Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold22
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: 1926927
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.27
Warning! 314813 characters in sequence are not A, C, G, or T
File 10 of 11
Found at i:1681393 original size:20 final size:20
Alignment explanation
Indices: 1681324--1681393 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
1681314 AAAGAAGTAA
*
1681324 TGTATCGGTACATTGAAAGT
1 TGTATCGATACATTGAAAGT
* *
1681344 TGTATCGATACACTG-TA--
1 TGTATCGATACATTGAAAGT
*
1681361 TGGATAC-ATACATTGAAAGT
1 TGTAT-CGATACATTGAAAGT
1681381 TGTATCGATACAT
1 TGTATCGATACAT
1681394 CTAGGTTTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
17 11 0.29
18 2 0.05
19 2 0.05
20 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATTGAAAGT
Found at i:1685309 original size:33 final size:33
Alignment explanation
Indices: 1685272--1685351 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
1685262 AAATTTCCAG
* *
1685272 ATGTATCGATATAATGATAAATGTATCGATGCA
1 ATGTATCGATACAATGATAAATGTATCGATACA
* * *
1685305 ATGTATCGATACATTTATTAATGTATCGATACA
1 ATGTATCGATACAATGATAAATGTATCGATACA
*
1685338 TTGTATCGATACAA
1 ATGTATCGATACAA
1685352 AACTTATTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACAATGATAAATGTATCGATACA
Found at i:1685344 original size:13 final size:13
Alignment explanation
Indices: 1685293--1685350 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
1685283 TAATGATAAA
* *
1685293 TGTATCGATGCAA
1 TGTATCGATACAT
1685306 TGTATCGATACAT
1 TGTATCGATACAT
1685319 T-TAT---TA-A-
1 TGTATCGATACAT
1685326 TGTATCGATACAT
1 TGTATCGATACAT
1685339 TGTATCGATACA
1 TGTATCGATACA
1685351 AAACTTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
7 1 0.03
8 4 0.11
9 2 0.05
11 2 0.05
12 4 0.11
13 24 0.65
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1686225 original size:24 final size:25
Alignment explanation
Indices: 1686166--1686225 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
1686156 TTTCTAATAT
*
1686166 TGTAAATTTTTAGAAAATTGTGATA
1 TGTAAATTTTTAGAAAATTGAGATA
*
1686191 TGTAGAA--TTTAGAAAA-TGAGTTA
1 TGTA-AATTTTTAGAAAATTGAGATA
1686214 TGTAAATTTTTA
1 TGTAAATTTTTA
1686226 TTTTTATTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 2 0.07
23 9 0.30
24 13 0.43
25 4 0.13
26 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (25 bp):
TGTAAATTTTTAGAAAATTGAGATA
Found at i:1686283 original size:21 final size:21
Alignment explanation
Indices: 1686259--1686299 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1686249 TTCATTTTGT
*
1686259 AACTCACTTATTTTATTTTCC
1 AACTCACTTAGTTTATTTTCC
* *
1686280 AACTCATTTAGTTTCTTTTC
1 AACTCACTTAGTTTATTTTC
1686300 AAGAGTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.02, T:0.54
Consensus pattern (21 bp):
AACTCACTTAGTTTATTTTCC
Found at i:1686790 original size:20 final size:21
Alignment explanation
Indices: 1686765--1686805 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
1686755 TACTCTTATT
1686765 ATTTTTA-CTTGAAAAACATC
1 ATTTTTAGCTTGAAAAACATC
1686785 ATTTTTATGCTTGAAAAACAT
1 ATTTTTA-GCTTGAAAAACAT
1686806 TTAATCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (21 bp):
ATTTTTAGCTTGAAAAACATC
Found at i:1692475 original size:58 final size:57
Alignment explanation
Indices: 1692277--1692510 Score: 204
Period size: 57 Copynumber: 4.1 Consensus size: 57
1692267 GTCAACATAA
* * * *
1692277 TGAAGTTGGTCTATA-TCGAGAGTCAAGCCTAATGTAACTGGCACGTGGTAAG-TCAGG
1 TGAAGTTAGCCTATACT-GAGAGTCAAGCCTAATGTAACTGGCATGTGGTAAGCCCA-G
* ** * ** * *
1692334 TGAAGTTAGCCCATACTGAGAGTCAAGCCTAATGTAGTTGGAAAATGGTGAGCCTAG
1 TGAAGTTAGCCTATACTGAGAGTCAAGCCTAATGTAACTGGCATGTGGTAAGCCCAG
* * * *
1692391 TGAAGTTGGCCTATACTGAGAATCAAGCCGAATGTAATTGGCTATGTGGTAAGCCCAG
1 TGAAGTTAGCCTATACTGAGAGTCAAGCCTAATGTAACTGGC-ATGTGGTAAGCCCAG
** * * * *
1692449 T-ATAGTTAGCCTATACCAAGAGTCAAGCCCAATATAGCTGGCCATGTGGTAAGCCTAG
1 TGA-AGTTAGCCTATACTGAGAGTCAAGCCTAATGTAACTGG-CATGTGGTAAGCCCAG
1692507 TGAA
1 TGAA
1692511 ATTGGTCCAT
Statistics
Matches: 141, Mismatches: 30, Indels: 11
0.77 0.16 0.06
Matches are distributed among these distances:
57 79 0.56
58 60 0.43
59 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (57 bp):
TGAAGTTAGCCTATACTGAGAGTCAAGCCTAATGTAACTGGCATGTGGTAAGCCCAG
Found at i:1692570 original size:28 final size:28
Alignment explanation
Indices: 1692526--1692593 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
1692516 TCCATACTCC
* * *
1692526 GAGTCAAAGTCCGTATTTGCTATCATTT
1 GAGTCAAAGCCCATATTCGCTATCATTT
1692554 GAGTCAAAGCCCATATTCGCTATCATTT
1 GAGTCAAAGCCCATATTCGCTATCATTT
1692582 GAG-CTAAAGCCC
1 GAGTC-AAAGCCC
1692594 TCATTAATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (28 bp):
GAGTCAAAGCCCATATTCGCTATCATTT
Found at i:1692713 original size:28 final size:27
Alignment explanation
Indices: 1692682--1692792 Score: 87
Period size: 28 Copynumber: 4.0 Consensus size: 27
1692672 AAGCCTACAC
* *
1692682 TAGTTGGCATTTAAGTCATAGCCCATGT
1 TAGTTGGCATTTGAGTCA-AGCCCATAT
* * *
1692710 TAGTAGGCATTTGAGTTGAAGCCCACAT
1 TAGTTGGCATTTGAG-TCAAGCCCATAT
* *
1692738 TAGATGGCATCTGAGTCAAAGCCCATAT
1 TAGTTGGCATTTGAGTC-AAGCCCATAT
* ** *
1692766 TAATTGGCACCTGAGTTGAAGCCCATA
1 TAGTTGGCATTTGAG-TCAAGCCCATA
1692793 CTAGCTGGTA
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
27 1 0.02
28 62 0.94
29 3 0.05
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (27 bp):
TAGTTGGCATTTGAGTCAAGCCCATAT
Found at i:1692731 original size:56 final size:56
Alignment explanation
Indices: 1692671--1692806 Score: 146
Period size: 56 Copynumber: 2.4 Consensus size: 56
1692661 CATATTAGTC
* * * * * * **
1692671 GAAGCCTACACTAGTTGGCATTTAAGTCATAGCCCATGTTAGTAGGCATTTGAGTT
1 GAAGCCCACACTAGATGGCATCTAAGTCAAAGCCCATATTAATAGGCACCTGAGTT
* * *
1692727 GAAGCCCACATTAGATGGCATCTGAGTCAAAGCCCATATTAATTGGCACCTGAGTT
1 GAAGCCCACACTAGATGGCATCTAAGTCAAAGCCCATATTAATAGGCACCTGAGTT
* * *
1692783 GAAGCCCATACTAGCTGGTATCTA
1 GAAGCCCACACTAGATGGCATCTA
1692807 GGAGGAAGTT
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (56 bp):
GAAGCCCACACTAGATGGCATCTAAGTCAAAGCCCATATTAATAGGCACCTGAGTT
Found at i:1695456 original size:13 final size:13
Alignment explanation
Indices: 1695440--1695469 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1695430 ATACATTGTT
1695440 CATTGTATCGATA
1 CATTGTATCGATA
1695453 CATTGTATCGATA
1 CATTGTATCGATA
1695466 CATT
1 CATT
1695470 TTGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1697930 original size:51 final size:50
Alignment explanation
Indices: 1697867--1698034 Score: 221
Period size: 51 Copynumber: 3.3 Consensus size: 50
1697857 TTATTTCTGA
*
1697867 GGGGATACTCCAATTCCGACTTTATTTCTAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAA-CCCGACTTTATTTCTAAAATATTGATTTCTCACAATC
* * *** * *
1697918 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCATAATC
1 GGGGATACTCCAA-CCCGACTTTATTTCTAAAATATTGATTTCTCACAATC
1697969 GGGG-TACTCCAACCCTGACTTTATTTCTAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCC-GACTTTATTTCTAAAATATTGATTTCTCACAATC
*
1698019 GGGGATACACCAACCC
1 GGGGATACTCCAACCC
1698035 CGTTATTTTG
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
49 3 0.03
50 39 0.40
51 56 0.57
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (50 bp):
GGGGATACTCCAACCCGACTTTATTTCTAAAATATTGATTTCTCACAATC
Found at i:1698077 original size:79 final size:79
Alignment explanation
Indices: 1697973--1698220 Score: 220
Period size: 79 Copynumber: 3.1 Consensus size: 79
1697963 ATAATCGGGG
* **
1697973 TACTCCAACCCTGACTTTATTTCTAAA-ATATTGATTTCTCACAATCGGGGATACACCAACCCCG
1 TACTCCAACCCTGACCTTATTTCTAAAGAT-TCAATTTCTCACAATCGGGGATACACCAACCCCG
**
1698037 TTA-TTTTGGTGGGCA
65 TTATTTTTGAAGGG-A
* * * *
1698052 TACTCCAACCCT-AGCCTTATTTCTAAAGCTTCAATTTTTCACAATTGGGGATACTCCAACCCCG
1 TACTCCAACCCTGA-CCTTATTTCTAAAGATTCAATTTCTCACAATCGGGGATACACCAACCCCG
1698116 TTATTTTTGAAGGGA
65 TTATTTTTGAAGGGA
* ** * * * * * *
1698131 TACTCCAACCCCGATTTTATTT-TCAAA-ATGCTGATTT-TCTATAGTCAGGGATACTCCAACCC
1 TACTCCAACCCTGACCTTATTTCT-AAAGATTC-AATTTCTC-ACAATCGGGGATACACCAACCC
* *
1698193 TGTTATTTTTGAGGGGA
63 CGTTATTTTTGAAGGGA
1698210 TACTCCAACCC
1 TACTCCAACCC
1698221 CGATTTTATT
Statistics
Matches: 141, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
78 6 0.04
79 125 0.89
80 10 0.07
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (79 bp):
TACTCCAACCCTGACCTTATTTCTAAAGATTCAATTTCTCACAATCGGGGATACACCAACCCCGT
TATTTTTGAAGGGA
Found at i:1698078 original size:180 final size:180
Alignment explanation
Indices: 1697776--1698115 Score: 413
Period size: 180 Copynumber: 1.9 Consensus size: 180
1697766 AAATTTCTAG
* * * *
1697776 ATTTTTCATCATGGGGATACTCCAACCCCAGTTTTATTTCCAAAACATAAATTTTTCATAATCGG
1 ATTTTTCATAATGGGGATACTCCAACCCCAGCTTTATTTCCAAAACATAAATTTCTCACAATCGG
* * * * **
1697841 GGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAATTCCGACTTTATTTCTAAA-ATATTG
66 GGATACACCAACCCCGTTATTTCTGAGGGGATACTCCAATCCCGACCTTATTTCTAAAGAT-TCA
1697905 ATTTCTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCA
130 ATTTCTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCA
* * * **
1697956 ATTTTTCATAATCGGGG-TACTCCAA-CCCTGACTTTATTTCTAAAATATTGATTTCTCACAATC
1 ATTTTTCATAAT-GGGGATACTCCAACCCCAG-CTTTATTTCCAAAACATAAATTTCTCACAATC
* *
1698019 GGGGATACACCAACCCCGTTATTT-TG-GTGGGCATACTCCAA-CCCTAGCCTTATTTCTAAAGC
64 GGGGATACACCAACCCCGTTATTTCTGAG-GGG-ATACTCCAATCCCGA-CCTTATTTCTAAAGA
* *
1698081 TTCAATTTTTCACAATTGGGGATACTCCAACCCCG
126 TTCAATTTCTCACAATCGGGGATACTCCAACCCCG
1698116 TTATTTTTGA
Statistics
Matches: 135, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
178 1 0.01
179 12 0.09
180 117 0.87
181 5 0.04
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (180 bp):
ATTTTTCATAATGGGGATACTCCAACCCCAGCTTTATTTCCAAAACATAAATTTCTCACAATCGG
GGATACACCAACCCCGTTATTTCTGAGGGGATACTCCAATCCCGACCTTATTTCTAAAGATTCAA
TTTCTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCA
Found at i:1698221 original size:79 final size:79
Alignment explanation
Indices: 1698099--1698275 Score: 250
Period size: 79 Copynumber: 2.2 Consensus size: 79
1698089 TTCACAATTG
*
1698099 GGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCCGATTTTATTTTCA-AA-ATGC
1 GGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCCGATTTTATTTCCAGAACAT-C
* *
1698162 TGATTTTCTATAGTCA
65 -GATTTTCCATAATCA
* *
1698178 GGGATACTCCAACCCTGTTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTCCAGAACATCG
1 GGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCCGATTTTATTTCCAGAACATCG
*
1698243 ATTTTCCATAATCG
66 ATTTTCCATAATCA
* *
1698257 GGGATACTCTAGCCCCGTT
1 GGGATACTCCAACCCCGTT
1698276 GTTATCCCTA
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 82 0.94
80 3 0.03
81 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCCGATTTTATTTCCAGAACATCG
ATTTTCCATAATCA
Found at i:1699010 original size:29 final size:29
Alignment explanation
Indices: 1698968--1699178 Score: 184
Period size: 29 Copynumber: 7.3 Consensus size: 29
1698958 TCACCCTTCA
*
1698968 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCTTTTCC
*
1698997 AAAGCCCACAAGTCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCC
* * *
1699025 AAAGCTCACAAGTCGGTGGCACCCCTTT-C
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCC
* *
1699054 AAAGCCGACAAGTCAGTGGTACCCTTTT-C
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCC
* * * *
1699083 AAAGCCTACAAGTCAGCGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCC
*
1699112 AAAGCCCACAAGTCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCC
* * * *
1699140 AAAGCACACAAGTTAGT-GCAACCCTTTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCC
1699169 AAAGCCCACA
1 AAAGCCCACA
1699179 CAAGTTGGCG
Statistics
Matches: 153, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
27 7 0.05
28 47 0.31
29 93 0.61
30 6 0.04
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTCC
Found at i:1699168 original size:57 final size:56
Alignment explanation
Indices: 1698962--1699178 Score: 242
Period size: 57 Copynumber: 3.8 Consensus size: 56
1698952 CATTCCTCAC
* * *
1698962 CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAAG-CCACAAGTCAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCAA
* * * *
1699019 CCTTCAAAAGCTCACAAGTCGGTGGCACCCCTTTC-AAAGCCGACAAGTCAGTGGTAC
1 CCTTCAAAAGC-CACAAGTCAGTGGCA-CCCTTTCAAAAGCCCACAAGTCAGTGGCAA
* * *
1699076 CCTTTTC-AAAGCCTACAAGTCAGCGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CC--TTCAAAAGCC-ACAAGTCAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCAA
*
1699134 CCTTCAAAAGCACACAAGTTAGT-GCAACCCTTTCAAAAGCCCACA
1 CCTTCAAAAGC-CACAAGTCAGTGGC-ACCCTTTCAAAAGCCCACA
1699179 CAAGTTGGCG
Statistics
Matches: 134, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
56 6 0.04
57 81 0.60
58 44 0.33
59 3 0.02
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (56 bp):
CCTTCAAAAGCCACAAGTCAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCAA
Found at i:1699242 original size:21 final size:21
Alignment explanation
Indices: 1699218--1699285 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
1699208 ATATCACTGG
1699218 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
* **
1699239 CCTTTAAGTC--CA-ATGTCACTA
1 CCTTGAA-TCAGCATAT-TGGC-A
1699260 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCATATTGGCA
1699282 CCTT
1 CCTT
1699286 TAAGTCCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 4 0.12
21 13 0.38
22 9 0.26
23 4 0.12
24 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:1699265 original size:43 final size:43
Alignment explanation
Indices: 1699204--1699459 Score: 341
Period size: 43 Copynumber: 5.8 Consensus size: 43
1699194 TTCTTCTAAA
*
1699204 TCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTAAG
1 TCCAATGTCACTGGCCTTGAATCAGCATATTGGCACCTTTAAG
*
1699247 TCCAATGTCACTAGCCTTGAATCAGCATATTGGCACCTTTAAG
1 TCCAATGTCACTGGCCTTGAATCAGCATATTGGCACCTTTAAG
* * * *
1699290 TCCAATGTCACCGGCCTTGAATTAACACATTGGCATCTTCATCTTTAAG
1 TCCAATGTCACTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAG
** *
1699339 TCCAATACCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAG
1 TCCAATGTCACTGGCCTTGAATCAGCATATTGGCACCTTTAAG
**
1699382 TCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACCTTTAAG
1 TCCAATGTCACTGGCCTTGAATCAGCATATTGGCACCTTTAAG
* *
1699425 TCCAATGTCACCGGCCTTGAATCAGCACATTGGCA
1 TCCAATGTCACTGGCCTTGAATCAGCATATTGGCA
1699460 TCTTCATCTT
Statistics
Matches: 186, Mismatches: 21, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
43 149 0.80
45 1 0.01
47 1 0.01
49 35 0.19
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (43 bp):
TCCAATGTCACTGGCCTTGAATCAGCATATTGGCACCTTTAAG
Found at i:1699377 original size:21 final size:21
Alignment explanation
Indices: 1699353--1699420 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
1699343 ATACCGCTGG
1699353 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
* * *
1699374 CCTTTAAGTC--CA-ATGTTGCTGG
1 CCTTGAA-TCAGCATAT-TGGC--A
1699396 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
1699417 CCTT
1 CCTT
1699421 TAAGTCCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:1699414 original size:92 final size:92
