATTTCTATAAGCA-
* * * * ** * * * * *
29435496 TCAAATTGGGATGAAATAGACGGTCATGCCAAACTACCCAGCCAAATTGCCATGCTAA-AATTGA
249 TTAAATT-GGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACAGCCCTTCCAATATTTGC
* * *
29435560 TTGAATGCAAAATTAATAGGAT-ATTTCTATAAGCATTCAAATTGGGACAAAATGGACTGTTATG
313 TTGAATGCAAAATTAAGA-G-TCATTTCTATAAACATTCAAATTGGGACAAAATGGACTGTCATG
* **
29435624 CAAAACTAC
376 CCAAACTGT
* * * * * * *
29435633 CCAGCCAAACTACCTTGGCATTGATTGAATGCCAAATTCAGAGGACAATTCTAAAAGCATTCAAA
1 CCTGCCAAA--A--TT---A---AATGAATGCAAAATT-AAAAGACATTTCTATAAGCATTCAAA
*** * * * *
29435698 TTGGGACGAAATGGATTGTCATGCCAAACTATCTGACCAAATTACGTAGCCAAATTGCCCAGCCC
55 TT-GGACGAAATGGAAAATCAAGCC-AA--A-CT-ACC------C--AGCTAAACTGCCCTG-CC
29435763 AA-ATTTGATTGAATGCAAAA-CTAAGAGGA-A--TC-----G-----AAA-TGGAC-------A
105 AATATTTGATTGAATGCAAAATC-AAGAGGACATTTCTATAAGCATTCAAATTGGACGAAATGGA
* * * **
29435805 A--TCATGCAAAAATACCCAGCCAAATTTC-CCTACC--AAA--ATTTGATTGAATGCAAAATTA
169 ATGTCATGCCAAACTACCCAGCCAAA---CAGC--CCTGCCAATATTTGATTGAATGCAAAATTA
* * * * *
29435863 AGAGGACATTTCTATAAGTAGTCAAATTGAGACGAAATGGACTGTCAAGCCAAACTTCCAAGCCA
229 AGAGGACATTTCTATAAGCA-TTAAATTG-GACGAAATGGACTGTCATGCCAAACTACCCAGCCA
* * * * * * *
29435928 AACGGCCCTGCCAATATTTGATTGAATGAAAAATTAAGAAGTCATTTCTATAAGCATTGAAATTT
292 AACAGCCCTTCCAATATTTGCTTGAATGCAAAATTAAG-AGTCATTTCTATAAACATTCAAATTG
* * **
29435993 GGACGAAATGGACGGTCATGCCAAACTAC
356 GGACAAAATGGACTGTCATGCCAAACTGT
* * * * *
29436022 CCAGCCAAACTACCCTGCCTTAATTTGAGTAAATGAAAAATTAATATGACATTTCTGTAAG-AGT
1 CCTGCCAAA--A-------TTAA----A-TGAATGCAAAATTAA-AAGACATTTCTATAAGCA-T
* * * * * * * * * *
29436086 TCAAATATGGATGAAATGGACAGTCATGCCAAACTACCCAGCCAAATTTCCCAGCCAAAATTTTA
50 TCAAAT-TGGACGAAATGGAAAATCAAGCCAAACTACCCAGCTAAACTGCCCTGCCAATATTTGA
* * * * * * *
29436151 TTGAATGCAAAATTAAGAGGACATTTCGATAAACTTTCAAATTTTGACGAAATGCACTGTCATGC
114 TTGAATGCAAAATCAAGAGGACATTTCTATAAGCATTCAAA-TTGGACGAAATGGAATGTCATGC
* * ** * * *
29436216 CAAACTACCCAACCAACCTTCTCTGCTGAA-A-TTGATTGAATGCAAAATTAAGAGAACATTTCT
178 CAAACTACCCAGCCAAACAGCCCTGC-CAATATTTGATTGAATGCAAAATTAAGAGGACATTTCT
* * * * * * * **
29436279 ATAAGCATTCAAATTGGGACGAAATGAACTGCCACGCCAAACTACCTAGGCAAACTGCTCGACCA
242 ATAAGCATT-AAATT-GGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACAGCCCTTCCA
** * * * * * * *
29436344 ATATTTTATTGAATGAAAAATTATGAGGACATTT-TAATAAACATTCATATTAGGACGAAATGAA
305 ATATTTGCTTGAATGCAAAATTAAGA-GTCATTTCT-ATAAACATTCAAATTGGGACAAAATGGA
*
29436408 CTGTCATGCCAAACTAT
368 CTGTCATGCCAAACTGT
** * * *
29436425 CAAGCCAAACTACCCTGGGAATATTTGATTGATTGTAAAATTAAGAGGACATTTCTATAAGCATT
1 CCTGCCAAA--A---T--TAA-A--TGA---A-TGCAAAATTAA-AAGACATTTCTATAAGCATT
* * ** *
29436490 CAAATTGGGACAAAAT-G-AACT-GTGCCAAACTA--C--CT----TG---T--CAAAATTTGAT
51 CAAATT-GGACGAAATGGAAAATCAAGCCAAACTACCCAGCTAAACTGCCCTGCCAATATTTGAT
* * * * *
29436539 TGAATGTAAAATTAAGAGGACATTACTATAAACATTCAAATTGGTACGAAATGGACTGTCATGCC
115 TGAATGCAAAATCAAGAGGACATTTCTATAAGCATTCAAATTGG-ACGAAATGGAATGTCATGCC
* * * * * *
29436604 AAACTACCTAGCCAAACTA-ACATGCC-ATAATTGATTGAATGCAAAATTACGAGAACATTTCTA
179 AAACTACCCAGCCAAAC-AGCCCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTA
*
29436667 TAAGCATTAAATTTGGGACGAAATGGACTGTCATGCCAAACT-------------GCCC-TACAA
243 TAAGCATTAAA-TT-GGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACAGCCCTTCCAA
* * * * * * * ** **
29436718 AATTTGATTGAATGCAAAATTAAGAGGAT-ATTTCCATAAGCGTTTAAATTAGGATGAAATAAAC
306 TATTTGCTTGAATGCAAAATTAAGA-G-TCATTTCTATAAACATTCAAATTGGGACAAAATGGAC
* * **
29436782 TATCATGCCACACTAC
369 TGTCATGCCAAACTGT
* * * * *
29436798 CCTGCCAAACTTGATTGAATGCTAAATTAAGAGAACATTTCTATAAGCATTCAAATTGCGACGAA
1 CCTGCCAAAATTAAATGAATGCAAAATTAAAAG-ACATTTCTATAAGCATTCAAATTG-GACGAA
* * * * * *
29436863 ATAGACAATCAAGCCAAACTACCCAG-TCAAACTGTCCTGCGAATATTTGATTGAATGCACAATT
64 ATGGAAAATCAAGCCAAACTACCCAGCT-AAACTGCCCTGCCAATATTTGATTGAATGCAAAATC
* * * * * * *
29436927 AAGAGGCCATTTCTATAAACATTCAAATTAAGACGAAATGG-ACGTTCATGCCAAAATAACAAGC
128 AAGAGGACATTTCTATAAGCATTCAAATT-GGACGAAATGGAATG-TCATGCCAAACTACCCAGC
* * * *
29436991 CAAACTA-TCTTGTCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCT-TAAAGCGTTCAA
191 CAAAC-AGCCCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTAT-AAGCATT-AA
* * * * * *
29437054 ATTTGGACAAAATGGACTTTTATGCCAAATTACCCTG-C---CA--------AA-ATTTGATTGA
253 A-TTGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACAGCCCTTCCAATATTTGCTTGA
* * * * * * * * *
29437106 ATGTAAAATTAAGAGGACATTTCTATAGACATTCAAATTGGTACGAAGTTGACTATAATGCCAAA
317 ATGCAAAATTAAGA-GTCATTTCTATAAACATTCAAATTGGGACAAAATGGACTGTCATGCCAAA
29437171 CTACCCAGCCAAACT
381 CT-----G------T
* * * * * * *
29437186 GCTCTACCAAAATTTATTGAATGCAAAATTAAGAAGACATTTTTATAAGTAATAAAATTAGGACG
1 -C-CTGCCAAAATTAAATGAATGCAAAATTAA-AAGACATTTCTATAAGCATTCAAATT-GGACG
* *** * * * * * *
29437251 AAATTGACTGTCATGCCAAACTACCCAGCCAAACTTCACTGCCAAAATTTGATTAAATGCAAAAT
62 AAATGGAAAATCAAGCCAAACTACCCAGCTAAACTGCCCTGCCAATATTTGATTGAATGCAAAAT
* * * * * * * * * ** * *
29437316 TAAGAAGACAATTCTATAATCGTTTAAATTGGGACTAAATGGACTGTCATGACAAACTGTCTAAC
127 CAAGAGGACATTTCTATAAGCATTCAAATT-GGACGAAATGGAATGTCATGCCAAACTACCCAGC
*** * * * * * * *
29437381 CAAACTTTCCTACCAAAATTTGATTGAATTCGAACTTACGAGGACATTTCTATAAACATTCAAAT
191 CAAACAGCCCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATT-AAAT
* * * ** * * *
29437446 TAGGACGAAATTGACTGTCATGGCAAACTACCCAACCAAACTA-CGGTGCCAA-AATTGATTGAA
255 T-GGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAAC-AGCCCTTCCAATATTTGCTTGAA
* * *
29437509 TGCAAAATTAAGAGAACATTTCTATAAGA-ATTCAAATTGGGACGAAATGGACGGTCATGCCAAA
318 TGCAAAATTAAGAG-TCATTTCTATAA-ACATTCAAATTGGGACAAAATGGACTGTCATGCCAAA
29437573 CTACCCAGCCAAAAT
381 CT-----G------T
* * * * *
29437588 ACCATGCCAAAATTGATTGAATGCAAAATTAAGAGAACATTTCTATAAGAATTCAAATTGGGACA
1 -CC-TGCCAAAATTAAATGAATGCAAAATTAAAAG-ACATTTCTATAAGCATTCAAATT-GGACG
*** * * * * *
29437653 AAATGGACGGTCATGCCAAACTACCCAACCAAACTGCCATGCTACA-A-TTGATTGAATGCAAAA
62 AAATGGAAAATCAAGCCAAACTACCCAGCTAAACTGCCCTGCCA-ATATTTGATTGAATGCAAAA
* * * * * *
29437716 TTAAGAGGACATTTCTATAAGCATTCAAATTGGTACGAAATTGACTGTCATACTAAACTGCCCAG
126 TCAAGAGGACATTTCTATAAGCATTCAAATTGG-ACGAAATGGAATGTCATGCCAAACTACCCAG
** * * * * *
29437781 CCAAATTGCCCTACCAA-AATTGATT-AATGCAAATTTTAGAGGGCATTTCTATAAGCATTTAAA
190 CCAAACAGCCCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCA-TTAAA
* * * * * * **
29437844 TAGGGACAAAATGGATTGACACGCCTAACTACTGAGCCAAA-A----TT----TGA-TTGC----
254 T-TGGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACAGCCCTTCCAAT-ATTTGCTTGA
* * * * *
29437895 ATGCATAATTAAGAGGACATTTCTATAATA-GTTCAAATTGGGACGAAGA-GGACAGTCATGCAA
317 ATGCAAAATTAAGA-GTCATTTCTATAA-ACATTCAAATTGGGAC-AAAATGGACTGTCATG---
* *
29437958 AAATACCCAACCAAATTT
376 ------CC-A--AACTGT
*** * * *
29437976 CCTTGCCAAAATTTGTTTAATTGC-AAATTAAAAATGACATTTCGATACA-CAATCAAATTGGGA
1 CC-TGCCAAAATTAAATGAA-TGCAAAATT-AAAA-GACATTTCTATA-AGCATTCAAATT-GGA
* *** * * * * * *
29438039 TGAAATGGACTGTCATGCAAAACAACCCAGCCAAACTTCCCTGCCAA-AATTGATTGAATGCAAA