Alignment explanation
Indices: 1699240--1699416 Score: 264
Period size: 92 Copynumber: 1.9 Consensus size: 92
1699230 ATATTGGCAC
**
1699240 CTTTAAGTCCAATGTCACTAGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGGC
1 CTTTAAGTCCAATACCACTAGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGGC
*
1699305 CTTGAATTAACACATTGGCATCTTCAT
66 CTTGAATCAACACATTGGCATCTTCAT
* * ** *
1699332 CTTTAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTTGCTGGC
1 CTTTAAGTCCAATACCACTAGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGGC
* *
1699397 CTTGAATCAGCATATTGGCA
66 CTTGAATCAACACATTGGCA
1699417 CCTTTAAGTC
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATACCACTAGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGGC
CTTGAATCAACACATTGGCATCTTCAT
Found at i:1699446 original size:135 final size:135
Alignment explanation
Indices: 1699195--1699478 Score: 487
Period size: 135 Copynumber: 2.1 Consensus size: 135
1699185 GGCGGTATCT
* *
1699195 TCTTCTAAATCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACTA
1 TCTT-TAAGTCCAATACCACTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACTA
*
1699260 GCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGGCCTTGAATTAACACATTGGCA
65 GCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGGCCTTGAATCAACACATTGGCA
1699325 TCTTCA
130 TCTTCA
* ** *
1699331 TCTTTAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTTGCTGG
1 TCTTTAAGTCCAATACCACTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACTAG
*
1699396 CCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGGCCTTGAATCAGCACATTGGCAT
66 CCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGGCCTTGAATCAACACATTGGCAT
1699461 CTTCA
131 CTTCA
1699466 TCTTTAAGTCCAA
1 TCTTTAAGTCCAA
1699479 AATGTATGCT
Statistics
Matches: 140, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
135 136 0.97
136 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (135 bp):
TCTTTAAGTCCAATACCACTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACTAG
CCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGGCCTTGAATCAACACATTGGCAT
CTTCA
Found at i:1712431 original size:14 final size:14
Alignment explanation
Indices: 1712412--1712464 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
1712402 CCTTCGCAAG
*
1712412 AAAAAAACAAAACC
1 AAAAAAACAAAAAC
1712426 AAAAAAACAAAAAC
1 AAAAAAACAAAAAC
*
1712440 --AAAACCAAAAA-
1 AAAAAAACAAAAAC
1712451 AAAAACAACAAAAA
1 AAAAA-AACAAAAA
1712465 AGGGTCCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 10 0.30
13 3 0.09
14 20 0.61
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAACAAAAAC
Found at i:1712439 original size:20 final size:19
Alignment explanation
Indices: 1712412--1712463 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 19
1712402 CCTTCGCAAG
1712412 AAAAAAACAAAACCAAAAA
1 AAAAAAACAAAACCAAAAA
1712431 AACAAAAACAAAACCAAAAA
1 AA-AAAAACAAAACCAAAAA
1712451 AAAAACAACAAAA
1 AAAAA-AACAAAA
1712464 AAGGGTCCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAACCAAAAA
Found at i:1712443 original size:26 final size:26
Alignment explanation
Indices: 1712414--1712464 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1712404 TTCGCAAGAA
*
1712414 AAAAACAAAACCAAAAA-AACAAAAAC
1 AAAAACAAAA-AAAAAACAACAAAAAC
*
1712440 AAAACCAAAAAAAAAACAACAAAAA
1 AAAAACAAAAAAAAAACAACAAAAA
1712465 AGGGTCCGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAAACAAAAAAAAAACAACAAAAAC
Found at i:1713619 original size:43 final size:43
Alignment explanation
Indices: 1713555--1713899 Score: 375
Period size: 43 Copynumber: 7.7 Consensus size: 43
1713545 TTCTTTGACA
*
1713555 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATGTCCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATG
* * * *
1713598 TCGCTGGCTTTAAATCCGCATATTAGCACCTTTAAGTCCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATG
*
1713641 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATG
* *
1713684 TCGCCGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATG
* ** *
1713733 TCGGTAACCTTGAATCAGCATATTGGCACCTTTAAATCCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATG
** * *
1713776 TCGCCAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATG
* *
1713825 TCGTTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAGTG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATG
* ** * *
1713868 TCACCAGCCTTGAATCAGCACATTGGTACCTT
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTT
1713900 CATCTTTAAG
Statistics
Matches: 255, Mismatches: 35, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
43 177 0.69
45 2 0.01
47 2 0.01
49 74 0.29
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (43 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATG
Found at i:1713672 original size:21 final size:21
Alignment explanation
Indices: 1713648--1713711 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
1713638 ATGTCGCTGG
1713648 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
* * * *
1713669 CCTTTAAGTC--CAATATCGCCGG
1 CCTTGAA-TCAGC-ATATTGGC-A
1713691 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
1713712 TCTTCATCTT
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
20 1 0.03
21 14 0.47
22 14 0.47
23 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:1713744 original size:49 final size:49
Alignment explanation
Indices: 1713670--1713948 Score: 267
Period size: 49 Copynumber: 5.9 Consensus size: 49
1713660 ATATTGGCAC
*
1713670 CTTTAAGTCCAATATCGCCGGCCTTGAATCAGCATATTGGCATCTTCAT
1 CTTTAAGTCCAATATCGCCAGCCTTGAATCAGCATATTGGCATCTTCAT
** *
1713719 CTTTAAGTCCAATATCGGTAACCTTGAATCAGCATATTGGCA----C--
1 CTTTAAGTCCAATATCGCCAGCCTTGAATCAGCATATTGGCATCTTCAT
* * *
1713762 CTTTAAATCCAATGTCGCCAGCCTTGAATCAGCACATTGGCATCTTCAT
1 CTTTAAGTCCAATATCGCCAGCCTTGAATCAGCATATTGGCATCTTCAT
***
1713811 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA----C--
1 CTTTAAGTCCAATATCGCCAGCCTTGAATCAGCATATTGGCATCTTCAT
* * * * * *
1713854 CTTTAAGTCCAGTGTCACCAGCCTTGAATCAGCACATTGGTACCTTCAT
1 CTTTAAGTCCAATATCGCCAGCCTTGAATCAGCATATTGGCATCTTCAT
* * *** * *
1713903 CTTTAAGTTCGATATCGTTGGCCTTGAATCAGCATACTGGAATCTT
1 CTTTAAGTCCAATATCGCCAGCCTTGAATCAGCATATTGGCATCTT
1713949 TAACATTTCT
Statistics
Matches: 182, Mismatches: 36, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
43 70 0.38
45 2 0.01
47 2 0.01
49 108 0.59
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
CTTTAAGTCCAATATCGCCAGCCTTGAATCAGCATATTGGCATCTTCAT
Found at i:1713879 original size:135 final size:129
Alignment explanation
Indices: 1713554--1713899 Score: 404
Period size: 135 Copynumber: 2.6 Consensus size: 129
1713544 TTTCTTTGAC
* * * * *
1713554 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATGTCCAATGTCGCTGGCTTTAAATCCGCAT
1 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCAT
* * ** *
1713619 ATTAGCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAAT
66 ATTGGCACCTTTAAATCCAATGTCGCCAGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAAT
* * * *
1713683 ATCGCCGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATATCGGTAACCTTGAAT
1 ATCGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATGTCGCTAGCCTTGAAT
1713748 CAGCATATTGGCACCTTTAAATCCAATGTCGCCAGCCTTGAATCAGCACATTGGCATCTTCATCT
60 CAGCATATTGGCACCTTTAAATCCAATGTCGCCAGCCTTGAATCAGCACATTGGCA----C--CT
1713813 TTAAGTCCAAT
119 TTAAGTCCAAT
* * * * *
1713824 ATCGTTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAGTGTCACCAGCCTTGAATCAGCAC
1 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCAT
*
1713889 ATTGGTACCTT
66 ATTGGCACCTT
1713900 CATCTTTAAG
Statistics
Matches: 181, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
129 28 0.15
133 1 0.01
135 110 0.61
137 1 0.01
139 1 0.01
141 40 0.22
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (129 bp):
ATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCAT
ATTGGCACCTTTAAATCCAATGTCGCCAGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAAT
Found at i:1713880 original size:184 final size:178
Alignment explanation
Indices: 1713562--1713938 Score: 493
Period size: 184 Copynumber: 2.1 Consensus size: 178
1713552 ACATCGCTGG
** ** * * *
1713562 CCTTGAATCAGCATATTGGCACCTTTATGTCCAATGTCGCTGGCTTTAAATCCGCATATTAGCAC
1 CCTTGAATCAGCATATTGGCACCTTTAAATCCAATGTCGCCAGCCTTAAATCAGCACATTAGCAC
* * *
1713627 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCGCCGGC
66 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCACCAGC
* *
1713692 CTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATATCGGTAA
131 CTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGGTAA
* *
1713740 CCTTGAATCAGCATATTGGCACCTTTAAATCCAATGTCGCCAGCCTTGAATCAGCACATTGGCAT
1 CCTTGAATCAGCATATTGGCACCTTTAAATCCAATGTCGCCAGCCTTAAATCAGCACATTAGCA-
* * *
1713805 CTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAGTGTC
65 ---C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATC
* * * * **
1713870 ACCAGCCTTGAATCAGCACATTGGTACCTTCATCTTTAAGTTCGATATCGTTGG
125 ACCAGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGGTAA
1713924 CCTTGAATCAGCATA
1 CCTTGAATCAGCATA
1713939 CTGGAATCTT
Statistics
Matches: 170, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
178 55 0.32
182 1 0.01
184 114 0.67
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (178 bp):
CCTTGAATCAGCATATTGGCACCTTTAAATCCAATGTCGCCAGCCTTAAATCAGCACATTAGCAC
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCACCAGC
CTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGGTAA
Found at i:1713951 original size:92 final size:92
Alignment explanation
Indices: 1713627--1713938 Score: 489
Period size: 92 Copynumber: 3.4 Consensus size: 92
1713617 ATATTAGCAC
* * * *
1713627 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCGCCGGC
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGCCAGC
*
1713692 CTTGAATCAGCATATTGGCATCTTCAT
66 CTTGAATCAGCACATTGGCATCTTCAT
* ** *
1713719 CTTTAAGTCCAATATCGGTAACCTTGAATCAGCATATTGGCACCTTTAAATCCAATGTCGCCAGC
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGCCAGC
1713784 CTTGAATCAGCACATTGGCATCTTCAT
66 CTTGAATCAGCACATTGGCATCTTCAT
* *
1713811 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAGTGTCACCAGC
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGCCAGC
* *
1713876 CTTGAATCAGCACATTGGTACCTTCAT
66 CTTGAATCAGCACATTGGCATCTTCAT
* *
1713903 CTTTAAGTTCGATATCGTTGGCCTTGAATCAGCATA
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATA
1713939 CTGGAATCTT
Statistics
Matches: 202, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 202 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGCCAGC
CTTGAATCAGCACATTGGCATCTTCAT
Found at i:1730906 original size:19 final size:19
Alignment explanation
Indices: 1730871--1730920 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
1730861 CCACCTTTTT
1730871 AAAAAGAAAACAAAAAACA-A
1 AAAAAG-AAA-AAAAAACAGA
*
1730891 AACAAAGAAAAAAAAAGAGA
1 AA-AAAGAAAAAAAAACAGA
1730911 AAAAAGAAAA
1 AAAAAGAAAA
1730921 GAACCTGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 15 0.56
20 8 0.30
21 4 0.15
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAAAAACAGA
Found at i:1730923 original size:12 final size:11
Alignment explanation
Indices: 1730871--1730923 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
1730861 CCACCTTTTT
*
1730871 AAAAAGAAAAC
1 AAAAAGAAAAA
*
1730882 AAAAA-ACAAA
1 AAAAAGAAAAA
*
1730892 ACAAAGAAAAA
1 AAAAAGAAAAA
1730903 AAAAGAGAAAAA
1 AAAA-AGAAAAA
1730915 AGAAAAGAA
1 A-AAAAGAA
1730924 CCTGCTTAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
10 7 0.21
11 12 0.35
12 12 0.35
13 3 0.09
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:1732066 original size:55 final size:55
Alignment explanation
Indices: 1731995--1732355 Score: 339
Period size: 55 Copynumber: 6.2 Consensus size: 55
1731985 TTTCACCCTT
* *
1731995 TAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACCAGTTGGTGGCATTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
* * * *
1732050 TAGTCCTCAAAAAGCAGAACACCTTTCAAAGCCCACACCAGTTGGTGGCATTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
* * * **
1732105 CAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
* * * **
1732160 -AGTCCTCAAAGAGTAGGACGCTTTTTCCTTTTAAAACCCACACAAGTTGGTGGCACCTTC
1 TAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
* * * *
1732220 -AGTCTTCAAAGAGTAGGAGGCCTTTTCCTTATAAAGCCCACACAAGTTGGTGGCACTTTGC
1 TAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA-TTTTC
*
1732281 TAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA-TTTTC
1732343 TAGTCCTCAAAGA
1 TAGTCCTCAAAGA
1732356 ACAAGATGCC
Statistics
Matches: 263, Mismatches: 29, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
54 20 0.08
55 100 0.38
60 71 0.27
61 2 0.01
62 70 0.27
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (55 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
Found at i:1732308 original size:122 final size:120
Alignment explanation
Indices: 1731991--1732553 Score: 538
Period size: 122 Copynumber: 4.8 Consensus size: 120
1731981 CTCCTTTCAC
* * * *
1731991 CCTTTAGTCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACCAGTTGGTGGCATTTTCT
1 CCTTCAGTCCTCAAAGAGCAAGATGCCTTTTCTTATAAAGCCCACACAAGTTGGTGGCACTTTCT
* * * * *
1732051 AGTCCTCAAAAAGCAGAACACC-TTT-C----AAAGCCCACACCAGTTGGTGGCA
66 AGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * *
1732100 TTTTCCAGTCCTCAAAGAGCAAGACGCC-TTTC----AAAGCCCACACAAGCTGGTGGCACCTTC
1 CCTT-CAGTCCTCAAAGAGCAAGATGCCTTTTCTTATAAAGCCCACACAAGTTGGTGGCACTTTC
* *
1732160 -AGTCCTCAAAGAGTAGGACGCTTTTTCCTTTTAAAACCCACACAAGTTGGTGGCA
65 TAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
1732215 CCTTCAGTCTTCAAAGAGTAGGAGGCCTTTTCCTTATAAAGCCCACACAAGTTGGTGGCACTTTG
1 CCTTCAGTCCTCAAAGAGCAAGATGCCTTTT-CTTATAAAGCCCACACAAGTTGGTGGCACTTT-
1732280 CTAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
64 CTAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
1732337 CTTTTCTAGTCCTCAAAGAACAAGATGCCTTTT-TCTATTAAAGCCTACACAAGTTGTTGGCACC
1 C-CTTC-AGTCCTCAAAGAGCAAGATGCCTTTTCT-TA-TAAAGCCCACACAAGTTGGTGGCACT
* * * * * *
1732401 TGCCAGTCCGT-AAAGAGTCGGATG--TTTTCTCTTTGGAAAGCTCACACAAGTTGGTGGCA
62 TTCTAGTCC-TCAAAGAGTAGGACGCCTTTTC-CTTT-TAAAGCCCACACAAGTTGGTGGCA
* * * *
1732460 CCTTCCAATCCTCAAAGAGCAAGATGCCTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACTTT
1 CCTT-CAGTCCTCAAAGAGCAAGATGCCTTTTCTTAT-AAAGCCCACACAAGTTGGTGGCACTTT
* *
1732525 TTAGTCCTCAAAGAGTAGGATGCCTTTTC
64 CTAGTCCTCAAAGAGTAGGACGCCTTTTC
1732554 GTTCTCTCCT
Statistics
Matches: 374, Mismatches: 52, Indels: 41
0.80 0.11 0.09
Matches are distributed among these distances:
109 19 0.05
110 51 0.14
111 1 0.00
114 19 0.05
115 26 0.07
116 1 0.00
120 25 0.07
121 8 0.02
122 126 0.34
123 47 0.13
124 51 0.14
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (120 bp):
CCTTCAGTCCTCAAAGAGCAAGATGCCTTTTCTTATAAAGCCCACACAAGTTGGTGGCACTTTCT
AGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1732309 original size:62 final size:60
Alignment explanation
Indices: 1732016--1732553 Score: 485
Period size: 61 Copynumber: 9.0 Consensus size: 60
1732006 GAGCAGGATG
* * * * * *
1732016 CCTTTCAAAGCCCACACCAGTTGGTGGCATTTTCTAGTCCTCAAAAAGCAGAACACC-TTT