60 CGAAATGGAAAATCAAGCCAAACTACCCAGCTAAACTGCCCTGCCAATATTTGATTGAATGCAAA
* * * *
29438103 A-CTAAGAGGACATTTCTGTAAACATTCAAATTGGTACGAAAT-TAATAGTCATGCCAAACAACC
125 ATC-AAGAGGACATTTCTATAAGCATTCAAATTGG-ACGAAATGGAAT-GTCATGCCAAACTACC
* ** * * *
29438166 CAACCAAATTGCCCTGCCAATATTTGATTGTATGCAAAATTAAGAGGACATTTCTATAGGTATTC
187 CAGCCAAACAGCCCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATT-
** *
29438231 AAATTAGGACGAAATAAACTGTCATGCCAAACAACCCAGCCAAACAGCCCTTCCAATATTTGCTT
251 AAATT-GGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACAGCCCTTCCAATATTTGCTT
* * *
29438296 GAATGAAAAATTAAGTAGTCATTTCTATAAGCATT-ATAATTGGGACGAAATGGACTGTCATGCC
315 GAATGCAAAATTAAG-AGTCATTTCTATAAACATTCA-AATTGGGACAAAATGGACTGTCATGCC
29438360 AAACTGT
378 AAACTGT
* * *
29438367 TCTACCAAAATTAAATGAACGCAAAATTAAAAGGACATTTCTATAAGCATTCAAATTGGTACGAA
1 CCTGCCAAAATTAAATGAATGCAAAATTAAAA-GACATTTCTATAAGCATTCAAATTGG-ACGAA
* * * * *
29438432 ATGGAAAATCATA-CCAAACTACTCAGCTAAATTGTCCTGCCAATATTTGATTTAATGTAAAATC
64 ATGGAAAATCA-AGCCAAACTACCCAGCTAAACTGCCCTGCCAATATTTGATTGAATGCAAAATC
* * *
29438496 AAGAGGACATTTCTATAGGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCTAGCC
128 AAGAGGACATTTCTATAAGCATTCAAATT-GGACGAAATGGAATGTCATGCCAAACTACCCAGCC
* *** *
29438561 AAACAGCCCTGCCAATGTTTGATTGAATGCAAAATTAAGAACTCATTTCTATAAGCATTATACTT
192 AAACAGCCCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTA-AATT
* * *
29438626 GGGACGAAATGGATTGTCATGCCAAACTACCCCGCCAAACTA--CCTTGCCAATATTTGATTGAA
256 -GGACGAAATGGACTGTCATGCCAAACTACCCAGCCAAAC-AGCCCTT-CCAATATTTGCTTGAA
* * * * * *
29438689 TGCAAAATTAAGAGGACATTTCTATAAACATTCAAATTTGGACAAAATGAATTGTCGTGACAAAC
318 TGCAAAATTAAGA-GTCATTTCTATAAACATTCAAATTGGGACAAAATGGACTGTCATGCCAAAC
29438754 T-T
382 TGT
* * * * * *
29438756 CCATGCCAAAATTGATTGAATGCAAAATTAAAATGACATTTTTATAAGCACTAAAATTGGGACAA
1 CC-TGCCAAAATTAAATGAATGCAAAATTAAAA-GACATTTCTATAAGCATTCAAATT-GGACGA
** * *
29438821 AATGGACTATCAAGCCAAACTACCCAGCTAAACTGCCCTGCCAATATTTTATTGAATGCAAAATT
63 AATGGAAAATCAAGCCAAACTACCCAGCTAAACTGCCCTGCCAATATTTGATTGAATGCAAAATC
*
29438886 AAGAGGACATTTCTATAAGCATTCAAATTGGGCTGAAATGGAATGTCATGCCAAACTACCCAGCC
128 AAGAGGACATTTCTATAAGCATTCAAATTGGAC-GAAATGGAATGTCATGCCAAACTACCCAGCC
* * *
29438951 AAACAACCTTGCTAGA-ATTTGATTGAATGCAAAATTAAGAGGATC-TTTCTATAAGCATTAAAA
192 AAACAGCCCTGCCA-ATATTTGATTGAATGCAAAATTAAGAGGA-CATTTCTATAAGCATT-AAA
* * * * * *
29439014 TTGGAACAAAATGGACTGTCATGCCAAACTATCCAGCCATACTGCCCTGCCAAAATTT-CATTGA
254 TTGG-ACGAAATGGACTGTCATGCCAAACTACCCAGCCAAACAGCCCTTCCAATATTTGC-TTGA
* * * *
29439078 ATTCAAAATTAAGAGAAT-TTTTTTATAAACATTCAAATTGGGACAAAATGGACTATCATGCCAA
317 ATGCAAAATTAAGAG--TCATTTCTATAAACATTCAAATTGGGACAAAATGGACTGTCATGCCAA
29439142 ACTGT
380 ACTGT
** *
29439147 CCTGCCAAAATTTGATGGAATGCAAAATTAAGAAGAGATTTCTATAAGCATTCAAATTAGGACGA
1 CCTGCCAAAATTAAAT-GAATGCAAAATTAA-AAGACATTTCTATAAGCATTCAAATT-GGACGA
* * * * * *
29439212 AATGG---A-CTA---TAA-T-----GTTGAAC-GACCCAGCCAAAATTTGATTGAATGCAAAAT
63 AATGGAAAATCAAGCCAAACTACCCAGCTAAACTG-CCCTGCCAATATTTGATTGAATGCAAAAT
* * * * * * * * *
29439263 TAAGAGGACATTTCTATAAGTATTCAAAATTGGGTCAAAATGTACTGTAATGTCAAACTACCCAA
127 CAAGAGGACATTTCTATAAGCATTC-AAATT-GGACGAAATGGAATGTCATGCCAAACTACCCAG
* * * * * * *
29439328 TCAAACTGCCCTGCCAAAATTAGATTGAATGTAAAATTAA-AAGAAATTTCTATAAGCATTAAAA
190 CCAAACAGCCCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATT-AAA
* * * * *
29439392 TTGGGATGAAATTGACTATCATGCTAAACTACCCAGCAAAACTACCTAGCAAAACTTACTTGCCA
254 TT-GGACGAAATGGACTGTCATGCCAAACTACCCAGC-CAA--A-C-AGC----C---CTT-CCA
* * * * * *
29439457 AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTAAAAATGGGACGAAATGTAC
305 ATATTTGCTTGAATGCAAAATTAAGA-GTCATTTCTATAAACATTCAAATTGGGACAAAATG---
*
29439522 AGTCACAGGAAACTACATAGCCAAA-TAG-
366 -G--AC-TG----T-CAT-GCCAAACT-GT
* ** * * *
29439550 CCATACCAAAATT-GGTGGAATTCAAAATT--AAGACATTTCTATATGTATTCAAATTGGGACGA
1 CC-TGCCAAAATTAAAT-GAATGCAAAATTAAAAGACATTTCTATAAGCATTCAAATT-GGACGA
* * * *
29439612 AAT-G--CA-CATG-C--A-T-----G-TAAAACTGCCCTGCCAAAATTTGATTGAAAGCAAAAT
63 AATGGAAAATCAAGCCAAACTACCCAGCT-AAACTGCCCTGCCAATATTTGATTGAATGCAAAAT
* * * *
29439663 TAAGTA-GACATTTTTATAAGGATTCAAATTGGGACGAAATGGACTGTCATGCCAAACTACCCAG
127 CAAG-AGGACATTTCTATAAGCATTCAAATT-GGACGAAATGGAATGTCATGCCAAACTACCCAG
** * * * *
29439727 -CAAATTTGTCCTACCAAAATTTGATT-AGATTCAAAATTAAGAGGACATTTCTATAAGCATTCA
190 CCAAA-CAGCCCTGCCAATATTTGATTGA-ATGCAAAATTAAGAGGACATTTCTATAAGCATT-A
* *
29439790 AATTGGGACGAAATGTACTATCATGCCAAACT
252 AATT-GGACGAAATGGACTGTCATGCCAAACT
29439822 GCCCTATCGG
Statistics
Matches: 3947, Mismatches: 701, Indels: 660
0.74 0.13 0.12
Matches are distributed among these distances:
358 2 0.00
359 39 0.01
360 2 0.00
361 2 0.00
362 9 0.00
363 3 0.00
364 1 0.00
365 1 0.00
366 1 0.00
368 1 0.00
370 2 0.00
373 74 0.02
374 4 0.00
375 84 0.02
376 63 0.02
377 68 0.02
378 107 0.03
379 66 0.02
380 41 0.01
381 2 0.00
382 2 0.00
383 5 0.00
384 2 0.00
385 1 0.00
386 7 0.00
387 229 0.06
388 264 0.07
389 171 0.04
390 852 0.22
391 132 0.03
392 12 0.00
393 54 0.01
394 11 0.00
395 53 0.01
396 13 0.00
397 8 0.00
398 16 0.00
399 349 0.09
400 166 0.04
401 168 0.04
402 405 0.10
403 367 0.09
404 47 0.01
405 2 0.00
409 1 0.00
411 2 0.00
412 32 0.01
413 1 0.00
414 3 0.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (384 bp):
CCTGCCAAAATTAAATGAATGCAAAATTAAAAGACATTTCTATAAGCATTCAAATTGGACGAAAT
GGAAAATCAAGCCAAACTACCCAGCTAAACTGCCCTGCCAATATTTGATTGAATGCAAAATCAAG
AGGACATTTCTATAAGCATTCAAATTGGACGAAATGGAATGTCATGCCAAACTACCCAGCCAAAC
AGCCCTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTAAATTGGACG
AAATGGACTGTCATGCCAAACTACCCAGCCAAACAGCCCTTCCAATATTTGCTTGAATGCAAAAT
TAAGAGTCATTTCTATAAACATTCAAATTGGGACAAAATGGACTGTCATGCCAAACTGT
Found at i:29438813 original size:87 final size:88
Alignment explanation
Indices: 29438661--29438824 Score: 231
Period size: 87 Copynumber: 1.9 Consensus size: 88
29438651 ACTACCCCGC
* * * * *
29438661 CAAACTACCTTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAAAT
1 CAAACTACCATGCCAATAATTGATTGAATGCAAAATTAAAAGGACATTTCTATAAACACTAAAAT
*
29438726 TTGGACAAAATGAATTGTCGTGA
66 TGGGACAAAATGAATTGTCGTGA
* * * *
29438749 CAAACTTCCATGCCAA-AATTGATTGAATGCAAAATTAAAATGACATTTTTATAAGCACTAAAAT
1 CAAACTACCATGCCAATAATTGATTGAATGCAAAATTAAAAGGACATTTCTATAAACACTAAAAT
29438813 TGGGACAAAATG
66 TGGGACAAAATG
29438825 GACTATCAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
87 52 0.79
88 14 0.21
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (88 bp):
CAAACTACCATGCCAATAATTGATTGAATGCAAAATTAAAAGGACATTTCTATAAACACTAAAAT
TGGGACAAAATGAATTGTCGTGA
Found at i:29438840 original size:87 final size:88
Alignment explanation
Indices: 29438659--29438844 Score: 221
Period size: 87 Copynumber: 2.1 Consensus size: 88
29438649 AAACTACCCC
* * * * *
29438659 GCCAAACTACCTTGCCAATATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAACATTCAA
1 GCCAAACTACCATGCCAATAATTGATTGAATGCAAAATTAAAAGGACATTTCTATAAACACTAAA
* * * **
29438724 ATTTGGACAAAATGAATTGTCGT