1 CCTTT-AAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
* * * * *
1732076 -C---AAAGCCCACACCAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCC-TTT
1 CCTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
* * *
1732131 -C---AAAGCCCACACAAGCTGGTGGCACCTTC-AGTCCTCAAAGAGTAGGACGCTTTTT
1 CCTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
* * * *
1732186 CCTTTTAAAACCCACACAAGTTGGTGGCACCTTC-AGTCTTCAAAGAGTAGGAGGCCTTTT
1 CC-TTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
1732246 CCTTATAAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGTAGGACGCCTTTT
1 CCTT-TAAAGCCCACACAAGTTGGTGGCACTTT-CTAGTCCTCAAAGAGTAGGACGCCTTTT
** * *
1732308 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAACAAGATGCCTTTT
1 CC-TTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
* * * * * * * *
1732370 TCTATTAAAGCCTACACAAGTTGTTGGCACCTGCCAGTCCGT-AAAGAGTCGGATG--TTTT
1 CCT-TTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCC-TCAAAGAGTAGGACGCCTTTT
* * * * * * *
1732429 CTCTTTGGAAAGCTCACACAAGTTGGTGGCACCTTCCAATCCTCAAAGAGCAAGATGCCTTTT
1 C-CTTT--AAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
* * * * *
1732492 CTTTTCAAAGCCTACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGGATGCCTTTT
1 CCTTT-AAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
1732553 C
1 C
1732554 GTTCTCTCCT
Statistics
Matches: 404, Mismatches: 55, Indels: 37
0.81 0.11 0.07
Matches are distributed among these distances:
54 19 0.05
55 77 0.19
56 1 0.00
59 9 0.02
60 80 0.20
61 104 0.26
62 104 0.26
63 10 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
CCTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
Found at i:1732803 original size:41 final size:41
Alignment explanation
Indices: 1732560--1732825 Score: 142
Period size: 41 Copynumber: 6.2 Consensus size: 41
1732550 TTTCGTTCTC
* *
1732560 TCCTTTGTCCTCAAACAGCAGGACACATTTCATTTCCTTCTTT
1 TCCTTTGTCCTCAAAAAGCAGGACACATTTAATTTCC-T-TTT
* * * ** * * *
1732603 TCACTTTTGTCTTCAAAGAGCAGTATGCCTTT-TTTTCTTTTT
1 TC-C-TTTGTCCTCAAAAAGCAGGACACATTTAATTTCCTTTT
** * * * *
1732645 TAATTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTTTT
1 TCCTTTGTCCTCAAAAAGCAGGACACATTTAATTTCC--TTTT
* * *
1732688 TCCCTTCTAGTTCTTAAAGAGCAAGG-CACACTTT-ATTCTCCTTTT
1 T-CCTT-T-GTCCTCAAAAAGC-AGGACACA-TTTAATT-TCCTTTT
*
1732733 TCCTTTGTCCTCAAAAAGTAGGACACATTTAATTTCCTTTT
1 TCCTTTGTCCTCAAAAAGCAGGACACATTTAATTTCCTTTT
* * ** ** *
1732774 TCCTTTGTCTTTAAAGGGCAGGATGCATTTTATTTCCTTTTT
1 TCCTTTGTCCTCAAAAAGCAGGACACATTTAATTTCC-TTTT
*
1732816 TCCTTAGTCC
1 TCCTTTGTCC
1732826 CCAAGGAGCA
Statistics
Matches: 172, Mismatches: 37, Indels: 29
0.72 0.16 0.12
Matches are distributed among these distances:
40 22 0.13
41 46 0.27
42 32 0.19
43 9 0.05
44 11 0.06
45 27 0.16
46 17 0.10
47 8 0.05
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.44
Consensus pattern (41 bp):
TCCTTTGTCCTCAAAAAGCAGGACACATTTAATTTCCTTTT
Found at i:1735347 original size:51 final size:51
Alignment explanation
Indices: 1735288--1735384 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
1735278 TAATCCCGGC
* *** *
1735288 TTTATTTCTAAAATATTGATTTCTCACAATCGGAGATACTTCAACCTCGAT
1 TTTATTTCTAAAACACCAATTTCTCACAATCGGAGATACTCCAACCTCGAT
* *
1735339 TTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
1 TTTATTTCTAAAACACCAATTTCTCACAATCGGAGATACTCCAACC
1735385 CCGTTATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (51 bp):
TTTATTTCTAAAACACCAATTTCTCACAATCGGAGATACTCCAACCTCGAT
Found at i:1735423 original size:129 final size:129
Alignment explanation
Indices: 1735193--1735465 Score: 399
Period size: 129 Copynumber: 2.1 Consensus size: 129
1735183 TCATCTCAGG
* * * * *
1735193 GATACTCCAACCCCGGTTTTATTTCAAAACATCAATTTTTCATAACCGGGGATACTCCAATCTCG
1 GATACTCCAACCCCGATTTTATTTCAAAACACCAATTTTTCACAACCGGGGATACTCCAACCCCG
1735258 TTAATTCTGAGGGGATACTCTAATCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGA
66 TTAATTCTGAGGGGATACTCTAATCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGA
* * *
1735322 GATACTTCAACCTCGATTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCC
1 GATACTCCAACCCCGATTTTATTTC-AAAACACCAATTTTTCACAACCGGGGATACTCCAACCCC
* *
1735387 GTT-ATTTTCGA-GGGATACTCTAA-CTCCGGCTTTATTTCTACAATATTGATTTCTCACAATCG
65 GTTAATTCT-GAGGGGATACTCTAATC-CCGGCTTTATTTCTAAAATATTGATTTCTCACAATCG
*
1735449 GG
128 GA
1735451 GATACTCCAACCCCG
1 GATACTCCAACCCCG
1735466 TTATTTTGGC
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
128 1 0.01
129 88 0.69
130 39 0.30
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (129 bp):
GATACTCCAACCCCGATTTTATTTCAAAACACCAATTTTTCACAACCGGGGATACTCCAACCCCG
TTAATTCTGAGGGGATACTCTAATCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGA
Found at i:1735580 original size:79 final size:79
Alignment explanation
Indices: 1735322--1735704 Score: 355
Period size: 79 Copynumber: 4.9 Consensus size: 79
1735312 CACAATCGGA
* * * * * *
1735322 GATACTTCAACCTCGATTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCC
1 GATACTCCAACCCCGATTTTATTTCTAAAGCATCGATTTTCCACAATCGGGGATACTCCAACCCC
1735387 GTTATTTTCGA-GG
66 GTTATTTTCGAGGG
* * ** * *
1735400 GATACTCTAACTCCGGCTTTATTTCTACAA-TATTGA-TTTCTCACAATCGGGGATACTCCAACC
1 GATACTCCAACCCCGATTTTATTTCTA-AAGCATCGATTTTC-CACAATCGGGGATACTCCAACC
* *
1735463 CCGTTATTTTGGCGGG
64 CCGTTATTTTCGAGGG
*** * * *
1735479 GATACTCCAACCCCGGCCTTATTTCTAAAGCTTCGGTTTTCCACAATCGGGGATACTCCAACCCT
1 GATACTCCAACCCCGATTTTATTTCTAAAGCATCGATTTTCCACAATCGGGGATACTCCAACCCC
*
1735544 TTTATTTTCGAGGG
66 GTTATTTTCGAGGG
* * * **
1735558 GATACTCCAACCCCGATTTTATTTTCAAAATGC--CGATTTTCTATAATCACGGATACTCCAACC
1 GATACTCCAACCCCGATTTTA-TTTCTAAA-GCATCGATTTTCCACAATCGGGGATACTCCAACC
** **
1735621 CTATTATTTTTTAGGG
64 CCGTTATTTTCGAGGG
* * * * * *
1735637 GATACTCCAATCCCGATTTTATTTCCAGAA-CATCTATTTTCCATAATCAGGGATACTCCAGCCC
1 GATACTCCAACCCCGATTTTATTTCTA-AAGCATCGATTTTCCACAATCGGGGATACTCCAACCC
1735701 CGTT
65 CGTT
1735705 GTTATCCCCA
Statistics
Matches: 251, Mismatches: 44, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
77 4 0.02
78 63 0.25
79 171 0.68
80 11 0.04
81 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (79 bp):
GATACTCCAACCCCGATTTTATTTCTAAAGCATCGATTTTCCACAATCGGGGATACTCCAACCCC
GTTATTTTCGAGGG
Found at i:1738171 original size:10 final size:10
Alignment explanation
Indices: 1738140--1738174 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
1738130 CTCAATGTAT
1738140 AGTGATGAAC
1 AGTGATGAAC
*
1738150 AATGATGAAC
1 AGTGATGAAC
1738160 AGTGATGAAC
1 AGTGATGAAC
1738170 AGTGA
1 AGTGA
1738175 AAATGAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.29, T:0.20
Consensus pattern (10 bp):
AGTGATGAAC
Found at i:1739089 original size:30 final size:30
Alignment explanation
Indices: 1739050--1739107 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1739040 AACTAAAACT
* *
1739050 AAAAGTTTATGCAAGCTCTCCCCTTTAATA
1 AAAAGTTTATGCAAACTCTCCCCCTTAATA
*
1739080 AAAATTTTATGCAAACTCTCCCCCTTAA
1 AAAAGTTTATGCAAACTCTCCCCCTTAA
1739108 CACGTTCTCA
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:0.34, C:0.26, G:0.07, T:0.33
Consensus pattern (30 bp):
AAAAGTTTATGCAAACTCTCCCCCTTAATA
Found at i:1741426 original size:29 final size:29
Alignment explanation
Indices: 1741394--1741450 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
1741384 TTAAAGTGTG
1741394 TTTTTTTTCAATTCCATTATAACCTAAGA
1 TTTTTTTTCAATTCCATTATAACCTAAGA
1741423 TTTTTTTTCAATTCCATTATAACCTAAG
1 TTTTTTTTCAATTCCATTATAACCTAAG
1741451 CCATCTTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.18, G:0.04, T:0.49
Consensus pattern (29 bp):
TTTTTTTTCAATTCCATTATAACCTAAGA
Found at i:1752403 original size:165 final size:166
Alignment explanation
Indices: 1752112--1752418 Score: 447
Period size: 165 Copynumber: 1.9 Consensus size: 166
1752102 TTCACCCTAT
* * * * *
1752112 GCATTCAAATATTGATCATAAACTAAAAATATGTCCATGACAGTAATTTAAATCCCGTTTCATGT
1 GCATTCAAATAGTGATCACAAACTAAAAATATGTCCACGACAGTAATTTAAATCCCATTTCATAT
* * *
1752177 CTCTATCTTTTCTTTGTGGCCTAGCTCATGCAAATTTTTTTACTGTAAGTAACCAATATGGTTTT
66 CTCTATCTTTTCTTTGTGGCCTAGCTCATACAAATGTTTTTAATGTAAGTAACCAATATGGTTTT
1752242 GGATCAAAGGCTACACTTTATTTTAGCTTGTCCAAC
131 GGATCAAAGGCTACACTTTATTTTAGCTTGTCCAAC
* *** *
1752278 GCATTTAAATAGTGAT-ACAAACTAAAAATATGTTTGCGATAGTAATTTAAATCCCATTTCATAT
1 GCATTCAAATAGTGATCACAAACTAAAAATATGTCCACGACAGTAATTTAAATCCCATTTCATAT
* * *
1752342 CTCTGTCTTTTCTTTTTGGCCTAGCTCATACAAATGTTTTTAATGTAGGT-ACCTAATATGGTTT
66 CTCTATCTTTTCTTTGTGGCCTAGCTCATACAAATGTTTTTAATGTAAGTAACC-AATATGGTTT
1752406 TGGATCAAAGGCT
130 TGGATCAAAGGCT
1752419 GCTTGCTAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
164 3 0.02
165 107 0.86
166 14 0.11
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (166 bp):
GCATTCAAATAGTGATCACAAACTAAAAATATGTCCACGACAGTAATTTAAATCCCATTTCATAT
CTCTATCTTTTCTTTGTGGCCTAGCTCATACAAATGTTTTTAATGTAAGTAACCAATATGGTTTT
GGATCAAAGGCTACACTTTATTTTAGCTTGTCCAAC
Found at i:1754515 original size:81 final size:81
Alignment explanation
Indices: 1754290--1754763 Score: 414
Period size: 81 Copynumber: 5.9 Consensus size: 81
1754280 GAAAAGAACC
* * * * * * *
1754290 AGGGTTGGAGTATCCCTATAGATAGAAAATTTGATAT-TTTTTAGAAGTAAAAACGAGGTTAGAG
1 AGGGTTAGAGTATCCCCAAAGATGGAAAA-TTCA-ATGTTTTTAGAAGTAAAAACGGGGTTGGAG
* *
1754354 TATCCCCTCAGAGATGG-
64 TATCCCCTCAAAAATGGT
* * * * *
1754371 AGGGGTT-GAGTAT-CCCAAATATGGAAAATT-AATGTTTTTTAAAACTGAAAACGGGGTTAGAG
1 A-GGGTTAGAGTATCCCCAAAGATGGAAAATTCAATG-TTTTTAGAAGTAAAAACGGGGTTGGAG
1754433 TATCCCCTCAAAAATGGT
64 TATCCCCTCAAAAATGGT
* * * * * * *
1754451 GGGGTTGGGGAATCCCCAAAGAAGGAAAATTCAATGTTTTTAGAAGTAAAAATGGGGATGGAGTA
1 AGGGTTAGAGTATCCCCAAAGATGGAAAATTCAATGTTTTTAGAAGTAAAAACGGGGTTGGAGTA
*
1754516 TCCCCTCAAAAATGGA
66 TCCCCTCAAAAATGGT
* * *
1754532 AGAGTTAGAGTATCTCCAAAGATGGAAAATTTAATGTTTTTAGAAGT-AAAACGGGGTTGGAGTA
1 AGGGTTAGAGTATCCCCAAAGATGGAAAATTCAATGTTTTTAGAAGTAAAAACGGGGTTGGAGTA
* * *
1754596 TCTCCTAAAAAATGAT
66 TCCCCTCAAAAATGGT
* * * * * *
1754612 AAGGTTAGAGTATCCCTAAAGATGGACAATTCGATGTTTTTAGAAGTAAAGACGGAGTTGGAGTA
1 AGGGTTAGAGTATCCCCAAAGATGGAAAATTCAATGTTTTTAGAAGTAAAAACGGGGTTGGAGTA
* *
1754677 TTCCCTTAAAAA---T
66 TCCCCTCAAAAATGGT
* * * * * *
1754690 --GGTTAGAGTATCCCTAAAGATGGAAAAAAAT-GATGTTTTTGGAAGTAAAGACGGGATTGGAG
1 AGGGTTAGAGTATCCCCAAAGATGG--AAAATTCAATGTTTTTAGAAGTAAAAACGGGGTTGGAG
* *
1754752 TATTCGCTCAAA
64 TATCCCCTCAAA
1754764 GATGACGGGG
Statistics
Matches: 328, Mismatches: 55, Indels: 24
0.81 0.14 0.06
Matches are distributed among these distances:
76 23 0.07
77 40 0.12
78 6 0.02
79 45 0.14
80 82 0.25
81 123 0.38
82 9 0.03
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (81 bp):
AGGGTTAGAGTATCCCCAAAGATGGAAAATTCAATGTTTTTAGAAGTAAAAACGGGGTTGGAGTA
TCCCCTCAAAAATGGT
Found at i:1754586 original size:161 final size:157
Alignment explanation
Indices: 1754327--1754768 Score: 451
Period size: 161 Copynumber: 2.8 Consensus size: 157
1754317 AATTTGATAT
* * * * *
1754327 TTTTTAGAAGTAAAAACGAGGTTAGAGTATCCCCTCAGAGATGGAGGGGTT-GAGTATCCCAAAT
1 TTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTCAAAAATGGA--GGTTAGAGTATCCCAAAG
* * * * **
1754391 ATGGAAAATTAATGTTTTTTAAAACTGAAAACGGGGTTAGAGTATCCCCTCAAAAATGGTGGGGT
64 ATGGAAAATTAATG-TTTTTAGAAGT-AAAACGGGGTTGGAGTATCCCCTCAAAAATGATAAGGT
* *
1754456 TGGGGAATCCCCAAAGAAGGAAAATTCAATG
127 TAGAGAATCCCCAAAGAAGGAAAATTCAATG
* *
1754487 TTTTTAGAAGTAAAAATGGGGATGGAGTATCCCCTCAAAAATGGAAGAGTTAGAGTATCTCCAAA
1 TTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTCAAAAATGG-AG-GTTAGAGTATC-CCAAA
* *
1754552 GATGGAAAATTTAATGTTTTTAGAAGTAAAACGGGGTTGGAGTATCTCCTAAAAAATGATAAGGT
63 GATGGAAAA-TTAATGTTTTTAGAAGTAAAACGGGGTTGGAGTATCCCCTCAAAAATGATAAGGT
* * * * *
1754617 TAGAGTATCCCTAAAGATGGACAATTCGATG
127 TAGAGAATCCCCAAAGAAGGAAAATTCAATG
* * * *
1754648 TTTTTAGAAGTAAAGACGGAGTTGGAGTATTCCCTTAAAAAT---GGTTAGAGTATCCCTAAAGA
1 TTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTCAAAAATGGAGGTTAGAGTATCCC-AAAGA
* * * * * * *
1754710 TGGAAAAAAATGATGTTTTTGGAAGTAAAGACGGGATTGGAGTATTCGCTCAAAGATGA
65 TGG--AAAATTAATGTTTTTAGAAGTAAA-ACGGGGTTGGAGTATCCCCTCAAAAATGA
1754769 CGGGGTTAAA
Statistics
Matches: 236, Mismatches: 37, Indels: 20
0.81 0.13 0.07
Matches are distributed among these distances:
155 2 0.01
156 19 0.08
157 18 0.08
158 27 0.11
159 1 0.00
160 41 0.17
161 100 0.42
162 22 0.09
163 6 0.03
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (157 bp):
TTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTCAAAAATGGAGGTTAGAGTATCCCAAAGAT
GGAAAATTAATGTTTTTAGAAGTAAAACGGGGTTGGAGTATCCCCTCAAAAATGATAAGGTTAGA
GAATCCCCAAAGAAGGAAAATTCAATG
Found at i:1754750 original size:77 final size:80
Alignment explanation
Indices: 1754462--1754756 Score: 274
Period size: 80 Copynumber: 3.7 Consensus size: 80
1754452 GGGTTGGGGA
* * * * * *
1754462 ATCCCCAAAGAAGG-AAAATTCAATGTTTTTAGAAGTAAAAATGGGGA-TGGAGTA-TCCCCTCA
1 ATCCCTAAAGATGGAAAAATT-GATGTTTTTAGAAGTAAAGA-CGGGATTGGAGTATTCTCCT-A
*
1754524 AAAATGGA-AGAGTTAGAGT
63 AAAA-AGATAG-GTTAGAGT
* * *
1754543 ATCTCC-AAAGATGGAAAATTTAATGTTTTTAGAAGTAAA-ACGGGGTTGGAGTA-TCTCCTAAA
1 ATC-CCTAAAGATGGAAAAATTGATGTTTTTAGAAGTAAAGACGGGATTGGAGTATTCTCCTAAA
1754605 AAATGATAAGGTTAGAGT
65 AAA-GAT-AGGTTAGAGT
* *
1754623 ATCCCTAAAGATGG-ACAATTCGATGTTTTTAGAAGTAAAGAC-GGAGTTGGAGTATTC-CCT-T
1 ATCCCTAAAGATGGAAAAATT-GATGTTTTTAGAAGTAAAGACGGGA-TTGGAGTATTCTCCTAA
1754684 AAAA-AT-GGTTAGAGT
64 AAAAGATAGGTTAGAGT
* *
1754699 ATCCCTAAAGATGGAAAAAAATGATGTTTTTGGAAGTAAAGACGGGATTGGAGTATTC
1 ATCCCTAAAGATGG-AAAAATTGATGTTTTTAGAAGTAAAGACGGGATTGGAGTATTC
1754757 GCTCAAAGAT
Statistics
Matches: 186, Mismatches: 14, Indels: 32
0.80 0.06 0.14
Matches are distributed among these distances:
76 23 0.12
77 31 0.17
78 9 0.05
79 16 0.09
80 55 0.30
81 43 0.23
82 9 0.05
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.28
Consensus pattern (80 bp):
ATCCCTAAAGATGGAAAAATTGATGTTTTTAGAAGTAAAGACGGGATTGGAGTATTCTCCTAAAA
AAGATAGGTTAGAGT
Found at i:1757231 original size:50 final size:52
Alignment explanation
Indices: 1757128--1757263 Score: 163
Period size: 51 Copynumber: 2.7 Consensus size: 52
1757118 AATAGCCTAC
* * * * *
1757128 ATGTATCTATACATTGAAGAATGTAT-GATACATTTGGGTTAGAAACCCAGA
1 ATGTATCAATACAATGAAAAATGTATCAATACATTTGGGTTACAAACCCAGA
* *
1757179 ATGTTTCAATACAATGAATAATGTATCAATACATTTGGG-T-CAAACCCAGA
1 ATGTATCAATACAATGAAAAATGTATCAATACATTTGGGTTACAAACCCAGA
* *
1757229 ATGTATCGATACAAT-AAAAATATATCAATACATTT
1 ATGTATCAATACAATGAAAAATGTATCAATACATTT
1757264 TTTTTAAGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
49 18 0.24
50 22 0.30
51 23 0.31
52 11 0.15
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (52 bp):
ATGTATCAATACAATGAAAAATGTATCAATACATTTGGGTTACAAACCCAGA
Found at i:1759046 original size:50 final size:51
Alignment explanation
Indices: 1758928--1759065 Score: 161
Period size: 50 Copynumber: 2.7 Consensus size: 51
1758918 AATAGCCTGC
* * * *
1758928 ATGTATCGATACATTGGAGAATGTATCAATACATTTGGGTCAAAAACCCATA
1 ATGTATCGATACAATGAAAAATGTATCAATACATTTGGGT-AAAAACCCAAA
* * * *
1758980 ATATATCGATACAATGAATAATGTATCAATCCATTTGGGT-TAAACCCAAA
1 ATGTATCGATACAATGAAAAATGTATCAATACATTTGGGTAAAAACCCAAA
* * *
1759030 ATGTATCAATACAATGAAAAATATATCGATACATTT