66 ATTGGGACAAAATGAACTATCAA
* * * * *
29438747 GACAAACTTCCATGCCAA-AATTGATTGAATGCAAAATTAAAATGACATTTTTATAAGCACTAAA
1 GCCAAACTACCATGCCAATAATTGATTGAATGCAAAATTAAAAGGACATTTCTATAAACACTAAA
*
29438811 ATTGGGACAAAATGGACTATCAA
66 ATTGGGACAAAATGAACTATCAA
29438834 GCCAAACTACC
1 GCCAAACTACC
29438845 CAGCTAAACT
Statistics
Matches: 80, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
87 65 0.81
88 15 0.19
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (88 bp):
GCCAAACTACCATGCCAATAATTGATTGAATGCAAAATTAAAAGGACATTTCTATAAACACTAAA
ATTGGGACAAAATGAACTATCAA
Found at i:29439193 original size:88 final size:87
Alignment explanation
Indices: 29439041--29439304 Score: 291
Period size: 88 Copynumber: 3.0 Consensus size: 87
29439031 GTCATGCCAA
* * * *
29439041 ACTATCCA-GCCATACTGCCCTGCCAAAATTTCATTGAATTCAAAATTAAG-AGAATTTTTTTAT
1 ACTAT-CATGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAAGAA--TTTCTAT
*
29439104 AAACATTCAAATTGGGACAAAATGG
63 AAGCATTCAAATTGGGACAAAATGG
* *
29439129 ACTATCATGCCAAACTGTCCTGCCAAAATTTGATGGAATGCAAAATTAAGAAGAGATTTCTATAA
1 ACTATCATGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAAGA-ATTTCTATAA
* *
29439194 GCATTCAAATTAGGACGAAATGG
65 GCATTCAAATTGGGACAAAATGG
* *** * *
29439217 ACTATAATGTTGAAC-GACCCAGCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATA
1 ACTATCATGCCAAACTG-CCCTGCCAAAATTTGATTGAATGCAAAATTAAGAAGA-ATTTCTATA
* *
29439281 AGTATTCAAAATTGGGTCAAAATG
64 AGCATTC-AAATTGGGACAAAATG
29439305 TACTGTAATG
Statistics
Matches: 149, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
87 3 0.02
88 129 0.87
89 16 0.11
90 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (87 bp):
ACTATCATGCCAAACTGCCCTGCCAAAATTTGATTGAATGCAAAATTAAGAAGAATTTCTATAAG
CATTCAAATTGGGACAAAATGG
Found at i:29439433 original size:13 final size:13
Alignment explanation
Indices: 29439417--29439447 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
29439407 CTATCATGCT
29439417 AAACTACCCAGCA
1 AAACTACCCAGCA
*
29439430 AAACTACCTAGCA
1 AAACTACCCAGCA
29439443 AAACT
1 AAACT
29439448 TACTTGCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.32, G:0.06, T:0.13
Consensus pattern (13 bp):
AAACTACCCAGCA
Found at i:29439956 original size:137 final size:137
Alignment explanation
Indices: 29439699--29439958 Score: 373
Period size: 137 Copynumber: 1.9 Consensus size: 137
29439689 AATTGGGACG
* * * *
29439699 AAATGGACTGTCATGCCAAACTACCCAGCAAATTTGTCCTACCAAAATTTGATTAGATTCAAAAT
1 AAATGGACAGTCATGCCAAACTACCCAGCAAATCTGTCCTACCAAAATTGGATTAGATGCAAAAT
* * *
29439764 TAAGAGGACATTTCTATAAGCATTCAAATTGGGACGAAATGTACTATCATGCCAAACTGCCCTAT
66 TAAGAGAACATTTCTATAAGCATTCAAATTGGGACGAAATGGACTATCATCCCAAACTGCCCTAT
29439829 CGGGAGA
131 CGGGAGA
* *
29439836 AAATGGACAGTCATGCCAAATTACCCAGCCAAA-CTG-CCTTGCCAAAATTGGATT-GAATGCAA
1 AAATGGACAGTCATGCCAAACTACCCAG-CAAATCTGTCC-TACCAAAATTGGATTAG-ATGCAA
* *
29439898 AATTAATAGAACATTTCTATAAGCATTCAAATTGGGACGAAATGGACTGTCATCCCAAACT
63 AATTAAGAGAACATTTCTATAAGCATTCAAATTGGGACGAAATGGACTATCATCCCAAACT
29439959 ACCTGGTCAA
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
136 3 0.03
137 102 0.94
138 4 0.04
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (137 bp):
AAATGGACAGTCATGCCAAACTACCCAGCAAATCTGTCCTACCAAAATTGGATTAGATGCAAAAT
TAAGAGAACATTTCTATAAGCATTCAAATTGGGACGAAATGGACTATCATCCCAAACTGCCCTAT
CGGGAGA
Found at i:29440050 original size:46 final size:46
Alignment explanation
Indices: 29439979--29440080 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 46
29439969 ACTACCCTTC
* * * * * *
29439979 TAAAATTTGATTGAATTCAAGATTAATAGTACATTTCTATAAGCAT
1 TAAAATTTGATTGAATGCAAAATTAAGAGAAAATTTCTATAAGAAT
* *
29440025 TAAAATTTTATTTAATGCAAAATTAAGAGAAAATTTCTATAAGAAT
1 TAAAATTTGATTGAATGCAAAATTAAGAGAAAATTTCTATAAGAAT
*
29440071 TCAAATTTGA
1 TAAAATTTGA
29440081 AAAAAAATGG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (46 bp):
TAAAATTTGATTGAATGCAAAATTAAGAGAAAATTTCTATAAGAAT
Found at i:29440151 original size:147 final size:147
Alignment explanation
Indices: 29439891--29440178 Score: 337
Period size: 147 Copynumber: 2.0 Consensus size: 147
29439881 AATTGGATTG
* * * ** **
29439891 AATGCAAAATTAATAGAACATTTCTATAAGCATTCAAATTGGGACGAAATGGACTGTCATCCCAA
1 AATGCAAAATTAAGAGAAAATTTCTATAAGAATTCAAATTGAAAAAAAATGGACTGTCATCCCAA
**** * * * * * *
29439956 ACTACCTGGTCAAACTACCCTTCTAAAATTTGATTGAATTCAAGATTAATAGTACATTTCTATAA
66 ACTACCCAACCAAACTACCCTTCCAAAATTTGATTAAATGCAAAATTAAGAGAACATTTCTATAA
*
29440021 GCATTAAAATTTTATTT
131 GAATTAAAATTTTATTT
*
29440038 AATGCAAAATTAAGAGAAAATTTCTATAAGAATTCAAATTTGAAAAAAAATGGACTGTCATGCCA
1 AATGCAAAATTAAGAGAAAATTTCTATAAGAATTCAAA-TTGAAAAAAAATGGACTGTCATCCCA
** * *
29440103 AACTACCCAACCAAA-TTGCCTTGCCAAAA-TTGTTTAAATGCAAAATTAAGAGAACATTTTTAT
65 AACTACCCAACCAAACTACCCTT-CCAAAATTTGATTAAATGCAAAATTAAGAGAACATTTCTAT
29440166 AAGAATTAAAATT
129 AAGAATTAAAATT
29440179 GGGACAAAAT
Statistics
Matches: 116, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
147 79 0.68
148 37 0.32
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (147 bp):
AATGCAAAATTAAGAGAAAATTTCTATAAGAATTCAAATTGAAAAAAAATGGACTGTCATCCCAA
ACTACCCAACCAAACTACCCTTCCAAAATTTGATTAAATGCAAAATTAAGAGAACATTTCTATAA
GAATTAAAATTTTATTT
Found at i:29440241 original size:101 final size:101
Alignment explanation
Indices: 29440026--29440809 Score: 786
Period size: 100 Copynumber: 7.8 Consensus size: 101
29440016 TATAAGCATT
* * * * * ** *
29440026 AAAATTTTATTTAATGCAAAATTAAGAGAAAATTTCTATAAGAATTCAAATTTGAAAAAAAATGG
1 AAAATTTGATTAAATGCAAAATTAAGAGAACATTTTTATAAGAATT-AAAATTGGGACAAAATGG
* * *
29440091 ACTGTCATGCCAAACTACCCAACCAAATTGCCTTGCC
65 ACTGTCATGCCAAACTACCCAGCCAAACTGCCTTACC
*
29440128 AAAA-TTGTTTAAATGCAAAATTAAGAGAACATTTTTATAAGAATTAAAATTGGGACAAAATGGA
1 AAAATTTGATTAAATGCAAAATTAAGAGAACATTTTTATAAGAATTAAAATTGGGACAAAATGGA
* * *
29440192 CTGTCACGCAAAACTACCCAGCCAAACTACCTTACC
66 CTGTCATGCCAAACTACCCAGCCAAACTGCCTTACC
* *
29440228 AAAATTTGATTAAATGCAAAATTAAGATG-ACATTTATATAAGAA-TACAAATTGGGACGAAATG
1 AAAATTTGATTAAATGCAAAATTAAGA-GAACATTTTTATAAGAATTA-AAATTGGGACAAAATG
* * * * *
29440291 GATTGTAATGCCAAACTACCCAACCAAATTGCC-CAGCC
64 GACTGTCATGCCAAACTACCCAGCCAAACTGCCTTA-CC
29440329 AAAA-TTGATTAAATGCAAAATTAAGAGAACATTTTTATAAGAATTAAAATTGGGACAAAATGGA
1 AAAATTTGATTAAATGCAAAATTAAGAGAACATTTTTATAAGAATTAAAATTGGGACAAAATGGA
* *
29440393 CTGTCATGCAAAACTACCCAGCCAAACTACCTTACC
66 CTGTCATGCCAAACTACCCAGCCAAACTGCCTTACC
* * * * *
29440429 AAAATTTGATTGAATGCAAAATTAAGAGGAA-ATTTATATAGGCA-TACAAATTGGGACGAAATG
1 AAAATTTGATTAAATGCAAAATTAAGA-GAACATTTTTATAAGAATTA-AAATTGGGACAAAATG
* * * **
29440492 AACTGTCATGCCAAGCTACCCAGCAAAACT-ATTCTACC
64 GACTGTCATGCCAAACTACCCAGCCAAACTGCCT-TACC
** ** * * * *
29440530 AAAATTT-ATTAAATGCAAAATTAAGAGTAA-ATTTCCATAATCATTCAAATTAGGAGAAAATAG
1 AAAATTTGATTAAATGCAAAATTAAGAG-AACATTTTTATAAGAATTAAAATTGGGACAAAATGG
* * *
29440593 ACTGTCGTGCCAAACTATCCAACCAAACTGCCTTACC
65 ACTGTCATGCCAAACTACCCAGCCAAACTGCCTTACC
* ** * * * *** *
29440630 AAAATTTGATTGAATGCAAAATTTGGAGGACATTTCTT-TAAGCATTTAAATTGGGATGGAATAG