1 ATGTATCGATACAATGAAAAATGTATCAATACATTT
1759066 TTTTCTACAA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
50 38 0.52
52 35 0.48
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACAATGAAAAATGTATCAATACATTTGGGTAAAAACCCAAA
Found at i:1760061 original size:44 final size:44
Alignment explanation
Indices: 1760012--1760132 Score: 161
Period size: 44 Copynumber: 2.8 Consensus size: 44
1760002 AAGTTAAAAA
* *
1760012 TGCCACCAATTTGTGTAGGCTTTAAAAAAGAAAAAGGAAAAGGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAAAGGAAAAGGG
* *
1760056 TGCCACCAACTTGTATGGGCTTTAAAAAAGAAAAAGGAAAGGGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAAAGGAAAAGGG
** * * *
1760100 CACCACTAGCTTGTGTGGGCTTTGAAAAAGAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAAAGAAA
1760133 GGAAAGCTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.21
Consensus pattern (44 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAAAGGAAAAGGG
Found at i:1760255 original size:63 final size:66
Alignment explanation
Indices: 1760145--1760266 Score: 178
Period size: 63 Copynumber: 1.9 Consensus size: 66
1760135 AAAGCTTTTC
* *
1760145 GCTCTTTGCAGACTAAAAGAGGATAAAGGGTGCCACTAACTAATGTGGGCTTTAAAAAAATGTCT
1 GCTCTTTGAAGACTAAAAGAGGATAAAGGGTGCCACCAACTAATGTGGGCTTTAAAAAAATGTCT
1760210 T
66 T
* **
1760211 GCTCTTTGAAGACT-AAA-AGG-TAAAGGGTGCCACCAATTTGTGTGGGCTTTAAAAAA
1 GCTCTTTGAAGACTAAAAGAGGATAAAGGGTGCCACCAACTAATGTGGGCTTTAAAAAA
1760267 GAAAAAAGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
63 32 0.63
64 3 0.06
65 3 0.06
66 13 0.25
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (66 bp):
GCTCTTTGAAGACTAAAAGAGGATAAAGGGTGCCACCAACTAATGTGGGCTTTAAAAAAATGTCT
T
Found at i:1760264 original size:182 final size:183
Alignment explanation
Indices: 1760043--1760455 Score: 470
Period size: 186 Copynumber: 2.3 Consensus size: 183
1760033 TTAAAAAAGA
*
1760043 AAAAGGAAAAGGGTGCCACCAACTTGTATGGGCTTTAAAAAAGAAAAAGG-A-AAGG-GGCACCA
1 AAAAGGTAAAGGGTGCCACCAACTTGTATGGGCTTTAAAAAAGAAAAAGGAACAAGGTGGCACCA
* * * * ** *
1760105 CTAGCTTGTGTGGGCTTTGAAAA-AGAAAGGAAAGC-TTTTCGCTCTTTGCA-GACTA-AAAGAG
66 --A-CTTATGAGGGCTTTGAAAAGAAAAAGAAAAGCATCCT-GCTCTTT-AAGGACTATAAA-AG
** * * *
1760166 GATA-AAGGGTGCCACTAACTAATGTGGGCTTT-AAAAAAATGTCTTGCTCTTTGAAGACT
125 G-TAGAA-GACGCCACCAACTAATGTGGGCTTTGAAAAAAATGTCCTACTCTTTGAAGACT
* * *
1760225 AAAAGGTAAAGGGTGCCACCAATTTGTGTGGGCTTTAAAAAAGAAAAAAGGAACAAGGTGTCACC
1 AAAAGGTAAAGGGTGCCACCAACTTGTATGGGCTTTAAAAAAG-AAAAAGGAACAAGGTGGCACC
1760290 AACTTATGAGGGCTTTGAAAAGGGAAAAAGAAAAGCATCCTGCTCTTTAAGGACTATAAAAGGTA
65 AACTTATGAGGGCTTTGAAAA--GAAAAAGAAAAGCATCCTGCTCTTTAAGGACTATAAAAGGTA
* * *
1760355 GAAGACGCCACCAGCTTATGTGGGCTTTGAAAAAAATGTCCTACTCTTTGAGGACT
128 GAAGACGCCACCAACTAATGTGGGCTTTGAAAAAAATGTCCTACTCTTTGAAGACT
*
1760411 AAAAGGTAAAGGGTGCCACCAACTTGTAT-GGATTTAAAAAA-AAAA
1 AAAAGGTAAAGGGTGCCACCAACTTGTATGGGCTTTAAAAAAGAAAA
1760456 TAAAGGAAAA
Statistics
Matches: 197, Mismatches: 22, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
182 40 0.20
183 28 0.14
184 2 0.01
185 38 0.19
186 84 0.43
187 5 0.03
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (183 bp):
AAAAGGTAAAGGGTGCCACCAACTTGTATGGGCTTTAAAAAAGAAAAAGGAACAAGGTGGCACCA
ACTTATGAGGGCTTTGAAAAGAAAAAGAAAAGCATCCTGCTCTTTAAGGACTATAAAAGGTAGAA
GACGCCACCAACTAATGTGGGCTTTGAAAAAAATGTCCTACTCTTTGAAGACT
Found at i:1760634 original size:76 final size:76
Alignment explanation
Indices: 1760504--1760750 Score: 422
Period size: 76 Copynumber: 3.2 Consensus size: 76
1760494 AAAAGGAAAA
** *
1760504 AAAAGGTGCCACCAGCTTGTGTGAGCTTCGAAAAAGGAAAAGGAAAAGCGTTATGCTCTTTGAAG
1 AAAAGGTGCCACCAGCTTGTGTG-GCTTTAAAAAAGGAAAAGGAAAAGCATTATGCTCTTTGAAG
1760569 ACTATAAAAGGT
65 ACTATAAAAGGT
1760581 AAAAGGTGCCACCAGCTTGTGTGGCTTTAAAAAAGGAAAAGGAAAAGCATTATGCTCTTTGAAGA
1 AAAAGGTGCCACCAGCTTGTGTGGCTTTAAAAAAGGAAAAGGAAAAGCATTATGCTCTTTGAAGA
1760646 CTATAAAAGGT
66 CTATAAAAGGT
** *
1760657 AAAAGGTGCCACCAGCTTGTGTGGCTTTAAAAAAGGAAAAGGAAAAGCATCCTACTCTTTGAAGA
1 AAAAGGTGCCACCAGCTTGTGTGGCTTTAAAAAAGGAAAAGGAAAAGCATTATGCTCTTTGAAGA
1760722 CTATAAAAGGT
66 CTATAAAAGGT
*
1760733 AAAAGGCGCCACCAGCTT
1 AAAAGGTGCCACCAGCTT
1760751 ACATGGGCTT
Statistics
Matches: 163, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
76 140 0.86
77 23 0.14
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (76 bp):
AAAAGGTGCCACCAGCTTGTGTGGCTTTAAAAAAGGAAAAGGAAAAGCATTATGCTCTTTGAAGA
CTATAAAAGGT
Found at i:1760792 original size:379 final size:380
Alignment explanation
Indices: 1760300--1760983 Score: 939
Period size: 379 Copynumber: 1.8 Consensus size: 380
1760290 AACTTATGAG
* * * *
1760300 GGCTTTGAAAAGGGAAAAAGAAAAGCATCCTGCTCTTTAAGGACTATAAAAGGTAGAAGACGCCA
1 GGCTTTAAAAAAGGAAAAAGAAAAGCATCCTACTCTTTAAGGACTATAAAAGGTAAAAGACGCCA
** ** * *
1760365 CCAGCTTATGTGGGCTTTGAAAAAAATGTCCTACTCTTTGAGGACTAAAAGGTAAAGGGTGCCAC
66 CCAGCTTACATGGGCTTTGAAAAAAACATCCTACTCTTTGAAGACTAAAAAGTAAAGGGTGCCAC
* * * *
1760430 CAACTTGTATGG-ATTTAAAAAAAAAATAAAGGAAAAATGTACCATCAACTTGTATGGGCTTTGA
131 CAACTTGTACGGCATTT--AAAAAAAA-AAAGGAAAAAGGTACCACCAACTTGTATAGGCTTTGA
* * * *
1760494 AAAAG-GAAA-AAAA-AGGTGCCACCAGCTTGTGTGAGCTTCGAAAAAGGAAAAGG-AAAAGCGT
193 AAAAGAAAAAGAAAAGAGGTGCCACCAGCTTATGTGAGCTTCAAAAAAGGAAAAGGAAAAAG-AT
*
1760555 TATGCTCTTTGAAGACTATAAAAGGTAAAAGGTGCCACCAGCTTGTGTGGCTTTAAAAAAGGAAA
257 CATGCTCTTTGAAGACTATAAAAGGTAAAAGGTGCCACCAGCTTGTGTGGCTTTAAAAAAGGAAA
1760620 AGGAAAAGCATTATGCTCTTTGAAGACTATAAAAGGTAAAAGGTGCCACCAGCTTGTGT
322 AGGAAAAGCATTATGCTCTTTGAAGACTATAAAAGGTAAAAGGTGCCACCAGCTTGTGT
* *
1760679 GGCTTTAAAAAAGGAAAAGGAAAAGCATCCTACTCTTTGAA-GACTATAAAAGGTAAAAGGCGCC
1 GGCTTTAAAAAAGGAAAAAGAAAAGCATCCTACTCTTT-AAGGACTATAAAAGGTAAAAGACGCC
*
1760743 ACCAGCTTACATGGGCTTTGAAAAAAACATCCTGCTCTTTGAAGACTAAAAAGTAAAGGGTGCCA
65 ACCAGCTTACATGGGCTTTGAAAAAAACATCCTACTCTTTGAAGACTAAAAAGTAAAGGGTGCCA
* * * ** * * * *
1760808 CCAACTTGTGCGGCCTTTAAAAAGAAAAAGGAAATGGGTGCCACCTACTTGTGTAGGCTTTGGAA
130 CCAACTTGTACGGCATTTAAAAAAAAAAAGGAAAAAGGTACCACCAACTTGTATAGGCTTTGAAA
* * * *
1760873 AAGAAAAAGAAAAGAGGTGCCACTAGCTTATGTGGGCTTTAAAAAAGGAAAAGGAAAAAGATCCT
195 AAGAAAAAGAAAAGAGGTGCCACCAGCTTATGTGAGCTTCAAAAAAGGAAAAGGAAAAAGATCAT
* * *
1760938 GCTCTTTGAGGACTATAAAAGGTAAAAGGTGTCACCAGTTTGTGTG
260 GCTCTTTGAAGACTATAAAAGGTAAAAGGTGCCACCAGCTTGTGTG
1760984 AGTTTCAAGA
Statistics
Matches: 261, Mismatches: 38, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
377 33 0.13
378 10 0.04
379 128 0.49
380 85 0.33
381 5 0.02
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (380 bp):
GGCTTTAAAAAAGGAAAAAGAAAAGCATCCTACTCTTTAAGGACTATAAAAGGTAAAAGACGCCA
CCAGCTTACATGGGCTTTGAAAAAAACATCCTACTCTTTGAAGACTAAAAAGTAAAGGGTGCCAC
CAACTTGTACGGCATTTAAAAAAAAAAAGGAAAAAGGTACCACCAACTTGTATAGGCTTTGAAAA
AGAAAAAGAAAAGAGGTGCCACCAGCTTATGTGAGCTTCAAAAAAGGAAAAGGAAAAAGATCATG
CTCTTTGAAGACTATAAAAGGTAAAAGGTGCCACCAGCTTGTGTGGCTTTAAAAAAGGAAAAGGA
AAAGCATTATGCTCTTTGAAGACTATAAAAGGTAAAAGGTGCCACCAGCTTGTGT
Found at i:1760892 original size:44 final size:42
Alignment explanation
Indices: 1760790--1760917 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 42
1760780 TTTGAAGACT
* * *
1760790 AAAAAGTAAAGGGTGCCACCAACTTGTG-CGGCCTTTAAAAAG
1 AAAAAGAAAAGGGTGCCACCTACTTGTGTAGG-CTTTAAAAAG
* *
1760832 AAAAAGGAAATGGGTGCCACCTACTTGTGTAGGCTTTGGAAAAG
1 AAAAA-GAAAAGGGTGCCACCTACTTGTGTAGGCTTT-AAAAAG
* *
1760876 AAAAAGAAAAGAGGTGCCA-CTAGCTTATGTGGGCTTTAAAAA
1 AAAAAGAAAAG-GGTGCCACCTA-CTTGTGTAGGCTTTAAAAA
1760918 AGGAAAAGGA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
42 5 0.07
43 36 0.50
44 31 0.43
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (42 bp):
AAAAAGAAAAGGGTGCCACCTACTTGTGTAGGCTTTAAAAAG
Found at i:1760925 original size:44 final size:42
Alignment explanation
Indices: 1760797--1760930 Score: 135
Period size: 44 Copynumber: 3.1 Consensus size: 42
1760787 ACTAAAAAGT
* * *
1760797 AAAGGGTGCCACCAACTTGTGCGGCCTTTAAAAAGAAAAAGGA
1 AAAGGGTGCCA-CTACTTGTGTGGGCTTTAAAAAGAAAAAGGA
* * *
1760840 AATGGGTGCCACCTACTTGTGTAGGCTTTGGAAAAGAAAAA-GA
1 AAAGGGTGCCA-CTACTTGTGTGGGCTTT-AAAAAGAAAAAGGA
* *
1760883 AAAGAGGTGCCACTAGCTTATGTGGGCTTTAAAAAAGGAAAAGGA
1 AAAG-GGTGCCACTA-CTTGTGTGGGCTTT-AAAAAGAAAAAGGA
1760928 AAA
1 AAA
1760931 AGATCCTGCT
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
43 32 0.43
44 38 0.51
45 5 0.07
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.19
Consensus pattern (42 bp):
AAAGGGTGCCACTACTTGTGTGGGCTTTAAAAAGAAAAAGGA
Found at i:1762016 original size:20 final size:20
Alignment explanation
Indices: 1761991--1762045 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
1761981 CTGCCAGTTT
*
1761991 CATGTATCGATACAATTGTA
1 CATGTATCGATACAATTGAA
* *
1762011 CATGTATCAATAC-AGTGAA
1 CATGTATCGATACAATTGAA
1762030 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1762046 GTATTGATGC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1762671 original size:22 final size:20
Alignment explanation
Indices: 1762632--1762674 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
1762622 GGCTCTCGTT
*
1762632 AAAAAATTTTCCCTTTGATA
1 AAAAAATTTTCCCCTTGATA
1762652 AAAAAATTTCTCCCCCTTGATA
1 AAAAAATTT-T-CCCCTTGATA
1762674 A
1 A
1762675 TCGATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 1 0.05
22 10 0.50
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (20 bp):
AAAAAATTTTCCCCTTGATA
Found at i:1764268 original size:22 final size:20
Alignment explanation
Indices: 1764223--1764270 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
1764213 TTTGTTGATG
*
1764223 ATTTTGATGAAAAATGAAGT
1 ATTTTGATGAAAAATGAAGA
1764243 ATTTTGAAGTGAAAAAT-AAGA
1 ATTTTG-A-TGAAAAATGAAGA
*
1764264 AATTTGA
1 ATTTTGA
1764271 AAAAGATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.29
21 9 0.38
22 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (20 bp):
ATTTTGATGAAAAATGAAGA
Found at i:1764269 original size:21 final size:22
Alignment explanation
Indices: 1764230--1764271 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1764220 ATGATTTTGA
* *
1764230 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
1764252 TGAAAAAT-AAGAAATTTGAA
1 TGAAAAATGAAGAAATTTGAA
1764272 AAAGATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:1772799 original size:113 final size:113
Alignment explanation
Indices: 1772586--1772809 Score: 256
Period size: 114 Copynumber: 2.0 Consensus size: 113
1772576 AATACATTCT
* * * *
1772586 GTATTGTATCGATATATTTTCATGTGTATCAATACAAATGAGGGTTTCAAGATTTGTTTAGCTAT
1 GTATTGTATCGATATATTTTCATGTGTATCAATAAAAATAAGGATTTCAACATTTG-TTAGCTAT
* * ** *
1772651 TGCCAACAATATATATCGATACATTATGTGAATGTATCGATGCATTTAC
65 TACCAACAACATATATCGATACATTATAAGAATGTATCGATACATTTAC
* **
1772700 GTATTGTATTGATATATTTTCACT-TGTATCAATAAAAATAAGGATTTTGACATTTCG-TAGCTA
1 GTATTGTATCGATATATTTTCA-TGTGTATCAATAAAAATAAGGATTTCAACATTT-GTTAGCTA
* * *
1772763 TTACCAACCACATGTATTGATACATTCATAAG-ATGTATCGATACATT
64 TTACCAACAACATATATCGATACATT-ATAAGAATGTATCGATACATT
1772810 CAATCCTAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
113 41 0.45
114 49 0.53
115 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (113 bp):
GTATTGTATCGATATATTTTCATGTGTATCAATAAAAATAAGGATTTCAACATTTGTTAGCTATT
ACCAACAACATATATCGATACATTATAAGAATGTATCGATACATTTAC
Found at i:1773239 original size:20 final size:18
Alignment explanation
Indices: 1773193--1773246 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
1773183 ATCGGTAGTT
*
1773193 TGAAATAAA-ATATAATA
1 TGAAAAAAATATATAATA
1773210 TGAAAAAAATTATATGAATA
1 TGAAAAAAA-TATAT-AATA
* *
1773230 TGATATAAATATATAAT
1 TGAAAAAAATATATAAT
1773247 CGTGTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 8 0.26
18 3 0.10
19 9 0.29
20 11 0.35
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (18 bp):
TGAAAAAAATATATAATA
Found at i:1774860 original size:15 final size:15
Alignment explanation
Indices: 1774840--1774871 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1774830 TGATTTTGAA
1774840 AAGCATAGCTAAAAC
1 AAGCATAGCTAAAAC
1774855 AAGCATAGCTAAAAC
1 AAGCATAGCTAAAAC
1774870 AA
1 AA
1774872 AATCAAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.19, G:0.12, T:0.12
Consensus pattern (15 bp):
AAGCATAGCTAAAAC
Found at i:1776719 original size:130 final size:131
Alignment explanation
Indices: 1776485--1776735 Score: 364
Period size: 130 Copynumber: 1.9 Consensus size: 131
1776475 AGTATCCCTC
* * * *
1776485 CGAAAATAACGAGGTTGGAGTGTCCATGATTGTGAAAAATTAGTGTTTTGGAAATAAAACTAGGG
1 CGAAAATAACAAGGTTGGAGTATCCACGATTGTGAAAAATTAGTGTTTTAGAAATAAAACTAGGG
* * *
1776550 TTGGAGTATCCCTTCAGAAATAACGGGTTTAAAATATCCTCGATTGTGAAAAATCAGTGTTCTCC
66 TTAGAGTATCCCCTCAGAAATAACGGGGTTAAAATATCCTCGATTGTGAAAAATCAGTGTTCTCC
1776615 T
131 T
*
1776616 CGAAAATAACAAGGTTGGAGTATCCCCGATTGTG-AAAATTAGTGTTTTAGAAATAAAA-TCAGG
1 CGAAAATAACAAGGTTGGAGTATCCACGATTGTGAAAAATTAGTGTTTTAGAAATAAAACT-AGG
** *
1776679 GTTAGAGTATCCCCTC-GAAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATCA
65 GTTAGAGTATCCCCTCAG-AAATAACGGGGTTAAAATATCCTCGATTGTGAAAAATCA
1776736 ATATTTTTGA
Statistics
Matches: 107, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
129 2 0.02
130 75 0.70
131 30 0.28
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (131 bp):
CGAAAATAACAAGGTTGGAGTATCCACGATTGTGAAAAATTAGTGTTTTAGAAATAAAACTAGGG
TTAGAGTATCCCCTCAGAAATAACGGGGTTAAAATATCCTCGATTGTGAAAAATCAGTGTTCTCC
T
Found at i:1776781 original size:79 final size:78
Alignment explanation
Indices: 1776613--1776893 Score: 339
Period size: 79 Copynumber: 3.6 Consensus size: 78
1776603 TCAGTGTTCT
* * *
1776613 CCTCGAAAATAACAAGGTTGGAGTATCCCCGATTGTGAAAATTAGTGTTTTAGAAATAAAATCAG
1 CCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATAGTGTTTTAGAAATAAAATCGG
*
1776678 GGTTAGAGTATCC
66 GGTTGGAGTATCC
* * * * * *
1776691 CCTCGAAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATCAATATTTTTGAAAT-AAAGCT
1 CCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAAT-AGTGTTTTAGAAATAAAATC-
1776755 GGGGTTGGAGTATCC
64 GGGGTTGGAGTATCC
* * * * * * * *
1776770 CATCGGAAATAATAGGATTGGAATGTCCCCGATGGTGAAAAATAGGTGTTTTGGAAATAAAATCG
1 CCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATA-GTGTTTTAGAAATAAAATCG
1776835 GGGTTGGAGTATCC
65 GGGTTGGAGTATCC
* * *
1776849 CCTCGAAAATAACGGGGTTGGAGTATCCTCAATTGTGAAAAATAG
1 CCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATAG
1776894 AGATGAATAT
Statistics
Matches: 166, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
78 45 0.27
79 117 0.70
80 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (78 bp):
CCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATAGTGTTTTAGAAATAAAATCGG
GGTTGGAGTATCC
Found at i:1780299 original size:22 final size:23
Alignment explanation
Indices: 1780271--1780330 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 23
1780261 AATTTTTTGC
1780271 TTATTGTTCATGAATATATT-T-
1 TTATTGTTCATGAATATATTGTA
* *
1780292 TTAATTGTTCATAAATGTATTGTA
1 TT-ATTGTTCATGAATATATTGTA
1780316 TTATATGTTCATGAA
1 TTAT-TGTTCATGAA
1780331 CATGTACATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 2 0.06
22 16 0.50
23 3 0.09
24 11 0.34
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.52
Consensus pattern (23 bp):
TTATTGTTCATGAATATATTGTA
Found at i:1785109 original size:19 final size:20
Alignment explanation
Indices: 1785081--1785132 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 20
1785071 CTTTCAACAA
1785081 AAATTCATTTTTAAT-TTTT
1 AAATTCATTTTTAATGTTTT
*
1785100 AAATTAATTTTT--TGTTTT
1 AAATTCATTTTTAATGTTTT
1785118 AAATTCATTTCTTAA
1 AAATTCATTT-TTAA
1785133 ACTCTATTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 1 0.04
18 13 0.48
19 13 0.48
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (20 bp):
AAATTCATTTTTAATGTTTT
Found at i:1786695 original size:19 final size:19
Alignment explanation
Indices: 1786671--1786710 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
1786661 ATGTTGTTTA
1786671 TTGACATGATGTT-AATTTT
1 TTGACATGAT-TTCAATTTT
1786690 TTGACATGATTTCAATTTT
1 TTGACATGATTTCAATTTT
1786709 TT
1 TT
1786711 TATATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.25, C:0.07, G:0.12, T:0.55
Consensus pattern (19 bp):
TTGACATGATTTCAATTTT
Found at i:1788921 original size:149 final size:151
Alignment explanation
Indices: 1788638--1788931 Score: 380
Period size: 150 Copynumber: 2.0 Consensus size: 151
1788628 TTTTATTTCA
*
1788638 TGAGTTTTTCATTTTTCCTTGAAATCCCCCTATTTCAAAAATATGGAGTTTGCTACTCCATAAAT
1 TGAGTTTTTCATTTTTCCTTGAAATCCCCCTATTTCAAAAATATGGAATTTGCTACTCCATAAAT
* ** * *
1788703 ATTTTCAAGTGGGTTTTCCTCGATTCAAAATTTTTAATATTTATCAAATATCATCATTTAATTTA
66 ATTTTCAAGGGGGCATTCCTCGATTCAAAATTTTTAATATTCATCAAATATCATCATTTAATTCA
*
1788768 TAGTAAGTC-ATTTTTGAACT
131 TAGTAAATCGATTTTTGAACT
* * ** ***
1788788 TGAGTTTTTCATATTTTCCTTGAAA-CTCCTTATTTCTGAAATATGGAATTTGCT-CTTTTGTAA
1 TGAGTTTTTCAT-TTTTCCTTGAAATCCCCCTATTTCAAAAATATGGAATTTGCTAC-TCCATAA
** * *
1788851 ATATTTTCGGGGGGGCATT-CTCGGTTCAAAGTTTTTAATATTCATCAAATATCATCATTTAATT
64 ATATTTTCAAGGGGGCATTCCTCGATTCAAAATTTTTAATATTCATCAAATATCATCATTTAATT
1788915 CATAGTAAATCGATTTT
129 CATAGTAAATCGATTTT
1788932 GAAAAATTTA
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
149 52 0.42
150 59 0.48
151 12 0.10
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.45
Consensus pattern (151 bp):
TGAGTTTTTCATTTTTCCTTGAAATCCCCCTATTTCAAAAATATGGAATTTGCTACTCCATAAAT
ATTTTCAAGGGGGCATTCCTCGATTCAAAATTTTTAATATTCATCAAATATCATCATTTAATTCA
TAGTAAATCGATTTTTGAACT
Found at i:1794112 original size:20 final size:20
Alignment explanation
Indices: 1794087--1794138 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
1794077 TACAAGCCAA
**
1794087 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
1794107 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
1794126 TGTATCGATACAA
1 TGTATCGATACAA
1794139 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:1796712 original size:13 final size:13
Alignment explanation
Indices: 1796694--1796731 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1796684 ATAATGTCCC
1796694 TGTATCGATACAG
1 TGTATCGATACAG
*
1796707 TGTATCGATACAT
1 TGTATCGATACAG
*
1796720 TGTATTGATACA
1 TGTATCGATACA
1796732 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1798829 original size:15 final size:15
Alignment explanation
Indices: 1798809--1798839 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1798799 ATTTTGTTTG
*
1798809 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1798824 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1798839 G
1 G
1798840 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1803928 original size:15 final size:15
Alignment explanation
Indices: 1803908--1803938 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1803898 ATTTCGTTTG
*
1803908 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1803923 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1803938 G
1 G
1803939 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1807988 original size:20 final size:20
Alignment explanation
Indices: 1807963--1808014 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
1807953 TACAAGCCAA
**
1807963 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
1807983 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
1808002 TGTATCGATACAA
1 TGTATCGATACAA
1808015 ATTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:1814393 original size:92 final size:92
Alignment explanation
Indices: 1814232--1814657 Score: 530
Period size: 92 Copynumber: 4.6 Consensus size: 92
1814222 GAGGGTGCAA
* * ** * * * * *
1814232 ACCACACATTCCCAATCATATCCCTTTCATCCAACCACTAAATGATATTGATGCATCACAAAACC
1 ACCACTCATTCCCAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTAATGCATCACAAAGCC
*
1814297 TGATTTCTTTAGGGCAAGGATATCCT-G
66 TGATTTCCTTAGGGCAAGGATAT-CTAG
* * * *
1814324 ACCACTCATTCCCAATCATATCCCTTTCTTTGAGCCACTAGATGGTATTAATGCACCATAAAGCT
1 ACCACTCATTCCCAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTAATGCATCACAAAGCC
* *
1814389 TGATTTCTTTGGGGCAAGGATATCTAG
66 TGATTTCCTTAGGGCAAGGATATCTAG
* * * **
1814416 ACAACTTATTCCTAATCATATCTTTTTCTTTTAGCCACTAGATGGTATTAATGCATCACAAAGCC
1 ACCACTCATTCCCAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTAATGCATCACAAAGCC
* * **
1814481 TAATTTCCTTGGGGCAAGGATATCCCG
66 TGATTTCCTTAGGGCAAGGATATCTAG
* * * * *
1814508 ACCACTCATTCCAAATCATATCCCTTTCTTTTAGCCATTAGATGGTATTGATGTATCACAAAGCT
1 ACCACTCATTCCCAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTAATGCATCACAAAGCC
* *
1814573 TGATTTCCTTAGGGCAAGGATATTTCG
66 TGATTTCCTTAGGGCAAGGATATCTAG
* *
1814600 ACCACTTATTCCCAATCATATCCCTTTCTTTTAGCCACTAGATAGTATTAATGCATCA
1 ACCACTCATTCCCAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTAATGCATCA
1814658 TATGACCACA
Statistics
Matches: 288, Mismatches: 45, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
91 2 0.01
92 286 0.99
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (92 bp):
ACCACTCATTCCCAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTAATGCATCACAAAGCC
TGATTTCCTTAGGGCAAGGATATCTAG
Found at i:1814554 original size:184 final size:184
Alignment explanation
Indices: 1814239--1814657 Score: 586
Period size: 184 Copynumber: 2.3 Consensus size: 184
1814229 CAAACCACAC
* ** * * * * *
1814239 ATTCCCAATCATATCCCTTTCATCCAACCACTAAATGATATTGATGCATCACAAAACCTGATTTC
1 ATTCCCAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTAATGCATCACAAAACCTAATTTC
* * *
1814304 TTTAGGGCAAGGATATCCTGACCACTCATTCCCAATCATATCCCTTTCTTTGAGCCACTAGATGG
66 CTTAGGGCAAGGATATCCCGACCACTCATTCCAAATCATATCCCTTTCTTTGAGCCACTAGATGG
* * *
1814369 TATTAATGCACCATAAAGCTTGATTTCTTTGGGGCAAGGATATCTAGACAACTT
131 TATTAATGCACCACAAAGCTTGATTTCCTTAGGGCAAGGATATCTAGACAACTT
* ** *
1814423 ATTCCTAATCATATCTTTTTCTTTTAGCCACTAGATGGTATTAATGCATCACAAAGCCTAATTTC
1 ATTCCCAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTAATGCATCACAAAACCTAATTTC
* * *
1814488 CTTGGGGCAAGGATATCCCGACCACTCATTCCAAATCATATCCCTTTCTTTTAGCCATTAGATGG
66 CTTAGGGCAAGGATATCCCGACCACTCATTCCAAATCATATCCCTTTCTTTGAGCCACTAGATGG
* * * * * *
1814553 TATTGATGTATCACAAAGCTTGATTTCCTTAGGGCAAGGATATTTCGACCACTT
131 TATTAATGCACCACAAAGCTTGATTTCCTTAGGGCAAGGATATCTAGACAACTT
*
1814607 ATTCCCAATCATATCCCTTTCTTTTAGCCACTAGATAGTATTAATGCATCA
1 ATTCCCAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTAATGCATCA
1814658 TATGACCACA
Statistics
Matches: 204, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
184 204 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (184 bp):
ATTCCCAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTAATGCATCACAAAACCTAATTTC
CTTAGGGCAAGGATATCCCGACCACTCATTCCAAATCATATCCCTTTCTTTGAGCCACTAGATGG
TATTAATGCACCACAAAGCTTGATTTCCTTAGGGCAAGGATATCTAGACAACTT
Found at i:1815289 original size:44 final size:44
Alignment explanation
Indices: 1815241--1815598 Score: 309
Period size: 44 Copynumber: 8.2 Consensus size: 44
1815231 TTTATATTTG
* * ** *
1815241 TTTGACATGATGGTTC-AGCCTTAGTCAAACTCCTTTTTCTTTTA
1 TTTGACATGATGGTTCTA-CCCTGGTCAAACTCCTTTCACTTTCA
**
1815285 TTTGATGTGATGGTTCTACCCTGGTCAAAC-CACTTTCACTTTCA
1 TTTGACATGATGGTTCTACCCTGGTCAAACTC-CTTTCACTTTCA
* * * * *
1815329 TTTGATA-GATGGTTCTACCTTAGTTAAAAC-CTTTTCACTTTCA
1 TTTGACATGATGGTTCTACCCT-GGTCAAACTCCTTTCACTTTCA
* * * **
1815372 TTTGACGTGATGGTTCTACACTGGTCAAACTTCTTTCACTTTTG
1 TTTGACATGATGGTTCTACCCTGGTCAAACTCCTTTCACTTTCA
* * * * *
1815416 TTTAACGTGATGGTTTTACCCTAGTCAAATTCCTTTCACTTTCA
1 TTTGACATGATGGTTCTACCCTGGTCAAACTCCTTTCACTTTCA
* **
1815460 TTTGACATGATGGTTCTGCCCTGGTCAAAC-CCTTTTCACTTTTG
1 TTTGACATGATGGTTCTACCCTGGTCAAACTCC-TTTCACTTTCA
** * ***
1815504 TTTGATGTGATGGTT-TAGCCCTGATCAAACT--TTTTTGTTCTCA
1 TTTGACATGATGGTTCTA-CCCTGGTCAAACTCCTTTCACTT-TCA
* *
1815547 TTTGACATGATAGTTCTACCCTGGTCAAACCCCTTTCACTTTCA
1 TTTGACATGATGGTTCTACCCTGGTCAAACTCCTTTCACTTTCA
1815591 TTTGACAT
1 TTTGACAT
1815599 ACTATTTTAG
Statistics
Matches: 247, Mismatches: 55, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
42 5 0.02
43 63 0.26
44 173 0.70
45 6 0.02
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (44 bp):
TTTGACATGATGGTTCTACCCTGGTCAAACTCCTTTCACTTTCA
Found at i:1815340 original size:87 final size:84
Alignment explanation
Indices: 1815247--1815595 Score: 310
Period size: 87 Copynumber: 4.0 Consensus size: 84
1815237 TTTGTTTGAC
* * * **
1815247 ATGATGGTTCAGCCTTAGTCAAACTCCTTTTTCTTTTATTTGATGTGATGGTTCTACCCTGGTCA
1 ATGATGGTTCA-CCCTAGTCAAACTCCTTTTACTTTCATTTGACATGATGGTTCTACCCTGGTCA
1815312 AACCACTTTCACTTTCATTTG
65 AACC-CTTTCACTTTCATTTG
* * * * *
1815333 ATAGATGGTTCTACCTTAGTTAAA-ACCTTTTCACTTTCATTTGACGTGATGGTTCTACACTGGT
1 AT-GATGGTTC-ACCCTAGTCAAACTCCTTTT-ACTTTCATTTGACATGATGGTTCTACCCTGGT
* ** *
1815397 CAAACTTCTTTCACTTTTGTTTA
63 CAAAC-CCTTTCACTTTCATTTG
* * * *
1815420 ACGTGATGGTTTTACCCTAGTCAAATTCCTTTCACTTTCATTTGACATGATGGTTCTGCCCTGGT
1 A--TGATGG-TTCACCCTAGTCAAACTCCTTTTACTTTCATTTGACATGATGGTTCTACCCTGGT
**
1815485 CAAACCCTTTTCACTTTTGTTTG
63 CAAACCC-TTTCACTTTCATTTG
* ** *
1815508 ATGTGATGGTTTAGCCCT-GATCAAACT--TTTTTGTTCTCATTTGACATGATAGTTCTACCCTG
1 A--TGATGGTTCA-CCCTAG-TCAAACTCCTTTTACTT-TCATTTGACATGATGGTTCTACCCTG
1815570 GTCAAACCCCTTTCACTTTCATTTG
61 GTCAAA-CCCTTTCACTTTCATTTG
1815595 A
1 A
1815596 CATACTATTT
Statistics
Matches: 221, Mismatches: 29, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
86 13 0.06
87 115 0.52
88 85 0.38
89 8 0.04
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (84 bp):
ATGATGGTTCACCCTAGTCAAACTCCTTTTACTTTCATTTGACATGATGGTTCTACCCTGGTCAA
ACCCTTTCACTTTCATTTG
Found at i:1815550 original size:175 final size:175
Alignment explanation
Indices: 1815262--1815588 Score: 401
Period size: 175 Copynumber: 1.9 Consensus size: 175
1815252 GGTTCAGCCT
** * **
1815262 TAGTCAAACTCCTTTTTCTTTTATTTGATGTGATGGTTCTACCCTGGTCAAACCACTTTCACTTT
1 TAGTCAAACTCCTTTCACTTTCATTTGACATGATGGTTCTACCCTGGTCAAACCACTTTCACTTT
* * * *
1815327 CATTTGATAGATGGTTCTACCTTAGTTAAAACCTTTTCACTTTCATTTGACGTGATGGTTCTACA
66 CATTTGATAGATGGTTCTACCCTAGATAAAACCTTTTCACTTTCATTTGACATGATAGTTCTACA
**
1815392 CTGGTCAAACTTCTTTCACTTTTGTTTAACGTGATGGTTTTACCC
131 CTGGTCAAACCCCTTTCACTTTTGTTTAACGTGATGGTTTTACCC
* *
1815437 TAGTCAAATTCCTTTCACTTTCATTTGACATGATGGTTCTGCCCTGGTCAAACC-CTTTTCACTT
1 TAGTCAAACTCCTTTCACTTTCATTTGACATGATGGTTCTACCCTGGTCAAACCAC-TTTCACTT
** * * ***
1815501 TTGTTTGATGTGATGGTT-TAGCCCT-GATCAAA-CTTTTTTGTTCTCATTTGACATGATAGTTC
65 TCATTTGAT-AGATGGTTCTA-CCCTAGATAAAACCTTTTCACTT-TCATTTGACATGATAGTTC
*
1815563 TACCCTGGTCAAACCCCTTTCACTTT
127 TACACTGGTCAAACCCCTTTCACTTT
1815589 CATTTGACAT
Statistics
Matches: 127, Mismatches: 21, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
174 8 0.06
175 109 0.86
176 10 0.08
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.43
Consensus pattern (175 bp):
TAGTCAAACTCCTTTCACTTTCATTTGACATGATGGTTCTACCCTGGTCAAACCACTTTCACTTT
CATTTGATAGATGGTTCTACCCTAGATAAAACCTTTTCACTTTCATTTGACATGATAGTTCTACA
CTGGTCAAACCCCTTTCACTTTTGTTTAACGTGATGGTTTTACCC
Found at i:1815616 original size:131 final size:132
Alignment explanation
Indices: 1815292--1815656 Score: 375
Period size: 131 Copynumber: 2.8 Consensus size: 132
1815282 TTATTTGATG
* * * * *
1815292 TGATGGTTCTACCCTGGTCAAACCACTTTCACTTTCATTTGATAGATGGTTCTA-CCTTAGTTAA
1 TGATGGTTCTACCCTGGTCAAACCCCTTTCACTTTCATTTGACATATGGTTCTAGCCTTGGTCAA
* * * * * **
1815356 AACCTTTTCACTTTCATTTGACGTGATGGTTCTA-CACTGGTCAAACTTCTTTCACTTTTGTTTA
66 ACCCTTTTCACTTTCGTTTGATGTGATGGTT-TAGCCCTGATCAAACTTCTTTCACTTTCATTTA
*
1815420 ACG
130 ACA
* * ** *
1815423 TGATGGTTTTACCCTAGTCAAATTCCTTTCACTTTCATTTGACATGATGGTTCT-GCCCTGGTCA
1 TGATGGTTCTACCCTGGTCAAACCCCTTTCACTTTCATTTGACAT-ATGGTTCTAGCCTTGGTCA
* **
1815487 AACCCTTTTCACTTTTGTTTGATGTGATGGTTTAGCCCTGATCAAACTT-TTT-TGTTCTCATTT
65 AACCCTTTTCACTTTCGTTTGATGTGATGGTTTAGCCCTGATCAAACTTCTTTCACTT-TCATTT
*
1815550 GACA
129 AACA
* * *
1815554 TGATAGTTCTACCCTGGTCAAACCCCTTTCACTTTCATTTGACATACT-ATTTTAGCCTTGGTCA
1 TGATGGTTCTACCCTGGTCAAACCCCTTTCACTTTCATTTGACATA-TGGTTCTAGCCTTGGTCA
* * * *
1815618 AACTCTTTTCA-TCCTCGTTTGATATGATGGTTCAGCCCT
65 AACCCTTTTCACT-TTCGTTTGATGTGATGGTTTAGCCCT
1815657 AGTTGAACTT
Statistics
Matches: 192, Mismatches: 35, Indels: 14
0.80 0.15 0.06
Matches are distributed among these distances:
130 7 0.04
131 131 0.68
132 54 0.28
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (132 bp):
TGATGGTTCTACCCTGGTCAAACCCCTTTCACTTTCATTTGACATATGGTTCTAGCCTTGGTCAA
ACCCTTTTCACTTTCGTTTGATGTGATGGTTTAGCCCTGATCAAACTTCTTTCACTTTCATTTAA
CA
Found at i:1815666 original size:131 final size:131
Alignment explanation
Indices: 1815240--1815656 Score: 328
Period size: 131 Copynumber: 3.2 Consensus size: 131
1815230 CTTTATATTT
* * * * ** *
1815240 GTTTGACATGATGGTTCAG-CCTTAGTCAAACTCCTTTTTCTT-TTATTTGATGTGATGGTTCTA
1 GTTTGATATGATGGTTCAGCCCTGA-TCAAACT--TTTTTGTTCTCATTTGACATGATAGTTCTA
* * * * * * * * *
1815303 CCCTGGTCAAACCACTTTCACTTTCATTTGATA-GATGGTTCTACCTTAGTTAAAACCTTTTCAC
63 CCCTAGTCAAACCCCTTTCACTTTCATTTGACATGATGATTCTGCCCTGGTCAAACCCTTTTCAC
*
1815367 TTTC
128 TCTC
* ** * * ** ** * * * *
1815371 ATTTGACGTGATGGTTCTA-CACTGGTCAAACTTCTTTCACTT-TTGTTTAACGTGATGGTTTTA
1 GTTTGATATGATGGTTC-AGCCCTGATCAAACTT-TTT-TGTTCTCATTTGACATGATAGTTCTA
** *
1815434 CCCTAGTCAAATTCCTTTCACTTTCATTTGACATGATGGTTCTGCCCTGGTCAAACCCTTTTCAC
63 CCCTAGTCAAACCCCTTTCACTTTCATTTGACATGATGATTCTGCCCTGGTCAAACCCTTTTCAC
* *
1815499 TTTT
128 TCTC
* *
1815503 GTTTGATGTGATGGTTTAGCCCTGATCAAACTTTTTTGTTCTCATTTGACATGATAGTTCTACCC
1 GTTTGATATGATGGTTCAGCCCTGATCAAACTTTTTTGTTCTCATTTGACATGATAGTTCTACCC
* * * *
1815568 TGGTCAAACCCCTTTCACTTTCATTTGACAT-ACT-ATTTTAGCCTTGGTCAAACTCTTTTCA-T
66 TAGTCAAACCCCTTTCACTTTCATTTGACATGA-TGATTCT-GCCCTGGTCAAACCCTTTTCACT
1815630 CCTC
129 -CTC
1815634 GTTTGATATGATGGTTCAGCCCT
1 GTTTGATATGATGGTTCAGCCCT
1815657 AGTTGAACTT
Statistics
Matches: 231, Mismatches: 45, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
129 1 0.00
130 10 0.04
131 162 0.70
132 58 0.25
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.42
Consensus pattern (131 bp):
GTTTGATATGATGGTTCAGCCCTGATCAAACTTTTTTGTTCTCATTTGACATGATAGTTCTACCC
TAGTCAAACCCCTTTCACTTTCATTTGACATGATGATTCTGCCCTGGTCAAACCCTTTTCACTCT
C
Found at i:1817079 original size:164 final size:162
Alignment explanation
Indices: 1816865--1817255 Score: 498
Period size: 162 Copynumber: 2.4 Consensus size: 162
1816855 TTTTCAAACT
* * ***
1816865 TCATTTAATTTCATGAGTTTTTCATTTTTTCCTTGAAATCTTTTTATTTCTAAAATATGGAGTTT
1 TCATTTATTTTCATAAGTTTTTCA-TTTTTCCTTGAAATCTCCCTATTTCTAAAATATGGAGTTT