1 AAAATTTGATTAAATGCAAAATTAAGAGAACATTT-TTATAAGAATTAAAATTGGGACAAAATGG
* * * *
29440694 ACTTTCATGCCAAACTACCCAGCAAAATTGGCC--AGC
65 ACTGTCATGCCAAACTACCCAGCCAAACT-GCCTTACC
* * * * * *
29440730 AAAAATTGATTGAATGCAAAATTAAGAGGACATTTTTATAAGCATTCAAATTAGGG-CGAAATGG
1 AAAATTTGATTAAATGCAAAATTAAGAGAACATTTTTATAAGAATTAAAATT-GGGACAAAATGG
29440794 ACTGTCATGCCAAACT
65 ACTGTCATGCCAAACT
29440810 GTCTTGTCAA
Statistics
Matches: 571, Mismatches: 91, Indels: 42
0.81 0.13 0.06
Matches are distributed among these distances:
99 4 0.01
100 283 0.50
101 273 0.48
102 11 0.02
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (101 bp):
AAAATTTGATTAAATGCAAAATTAAGAGAACATTTTTATAAGAATTAAAATTGGGACAAAATGGA
CTGTCATGCCAAACTACCCAGCCAAACTGCCTTACC
Found at i:29440372 original size:201 final size:201
Alignment explanation
Indices: 29440026--29440900 Score: 938
Period size: 201 Copynumber: 4.4 Consensus size: 201
29440016 TATAAGCATT
* * * * * ** **
29440026 AAAATTTTATTTAATGCAAAATTAAGAGAAAATTTCTATAAGAATTCAAATTTGAAAAAAAATGG
1 AAAATTTGATTGAATGCAAAATTAAGAGGAAATTTATATAAGAATACAAA-TTGGGACGAAATGG
* ** *
29440091 ACTGTCATGCCAAACTACCCAACCAAATTGCCTTGCCAAAATTGTTTAAATGCAAAATTAAGAGA
65 ACTGTCATGCCAAACTACCCAACAAAATTGCCCAGCCAAAATTGATTAAATGCAAAATTAAGAGA
*
29440156 ACATTTTTATAAGAATTAAAATTGGGACAAAATGGACTGTCACGCAAAACTACCCAGCCAAACTA
130 ACATTTTTATAAGAATTAAAATTGGGACAAAATGGACTGTCATGCAAAACTACCCAGCCAAACTA
29440221 CCTTACC
195 CCTTACC
* * *
29440228 AAAATTTGATTAAATGCAAAATTAAGATGACATTTATATAAGAATACAAATTGGGACGAAATGGA
1 AAAATTTGATTGAATGCAAAATTAAGAGGAAATTTATATAAGAATACAAATTGGGACGAAATGGA
* * *
29440293 TTGTAATGCCAAACTACCCAACCAAATTGCCCAGCCAAAATTGATTAAATGCAAAATTAAGAGAA
66 CTGTCATGCCAAACTACCCAACAAAATTGCCCAGCCAAAATTGATTAAATGCAAAATTAAGAGAA
29440358 CATTTTTATAAGAATTAAAATTGGGACAAAATGGACTGTCATGCAAAACTACCCAGCCAAACTAC
131 CATTTTTATAAGAATTAAAATTGGGACAAAATGGACTGTCATGCAAAACTACCCAGCCAAACTAC
29440423 CTTACC
196 CTTACC
* * *
29440429 AAAATTTGATTGAATGCAAAATTAAGAGGAAATTTATATAGGCATACAAATTGGGACGAAATGAA
1 AAAATTTGATTGAATGCAAAATTAAGAGGAAATTTATATAAGAATACAAATTGGGACGAAATGGA
* * * * *
29440494 CTGTCATGCCAAGCTACCCAGCAAAACTAT-TCTA-CCAAAATTTATTAAATGCAAAATTAAGAG
66 CTGTCATGCCAAACTACCCAACAAAA-T-TGCCCAGCCAAAATTGATTAAATGCAAAATTAAGAG
** ** * * * * * * * *
29440557 TAA-ATTTCCATAATCATTCAAATTAGGAGAAAATAGACTGTCGTGCCAAACTATCCAACCAAAC
129 -AACATTTTTATAAGAATTAAAATTGGGACAAAATGGACTGTCATGCAAAACTACCCAGCCAAAC
*
29440621 TGCCTTACC
193 TACCTTACC
** * * * * ** * * *
29440630 AAAATTTGATTGAATGCAAAATTTGGAGGACATTTCTTTAAGCATTTAAATTGGGATGGAATAGA
1 AAAATTTGATTGAATGCAAAATTAAGAGGAAATTTATATAAGAATACAAATTGGGACGAAATGGA
* * * * * *
29440695 CTTTCATGCCAAACTACCCAGCAAAATTGGCCAGCAAAAATTGATTGAATGCAAAATTAAGAGGA
66 CTGTCATGCCAAACTACCCAACAAAATTGCCCAGCCAAAATTGATTAAATGCAAAATTAAGAGAA
* * * *
29440760 CATTTTTATAAGCATTCAAATTAGGG-CGAAATGGACTGTCATGCCAAACT-----G------T-
131 CATTTTTATAAGAATTAAAATT-GGGACAAAATGGACTGTCATGCAAAACTACCCAGCCAAACTA
**
29440812 -CTTGTC
195 CCTTACC
* * * * * * *
29440818 AAAATTGGATTGAATGCAAAAATAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGGA
1 AAAATTTGATTGAATGCAAAATTAAGAGGAAATTTATATAAGAATACAAATTGGGACGAAATGGA
*
29440883 CTGTCATCCCAAACTACC
66 CTGTCATGCCAAACTACC
29440901 TAGTCAAACT
Statistics
Matches: 579, Mismatches: 87, Indels: 28
0.83 0.13 0.04
Matches are distributed among these distances:
188 75 0.13
190 1 0.00
199 1 0.00
200 4 0.01
201 447 0.77
202 50 0.09
203 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (201 bp):
AAAATTTGATTGAATGCAAAATTAAGAGGAAATTTATATAAGAATACAAATTGGGACGAAATGGA
CTGTCATGCCAAACTACCCAACAAAATTGCCCAGCCAAAATTGATTAAATGCAAAATTAAGAGAA
CATTTTTATAAGAATTAAAATTGGGACAAAATGGACTGTCATGCAAAACTACCCAGCCAAACTAC
CTTACC
Found at i:29440835 original size:88 final size:87
Alignment explanation
Indices: 29440731--29440897 Score: 273
Period size: 88 Copynumber: 1.9 Consensus size: 87
29440721 TTGGCCAGCA
* * *
29440731 AAAATTGATTGAATGCAAAATTAAGAGGACATTTTTATAAGCATTCAAATTAGGG-CGAAATGGA
1 AAAATTGATTGAATGCAAAAATAAGAGGACATTTCTATAAGCATTCAAATT-GGGACAAAATGGA
*
29440795 CTGTCATGCCAAACTGTCTTGTC
65 CTGTCATCCCAAACTGTCTTGTC
29440818 AAAATTGGATTGAATGCAAAAATAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGGA
1 AAAATT-GATTGAATGCAAAAATAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGGA
29440883 CTGTCATCCCAAACT
65 CTGTCATCCCAAACT
29440898 ACCTAGTCAA
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
87 9 0.12
88 65 0.88
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (87 bp):
AAAATTGATTGAATGCAAAAATAAGAGGACATTTCTATAAGCATTCAAATTGGGACAAAATGGAC
TGTCATCCCAAACTGTCTTGTC
Found at i:29440989 original size:46 final size:46
Alignment explanation
Indices: 29440920--29441017 Score: 144
Period size: 46 Copynumber: 2.1 Consensus size: 46
29440910 TACCCTTCTA
* * * *
29440920 AAATTTGATTGAATTCAAGATTAAGAGTACATTTCTATAAGCATTC
1 AAATTTAATTGAATTCAAAATTAAGAGAAAATTTCTATAAGCATTC
29440966 AAATTTAATTGAATGT-AAAATTAAGAGAAAATTTCTATAAGCATTC
1 AAATTTAATTGAAT-TCAAAATTAAGAGAAAATTTCTATAAGCATTC
29441012 AAATTT
1 AAATTT
29441018 GAAAAAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
46 46 0.98
47 1 0.02
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (46 bp):
AAATTTAATTGAATTCAAAATTAAGAGAAAATTTCTATAAGCATTC
Found at i:29441007 original size:147 final size:148
Alignment explanation
Indices: 29440826--29441118 Score: 356
Period size: 148 Copynumber: 2.0 Consensus size: 148
29440816 TCAAAATTGG
* * ** *
29440826 ATTGAATGCAAAAATAAGAGGACATTTCTATAAGCATTCAAA-TTG-GGACAAAATGGACTGTCA
1 ATTGAATGCAAAAATAAGAGAAAATTTCTATAAGCATTCAAATTTGAAAAAAAAATGGACTGTCA
* * ** * * * * *
29440889 TCCCAAACTACCTAGTCAAACTACCCTTCTAAAATTTGATTGAATTCAAGATTAAGAGTACATTT
66 TCCAAAACTACCCAACCAAACTACCCTGC-AAAAATTGATTGAATGCAAAATTAAGAGAACATTT
* *
29440954 CTATAAGCATTCAAATTTA
130 CTATAAGAATTAAAATTTA
* *
29440973 ATTGAATGTAAAATTAAGAGAAAATTTCTATAAGCATTCAAATTTGAAAAAAAAATGGACTGTCA
1 ATTGAATGCAAAAATAAGAGAAAATTTCTATAAGCATTCAAATTTGAAAAAAAAATGGACTGTCA
* * * * *
29441038 TGCAAAACTACCCAACCAAATTGCCCTGCAAAAATTGATTGAATGCAAAATTAAGAGAATATTTT
66 TCCAAAACTACCCAACCAAACTACCCTGCAAAAATTGATTGAATGCAAAATTAAGAGAACATTTC
29441103 TATAAGAATTAAAATT
131 TATAAGAATTAAAATT
29441119 GGGACAAAAT
Statistics
Matches: 121, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
147 38 0.31
148 47 0.39
149 36 0.30
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (148 bp):
ATTGAATGCAAAAATAAGAGAAAATTTCTATAAGCATTCAAATTTGAAAAAAAAATGGACTGTCA
TCCAAAACTACCCAACCAAACTACCCTGCAAAAATTGATTGAATGCAAAATTAAGAGAACATTTC
TATAAGAATTAAAATTTA
Found at i:29441219 original size:101 final size:101
Alignment explanation
Indices: 29440966--29441763 Score: 819
Period size: 101 Copynumber: 7.9 Consensus size: 101
29440956 ATAAGCATTC
* * **
29440966 AAATTTAATTGAATGTAAAATTAAGAGAAAATTTCTATAAGCATTCAAATTTGAAAAAAAAATGG
1 AAATTTGATTGAATGCAAAATTAAGAGAAAATTTCTATAAGCATTCAAA-TTG-GGAAAAAATGG
* * * * * *
29441031 ACTGTCATGCAAAACTACCCAACCAAATTGCCCT-GCA
64 ACTGTCATGCCAAACTACCCAGCCAAACTACCTTACCA