**
1816930 GCTAC-TCCGTAAATGTTTTCGGGGGGTTTTTCTTTGATCAAAATTTTTAATATTCATCAAATAT
65 GCT-CTTCCGTAAATGTTTTC-GGGGG-TTTTCTCAGATCAAAATTTTTAATATTCATCAAATAT
*
1816994 CATCATTTAAATCATACTAAATAATTTTTGAAAAAA
127 CATCATTTAAATCATACTAAATAAGTTTTGAAAAAA
* * * *
1817030 TCATTTATTTTCCTAAGTTTTTTATTTTTCCTTGAAATCTCCCTATTTCTAAAATATGGAATATG
1 TCATTTATTTTCATAAGTTTTTCATTTTTCCTTGAAATCTCCCTATTTCTAAAATATGGAGTTTG
* * *
1817095 CTCTTCTGTAAATGTTTTCGGGGGTTTTCTCAGCTTAAAATTTTTAATATTCATCAAATATCATC
66 CTCTTCCGTAAATGTTTTCGGGGGTTTTCTCAGATCAAAATTTTTAATATTCATCAAATATCATC
* * * * *
1817160 ATTTAATTCTTAGTAAATCAGTTTTGAAAAAT
131 ATTTAAATCATACTAAATAAGTTTTGAAAAAA
* * * * *
1817192 TCATTGATTTTCTTCAGTTTTTCATTTTTCCTTAAAATTTCCCTATTTCTGAAAA-ATGGAGTTT
1 TCATTTATTTTCATAAGTTTTTCATTTTTCCTTGAAATCTCCCTATTTCT-AAAATATGGAGTTT
1817256 TCTTCATCAT
Statistics
Matches: 196, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
162 114 0.58
163 10 0.05
164 52 0.27
165 20 0.10
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (162 bp):
TCATTTATTTTCATAAGTTTTTCATTTTTCCTTGAAATCTCCCTATTTCTAAAATATGGAGTTTG
CTCTTCCGTAAATGTTTTCGGGGGTTTTCTCAGATCAAAATTTTTAATATTCATCAAATATCATC
ATTTAAATCATACTAAATAAGTTTTGAAAAAA
Found at i:1821493 original size:48 final size:48
Alignment explanation
Indices: 1821419--1821515 Score: 135
Period size: 48 Copynumber: 2.0 Consensus size: 48
1821409 TTTTGGAAAA
*
1821419 TCAAATTATCTTTCATACCCACCCAAA-GAGTCGAAGGAACACGAAAGG
1 TCAAAATATCTTTCATACCCACCCAAAGGA-TCGAAGGAACACGAAAGG
* *
1821467 TCAAAATATGTTTCATACCC-CACCAAAGGATCGAAGGAACATGAAAGG
1 TCAAAATATCTTTCATACCCAC-CCAAAGGATCGAAGGAACACGAAAGG
1821515 T
1 T
1821516 TTTGTTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
47 1 0.02
48 41 0.93
49 2 0.05
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.20
Consensus pattern (48 bp):
TCAAAATATCTTTCATACCCACCCAAAGGATCGAAGGAACACGAAAGG
Found at i:1826703 original size:18 final size:20
Alignment explanation
Indices: 1826664--1826703 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1826654 AAAAAATCAA
1826664 ATCATAACACATAAATTAAC
1 ATCATAACACATAAATTAAC
*
1826684 ATCATATCA-ATAAA-TAAC
1 ATCATAACACATAAATTAAC
1826702 AT
1 AT
1826704 ATTTCATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 5 0.26
20 8 0.42
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (20 bp):
ATCATAACACATAAATTAAC
Found at i:1832235 original size:168 final size:166
Alignment explanation
Indices: 1832023--1832500 Score: 603
Period size: 166 Copynumber: 2.9 Consensus size: 166
1832013 CTTTATGAAA
*
1832023 TAGAAAACT-TG-ATTTTTCGAAAATAGGA-ACATTTCAATGAAAAAAATGAAAAAATAATGAAC
1 TAGAAAACTCTGCA-TTTT-GAAAATAGGAGA-ATTTCAA-GAAAAAAATGAAAAAATCATGAA-
* * * * *
1832085 ATTAAAGAATTTTTCTAAACATGTTTAATATGATTTAAATAGTGACATTTGATAAATTTTAAAAA
61 ATTAATGAATTTTTCAAAACATGTTTAATATGAATTAAATAGTGATATTTGATGAATTTTAAAAA
* *
1832150 TTAAAAACCAAGAAAAAAACCCCCCGAAAACGTTTACAGAG
126 TTAAAAACCAAGAAAAAAACCCCCCGAAAACATTTACAAAG
1832191 TAGAAAACTCTGCATTTTGAAAATAGGAGAATTTCATAGAAAAAAA-GAAAAAACTCATGAAAAT
1 TAGAAAACTCTGCATTTTGAAAATAGGAGAATTTCA-AGAAAAAAATGAAAAAA-TCATG-AAAT
* *
1832255 GAATGAATTTTTCAAAACA-GATTTAATATGAATTAAATAGTGATATTTTATGAATTTTAAAAAT
63 TAATGAATTTTTCAAAACATG-TTTAATATGAATTAAATAGTGATATTTGATGAATTTTAAAAAT
* *
1832319 TAAAAACCAAG--AAAATCTCCCCGAAAACATTTACAAAG
127 TAAAAACCAAGAAAAAAACCCCCCGAAAACATTTACAAAG
* * * *
1832357 TAGAAAACTCTACATTTTGAAAATAAGAGAATTTCAAGAAAAAAAATCAAAAACTCATGAAATTG
1 TAGAAAACTCTGCATTTTGAAAATAGGAGAATTTCAAG-AAAAAAATGAAAAAATCATGAAATT-
* * * * *
1832422 AATGAATTTTTGAAAA-TTGGTTTAATATGAATTAAATAATAATATTTGATGAATTTGAAAAATT
64 AATGAATTTTTCAAAACAT-GTTTAATATGAATTAAATAGTGATATTTGATGAATTTTAAAAATT
1832486 AAAAACCAAGAAAAA
128 AAAAACCAAGAAAAA
1832501 TCCTCCTAAA
Statistics
Matches: 273, Mismatches: 23, Indels: 28
0.84 0.07 0.09
Matches are distributed among these distances:
165 6 0.02
166 134 0.49
167 14 0.05
168 108 0.40
169 10 0.04
170 1 0.00
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (166 bp):
TAGAAAACTCTGCATTTTGAAAATAGGAGAATTTCAAGAAAAAAATGAAAAAATCATGAAATTAA
TGAATTTTTCAAAACATGTTTAATATGAATTAAATAGTGATATTTGATGAATTTTAAAAATTAAA
AACCAAGAAAAAAACCCCCCGAAAACATTTACAAAG
Found at i:1833718 original size:84 final size:82
Alignment explanation
Indices: 1833630--1833807 Score: 178
Period size: 84 Copynumber: 2.1 Consensus size: 82
1833620 ATTGTACAAT
* *
1833630 AGTTGACTAGGATAAAATCAATAAGTTAGCAAAGGATAAAGAAATTTACCTAAG-ACCAAGCCGG
1 AGTTGACTAGGATAAAAT-AATAAGTCAGCAAAGGATAAAGAAATTTACC-AAGTACCAAGCCGA
*
1833694 CAAGTAAACAAGGGATGAAA
64 CAAGTAAAC-AGAGATGAAA
* * * * * * * * * * *
1833714 AGTTGACCAAGGCTAAACTGATATGTCAGCAAAGGGTAAAGGAGTTTACCAGGTACTAAGCTGAC
1 AGTTGA-CTAGGATAAAATAATAAGTCAGCAAAGGATAAAGAAATTTACCAAGTACCAAGCCGAC
1833779 AAGTAAACAGAGATGAAA
65 AAGTAAACAGAGATGAAA
*
1833797 AATTGACTAGG
1 AGTTGACTAGG
1833808 GCTGAATCAA
Statistics
Matches: 76, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
82 4 0.05
83 16 0.21
84 47 0.62
85 9 0.12
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (82 bp):
AGTTGACTAGGATAAAATAATAAGTCAGCAAAGGATAAAGAAATTTACCAAGTACCAAGCCGACA
AGTAAACAGAGATGAAA
Found at i:1833960 original size:80 final size:82
Alignment explanation
Indices: 1833799--1833993 Score: 243
Period size: 81 Copynumber: 2.4 Consensus size: 82
1833789 AGATGAAAAA
* * * *
1833799 TTGACTAGGGCTGAA-TCAATAAGTCAATAGAGGATAGGAGTTCACTAGGGACTGAGCCAATAGG
1 TTGACTAGGGCTGAACT-AATAAGTCAACAAAGGATAGGAGTTCACCAGGGACTGAGCCAATAGA
1833863 TAAACAAGGGACAAAAGG
65 TAAACAAGGGACAAAAGG
* * *
1833881 TTGACTA-GGCTGAACTAATAAGTCAACAAAGGATA-GAGTTTACCAGGGATTGAGCCGATAGAT
1 TTGACTAGGGCTGAACTAATAAGTCAACAAAGGATAGGAGTTCACCAGGGACTGAGCCAATAGAT
* **
1833944 AAGCAAGGGATTAAAGG
66 AAACAAGGGACAAAAGG
* * *
1833961 TTGACTAGGGATAAACTGATAAGTCAACAAAGG
1 TTGACTAGGGCTGAACTAATAAGTCAACAAAGG
1833994 GTAAAAGAGT
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
80 44 0.45
81 46 0.47
82 8 0.08
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (82 bp):
TTGACTAGGGCTGAACTAATAAGTCAACAAAGGATAGGAGTTCACCAGGGACTGAGCCAATAGAT
AAACAAGGGACAAAAGG
Found at i:1834468 original size:132 final size:132
Alignment explanation
Indices: 1834252--1834561 Score: 343
Period size: 132 Copynumber: 2.3 Consensus size: 132
1834242 GAGTTTGACT
* * * ** * *
1834252 AAGGTGGTATCCATACGTCAAACCAACTTGAAAAGAGTTTGACTAGGGTGGTAACCATACATCAA
1 AAGGTGGTAGCCATACATCACACCAAAATGAGAAGAGTTTGACTAGGCTGGTAACCATACATCAA
* * * * * * *
1834317 ATAGGAAAAAGGCAGATTTGATCAGGGTGGTAATCATATGTCAAATCAGAATAAAAAAAATCTAA
66 ACAAGAAAAAGGCAGATTTGACCAGGGTAGTAACCATACGTCAAATCAAAATAAAAAAAATCTAA
1834382 CC
131 CC
* * ** * * * *
1834384 AGGGTGGTAAG-TATATGTTACACCAAAATGAGAAGAGTTTAACTAGGCTGGTAACTATACGTCA
1 AAGGTGGT-AGCCATACATCACACCAAAATGAGAAGAGTTTGACTAGGCTGGTAACCATACATCA
* * * * * *
1834448 AACAAGAAAGAGGTAGATTTGACCAGTGTAGTAACCATACGTCCAATCAAAATAAAAAGAATCTG
65 AACAAGAAAAAGGCAGATTTGACCAGGGTAGTAACCATACGTCAAATCAAAATAAAAAAAATCTA
1834513 ACC
130 ACC
*
1834516 AAGGTGGTAGCCATACATCAGACCAAAATGAGAAGAGTTTGACTAG
1 AAGGTGGTAGCCATACATCACACCAAAATGAGAAGAGTTTGACTAG
1834562 ATATAGTTAA
Statistics
Matches: 143, Mismatches: 33, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
131 2 0.01
132 140 0.98
133 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (132 bp):
AAGGTGGTAGCCATACATCACACCAAAATGAGAAGAGTTTGACTAGGCTGGTAACCATACATCAA
ACAAGAAAAAGGCAGATTTGACCAGGGTAGTAACCATACGTCAAATCAAAATAAAAAAAATCTAA
CC
Found at i:1834594 original size:35 final size:35
Alignment explanation
Indices: 1834548--1834680 Score: 135
Period size: 35 Copynumber: 3.8 Consensus size: 35
1834538 CCAAAATGAG
1834548 AAGAGTTTGACTAGATATAGTT-AAACGATGACAGA
1 AAGAGTTTGACTAGATATA-TTCAAACGATGACAGA
* **
1834583 AAGAGTTTGACTAGATATATTCAAATGATGATGGA
1 AAGAGTTTGACTAGATATATTCAAACGATGACAGA
* * * *
1834618 AAGAGTTTGACTAGATACAATCAAATGATGA-TGAA
1 AAGAGTTTGACTAGATATATTCAAACGATGACAG-A
* * * *
1834653 AAAAGTTAGACTAGATACAATCAAACGA
1 AAGAGTTTGACTAGATATATTCAAACGA
1834681 GAGAAAATTT
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
34 3 0.03
35 84 0.97
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.26
Consensus pattern (35 bp):
AAGAGTTTGACTAGATATATTCAAACGATGACAGA
Found at i:1834762 original size:30 final size:30
Alignment explanation
Indices: 1834694--1834771 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
1834684 AAAATTTGAT
* * * *
1834694 CGAGTATAGTCCAATGATGAAAGATTTAAC
1 CGAGTATAGTCAAATGAGGAAAAACTTAAC
* *
1834724 CGAATATAGTCAAATGAGGAAAAACTTGAC
1 CGAGTATAGTCAAATGAGGAAAAACTTAAC
* * *
1834754 TGAGTATAGCCAAGTGAG
1 CGAGTATAGTCAAATGAG
1834772 AATGATGCAC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (30 bp):
CGAGTATAGTCAAATGAGGAAAAACTTAAC
Found at i:1835049 original size:90 final size:90
Alignment explanation
Indices: 1834856--1835101 Score: 255
Period size: 90 Copynumber: 2.7 Consensus size: 90
1834846 TGGTCACGTA
* * * * ** * * * *
1834856 ATGCATCAATACCATATGGTGGCTAAAAAAAAGGGATATGATTAGGAATGAGTGGTCGGGATATC
1 ATGCATCAATACCATCTAGTGGTTGAATGAAAGGGATATGATTAGGAATGTGTGGACTGCA-A-C
** * *
1834921 CTTGCCCTAAGGAAATCTGGCTTTTTT
64 CTTGCCCTAAGGAAATCAAGCTTTGTG
* * *
1834948 ATGCATCAATACTATCTAGTGGTTGAAT-AAAGGGGATATGATTGGGAATGTGTGGGCTGCAACC
1 ATGCATCAATACCATCTAGTGGTTGAATGAAA-GGGATATGATTAGGAATGTGTGGACTGCAACC
*
1835012 TTGCCTTAAGGAAATCAAGCTTTGTG
65 TTGCCCTAAGGAAATCAAGCTTTGTG
* * *
1835038 ATGCATTAATACCATCTAGTGGTTGAATGAAAGGG--ATGATTAGGAATATGTGGACTGCACCCT
1 ATGCATCAATACCATCTAGTGGTTGAATGAAAGGGATATGATTAGGAATGTGTGGACTGCAACCT
1835101 T
66 T
1835102 TTCCATTAAT
Statistics
Matches: 130, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
88 25 0.19
90 52 0.40
91 7 0.05
92 46 0.35
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (90 bp):
ATGCATCAATACCATCTAGTGGTTGAATGAAAGGGATATGATTAGGAATGTGTGGACTGCAACCT
TGCCCTAAGGAAATCAAGCTTTGTG
Found at i:1835480 original size:75 final size:76
Alignment explanation
Indices: 1835398--1835579 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 76
1835388 ATTTCCACAC
* * * *
1835398 TTTCCATTAATAGCCGAAACAAACTGACAAGATGCT-GATGAAGATAATCATGATGGGGAATATA
1 TTTCCATTAAAAGCCGAAACAAACTGACAAGA-GCTGGAAGAAGATAATCATAATGGGAAATATA
1835462 TGG-TTCTAAAA
65 TGGTTTCTAAAA
** * * * * *
1835473 TTTCCATTAAAAG-TTAAACAAATTAACAAGAGGTGGAAGAGGATGATCATAATGGGAAATATAT
1 TTTCCATTAAAAGCCGAAACAAACTGACAAGAGCTGGAAGAAGATAATCATAATGGGAAATATAT
1835537 GGTTTCTAAAA
66 GGTTTCTAAAA
* *
1835548 TTTTCATCAAAAGCCGAAACAAACTGACAAGA
1 TTTCCATTAAAAGCCGAAACAAACTGACAAGA
1835580 ATGATGATAT
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
73 2 0.02
74 40 0.46
75 31 0.36
76 14 0.16
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (76 bp):
TTTCCATTAAAAGCCGAAACAAACTGACAAGAGCTGGAAGAAGATAATCATAATGGGAAATATAT
GGTTTCTAAAA
Found at i:1836501 original size:88 final size:86
Alignment explanation
Indices: 1836260--1836542 Score: 241
Period size: 88 Copynumber: 3.2 Consensus size: 86
1836250 TGCATCTACA
* * * * *
1836260 AGCACCAATAAAGAGGCTAATGCACATGAAATGATGCCAATGCCAATGTTATC-AAACTATAAAT
1 AGCATCAATAAAG-GGCAAATGCATATGAAATGATGCAAATGCCAATG-TATCAAAACTACAAAT
* ** * *
1836324 GTGCATTAAATGACGCAACTATG
64 GTGCATAAAACAACGCAAATAAG
* * * * *
1836347 AGCATCAATAAAAGGGCAAATGCATATGATATGATGCAGATACCAATGTCATGTAAAA-TGCAAA
1 AGCATCAAT-AAAGGGCAAATGCATATGAAATGATGCAAATGCCAATGT-AT-CAAAACTACAAA
*
1836411 TGTGCATAAAACAATGCAAATACAG
63 TGTGCATAAAACAACGCAAATA-AG
* * *
1836436 -GCATCAGTAAAGTGGCAAATGCATATTAAATGATGCAAATGCCAATGCTATCAAAACTACGAAT
1 AGCATCAATAAAG-GGCAAATGCATATGAAATGATGCAAATGCCAATG-TATCAAAACTACAAAT
* ** *
1836500 GTGCATGAAATGACGCAACTACA-
64 GTGCATAAAACAACGCAAATA-AG
1836523 AGCATCAATAAAAGGGCAAA
1 AGCATCAAT-AAAGGGCAAA
1836543 GATACCAATG
Statistics
Matches: 156, Mismatches: 30, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
86 1 0.01
87 46 0.29
88 100 0.64
89 9 0.06
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (86 bp):
AGCATCAATAAAGGGCAAATGCATATGAAATGATGCAAATGCCAATGTATCAAAACTACAAATGT
GCATAAAACAACGCAAATAAG
Found at i:1836682 original size:87 final size:86
Alignment explanation
Indices: 1836549--1836823 Score: 211
Period size: 88 Copynumber: 3.1 Consensus size: 86
1836539 CAAAGATACC
* * * *
1836549 AATGTCATGTAAAATGCAAATATGCA--TAAAATAATGCAAATACAAGCATCAGTAAAGTGGCAA
1 AATGTCATCTAAAATGC-AA-ATGCAGGTAAAAGAATACAAATGCAAGCATCA--AAAGTGGCAA
1836612 ATGCATATTAAATAATGCAAATGCT
62 ATGCATATTAAATAATGCAAATGCT
* * * * * *
1836637 AATGTTATCT-AAATGCAAATGCATGTAAAAGGATACAAATGCAAGCATCAACAAAGGGGCTAAC
1 AATGTCATCTAAAATGCAAATGCAGGTAAAAGAATACAAATGCAAGCATC-A-AAAGTGGCAAAT
* * * *
1836701 ACATA-TACAGTTATGCAAATACT
64 GCATATTA-AATAATGCAAATGCT
* * * * * * *
1836724 AATGTCATCTAAAATGCAAATGTAGGTGAGATAATGCAAATGCAATCATCAAAAGAATGACAAAT
1 AATGTCATCTAAAATGCAAATGCAGGTAAAAGAATACAAATGCAAGCATCAAAAG--TGGCAAAT
*
1836789 GCATATGAAA-AGATGCAAATGCT
64 GCATATTAAATA-ATGCAAATGCT
1836812 AAT-TCAGTCTAA
1 AATGTCA-TCTAA
1836824 TCCTAATATA
Statistics
Matches: 145, Mismatches: 32, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
85 5 0.03
86 8 0.06
87 64 0.44
88 67 0.46
89 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (86 bp):
AATGTCATCTAAAATGCAAATGCAGGTAAAAGAATACAAATGCAAGCATCAAAAGTGGCAAATGC
ATATTAAATAATGCAAATGCT
Found at i:1836738 original size:158 final size:158
Alignment explanation
Indices: 1836390--1836701 Score: 396
Period size: 158 Copynumber: 2.0 Consensus size: 158
1836380 ATGCAGATAC
* * * *
1836390 CAATGTCATGTAAAATGCAAATGTGCATAAAACAATGCAAATACAGGCATCAGTAAAGTGGCAAA
1 CAATGTCATGTAAAATACAAATATGCATAAAATAATGCAAATACAAGCATCAGTAAAGTGGCAAA
* * * * *
1836455 TGCATATTAAATGATGCAAATGCCAATGCTATCAAAACTACGAATGTGCATGAAATGACGCAACT
66 TGCATATTAAATAATGCAAATGCCAATGCTATCAAAACTACGAATATGCATGAAAGGACACAAAT
* * *
1836520 ACAAGCATCAATAAAAGGGCAAAGATAC
131 ACAAGCATCAACAAAAGGGCAAACATAA
*
1836548 CAATGTCATGTAAAATGCAAATATGCATAAAATAATGCAAATACAAGCATCAGTAAAGTGGCAAA
1 CAATGTCATGTAAAATACAAATATGCATAAAATAATGCAAATACAAGCATCAGTAAAGTGGCAAA
* * * * *
1836613 TGCATATTAAATAATGCAAATGCTAATGTTATCTAAA-TGC-AA-ATGCATGTAAAAGGATACAA
66 TGCATATTAAATAATGCAAATGCCAATGCTATCAAAACTACGAATATGCATG--AAAGGACACAA
* * *
1836675 ATGCAAGCATCAACAAAGGGGCTAACA
129 ATACAAGCATCAACAAAAGGGCAAACA
1836702 CATATACAGT
Statistics
Matches: 134, Mismatches: 18, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
155 6 0.04
156 2 0.01
157 31 0.23
158 95 0.71
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.21
Consensus pattern (158 bp):
CAATGTCATGTAAAATACAAATATGCATAAAATAATGCAAATACAAGCATCAGTAAAGTGGCAAA
TGCATATTAAATAATGCAAATGCCAATGCTATCAAAACTACGAATATGCATGAAAGGACACAAAT
ACAAGCATCAACAAAAGGGCAAACATAA
Found at i:1837843 original size:27 final size:26
Alignment explanation
Indices: 1837806--1837857 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
1837796 AAAAGTATAA
* *
1837806 AATATATATTAAATAATAATAAATAT
1 AATATATATTAAAAAATAAAAAATAT
1837832 AATATAATATTAAAAAATAAAAAATA
1 AATAT-ATATTAAAAAATAAAAAATA
1837858 AAAAAAGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
AATATATATTAAAAAATAAAAAATAT
Found at i:1838435 original size:42 final size:43
Alignment explanation
Indices: 1838389--1838572 Score: 196
Period size: 42 Copynumber: 4.3 Consensus size: 43
1838379 ACAACAGAAA
* **
1838389 AAGAAAAG-TAATAGCAAAGTAATGCAATTTGATTTGGAGTTG
1 AAGAAAAGCTAATAGCAAAGCAATGCAATTTGATTTGGAACTG
* * *** *
1838431 AAGAAGAGTTGGCAGCAAAGCAATGCAATTTGATTTGGAACTA
1 AAGAAAAGCTAATAGCAAAGCAATGCAATTTGATTTGGAACTG
*
1838474 AAGAAAAG-TAATAGCAAAGCAATGCAATTTGATTTGAAACTG
1 AAGAAAAGCTAATAGCAAAGCAATGCAATTTGATTTGGAACTG
* * * *
1838516 AAGAAAAGCTAA-AGCAAAGCAATTCAATTTGGTTTTGAGGCTG
1 AAGAAAAGCTAATAGCAAAGCAATGCAATTTGATTTGGA-ACTG
1838559 AAGAAGAAGC-AATA
1 AAGAA-AAGCTAATA
1838573 ACAGCATCAA
Statistics
Matches: 118, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
42 66 0.56
43 47 0.40
44 5 0.04
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (43 bp):
AAGAAAAGCTAATAGCAAAGCAATGCAATTTGATTTGGAACTG
Found at i:1838563 original size:85 final size:85
Alignment explanation
Indices: 1838388--1838546 Score: 230
Period size: 85 Copynumber: 1.9 Consensus size: 85
1838378 AACAACAGAA
* * ** * * **
1838388 AAAGAAAAGTAATAGCAAAGTAATGCAATTTGATTTGGAGTTGAAGAAGAGTTGGCAGCAAAGCA
1 AAAGAAAAGTAATAGCAAAGCAATGCAATTTGATTTGAAACTGAAGAAAAGCTGAAAGCAAAGCA
1838453 ATGCAATTTGATTTGGAACT
66 ATGCAATTTGATTTGGAACT
1838473 AAAGAAAAGTAATAGCAAAGCAATGCAATTTGATTTGAAACTGAAGAAAAGCT-AAAGCAAAGCA
1 AAAGAAAAGTAATAGCAAAGCAATGCAATTTGATTTGAAACTGAAGAAAAGCTGAAAGCAAAGCA
*
1838537 ATTCAATTTG
66 ATGCAATTTG
1838547 GTTTTGAGGC
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 18 0.28
85 47 0.72
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.24
Consensus pattern (85 bp):
AAAGAAAAGTAATAGCAAAGCAATGCAATTTGATTTGAAACTGAAGAAAAGCTGAAAGCAAAGCA
ATGCAATTTGATTTGGAACT
Found at i:1840247 original size:158 final size:154
Alignment explanation
Indices: 1839916--1840395 Score: 514
Period size: 157 Copynumber: 3.0 Consensus size: 154
1839906 TTTAGAGACT
* * * * * * *
1839916 ATTAAGCAAATATTTATATTTTAAGGGTAAAATGGTCTTTTTCCACCCATTTAAGTGATATTTCT
1 ATTAGGCAAATCTTTATACTTTAAGGGAAAAATGATCTTTTTCTACCCATTCAAGTGATATTTCT
* * * ** **
1839981 ATTATTCCTATGGTCCTCCGTAAGGGTATATAAATATATAAAAAAAATTTCCTATCCCCT-AATT
66 ATTATTCTTATGGTCTTCCGTAAGGGTATA-GAATAT-T-AAAAAAATTTTGTAT-CCCTGGTTT
*
1840045 TTCTGTCGAGTACAAAATGTAATTTTCAAA
127 TTCT-T-GGGTACAAAATGTAATTTTCAAA
* *
1840075 ATTAGGCAAATCTTTATACTTTTATGGAAAAATGATCTTTTTTCTACCCATTCAAGTGATATTTC
1 ATTAGGCAAATCTTTATACTTTAAGGGAAAAATGATC-TTTTTCTACCCATTCAAGTGATATTTC
* *
1840140 TATTGTTCTTATGGTCTTCCATAAGGGTATAGGAATATTAAAAAAATTTTGTATCCTCTGGTTTT
65 TATTATTCTTATGGTCTTCCGTAAGGGTATA-GAATATTAAAAAAATTTTGTATCC-CTGGTTTT
**
1840205 TCATTGGGTATGAAATGTAATTTTCAAA
128 TC-TTGGGTACAAAATGTAATTTTCAAA
** * * * *
1840233 ATTAGGTTATTCTTTATACTTTAAGGGCAAAATGCTCTTTTTCTACCCATTCAAGTGATATTTCA
1 ATTAGGCAAATCTTTATACTTTAAGGGAAAAATGATCTTTTTCTACCCATTCAAGTGATATTTCT
* * *
1840298 ATTATTTTTATGGCCTTCCGTAAGGGTATAGAGATATT-AAAAATTTTTCGTATCCCATGGTTTT
66 ATTATTCTTATGGTCTTCCGTAAGGGTATAGA-ATATTAAAAAAATTTT-GTATCCC-TGG-TTT
* * *
1840362 TTGTTGGGTACAAAATGCAATTTTTAAAA
127 TTCTTGGGTACAAAATGTAA-TTTTCAAA
1840391 ATTAG
1 ATTAG
1840396 ACACATAAGT
Statistics
Matches: 272, Mismatches: 40, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
156 12 0.04
157 83 0.31
158 82 0.30
159 37 0.14
160 58 0.21
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (154 bp):
ATTAGGCAAATCTTTATACTTTAAGGGAAAAATGATCTTTTTCTACCCATTCAAGTGATATTTCT
ATTATTCTTATGGTCTTCCGTAAGGGTATAGAATATTAAAAAAATTTTGTATCCCTGGTTTTTCT
TGGGTACAAAATGTAATTTTCAAA
Found at i:1845280 original size:20 final size:20
Alignment explanation
Indices: 1845257--1845323 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
1845247 ATATGTATCA
* *
1845257 ATACATAAATAAATGTATTG
1 ATACATTAATAATTGTATTG
* *
1845277 ATACATTTACTATTTGTATTG
1 ATACA-TTAATAATTGTATTG
* *
1845298 ATACATTATTCATTGTATTG
1 ATACATTAATAATTGTATTG
1845318 ATACAT
1 ATACAT
1845324 GTAGGTAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 23 0.59
21 16 0.41
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.45
Consensus pattern (20 bp):
ATACATTAATAATTGTATTG
Found at i:1845296 original size:21 final size:21
Alignment explanation
Indices: 1845270--1845323 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
1845260 CATAAATAAA
1845270 TGTATTGATACATTTACT-ATT
1 TGTATTGATACATTTACTCA-T
*
1845291 TGTATTGATACA-TTATTCAT
1 TGTATTGATACATTTACTCAT
1845311 TGTATTGATACAT
1 TGTATTGATACAT
1845324 GTAGGTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (21 bp):
TGTATTGATACATTTACTCAT
Found at i:1849935 original size:468 final size:468
Alignment explanation
Indices: 1849037--1850036 Score: 1273
Period size: 468 Copynumber: 2.1 Consensus size: 468
1849027 ATGGGAAAAT
* * * *
1849037 TGAACCTATCCCTAAATGCCCATCCTTGGTGTAAAAGCGGACTTGGTGACAACCTAGGACTCAGT
1 TGAACCTAT-CCTAAATACCCA-CCTTGGTATAAAAGCAGACTCGGTGACAACCTAGGACTCAGT
* * *
1849102 TTCATGAAAATAATGAAAATGCCCCTATGGGAATACCTTCAACATTATAGTATCTCGGTAACCCT
64 TTCATAAAAATAATGAAAATGCCCCTATGGGAATACCTTCAACATTAAAGTATCCCGGTAACCCT
* * * *
1849167 AAAGGACTCAAAAACATTGTAGCTGGGGTGAACCTATCCTAAATACCCACCATAGACATAAAAAT
129 AAAAGACTCAAAAACATTATAGCTAGGGTGAACCTATCCTAAATACCCACCATAGACATAAAAAC
* * * *
1849232 GGACCTAGTGACAACTTAAGACTCGATTCTAAAAAATTATGAAAAAGCCCTTATAGGTATACCTT
194 AGACCTAGTGACAACCTAAGACTCGATTCTAAAAAATTATGAAAAAGCCCTAATAGGTATACCAT
* **
1849297 TGACATGAAAGTATCTTGATAACCCTAAAGGACTTAAAAAGGTTATAGCTGGGGTGAACCTATCC
259 TGACATAAAAGTATCCAGATAACCCTAAAGGACTTAAAAAGGTTATAGCTGGGGTGAACCTATCC
** * * *
1849362 TAAATACTCACCTTCAGCTTAAAATTGGACCTGGTGACAACTTAAGACTCGGTTTCATAAAAATT
324 TAAATACTCACCTTCAGCTTAAAAGCGGACCTAGTGACAACCTAAGACTCGGATTCATAAAAATT
** * * *
1849427 ACAAAAATGCTTTATGGGTATACTTTCGGCATGAAAGTATCCT-GATAACCCTAAAGGACTCCAA
389 ACAAAAATGCCCTATGGGTATACCTTCGACATGAAAGTATCCTAG-TAACCCTAAAGGACACCAA
* * * *
1849491 AAGGTTATAG-CTCGGG
453 AAGGATA-AGAATAGGA
*
1849507 TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACTCGGTGACAACCTAGGACTCAGTT
1 TGAACCTATCCTAAATACCCACCTT-GGTATAAAAGCAGACTCGGTGACAACCTAGGACTCAGTT
* * * **
1849572 TCATAAAAATTAT-AAAATGCCCTTATGGGTATACCTTTGACATTAAAGTATCCCGGTAACCCTA
65 TCATAAAAATAATGAAAATGCCCCTATGGGAATACCTTCAACATTAAAGTATCCCGGTAACCCTA
** * * *
1849636 AAAGACTCAAAAAGGTTATAGCTAGGGTGAACCTATCCTAAATACCCACCTTTGACATAAAAGCA
130 AAAGACTCAAAAACATTATAGCTAGGGTGAACCTATCCTAAATACCCACCATAGACATAAAAACA
* * * *
1849701 GA-CTCGGTGACAACCTAGGACTTTGATTCTAAAAAATTATGAAAATGCCC-AATAGGTATACCA
195 GACCT-AGTGACAACCTAAGAC-TCGATTCTAAAAAATTATGAAAAAGCCCTAATAGGTATACCA
1849764 TTGACATAAAAGTATCCCAG-TAACCCTAAAGGACTTAAAAAGGTTATAGCTGGGGTGAACCTAT
258 TTGACATAAAAGTAT-CCAGATAACCCTAAAGGACTTAAAAAGGTTATAGCTGGGGTGAACCTAT
* *
1849828 CCTAAATACTCACCTTC-GGTATAAAAGCGGACCTAGTGACAACCTAAGACT-TGATTC-TAAAA
322 CCTAAATACTCACCTTCAGCT-TAAAAGCGGACCTAGTGACAACCTAAGACTCGGATTCATAAAA
* * **
1849890 ACTTATC-AAAATGCCCCTATGGGTATACCTTCGACATGGAAGTATCCTAGTAACCTTAGTGGAC
386 A-TTA-CAAAAATG-CCCTATGGGTATACCTTCGACATGAAAGTATCCTAGTAACCCTAAAGGAC
*
1849954 ACCAAAATGATAAGTAATAGGA
448 ACCAAAAGGATAAG-AATAGGA
* ** * *
1849976 CGAACCTATCCTAAATACCCACCTTTGGTATAAAAGCAGACTCAATGATAGCCTAGGACTC
1 TGAACCTATCCTAAATACCCACC-TTGGTATAAAAGCAGACTCGGTGACAACCTAGGACTC
1850037 GATTCTAGGA
Statistics
Matches: 458, Mismatches: 60, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
466 6 0.01
467 19 0.04
468 281 0.61
469 141 0.31
470 11 0.02
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (468 bp):
TGAACCTATCCTAAATACCCACCTTGGTATAAAAGCAGACTCGGTGACAACCTAGGACTCAGTTT
CATAAAAATAATGAAAATGCCCCTATGGGAATACCTTCAACATTAAAGTATCCCGGTAACCCTAA
AAGACTCAAAAACATTATAGCTAGGGTGAACCTATCCTAAATACCCACCATAGACATAAAAACAG
ACCTAGTGACAACCTAAGACTCGATTCTAAAAAATTATGAAAAAGCCCTAATAGGTATACCATTG
ACATAAAAGTATCCAGATAACCCTAAAGGACTTAAAAAGGTTATAGCTGGGGTGAACCTATCCTA
AATACTCACCTTCAGCTTAAAAGCGGACCTAGTGACAACCTAAGACTCGGATTCATAAAAATTAC
AAAAATGCCCTATGGGTATACCTTCGACATGAAAGTATCCTAGTAACCCTAAAGGACACCAAAAG
GATAAGAATAGGA
Found at i:1849942 original size:156 final size:157
Alignment explanation
Indices: 1849037--1849944 Score: 964
Period size: 156 Copynumber: 5.8 Consensus size: 157
1849027 ATGGGAAAAT
* ** * *
1849037 TGAACCTATCCCTAAATGCCCATCCTT-GGTGTAAAAGCGGACTTGGTGACAACCTAGGACTCAG
1 TGAACCTAT-CCTAAATACCCA-CCTTCGGCATAAAAGCGGACCTGGTGACAACCTAAGACTCAG
* * * * * * * *
1849101 TTTCATGAAAATAATGAAAATGCCCCTATGGGAATACCTTCAACATTATAGTAT-CTCGGTAACC
64 ATTCATAAAAATTATGAAAATGCCCCTATGGGTATACCTTCGACATGAAAGTATCCT-AGTAACC
** *
1849165 CTAAAGGACTCAAAAACATTGTAGCTGGGG
128 CTAAAGGACTCAAAAAGGTTATAGCTGGGG
* * * ** * *
1849195 TGAACCTATCCTAAATACCCACCATAGACATAAAAATGGACCTAGTGACAACTTAAGACTC-GAT
1 TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCTGGTGACAACCTAAGACTCAGAT
* * * * *
1849259 TC-TAAAAAATTATGAAAAAGCCCTTATAGGTATACCTTTGACATGAAAGTAT-CTTGATAACCC
66 TCAT-AAAAATTATGAAAATGCCCCTATGGGTATACCTTCGACATGAAAGTATCCTAG-TAACCC
*
1849322 TAAAGGACTTAAAAAGGTTATAGCTGGGG
129 TAAAGGACTCAAAAAGGTTATAGCTGGGG
* * * ** * * *
1849351 TGAACCTATCCTAAATACTCACCTTCAGCTTAAAATTGGACCTGGTGACAACTTAAGACTCGGTT
1 TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCTGGTGACAACCTAAGACTCAGAT
** ** * *
1849416 TCATAAAAATTACAAAAATG-CTTTATGGGTATACTTTCGGCATGAAAGTATCCT-GATAACCCT
66 TCATAAAAATTATGAAAATGCCCCTATGGGTATACCTTCGACATGAAAGTATCCTAG-TAACCCT
* *
1849479 AAAGGACTCCAAAAGGTTATAGCTCGGG
130 AAAGGACTCAAAAAGGTTATAGCTGGGG
* * *
1849507 TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGA-CTCGGTGACAACCTAGGACTCAGT
1 TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCT-GGTGACAACCTAAGACTCAGA
* * * **
1849571 TTCATAAAAATTAT-AAAATGCCCTTATGGGTATACCTTTGACATTAAAGTATCCCGGTAACCCT
65 TTCATAAAAATTATGAAAATGCCCCTATGGGTATACCTTCGACATGAAAGTATCCTAGTAACCCT
* *
1849635 AAAAGACTCAAAAAGGTTATAGCTAGGG
130 AAAGGACTCAAAAAGGTTATAGCTGGGG
* * * * **
1849663 TGAACCTATCCTAAATACCCACCTTTGACATAAAAGCAGA-CTCGGTGACAACCTAGGACTTTGA
1 TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCT-GGTGACAACCTAAGACTCAGA
* * * *
1849727 TTC-TAAAAAATTATGAAAATG-CCCAATAGGTATACCATT-GACATAAAAGTATCCCAGTAACC
65 TTCAT-AAAAATTATGAAAATGCCCCTATGGGTATACC-TTCGACATGAAAGTATCCTAGTAACC
*
1849789 CTAAAGGACTTAAAAAGGTTATAGCTGGGG
128 CTAAAGGACTCAAAAAGGTTATAGCTGGGG
* * * *
1849819 TGAACCTATCCTAAATACTCACCTTCGGTATAAAAGCGGACCTAGTGACAACCTAAGACT-TGAT
1 TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCTGGTGACAACCTAAGACTCAGAT
* *
1849883 TC-TAAAAACTTATCAAAATGCCCCTATGGGTATACCTTCGACATGGAAGTATCCTAGTAACC
66 TCATAAAAA-TTATGAAAATGCCCCTATGGGTATACCTTCGACATGAAAGTATCCTAGTAACC
1849945 TTAGTGGACA
Statistics
Matches: 642, Mismatches: 92, Indels: 34
0.84 0.12 0.04
Matches are distributed among these distances:
154 5 0.01
155 30 0.05
156 530 0.83
157 67 0.10
158 10 0.02
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (157 bp):
TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCTGGTGACAACCTAAGACTCAGAT
TCATAAAAATTATGAAAATGCCCCTATGGGTATACCTTCGACATGAAAGTATCCTAGTAACCCTA
AAGGACTCAAAAAGGTTATAGCTGGGG
Found at i:1850041 original size:157 final size:153
Alignment explanation
Indices: 1849037--1850243 Score: 916
Period size: 156 Copynumber: 7.7 Consensus size: 153
1849027 ATGGGAAAAT
* ** * **
1849037 TGAACCTATCCCTAAATGCCCATCCTT-GGTGTAAAAGCGGACTTGGTGACAACCTAGGACTCAG
1 TGAACCTAT-CCTAAATACCCA-CCTTCGGCATAAAAGCAGACTCAGTGACAACCTAGGACTC-G
* * * * * * * * *
1849101 TTTCATGAAAATAATGAAAATGCCCCTATGGGAATACCTTCAACATTATAGTATCTCGGTAACCC
63 ATTC-TAAAAATTAT-AAAATGCCCCTATGGGTATACCTT-GACATAAAAGTATCCCAGTAACCC
** * *
1849166 TAAAGGACTCAAAAACATTGTAGCTGGGG
125 TAAAGGACTCAAAAAGGTTATAGCTAGGG
* * * *** * *
1849195 TGAACCTATCCTAAATACCCACCATAGACATAAAAATGGAC-CTAGTGACAACTTAAGACTCGAT
1 TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACTC-AGTGACAACCTAGGACTCGAT
* * * * **
1849259 TCTAAAAAATTATGAAAAAGCCCTTATAGGTATACCTTTGACATGAAAGTAT-CTTGATAACCCT
65 TCT-AAAAATTAT-AAAATGCCCCTATGGGTATACC-TTGACATAAAAGTATCCCAG-TAACCCT
* *
1849323 AAAGGACTTAAAAAGGTTATAGCTGGGG
126 AAAGGACTCAAAAAGGTTATAGCTAGGG
* * * *** * * * *
1849351 TGAACCTATCCTAAATACTCACCTTCAGCTTAAAATTGGAC-CTGGTGACAACTTAAGACTCGGT
1 TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACTC-AGTGACAACCTAGGACTC-GA
* ** * * * *
1849415 TTCATAAAAATTACAAAAATG-CTTTATGGGTATACTTTCGGCATGAAAGTAT-CCTGATAACCC
64 TTC-TAAAAATTA-TAAAATGCCCCTATGGGTATACCTT-GACATAAAAGTATCCCAG-TAACCC
* *
1849478 TAAAGGACTCCAAAAGGTTATAGCTCGGG
125 TAAAGGACTCAAAAAGGTTATAGCTAGGG
* *
1849507 TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACTCGGTGACAACCTAGGACTCAGTT
1 TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACTCAGTGACAACCTAGGACTC-GAT
* * *
1849572 TCATAAAAATTATAAAATGCCCTTATGGGTATACCTTTGACATTAAAGTATCCCGGTAACCCTAA
65 TC-TAAAAATTATAAAATGCCCCTATGGGTATACC-TTGACATAAAAGTATCCCAGTAACCCTAA
*
1849637 AAGACTCAAAAAGGTTATAGCTAGGG
128 AGGACTCAAAAAGGTTATAGCTAGGG
* * * *
1849663 TGAACCTATCCTAAATACCCACCTTTGACATAAAAGCAGACTCGGTGACAACCTAGGACTTTGAT
1 TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACTCAGTGACAACCTAGGAC-TCGAT
* *
1849728 TCTAAAAAATTATGAAAATG-CCCAATAGGTATACCATTGACATAAAAGTATCCCAGTAACCCTA
65 TCT-AAAAATTAT-AAAATGCCCCTATGGGTATACC-TTGACATAAAAGTATCCCAGTAACCCTA
* *
1849792 AAGGACTTAAAAAGGTTATAGCTGGGG
127 AAGGACTCAAAAAGGTTATAGCTAGGG
* * * * *
1849819 TGAACCTATCCTAAATACTCACCTTCGGTATAAAAGCGGAC-CTAGTGACAACCTAAGACTTGAT
1 TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACTC-AGTGACAACCTAGGACTCGAT
** * *
1849883 TCTAAAAACTTATCAAAATGCCCCTATGGGTATACCTTCGACATGGAAGTATCCTAGTAACCTTA
65 TCTAAAAA-TTAT-AAAATGCCCCTATGGGTATACCTT-GACATAAAAGTATCCCAGTAACCCTA
** * * * * * *
1849948 GTGGACACCAAAATGATA-AGTAATAGGA
127 AAGGACTCAAAAAGGTTATAG--CTAGGG
* * * * * *
1849976 CGAACCTATCCTAAATACCCACCTTTGGTATAAAAGCAGACTCAATGATAGCCTAGGACTCGATT
1 TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACTCAGTGACAACCTAGGACTCGATT
* *** * ** * * * *
1850041 CTAGGAAAATTAAAAAAAAAACCCTAAGGG-ATAAGTTTGACGTAGAAG--TGCCTG-ATACTCC
66 CTA--AAAATT-ATAAAATGCCCCTATGGGTAT-ACCTTGACATAAAAGTATCCCAGTA-AC-CC
* * **
1850102 TAAAGGACT-TAAAAGAATTATA-AAAGGG
125 TAAAGGACTCAAAAAG-GTTATAGCTAGGG
* *
1850130 ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACTCAGTGACAACCTAGGAGTCGAT
1 -TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACTCAGTGACAACCTAGGACTCGAT
* * * * * *
1850195 TTTGAAAATCATGAAAATGCCCCTAAGGG-ATACTTTTGATATAAAAGTA
65 TCTAAAAATTAT-AAAATGCCCCTATGGGTATAC-CTTGACATAAAAGTA
1850244 CTCGGCACCC
Statistics
Matches: 861, Mismatches: 152, Indels: 75
0.79 0.14 0.07
Matches are distributed among these distances:
152 2 0.00
153 30 0.03
154 10 0.01
155 101 0.12
156 546 0.63
157 139 0.16
158 28 0.03
159 5 0.01
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (153 bp):
TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACTCAGTGACAACCTAGGACTCGATT
CTAAAAATTATAAAATGCCCCTATGGGTATACCTTGACATAAAAGTATCCCAGTAACCCTAAAGG
ACTCAAAAAGGTTATAGCTAGGG
Found at i:1850137 original size:468 final size:468
Alignment explanation
Indices: 1849160--1850195 Score: 1163
Period size: 468 Copynumber: 2.2 Consensus size: 468
1849150 AGTATCTCGG
* * * *** *
1849160 TAACCCTAAAGGACTCAAAAACATTGTAGCTGGGGTGAACCTATCCTAAATACCCACCATAGACA
1 TAACCCTAAAAGACTCAAAAAGATTATAGAAAGGGTGAACCTATCCTAAATACCCACCTTAGACA
*** * * *
1849225 TAAAAATGGAC-CTAGTGACAACTTAAGACTCGATTCTAAAAAATTATGAAAAAGCCCTTATAGG
66 TAAAAGCAGACTC-AGTGACAACCTAGGACTCGATTCTAAAAAATTATGAAAAAGCCCTAATAGG
* * **
1849289 TATACCTTTGACATGAAAGTATCTTGATAACCCTAAAGGACTTAAAAAGGTTATAGCTGGGGTGA