* * * * * *
29441068 AAAATTGATTGAATGCAAAATTAAGAGAATATTTTTATAAGAATTAAAATTGGGACAAAATGGAC
1 AAATTTGATTGAATGCAAAATTAAGAGAAAATTTCTATAAGCATTCAAATTGGGAAAAAATGGAC
* * *
29441133 TGTCACGCAAAACTACCCAGCCAAACCACCTTACCA
66 TGTCATGCCAAACTACCCAGCCAAACTACCTTACCA
**
29441169 AAATTTGATTGAATG-AAGAATTAAGAGAAAATTTCTATAAGCATTCAAATTTGAAAAAAAATGG
1 AAATTTGATTGAATGCAA-AATTAAGAGAAAATTTCTATAAGCATTCAAA-TTGGGAAAAAATGG
* * * *
29441233 ACTGTCATGCCAAACTACCCAACCAAATTGCCTTGCCA
64 ACTGTCATGCCAAACTACCCAGCCAAACTACCTTACCA
* * *
29441271 AAA-TTGAGTTGAATGCAAAATTAAGAGAACAGTTT-TATAAGAATTAAAATT-GGAACAAAATG
1 AAATTTGA-TTGAATGCAAAATTAAGAGAA-AATTTCTATAAGCATTCAAATTGGGAA-AAAATG
* * *
29441333 GATTGTCACGCAAAACTACCCAGCCAAACTACCTTACCA
63 GACTGTCATGCCAAACTACCCAGCCAAACTACCTTACCA
* * * *
29441372 AAATTTGATTGAATGCAAAATTAAGAGTAAATTTCCATAATCATTCAAATTGGGAGAAAATGGAC
1 AAATTTGATTGAATGCAAAATTAAGAGAAAATTTCTATAAGCATTCAAATTGGGAAAAAATGGAC
* ** * *
29441437 TATTGTGCCAAACTACCCAGCAAAACTA-TTCTACCA
66 TGTCATGCCAAACTACCCAGCCAAACTACCT-TACCA
* * *
29441473 AAATTT-ATTGAATGCAAAATTAAGAGTAAATTTCCATAATCATTCAAATTGGGAAAAAAATGGA
1 AAATTTGATTGAATGCAAAATTAAGAGAAAATTTCTATAAGCATTCAAATTGGG-AAAAAATGGA
* * *
29441537 CTGTCGTGCCAAACTATCCAACCAAACTACCTTACCA
65 CTGTCATGCCAAACTACCCAGCCAAACTACCTTACCA
* * * *** *
29441574 AAATTTGATTGAATGCAAAATTTGAAG-G-ACATTTCTTTAAGCATTTAAATTGGGATGGAATAG
1 AAATTTGATTGAATGCAAAA-TT-AAGAGAAAATTTCTATAAGCATTCAAATTGGGAAAAAATGG
* * * * *
29441637 ACTATCATGCCAAACTACCCAGCAAAATTGGCC-TGCCA
64 ACTGTCATGCCAAACTACCCAGCCAAACT-ACCTTACCA
* * ** *
29441675 AAA-TTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTAGGG-CGAAATAGA
1 AAATTTGATTGAATGCAAAATTAAGAGAAAATTTCTATAAGCATTCAAATT-GGGAAAAAATGGA
*
29441738 CTGTCATGCCAAACTGCCCAGCCAAA
65 CTGTCATGCCAAACTACCCAGCCAAA
29441764 ATTTGATAGA
Statistics
Matches: 586, Mismatches: 90, Indels: 42
0.82 0.13 0.06
Matches are distributed among these distances:
98 3 0.01
99 3 0.01
100 159 0.27
101 248 0.42
102 161 0.27
103 9 0.02
104 3 0.01
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.26
Consensus pattern (101 bp):
AAATTTGATTGAATGCAAAATTAAGAGAAAATTTCTATAAGCATTCAAATTGGGAAAAAATGGAC
TGTCATGCCAAACTACCCAGCCAAACTACCTTACCA
Found at i:29441776 original size:88 final size:87
Alignment explanation
Indices: 29441671--29442035 Score: 362
Period size: 88 Copynumber: 4.1 Consensus size: 87
29441661 AAATTGGCCT
29441671 GCCAAAA-TTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTAGGG-CGAAA
1 GCCAAAATTTGATTGAATGCAAAATTAAGA-GACATTTCTATAAGCATTCAAATT-GGGACGAAA
*
29441734 TAGACTGTCATGCCAAACTGCCCA
64 TGGACTGTCATGCCAAACTGCCCA
* *
29441758 GCCAAAATTTGATAGAATGCAAAATTAAGAGGACATTTCTATAAGCATTAAAATTGGGACGAAAT
1 GCCAAAATTTGATTGAATGCAAAATTAAGA-GACATTTCTATAAGCATTCAAATTGGGACGAAAT
* * **
29441823 GTACTGTCACGGGAAACTACCCAGCCAAACA
65 GGACTGTCATGCCAAACT-----GCC---CA
* * * * *
29441854 GCCATACCAAAATTGATGGAATGC-AAATTTA-AGACATTTCTATATGTATTCAAATTGGGACGA
1 GCC--A--AAATTTGATTGAATGCAAAATTAAGAGACATTTCTATAAGCATTCAAATTGGGACGA
* * *
29441917 AATGGACT-TGCATGTCAAACAGCCCT
62 AATGGACTGT-CATGCCAAACTGCCCA
* *
29441943 GCCAAAATTTGATTGAATGCAAAATTAAGTAGACATTTCTATAAGGATTCAAATTGGGATGAAAT
1 GCCAAAATTTGATTGAATGCAAAATTAAG-AGACATTTCTATAAGCATTCAAATTGGGACGAAAT
* *
29442008 GGTCTGTCATGCCAAACTACCCA
65 GGACTGTCATGCCAAACTGCCCA
*
29442031 ACCAA
1 GCCAA
29442036 TCTGTCCTGC
Statistics
Matches: 228, Mismatches: 31, Indels: 37
0.77 0.10 0.12
Matches are distributed among these distances:
85 14 0.06
86 6 0.03
87 11 0.05
88 116 0.51
89 5 0.02
92 3 0.01
93 3 0.01
96 6 0.03
97 42 0.18
98 2 0.01
99 6 0.03
100 14 0.06
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (87 bp):
GCCAAAATTTGATTGAATGCAAAATTAAGAGACATTTCTATAAGCATTCAAATTGGGACGAAATG
GACTGTCATGCCAAACTGCCCA
Found at i:29441984 original size:185 final size:187
Alignment explanation
Indices: 29441571--29443597 Score: 799
Period size: 201 Copynumber: 10.3 Consensus size: 187
29441561 AACTACCTTA
* * *
29441571 CCAAAATTTGATTGAATGCAAAATTTGAAG-GACATTTCTTTAAGCATTTAAATTGGGATGGAAT
1 CCAAAATTTGATTGAATGCAAAA-TT-AAGAGACATTTCTATAAGCATTAAAATTGGGATGAAAT
* * ** *
29441635 AG-ACTATCATGCCAAACTACCCAGCAAAATTGGCCTGCCAAAATTGATTGAATGCAAAATTAAG
64 AGTACTGTCATGCCAAACTACCCAGCCAAA-CAGCCTGCCAAAATTGATGGAATGCAAAATTAAG
* *
29441699 AGGACATTTCTATAAGCATTCAAATTAGGG-CGAAATAGACTGTCATGCCAAACTGCCCAG
128 AGGACATTTCTATAAGCATTCAAATT-GGGACGAAATGGACTGTCATGCCAAACAGCCCAG
* *
29441759 CCAAAATTTGATAGAATGCAAAATTAAGAGGACATTTCTATAAGCATTAAAATTGGGACGAAAT-
1 CCAAAATTTGATTGAATGCAAAATTAAGA-GACATTTCTATAAGCATTAAAATTGGGATGAAATA
* ** * *
29441823 GTACTGTCACGGGAAACTACCCAGCCAAACAGCCATACCAAAATTGATGGAATGC-AAATTTA-A
65 GTACTGTCATGCCAAACTACCCAGCCAAACAGCC-TGCCAAAATTGATGGAATGCAAAATTAAGA
* * * *
29441886 -GACATTTCTATATGTATTCAAATTGGGACGAAATGGACT-TGCATGTCAAACAGCCCTG
129 GGACATTTCTATAAGCATTCAAATTGGGACGAAATGGACTGT-CATGCCAAACAGCCCAG
* * *
29441944 CCAAAATTTGATTGAATGCAAAATTAAGTAGACATTTCTATAAGGATTCAAATTGGGATGAAATG
1 CCAAAATTTGATTGAATGCAAAATTAAG-AGACATTTCTATAAGCATTAAAATTGGGATGAAATA
* * * *
29442009 GT-CTGTCATGCCAAACTACCCAACCAATCTGTCCTGCCAAAATTTGATTGG-ATTCAAAATTAA
65 GTACTGTCATGCCAAACTACCCAGCCAAACAG-CCTGCCAAAA-TTGA-TGGAATGCAAAATTAA
* *
29442072 GAGGACATTTCTATAAGCATTCAAATTGGGACGAAATGTACTGTCATGCCAAACTA-CGCAG
127 GAGGACATTTCTATAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAAC-AGCCCAG
*** * * * * ** * * * * *
29442133 CCAAACTATCCTATCGGGAGAAAATGGACAATCATGTCAAATTACCCAACCAAACTGCCTTGCCA
1 CCAAA--AT--T-T---GATTGAATGCAAAATTAAGAGACATT--TCTA--TAA--GCATT---A
* * * ** * ** * ** ** ** * * *
29442198 AAATT-GGTTGAATGCAAAATTAAGAGGACATTTC-TA-TAAGCATTCAAATTG--AGACGAAAT
49 AAATTGGGATG-A---AATAGT-A-CTGTCATGCCAAACTACCCAGCCAAACAGCCTGCCAAAAT
* ** * * ** * * ** * *
29442258 GGACTGTCATGCCAAACTACCTAGTCAAACTGCCCTTCTA-AA--ATT-TGATT-GAACTCAAAA
108 TGA-TGGAATGCAAAATTA-AGAG-GACA-T----TTCTATAAGCATTCAAATTGGGA--CGAAA
** ** * * *
29442318 TTAAAAGTAGATTTCTATAA-A---CA-
163 TGGACTGT-CA-TGCCA-AACAGCCCAG
*** * * * ** ** *
29442341 TTTAAATTTAATTGAATGCAAAATTAAGAGAAAATTTCTATAAGCATTCAAATT-TTAAAAAAAA
1 CCAAAATTTGATTGAATGCAAAATTAAGAG-ACATTTCTATAAGCATTAAAATTGGGATGAAATA
* * * *
29442405 TGGACTGTCATGCCAAACTACCCAGCCAAA-ATTCCCTTCCAAAATTGGATTGAATGCAAAATTA
65 -GTACTGTCATGCCAAACTACCCAGCCAAACA--GCCTGCCAAAATT-GATGGAATGCAAAATTA
* * * * *
29442469 AAAGGACATTTCTATAGGCATTCAAATTAGGACGAAATGAACTGTCTTGCCAAACTACCTAGCCA
126 AGAGGACATTTCTATAAGCATTCAAATTGGGACGAAATGGACTGTCATGCC-AA--A-C-AGCC-
*
29442534 AACTG
185 --CAG
* * * * *
29442539 CCCTATCAAAATTGATTGAATGCAAAGTT-AGAAAACATTTCTATAAACGTTAAAATTGGGATGA
1 -CC-A--AAATTTGATTGAATGCAAAATTAAG-AGACATTTCTATAAGCATTAAAATTGGGATGA
* * * * ** * *
29442603 AATAG-ACTGTCATTCCAAACTACCAAACTAAATTGCGATGCCAAAATTGATTGAATGCAAAATT
61 AATAGTACTGTCATGCCAAACTACCCAGCCAAACAGC-CTGCCAAAATTGATGGAATGCAAAATT
* * * ** * * *
29442667 ATGAGAACATTTTTATAAAAATTAAAATTGGGACAAAATGGACTGTTACACTAAACTACCCAACC
125 AAGAGGACATTTCTATAAGCATTCAAATTGGGACGAAATGGACTG-T---C---A-T-----GCC
* *
29442732 AAACTGCCTTA-
177 AAACAGCC-CAG
* **
29442743 CCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTATATAAGCA-TACAAATTGGGACAAAAT
1 CCAAAATTTGATTGAATGCAAAATTAAGA-GACATTTCTATAAGCATTA-AAATTGGGATGAAAT
* * * ** *
29442807 -GGACTGTCATGCCAAACTACCCAACAAAACTATTCTGCCAAAATTGATTGAATGCAAAATTAAG
64 AGTACTGTCATGCCAAACTACCCAGCCAAAC-AGCCTGCCAAAATTGATGGAATGCAAAATTAAG
* * * *
29442871 AGGAAATTTCCATAAGCATTCAAATTGAGA-GAAAATGGACTGTCATGCCAAACTATCCAACCAA
128 AGGACATTTCTATAAGCATTCAAATTGGGACG-AAATGGACTGTCATGCC-AA--A--CAGCC--
*
29442935 ACTACCCTA
185 -C-A----G
** * * *
29442944 CCAAAATTTGATTGAATGCAAAATTTGGAGGACACTTCTTTAAGCATTTAAATTGGGATGAAATA
1 CCAAAATTTGATTGAATGCAAAATTAAGA-GACATTTCTATAAGCATTAAAATTGGGATGAAATA
* * * * ** * * *
29443009 G-ACTGTCATTCCAAACTACCAAACTAAATTGCGATGCCAAAATTGATTGAATGCAAAATTATGA
65 GTACTGTCATGCCAAACTACCCAGCCAAACAGC-CTGCCAAAATTGATGGAATGCAAAATTAAGA
* * ** * * *
29443073 GAACATTTTTATAAAAATTAAAATTGGGACAAAATGGACTGTTACACTAAACTACCCAACCAAAC
129 GGACATTTCTATAAGCATTCAAATTGGGACGAAATGGACTG-T---C---A-T-----GCCAAAC
* *
29443138 TGCCTTA-
181 AGCC-CAG
* **
29443145 CCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTATATAAGCA-TACAAATTGGGACAAAAT
1 CCAAAATTTGATTGAATGCAAAATTAAGA-GACATTTCTATAAGCATTA-AAATTGGGATGAAAT
* * * ** *
29443209 -GGACTGTCATGCCAAACTACCCAACAAAACTATTCTGCCAAAATTGATTGAATGCAAAATTAAG
64 AGTACTGTCATGCCAAACTACCCAGCCAAAC-AGCCTGCCAAAATTGATGGAATGCAAAATTAAG
* * * *
29443273 AGGAAATTTCCATAAGCATTCAAATTGAGA-GAAAATGGACTGTCATGCCAAACTATCCAACCAA
128 AGGACATTTCTATAAGCATTCAAATTGGGACG-AAATGGACTGTCATGCC-AA--A--CAGCC--
*
29443337 ACTACCCTA
185 -C-A----G
** * * *
29443346 CCAAAATTTGATTGAATGCAAAATTTGGAGGACACTTCTTTAAGCATTTAAATTGGGAT-AGAAT
1 CCAAAATTTGATTGAATGCAAAATTAAGA-GACATTTCTATAAGCATTAAAATTGGGATGA-AAT
* * ** * *
29443410 AG-ACTATCATGCCAAACTACCCAGCAAAATTGGCCTGCCAAAATTGATTGAATGCAAATTTAAG
64 AGTACTGTCATGCCAAACTACCCAGCCAAA-CAGCCTGCCAAAATTGATGGAATGCAAAATTAAG
* *
29443474 AGGACATTTCTATAAGCATTCAAATTGGGGCGAAATTGACTGTCATGCCAAAC-GACCCAG
128 AGGACATTTCTATAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACAG-CCCAG
* * *
29443534 CCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTTGGAAGAAAT
1 CCAAAATTTGATTGAATGCAAAATTAAGA-GACATTTCTATAAGCATTAAAATTGGGATGAAAT
29443598 GGACTGTTAT
Statistics
Matches: 1356, Mismatches: 322, Indels: 322
0.68 0.16 0.16
Matches are distributed among these distances:
184 4 0.00
185 139 0.10
186 20 0.01
187 27 0.02
188 171 0.13
189 70 0.05
190 6 0.00
191 8 0.01
192 21 0.02
193 12 0.01
194 3 0.00
195 4 0.00
196 9 0.01
197 17 0.01
198 3 0.00
199 53 0.04
200 77 0.06
201 563 0.42
202 35 0.03
203 4 0.00
204 5 0.00
205 12 0.01
206 16 0.01
207 6 0.00
208 11 0.01
209 20 0.01
210 12 0.01
211 10 0.01
212 7 0.01
213 9 0.01
214 2 0.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (187 bp):
CCAAAATTTGATTGAATGCAAAATTAAGAGACATTTCTATAAGCATTAAAATTGGGATGAAATAG
TACTGTCATGCCAAACTACCCAGCCAAACAGCCTGCCAAAATTGATGGAATGCAAAATTAAGAGG
ACATTTCTATAAGCATTCAAATTGGGACGAAATGGACTGTCATGCCAAACAGCCCAG
Found at i:29442116 original size:101 final size:101
Alignment explanation
Indices: 29441940--29442128 Score: 310
Period size: 101 Copynumber: 1.9 Consensus size: 101
29441930 GTCAAACAGC
* *
29441940 CCTGCCAAAATTTGATTGAATGCAAAATTAAGTAGACATTTCTATAAGGATTCAAATTGGGATGA
1 CCTGCCAAAATTTGATTGAATGCAAAATTAAGTAGACATTTCTATAAGCATTCAAATTGGGACGA
29442005 AATGGTCTGTCATGCCAAACTACCCAACCAATCTGT
66 AATGGTCTGTCATGCCAAACTACCCAACCAATCTGT
* *
29442041 CCTGCCAAAATTTGATTGGATTCAAAATTAAG-AGGACATTTCTATAAGCATTCAAATTGGGACG
1 CCTGCCAAAATTTGATTGAATGCAAAATTAAGTA-GACATTTCTATAAGCATTCAAATTGGGACG
29442105 AAAT-GTACTGTCATGCCAAACTAC
65 AAATGGT-CTGTCATGCCAAACTAC
29442129 GCAGCCAAAC
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
100 3 0.04
101 79 0.96
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (101 bp):
CCTGCCAAAATTTGATTGAATGCAAAATTAAGTAGACATTTCTATAAGCATTCAAATTGGGACGA
AATGGTCTGTCATGCCAAACTACCCAACCAATCTGT
Found at i:29442365 original size:46 final size:46
Alignment explanation
Indices: 29442298--29442395 Score: 126
Period size: 46 Copynumber: 2.1 Consensus size: 46
29442288 TGCCCTTCTA
* * * *
29442298 AAATTTGATTGAACTCAAAATTAAAAGTAGATTTCTATAAACATTT
1 AAATTTAATTGAACTCAAAATTAAAAGAAAATTTCTATAAACATTC
* *
29442344 AAATTTAATTGAA-TGCAAAATTAAGAGAAAATTTCTATAAGCATTC
1 AAATTTAATTGAACT-CAAAATTAAAAGAAAATTTCTATAAACATTC
29442390 AAATTT
1 AAATTT
29442396 TAAAAAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 1 0.02
46 44 0.98
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (46 bp):
AAATTTAATTGAACTCAAAATTAAAAGAAAATTTCTATAAACATTC
Found at i:29442472 original size:148 final size:147
Alignment explanation
Indices: 29442205--29442484 Score: 409
Period size: 148 Copynumber: 1.9 Consensus size: 147
29442195 CCAAAATTGG
* * * **
29442205 TTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGAGACGAAATGGACTGTCATGC
1 TTGAATGCAAAATTAAGAGAAAATTTCTATAAGCATTCAAATTGAAAAAAAATGGACTGTCATGC
* * * * * * *
29442270 CAAACTACCTAGTCAAACTGCCCTTCTAAAATTTGATTGAACTCAAAATTAAAAGTAGATTTCTA
66 CAAACTACCCAGCCAAAATGCCCTTCCAAAATTGGATTGAACTCAAAATTAAAAGGACATTTCTA
29442335 TAAACATTTAAATTTAA
131 TAAACATTTAAATTTAA
*
29442352 TTGAATGCAAAATTAAGAGAAAATTTCTATAAGCATTCAAATTTTAAAAAAAATGGACTGTCATG
1 TTGAATGCAAAATTAAGAGAAAATTTCTATAAGCATTCAAA-TTGAAAAAAAATGGACTGTCATG
*
29442417 CCAAACTACCCAGCCAAAATTCCCTTCCAAAATTGGATTGAA-TGCAAAATTAAAAGGACATTTC
65 CCAAACTACCCAGCCAAAATGCCCTTCCAAAATTGGATTGAACT-CAAAATTAAAAGGACATTTC
29442481 TATA
129 TATA
29442485 GGCATTCAAA
Statistics
Matches: 117, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
147 40 0.34
148 77 0.66
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.29
Consensus pattern (147 bp):
TTGAATGCAAAATTAAGAGAAAATTTCTATAAGCATTCAAATTGAAAAAAAATGGACTGTCATGC
CAAACTACCCAGCCAAAATGCCCTTCCAAAATTGGATTGAACTCAAAATTAAAAGGACATTTCTA
TAAACATTTAAATTTAA
Found at i:29442712 original size:100 final size:100
Alignment explanation
Indices: 29442351--29443538 Score: 1155
Period size: 100 Copynumber: 11.8 Consensus size: 100
29442341 TTTAAATTTA
* * *** *
29442351 ATTGAATGCAAAATTAAGAGAAAATTTCTATAAGCATTCAAATTTTAAAAAAAATGGACTGTCAT
1 ATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATT-AAAATTGGGACAAAATGGACTGTCAT
* *
29442416 GCCAAACTACCCAGCCAAAATT-CCCTTCCAAAATTGG
65 GCCAAACTACCCAACC-AAATTGCCCTACCAAAATT-G
* * * * * * * *
29442453 ATTGAATGCAAAATTAAAAGGACATTTCTATAGGCATTCAAATTAGGACGAAATGAACTGTCTTG
1 ATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTAAAATTGGGACAAAATGGACTGTCATG
* * * *
29442518 CCAAACTACCTAGCCAAACTGCCCTATCAAAATTG
66 CCAAACTACCCAACCAAATTGCCCTACCAAAATTG
* * * * ** * *
29442553 ATTGAATGCAAAGTT-AGAAAACATTTCTATAAACGTTAAAATTGGGATGAAATAGACTGTCATT
1 ATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTAAAATTGGGACAAAATGGACTGTCATG
* * ** *
29442617 CCAAACTACCAAACTAAATTGCGATGCCAAAATTG
66 CCAAACTACCCAACCAAATTGCCCTACCAAAATTG
* * ** * **
29442652 ATTGAATGCAAAATTATGAGAACATTTTTATAAAAATTAAAATTGGGACAAAATGGACTGTTACA
1 ATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTAAAATTGGGACAAAATGGACTGTCATG
* * *
29442717 CTAAACTACCCAACCAAACTGCCTTACCAAAATTTG
66 CCAAACTACCCAACCAAATTGCCCTACCAAAA-TTG
* *
29442753 ATTGAATGCAAAATTAAGAGGACATTTATATAAGCA-TACAAATTGGGACAAAATGGACTGTCAT
1 ATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTA-AAATTGGGACAAAATGGACTGTCAT
* * *** *
29442817 GCCAAACTACCCAACAAAACTATTCTGCCAAAATTG
65 GCCAAACTACCCAACCAAATTGCCCTACCAAAATTG
* * * *
29442853 ATTGAATGCAAAATTAAGAGGAA-ATTTCCATAAGCATTCAAATTGAGAGAAAATGGACTGTCAT
1 ATTGAATGCAAAATTAAGA-GAACATTTCTATAAGCATTAAAATTGGGACAAAATGGACTGTCAT
* * *
29442917 GCCAAACTATCCAACCAAACTACCCTACCAAAATTTG
65 GCCAAACTACCCAACCAAATTGCCCTACCAAAA-TTG
** * * * * ** * *
29442954 ATTGAATGCAAAATTTGGAGGACACTTCTTTAAGCATTTAAATTGGGATGAAATAGACTGTCATT
1 ATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTAAAATTGGGACAAAATGGACTGTCATG
* * ** *
29443019 CCAAACTACCAAACTAAATTGCGATGCCAAAATTG
66 CCAAACTACCCAACCAAATTGCCCTACCAAAATTG
* * ** * **
29443054 ATTGAATGCAAAATTATGAGAACATTTTTATAAAAATTAAAATTGGGACAAAATGGACTGTTACA
1 ATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTAAAATTGGGACAAAATGGACTGTCATG
* * *
29443119 CTAAACTACCCAACCAAACTGCCTTACCAAAATTTG
66 CCAAACTACCCAACCAAATTGCCCTACCAAAA-TTG
* *
29443155 ATTGAATGCAAAATTAAGAGGACATTTATATAAGCA-TACAAATTGGGACAAAATGGACTGTCAT
1 ATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTA-AAATTGGGACAAAATGGACTGTCAT
* * *** *
29443219 GCCAAACTACCCAACAAAACTATTCTGCCAAAATTG
65 GCCAAACTACCCAACCAAATTGCCCTACCAAAATTG
* * * *
29443255 ATTGAATGCAAAATTAAGAGGAA-ATTTCCATAAGCATTCAAATTGAGAGAAAATGGACTGTCAT
1 ATTGAATGCAAAATTAAGA-GAACATTTCTATAAGCATTAAAATTGGGACAAAATGGACTGTCAT
* * *
29443319 GCCAAACTATCCAACCAAACTACCCTACCAAAATTTG
65 GCCAAACTACCCAACCAAATTGCCCTACCAAAA-TTG
** * * * * * * * *
29443356 ATTGAATGCAAAATTTGGAGGACACTTCTTTAAGCATTTAAATTGGGATAGAATAGACTATCATG
1 ATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTAAAATTGGGACAAAATGGACTGTCATG
* * * *
29443421 CCAAACTACCCAGCAAAATTGGCCTGCCAAAATTG
66 CCAAACTACCCAACCAAATTGCCCTACCAAAATTG
* * * * * *
29443456 ATTGAATGCAAATTTAAGAGGACATTTCTATAAGCATTCAAATTGGGGCGAAATTGACTGTCATG
1 ATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTAAAATTGGGACAAAATGGACTGTCATG
* *
29443521 CCAAACGACCCAGCCAAA
66 CCAAACTACCCAACCAAA
29443539 ATTTGATTGA
Statistics
Matches: 887, Mismatches: 185, Indels: 30
0.80 0.17 0.03
Matches are distributed among these distances:
99 77 0.09
100 408 0.46
101 368 0.41
102 34 0.04
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (100 bp):
ATTGAATGCAAAATTAAGAGAACATTTCTATAAGCATTAAAATTGGGACAAAATGGACTGTCATG
CCAAACTACCCAACCAAATTGCCCTACCAAAATTG
Found at i:29442855 original size:201 final size:199
Alignment explanation
Indices: 29442344--29443613 Score: 1293
Period size: 201 Copynumber: 6.4 Consensus size: 199
29442334 ATAAACATTT
* * * * *** * *
29442344 AAATTTAATTGAATGCAAAATTAAGAGAAAATTTCTATAAGCATTCAAATTTTAAAAAAAATGGA
1 AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATACAAA-TTGGGATAAAATAGA
* * * *
29442409 CTGTCATGCCAAACTACCCAGCCAAAATTCCCTTCCAAAATTGGATTGAATGCAAAATTAAAAGG
65 CTGTCATGCCAAACTACCCA-ACAAAATT-CCTGCCAAAATT-GATTGAATGCAAAATTAAGAGA
* * * * ** * *
29442474 ACATTTCTATAGGCATTCAAATTAGGACGAAATGAACTGTCT-TGCCAAACTACCTAGCCAAACT
127 ACATTTCTATAAGCATTCAAATTGGGACAAAATGGACTGT-TACACCAAACTACCCAACCAAACT
*
29442538 GCCCTATCA
191 GCCCTACCA
* ** * * *
29442547 AAA-TTGATTGAATGCAAAGTT-AGAAAACATTTCTATAAACGTTA-AAATTGGGATGAAATAGA
1 AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGC-ATACAAATTGGGATAAAATAGA
* * * * *
29442609 CTGTCATTCCAAACTACCAAACTAAATTGCGATGCCAAAATTGATTGAATGCAAAATTATGAGAA
65 CTGTCATGCCAAACTACCCAACAAAATT-C-CTGCCAAAATTGATTGAATGCAAAATTAAGAGAA
* ** * *
29442674 CATTTTTATAAAAATTAAAATTGGGACAAAATGGACTGTTACACTAAACTACCCAACCAAACTGC
128 CATTTCTATAAGCATTCAAATTGGGACAAAATGGACTGTTACACCAAACTACCCAACCAAACTGC
*
29442739 CTTACCA
193 CCTACCA
* * *
29442746 AAATTTGATTGAATGCAAAATTAAGAGGACATTTATATAAGCATACAAATTGGGACAAAATGGAC
1 AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATACAAATTGGGATAAAATAGAC
*
29442811 TGTCATGCCAAACTACCCAACAAAACTATTCTGCCAAAATTGATTGAATGCAAAATTAAGAGGAA
66 TGTCATGCCAAACTACCCAACAAAA-T-TCCTGCCAAAATTGATTGAATGCAAAATTAAGA-GAA
* * * * ** * *
29442876 -ATTTCCATAAGCATTCAAATTGAGAGAAAATGGACTGTCATGCCAAACTATCCAACCAAACTAC
128 CATTTCTATAAGCATTCAAATTGGGACAAAATGGACTGTTACACCAAACTACCCAACCAAACTGC
29442940 CCTACCA
193 CCTACCA
** * * ** *
29442947 AAATTTGATTGAATGCAAAATTTGGAGGACACTTCTTTAAGCATTTAAATTGGGATGAAATAGAC
1 AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATACAAATTGGGATAAAATAGAC
* * * * *
29443012 TGTCATTCCAAACTACCAAACTAAATTGCGATGCCAAAATTGATTGAATGCAAAATTATGAGAAC
66 TGTCATGCCAAACTACCCAACAAAATT-C-CTGCCAAAATTGATTGAATGCAAAATTAAGAGAAC
* ** * *
29443077 ATTTTTATAAAAATTAAAATTGGGACAAAATGGACTGTTACACTAAACTACCCAACCAAACTGCC
129 ATTTCTATAAGCATTCAAATTGGGACAAAATGGACTGTTACACCAAACTACCCAACCAAACTGCC
*
29443142 TTACCA
194 CTACCA
* * *
29443148 AAATTTGATTGAATGCAAAATTAAGAGGACATTTATATAAGCATACAAATTGGGACAAAATGGAC
1 AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATACAAATTGGGATAAAATAGAC
*
29443213 TGTCATGCCAAACTACCCAACAAAACTATTCTGCCAAAATTGATTGAATGCAAAATTAAGAGGAA
66 TGTCATGCCAAACTACCCAACAAAA-T-TCCTGCCAAAATTGATTGAATGCAAAATTAAGA-GAA
* * * * ** * *
29443278 -ATTTCCATAAGCATTCAAATTGAGAGAAAATGGACTGTCATGCCAAACTATCCAACCAAACTAC
128 CATTTCTATAAGCATTCAAATTGGGACAAAATGGACTGTTACACCAAACTACCCAACCAAACTGC
29443342 CCTACCA
193 CCTACCA
** * * ** *
29443349 AAATTTGATTGAATGCAAAATTTGGAGGACACTTCTTTAAGCATTTAAATTGGGATAGAATAGAC
1 AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATACAAATTGGGATAAAATAGAC
* * * *
29443414 TATCATGCCAAACTACCCAGCAAAATTGGCCTGCCAAAATTGATTGAATGCAAATTTAAGAGGAC
66 TGTCATGCCAAACTACCCAACAAAATT--CCTGCCAAAATTGATTGAATGCAAAATTAAGAGAAC
* * * * ** *
29443479 ATTTCTATAAGCATTCAAATTGGGGCGAAATTGACTGTCATGCCAAACGA--C--CC--A--G--
129 ATTTCTATAAGCATTCAAATTGGGACAAAATGGACTGTTACACCAAACTACCCAACCAAACTGCC
29443534 ---CCA
194 CTACCA
* * *
29443537 AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTTGGA-AGAAATGGA
1 AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATACAAATTGGGATA-AAATAGA
* *
29443601 CTGTTATACCAAA
65 CTGTCATGCCAAA
29443614 TTGCCCTGGC
Statistics
Matches: 887, Mismatches: 161, Indels: 53
0.81 0.15 0.05
Matches are distributed among these distances:
187 1 0.00
188 67 0.08
195 1 0.00
197 2 0.00
198 1 0.00
199 88 0.10
200 62 0.07
201 635 0.72
202 25 0.03
203 5 0.01
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (199 bp):
AAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATACAAATTGGGATAAAATAGAC
TGTCATGCCAAACTACCCAACAAAATTCCTGCCAAAATTGATTGAATGCAAAATTAAGAGAACAT
TTCTATAAGCATTCAAATTGGGACAAAATGGACTGTTACACCAAACTACCCAACCAAACTGCCCT
ACCA
Found at i:29443095 original size:402 final size:402
Alignment explanation
Indices: 29442344--29443516 Score: 1788
Period size: 402 Copynumber: 2.9 Consensus size: 402
29442334 ATAAACATTT
* * * * * *** *
29442344 AAATTTAATTGAATGCAAAATTAAGAGAAAATTTCTATAAGCATTCAAATTTTAAAAAAAATGGA
1 AAATTTGATTGAATGCAAAATTAAGAGGACATTTATATAAGCATACAAA-TTGGGACAAAATGGA
* * * *
29442409 CTGTCATGCCAAACTACCCAGCCAAAA-T-TCCCTTCCAAAATTGGATTGAATGCAAAATTAAAA
65 CTGTCATGCCAAACTACCCA-ACAAAACTAT-TCTGCCAAAATT-GATTGAATGCAAAATTAAGA
* * * * * *
29442472 GGACATTTCTATAGGCATTCAAATT-AG-GACGAAATGAACTGTCTTGCCAAACTA-CCTAGCCA
127 GGAAATTTCCATAAGCATTCAAATTGAGAGA--AAATGGACTGTCATGCCAAACTATCC-AACCA
* * * * ** * * * * *
29442534 AACTGCCCTATCAAAA-TTGATTGAATGC-AAAGTTAGAAAACATTTCTATAAACGTTAAAATTG
189 AACTACCCTACCAAAATTTGATTGAATGCAAAATTTGGAGGACACTTCTTTAAGCATTTAAATTG
29442597 GGATGAAATAGACTGTCATTCCAAACTACCAAACTAAATTGCGATGCCAAAATTGATTGAATGCA
254 GGATGAAATAGACTGTCATTCCAAACTACCAAACTAAATTGCGATGCCAAAATTGATTGAATGCA
29442662 AAATTATGAGAACATTTTTATAAAAATTAAAATTGGGACAAAATGGACTGTTACACTAAACTACC
319 AAATTATGAGAACATTTTTATAAAAATTAAAATTGGGACAAAATGGACTGTTACACTAAACTACC
29442727 CAACCAAACTGCCTTACCA
384 CAACCAAACTGCCTTACCA
29442746 AAATTTGATTGAATGCAAAATTAAGAGGACATTTATATAAGCATACAAATTGGGACAAAATGGAC
1 AAATTTGATTGAATGCAAAATTAAGAGGACATTTATATAAGCATACAAATTGGGACAAAATGGAC
29442811 TGTCATGCCAAACTACCCAACAAAACTATTCTGCCAAAATTGATTGAATGCAAAATTAAGAGGAA
66 TGTCATGCCAAACTACCCAACAAAACTATTCTGCCAAAATTGATTGAATGCAAAATTAAGAGGAA
29442876 ATTTCCATAAGCATTCAAATTGAGAGAAAATGGACTGTCATGCCAAACTATCCAACCAAACTACC
131 ATTTCCATAAGCATTCAAATTGAGAGAAAATGGACTGTCATGCCAAACTATCCAACCAAACTACC
29442941 CTACCAAAATTTGATTGAATGCAAAATTTGGAGGACACTTCTTTAAGCATTTAAATTGGGATGAA
196 CTACCAAAATTTGATTGAATGCAAAATTTGGAGGACACTTCTTTAAGCATTTAAATTGGGATGAA
29443006 ATAGACTGTCATTCCAAACTACCAAACTAAATTGCGATGCCAAAATTGATTGAATGCAAAATTAT
261 ATAGACTGTCATTCCAAACTACCAAACTAAATTGCGATGCCAAAATTGATTGAATGCAAAATTAT
29443071 GAGAACATTTTTATAAAAATTAAAATTGGGACAAAATGGACTGTTACACTAAACTACCCAACCAA
326 GAGAACATTTTTATAAAAATTAAAATTGGGACAAAATGGACTGTTACACTAAACTACCCAACCAA
29443136 ACTGCCTTACCA
391 ACTGCCTTACCA
29443148 AAATTTGATTGAATGCAAAATTAAGAGGACATTTATATAAGCATACAAATTGGGACAAAATGGAC
1 AAATTTGATTGAATGCAAAATTAAGAGGACATTTATATAAGCATACAAATTGGGACAAAATGGAC
29443213 TGTCATGCCAAACTACCCAACAAAACTATTCTGCCAAAATTGATTGAATGCAAAATTAAGAGGAA
66 TGTCATGCCAAACTACCCAACAAAACTATTCTGCCAAAATTGATTGAATGCAAAATTAAGAGGAA
29443278 ATTTCCATAAGCATTCAAATTGAGAGAAAATGGACTGTCATGCCAAACTATCCAACCAAACTACC
131 ATTTCCATAAGCATTCAAATTGAGAGAAAATGGACTGTCATGCCAAACTATCCAACCAAACTACC
29443343 CTACCAAAATTTGATTGAATGCAAAATTTGGAGGACACTTCTTTAAGCATTTAAATTGGGAT-AG
196 CTACCAAAATTTGATTGAATGCAAAATTTGGAGGACACTTCTTTAAGCATTTAAATTGGGATGA-
* * * * * * *
29443407 AATAGACTATCATGCCAAACTACCCAGCAAAATTG-GCCTGCCAAAATTGATTGAATGCAAATTT
260 AATAGACTGTCATTCCAAACTACCAAACTAAATTGCG-ATGCCAAAATTGATTGAATGCAAAATT
* * * ** * * * *
29443471 AAGAGGACATTTCTATAAGCATTCAAATTGGGGCGAAATTGACTGT
324 ATGAGAACATTTTTATAAAAATTAAAATTGGGACAAAATGGACTGT
29443517 CATGCCAAAC
Statistics
Matches: 716, Mismatches: 46, Indels: 18
0.92 0.06 0.02
Matches are distributed among these distances:
400 85 0.12
401 60 0.08
402 571 0.80
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (402 bp):
AAATTTGATTGAATGCAAAATTAAGAGGACATTTATATAAGCATACAAATTGGGACAAAATGGAC
TGTCATGCCAAACTACCCAACAAAACTATTCTGCCAAAATTGATTGAATGCAAAATTAAGAGGAA
ATTTCCATAAGCATTCAAATTGAGAGAAAATGGACTGTCATGCCAAACTATCCAACCAAACTACC
CTACCAAAATTTGATTGAATGCAAAATTTGGAGGACACTTCTTTAAGCATTTAAATTGGGATGAA
ATAGACTGTCATTCCAAACTACCAAACTAAATTGCGATGCCAAAATTGATTGAATGCAAAATTAT
GAGAACATTTTTATAAAAATTAAAATTGGGACAAAATGGACTGTTACACTAAACTACCCAACCAA
ACTGCCTTACCA
Found at i:29443553 original size:88 final size:88
Alignment explanation
Indices: 29443446--29443662 Score: 303
Period size: 88 Copynumber: 2.5 Consensus size: 88
29443436 AAATTGGCCT
* **
29443446 GCCAAAA-TTGATTGAATGCAAATTTAAGAGGACATTTCTATAAGCATTCAAATTGGGGCGAAAT
1 GCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGAAGAAAT
* *
29443510 TGACTGTCATGCCAAA-CGACCCA
66 GGACTGTCATACCAAATCG-CCCA
*
29443533 GCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTTGGAAGAAAT
1 GCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGAAGAAAT
* * *
29443598 GGACTGTTATACCAAATTGCCCT
66 GGACTGTCATACCAAATCGCCCA
* * *
29443621 GGCAAAATTTAATTGAATGCAAAATTAAAAGGACATTTCTAT
1 GCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTAT
29443663 CTAATCTGTA
Statistics
Matches: 116, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
87 7 0.06
88 108 0.93
89 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (88 bp):
GCCAAAATTTGATTGAATGCAAAATTAAGAGGACATTTCTATAAGCATTCAAATTGGGAAGAAAT
GGACTGTCATACCAAATCGCCCA
Found at i:29460371 original size:24 final size:21
Alignment explanation
Indices: 29460309--29460371 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 21
29460299 TAAAAATAAA
29460309 TTTAAAAATATAATACATCAAATAT
1 TTTAAAAAT-TAA-A-A-CAAATAT
29460334 TTTAAAAATTAAAACAAATATT
1 TTTAAAAATTAAAACAAATA-T
29460356 TTCTAACAAATTAAAA
1 TT-TAA-AAATTAAAA
29460372 ATACATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.17
22 4 0.11
23 4 0.11
24 12 0.34
25 9 0.26
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
TTTAAAAATTAAAACAAATAT
Found at i:29464016 original size:34 final size:33
Alignment explanation
Indices: 29463951--29464021 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 33
29463941 ATTATGCTTA
* *
29463951 TATATATACATATTTTTTTATATTAGTTTTTTTT
1 TATATATACATATTTTATTATATTAG-TTTTTAT
*
29463985 TATATATACATATATTTGATTATGTTA-TTTTTAT
1 TATATATACATAT-TTT-ATTATATTAGTTTTTAT
29464019 TAT
1 TAT
29464022 TTTTGTATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 22 0.69
35 3 0.09
36 7 0.22
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (33 bp):
TATATATACATATTTTATTATATTAGTTTTTAT
Found at i:29465918 original size:33 final size:32
Alignment explanation
Indices: 29465888--29465976 Score: 110
Period size: 33 Copynumber: 2.8 Consensus size: 32
29465878 ATTATTTATA
* *
29465888 AAATAA-TAAATATAATAATAAATAAGA-TTT
1 AAATAATTTAATATAATAATAAATAAAATTTT
* *
29465918 AAATAATTTAATATAATTATACATAAAATATTT
1 AAATAATTTAATATAATAATAAATAAAAT-TTT
*
29465951 AAATAATTTAATATAATAATATATAA
1 AAATAATTTAATATAATAATAAATAA
29465977 CATATAATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
30 6 0.12
31 17 0.34
33 27 0.54
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (32 bp):
AAATAATTTAATATAATAATAAATAAAATTTT
Found at i:29465935 original size:10 final size:10
Alignment explanation
Indices: 29465914--29465996 Score: 52
Period size: 10 Copynumber: 8.4 Consensus size: 10
29465904 AATAAATAAG
29465914 ATTTAA-ATA
1 ATTTAATATA
29465923 ATTTAATATA
1 ATTTAATATA
*
29465933 ATTATACATAAAA
1 ATT-TA-AT-ATA
29465946 TATTTAA-ATA
1 -ATTTAATATA
29465956 ATTTAATATA
1 ATTTAATATA
29465966 A--TAATAT-
1 ATTTAATATA
*
29465973 A-TAACATATA
1 ATTTA-ATATA
*
29465983 ATTTAATTTA
1 ATTTAATATA
29465993 ATTT
1 ATTT
29465997 TTAAATGCGT
Statistics
Matches: 59, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
7 1 0.02
8 7 0.12
9 16 0.27
10 21 0.36
11 4 0.07
12 3 0.05
13 4 0.07
14 3 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (10 bp):
ATTTAATATA
Done.