130 TATACCATTGACATAAAAGTATCCAGATAACCCTAAAGGACTTAAAAAGGTTATAGCTGGGGTGA
** * * *
1849354 ACCTATCCTAAATACTCACCTTCAGCTTAAAATTGGACCTGGTGACAACTTAAGACTCGGTTTCA
195 ACCTATCCTAAATACTCACCTTCAGCTTAAAAGCGGACCTAGTGACAACCTAAGACTCGGATTCA
** * *
1849419 TAAAAATTACAAAAATGCTTTATGGGTATACTTTCGGCATGAAAGTATCCTGATAACCCTAAAGG
260 TAAAAATTACAAAAATGCCCTATGGGTATACCTTCGACATGAAAGTATCCTGATAACCCTAAAGG
* * * * * **
1849484 ACTCCAAAAGGTTATAGCTCGGGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACT
325 ACACCAAAAGATAATAGATAGGACGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACT
** * * ** * *
1849549 CGGTGACAACCTAGGACTCAGTTTCATAAAAATTATAAAATGCCCTTATGGGTATACCTTTGACA
390 CAATGACAACCTAGGACTCAGATTCATAAAAATTAAAAAAAACCCTTAAGGGTATAACTTTGACA
* * *
1849614 TTAAAGTATCCCGG
455 GTAAAGTAGCCCGA
* ** *
1849628 TAACCCTAAAAGACTCAAAAAGGTTATAGCTAGGGTGAACCTATCCTAAATACCCACCTTTGACA
1 TAACCCTAAAAGACTCAAAAAGATTATAGAAAGGGTGAACCTATCCTAAATACCCACCTTAGACA
* * *
1849693 TAAAAGCAGACTCGGTGACAACCTAGGACTTTGATTCTAAAAAATTATGAAAATGCCC-AATAGG
66 TAAAAGCAGACTCAGTGACAACCTAGGAC-TCGATTCTAAAAAATTATGAAAAAGCCCTAATAGG
1849757 TATACCATTGACATAAAAGTATCCCAG-TAACCCTAAAGGACTTAAAAAGGTTATAGCTGGGGTG
130 TATACCATTGACATAAAAGTAT-CCAGATAACCCTAAAGGACTTAAAAAGGTTATAGCTGGGGTG
* *
1849821 AACCTATCCTAAATACTCACCTTC-GGTATAAAAGCGGACCTAGTGACAACCTAAGACT-TGATT
194 AACCTATCCTAAATACTCACCTTCAGCT-TAAAAGCGGACCTAGTGACAACCTAAGACTCGGATT
* *
1849884 C-TAAAAACTTATC-AAAATGCCCCTATGGGTATACCTTCGACATGGAAGTATCCT-AGTAACCT
258 CATAAAAA-TTA-CAAAAATG-CCCTATGGGTATACCTTCGACATGAAAGTATCCTGA-TAACCC
** * *
1849946 TAGTGGACACCAAAATGATAAGTA-ATAGGACGAACCTATCCTAAATACCCACCTTTGGTATAAA
319 TAAAGGACACCAAAA-GATAA-TAGATAGGACGAACCTATCCTAAATACCCACCTTCGGCATAAA
* *
1850010 AGCAGACTCAATGATAGCCTAGGACTC-GATTC-TAGGAAAATTAAAAAAAAAACCC-TAAGGG-
382 AGCAGACTCAATGACAACCTAGGACTCAGATTCATA--AAAATT--AAAAAAAACCCTTAAGGGT
* *
1850071 ATAAGTTTGAC-GTAGAAGT-GCCTGA
443 ATAACTTTGACAGTA-AAGTAGCCCGA
* * * *
1850096 T-ACTCCTAAAGGACT-TAAAAGAATTATA-AAAGGGATGAACCTATCCTAAATGCCCACCTTCG
1 TAAC-CCTAAAAGACTCAAAAAG-ATTATAGAAAGGG-TGAACCTATCCTAAATACCCACCTTAG
* *
1850158 GCATAAAAGCAGACTCAGTGACAACCTAGGAGTCGATT
63 ACATAAAAGCAGACTCAGTGACAACCTAGGACTCGATT
1850196 TTGAAAATCA
Statistics
Matches: 480, Mismatches: 70, Indels: 37
0.82 0.12 0.06
Matches are distributed among these distances:
466 6 0.01
467 34 0.07
468 317 0.66
469 108 0.22
470 7 0.01
471 8 0.02
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (468 bp):
TAACCCTAAAAGACTCAAAAAGATTATAGAAAGGGTGAACCTATCCTAAATACCCACCTTAGACA
TAAAAGCAGACTCAGTGACAACCTAGGACTCGATTCTAAAAAATTATGAAAAAGCCCTAATAGGT
ATACCATTGACATAAAAGTATCCAGATAACCCTAAAGGACTTAAAAAGGTTATAGCTGGGGTGAA
CCTATCCTAAATACTCACCTTCAGCTTAAAAGCGGACCTAGTGACAACCTAAGACTCGGATTCAT
AAAAATTACAAAAATGCCCTATGGGTATACCTTCGACATGAAAGTATCCTGATAACCCTAAAGGA
CACCAAAAGATAATAGATAGGACGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACTC
AATGACAACCTAGGACTCAGATTCATAAAAATTAAAAAAAACCCTTAAGGGTATAACTTTGACAG
TAAAGTAGCCCGA
Found at i:1850633 original size:17 final size:17
Alignment explanation
Indices: 1850611--1850647 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1850601 TAAAATAATA
1850611 TTTA-TTTATTATTTTAT
1 TTTATTTTATT-TTTTAT
1850628 TTTATTTTATTTTTTAT
1 TTTATTTTATTTTTTAT
1850645 TTT
1 TTT
1850648 TGAAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTATTTTATTTTTTAT
Found at i:1851372 original size:15 final size:16
Alignment explanation
Indices: 1851347--1851379 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
1851337 TTGTCTTAAT
1851347 TTTTCTTTTTTCTCAC
1 TTTTCTTTTTTCTCAC
1851363 TTTT-TTTTTTCTCAC
1 TTTTCTTTTTTCTCAC
1851378 TT
1 TT
1851380 GCCAAAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTCTTTTTTCTCAC
Found at i:1852300 original size:168 final size:163
Alignment explanation
Indices: 1852017--1852561 Score: 561
Period size: 160 Copynumber: 3.3 Consensus size: 163
1852007 CATAAATAGG
* *
1852017 GAAATTTCAAGGAAAAAATAAAAAACTCATGAACATAAATGAATTTTTTAAAAATAATAATATGA
1 GAAATTTCAAGGAAAAAAT-AAAAACTCATGAAAATAAATGAATTTTTCAAAAATAATAATATGA
* * *
1852082 ATTAAATAGTGATATTTGATGATTTTTAAAAATTAAAAACCAAAAAAAATCTCCCCAACAACATT
65 ATTAAATAGTGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATC-CCCCAAAAACATT
* * *
1852147 TATGAAGTAGAAAACTCCGCATTTTGAAAATAAAA
129 TACGAAGTAAAAAACTCCGCATTTTGAAAACAAAA
*
1852182 GAAATTTCAAGGAAAAAAATCAAAAACTCATGAAAATAAATGAATTTTTCAAAAACAATACAATA
1 GAAATTTCAAGG-AAAAAAT-AAAAACTCATGAAAATAAATGAATTTTTCAAAAATAAT--AATA
** *
1852247 TGAATTAAATAGTGATATTTGATGAATTTTAAAAATTAAAAACTGAGAAAAATCCCTTCAAAAAC
62 TGAATTAAATAGTGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCC-CCAAAAAC
* * *
1852312 ATTTACGGAGTAAAAAACTCCGTATTTTGAAAACAGAA
126 ATTTACGAAGTAAAAAACTCCGCATTTTGAAAACAAAA
* * * * *
1852350 G-AATTTCAAGG----AA-AAAAACTCATGAAAATGAATGAATTTTTGAAAATTGATTTAATAAG
1 GAAATTTCAAGGAAAAAATAAAAACTCATGAAAATAAATGAATTTTTCAAAAAT-A-ATAATATG
* * * * *
1852409 AATTAAGTAATAATATTTGATGAATTTTAAAAATTTAAAACCAAGAAAAATCCCCCCAAAAA-AA
64 AATTAAATAGTGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAAT-CCCCCAAAAACAT
* ** * ** **
1852473 TTACGGAG-AAGAAATTTTCATATTTTGAAAACAAGG
128 TTACGAAGTAA-AAAACTCCGCATTTTGAAAACAAAA
* * * *
1852509 GAAATTTCAA--AAGAAAATCGATAACTCATGAAAATAATAGGAATTTTTTAAAA
1 GAAATTTCAAGGAA-AAAAT-AAAAACTCATGAAAATAA-ATGAATTTTTCAAAA
1852562 CTGATTTGAT
Statistics
Matches: 321, Mismatches: 42, Indels: 33
0.81 0.11 0.08
Matches are distributed among these distances:
158 2 0.01
159 28 0.09
160 95 0.30
161 4 0.01
162 3 0.01
163 2 0.01
165 27 0.08
166 55 0.17
167 12 0.04
168 93 0.29
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.28
Consensus pattern (163 bp):
GAAATTTCAAGGAAAAAATAAAAACTCATGAAAATAAATGAATTTTTCAAAAATAATAATATGAA
TTAAATAGTGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCAAAAACATTTA
CGAAGTAAAAAACTCCGCATTTTGAAAACAAAA
Found at i:1853781 original size:20 final size:20
Alignment explanation
Indices: 1853733--1853806 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 20
1853723 TTTTACAATT
* * *
1853733 TGTATCGATATAAACAGTAAA
1 TGTATCGATACATA-AGTGAA
*
1853754 TATATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
***
1853774 TGTATCGATACATGCTTGAAA
1 TGTATCGATACATAAGTG-AA
1853795 TGTATCGATACA
1 TGTATCGATACA
1853807 AAACCACTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 19 0.43
21 25 0.57
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:1853906 original size:20 final size:22
Alignment explanation
Indices: 1853854--1853909 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
1853844 CATAAGTGAA
*
1853854 TGTATCGATACATTGCTTAAAT
1 TGTATCGATACATTGATTAAAT
* * *
1853876 TATATCAATACATT-ATT-CAT
1 TGTATCGATACATTGATTAAAT
1853896 TGTATCGATACATT
1 TGTATCGATACATT
1853910 CTGGGTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 14 0.50
21 2 0.07
22 12 0.43
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (22 bp):
TGTATCGATACATTGATTAAAT
Found at i:1856313 original size:27 final size:27
Alignment explanation
Indices: 1856275--1856326 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
1856265 TTTGATTGTC
1856275 GGGGATACTCCAACCCCGCTTTTCTGA
1 GGGGATACTCCAACCCCGCTTTTCTGA
*
1856302 GGGGATACTCCAACCTCGCTTTTCT
1 GGGGATACTCCAACCCCGCTTTTCT
1856327 TCAAGATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.21, T:0.29
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGCTTTTCTGA
Found at i:1857183 original size:20 final size:20
Alignment explanation
Indices: 1857158--1857211 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1857148 GTTAGAAGCA
* *
1857158 ATGTATCGATATAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1857178 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
1857198 ATGTATCGATACAA
1 ATGTATCGATACAA
1857212 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1865301 original size:20 final size:20
Alignment explanation
Indices: 1865276--1865329 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1865266 GTTAGAAGCA
*
1865276 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1865296 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
*
1865316 ATGTATTGATACAA
1 ATGTATCGATACAA
1865330 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1865402 original size:19 final size:19
Alignment explanation
Indices: 1865358--1865430 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1865348 CTGCCAGTTT
**
1865358 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1865378 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1865397 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
1865418 -ATGTATCGATACA
1 CATGTATCGATACA
1865431 TCTGGGTGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 18 0.38
20 29 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1868338 original size:74 final size:72
Alignment explanation
Indices: 1868244--1868822 Score: 613
Period size: 74 Copynumber: 8.0 Consensus size: 72
1868234 AGTATCTAAA
* *
1868244 ATCATTTATCTCTTTCAGTCCTCAAAGAGT-AGAATAGCTTTTCATTTTCTTCAAAGCACACACA
1 ATCATTTATCTTTTTCAGTCCTCAAAGAGTAAG-AT-GCTTTTC-TTTTCTTCAAAGCCCACACA
1868308 AGCTAGTGGC
63 AGCTAGTGGC
* * *
1868318 ATCATTTTTCTTTTTTAGTCCTCAAAGAGT-AGAATGC-CTT-TTTT-TT-AAAGCCCACACAAG
1 ATCATTTATCTTTTTCAGTCCTCAAAGAGTAAG-ATGCTTTTCTTTTCTTCAAAGCCCACACAAG
*
1868378 CTGGTGGC
65 CTAGTGGC
* * * *
1868386 ATCATTTATCTTTTTTAGTCCTCAAAGAGCAAGACGCTTTTTCTTTTTCTTCAAAGCCCATACAA
1 ATCATTTATCTTTTTCAGTCCTCAAAGAGTAAGATGC-TTTTC-TTTTCTTCAAAGCCCACACAA
1868451 GCTAGTGGC
64 GCTAGTGGC
* * * *
1868460 ATCATTTATCTTTTTTAGTCCTTAAAGAGTAAGATGCCTTTTCTTTTTTTCCAAGCCCACACAAG
1 ATCATTTATCTTTTTCAGTCCTCAAAGAGTAAGATG-CTTTTCTTTTCTTCAAAGCCCACACAAG
*
1868525 CTGGTGGC
65 CTAGTGGC
* * * * ** * *
1868533 ATCGTTTATCTTTTTCAATTCTCAAAGAGAAAGACAC-CTT-TTTTCTTCGAAGCCCACACAAGC
1 ATCATTTATCTTTTTCAGTCCTCAAAGAGTAAGATGCTTTTCTTTTCTTCAAAGCCCACACAAGC
*
1868596 TGGTGGC
66 TAGTGGC
* * * ** *
1868603 ATCGTTTATTTTTTTCAATCCTCAAAGAGTAAGACACATTTTCTTTT-TTAAAAGCCCACACAAG
1 ATCATTTATCTTTTTCAGTCCTCAAAGAGTAAGATGC-TTTTCTTTTCTTCAAAGCCCACACAAG
*
1868667 CTAATGGC
65 CTAGTGGC
* * * *
1868675 ATTATTTATCTTTTTTAGTCTTCAAAGAGTAGGATGCCTTTTCTTTTTCTTCAAAGCCCACACAA
1 ATCATTTATCTTTTTCAGTCCTCAAAGAGTAAGATG-CTTTTC-TTTTCTTCAAAGCCCACACAA
* *
1868740 GTTGGTGGC
64 GCTAGTGGC
* * * *
1868749 ATCATTTACCTTTTTCAATCTTCAAAGAGTAAGACGTCTTTTCTTTTC--CAAAGCCCACACAAG
1 ATCATTTATCTTTTTCAGTCCTCAAAGAGTAAGATG-CTTTTCTTTTCTTCAAAGCCCACACAAG
1868812 CTAGTGGC
65 CTAGTGGC
1868820 ATC
1 ATC
1868823 TACCTACCTC
Statistics
Matches: 431, Mismatches: 60, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
68 51 0.12
69 4 0.01
70 68 0.16
71 26 0.06
72 62 0.14
73 72 0.17
74 147 0.34
75 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (72 bp):
ATCATTTATCTTTTTCAGTCCTCAAAGAGTAAGATGCTTTTCTTTTCTTCAAAGCCCACACAAGC
TAGTGGC
Found at i:1868434 original size:142 final size:141
Alignment explanation
Indices: 1868244--1868822 Score: 601
Period size: 142 Copynumber: 4.0 Consensus size: 141
1868234 AGTATCTAAA
* * * * *
1868244 ATCATTTATCTCTTTCAGTCCTCAAAGAGTAGAATAGCTTTTCATTTTCTTCAAAGCACACACAA
1 ATCATTTATCTTTTTCAGTCCTCAAAGAGAAG-A-CGCTTTTCTTTTTCTTCAAAGCCCACACAA
* * * *
1868309 GCTAGTGGCATCATTTTTCTTTTTTAGTCCTCAAAGAGT-AGAATGCCTTTTTTTT-AAAGCCCA
64 GCTAGTGGCATCATTTATCTTTTTCAATCCTCAAAGAGTAAG-ACGCCTTTTTTTTCAAAGCCCA
*
1868372 CACAAGCTGGTGGC
128 CACAAGCTAGTGGC
* *
1868386 ATCATTTATCTTTTTTAGTCCTCAAAGAGCAAGACGCTTTTTCTTTTTCTTCAAAGCCCATACAA
1 ATCATTTATCTTTTTCAGTCCTCAAAGAG-AAGACGC-TTTTCTTTTTCTTCAAAGCCCACACAA
* * * * *
1868451 GCTAGTGGCATCATTTATCTTTTTTAGTCCTTAAAGAGTAAGATGCCTTTTCTTTTTTTCCAAGC
64 GCTAGTGGCATCATTTATCTTTTTCAATCCTCAAAGAGTAAGACGCC---T-TTTTTTTCAAAGC
*
1868516 CCACACAAGCTGGTGGC
125 CCACACAAGCTAGTGGC
* * * * * *
1868533 ATCGTTTATCTTTTTCAATTCTCAAAGAGAAAGACAC--CT-TTTTTCTTCGAAGCCCACACAAG
1 ATCATTTATCTTTTTCAGTCCTCAAAGAG-AAGACGCTTTTCTTTTTCTTCAAAGCCCACACAAG
* * * * * *
1868595 CTGGTGGCATCGTTTATTTTTTTCAATCCTCAAAGAGTAAGACACATTTTCTTTTTTAAAAGCCC
65 CTAGTGGCATCATTTATCTTTTTCAATCCTCAAAGAGTAAGACGC--CTT-TTTTTTCAAAGCCC
*
1868660 ACACAAGCTAATGGC
127 ACACAAGCTAGTGGC
* * * * *
1868675 ATTATTTATCTTTTTTAGTCTTCAAAGAGTAGGATGCCTTTTCTTTTTCTTCAAAGCCCACACAA
1 ATCATTTATCTTTTTCAGTCCTCAAAGAG-AAGACG-CTTTTCTTTTTCTTCAAAGCCCACACAA
* * * * *
1868740 GTTGGTGGCATCATTTACCTTTTTCAATCTTCAAAGAGTAAGACGTCTTTTCTTTTCCAAAGCCC
64 GCTAGTGGCATCATTTATCTTTTTCAATCCTCAAAGAGTAAGACGCCTTTT-TTTT-CAAAGCCC
1868805 ACACAAGCTAGTGGC
127 ACACAAGCTAGTGGC
1868820 ATC
1 ATC
1868823 TACCTACCTC
Statistics
Matches: 365, Mismatches: 55, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
141 3 0.01
142 146 0.40
143 65 0.18
144 7 0.02
145 25 0.07
146 67 0.18
147 52 0.14
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (141 bp):
ATCATTTATCTTTTTCAGTCCTCAAAGAGAAGACGCTTTTCTTTTTCTTCAAAGCCCACACAAGC
TAGTGGCATCATTTATCTTTTTCAATCCTCAAAGAGTAAGACGCCTTTTTTTTCAAAGCCCACAC
AAGCTAGTGGC
Found at i:1868778 original size:289 final size:283
Alignment explanation
Indices: 1868288--1868822 Score: 725
Period size: 289 Copynumber: 1.9 Consensus size: 283
1868278 TAGCTTTTCA
* * *
1868288 TTTTCTTCAAAGCACACACAAGCTAGTGGCATCATTTTTCTTTTTTAGTCCTCAAAGAGTAGAAT
1 TTTTCTTCAAAGCACACACAAGCTAGTGGCATCATTTTTCTTTTTCAATCCTCAAAGAGTAGAAC
* **
1868353 GCCTTTTTTTTAAAGCCCACACAAGCTGGTGGCATCATTTATCTTTTTTAGTCCTCAAAGAGCAA
66 ACCTTTTTTTTAAAGCCCACACAAGCTAATGGCATCATTTATCTTTTTTAGTCCTCAAAGAGCAA
* * * * *
1868418 GACGCTTTTTCTTTTTCTTCAAAGCCCATACAAGCTAGTGGCATCATTTATCTTTTTTAGTCCTT
131 GACGCCTTTTCTTTTTCTTCAAAGCCCACACAAGCTAGTGGCATCATTTACCTTTTTCAATCCTT
* *
1868483 AAAGAGTAAGATGCCTTTTCTTTTTTTCC-AAGCCCACACAAGCTGGTGGCATCGTTTATCTTTT
196 AAAGAGTAAGACGCCTTTTC---TTTTCCAAAGCCCACACAAGCTAGTGGCATCGTTTATCTTTT
1868547 TCAATTCTCAAAGAGAAAGACACCTT
258 TCAATTCTCAAAGAGAAAGACACCTT
* * * *
1868573 TTTTCTTCGAAGCCCACACAAGCTGGTGGCATCGTTTATT-TTTTTCAATCCTCAAAGAGTAAGA
1 TTTTCTTCAAAGCACACACAAGCTAGTGGCATCATTT-TTCTTTTTCAATCCTCAAAGAGT-AGA
** * *
1868637 CACATTTTCTTTTTTAAAAGCCCACACAAGCTAATGGCATTATTTATCTTTTTTAGTCTTCAAAG
64 -ACACCTT-TTTTTT-AAAGCCCACACAAGCTAATGGCATCATTTATCTTTTTTAGTCCTCAAAG
* * * * *
1868702 AGTAGGATGCCTTTTCTTTTTCTTCAAAGCCCACACAAGTTGGTGGCATCATTTACCTTTTTCAA
126 AGCAAGACGCCTTTTCTTTTTCTTCAAAGCCCACACAAGCTAGTGGCATCATTTACCTTTTTCAA
*
1868767 T-CTTCAAAGAGTAAGACGTCTTTTCTTTTCCAAAGCCCACACAAGCTAGTGGCATC
191 TCCTT-AAAGAGTAAGACGCCTTTTCTTTTCCAAAGCCCACACAAGCTAGTGGCATC
1868823 TACCTACCTC
Statistics
Matches: 216, Mismatches: 27, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
285 51 0.24
286 11 0.05
287 26 0.12
288 9 0.04
289 119 0.55
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (283 bp):
TTTTCTTCAAAGCACACACAAGCTAGTGGCATCATTTTTCTTTTTCAATCCTCAAAGAGTAGAAC
ACCTTTTTTTTAAAGCCCACACAAGCTAATGGCATCATTTATCTTTTTTAGTCCTCAAAGAGCAA
GACGCCTTTTCTTTTTCTTCAAAGCCCACACAAGCTAGTGGCATCATTTACCTTTTTCAATCCTT
AAAGAGTAAGACGCCTTTTCTTTTCCAAAGCCCACACAAGCTAGTGGCATCGTTTATCTTTTTCA
ATTCTCAAAGAGAAAGACACCTT
Found at i:1873837 original size:82 final size:82
Alignment explanation
Indices: 1873700--1873864 Score: 294
Period size: 82 Copynumber: 2.0 Consensus size: 82
1873690 TAATGGGTAG
*
1873700 TAATCACTTAAATGTCTATGTAAACATTCCCATGTGCTAGTCATGTAAATAGTTCTTATTAGACT
1 TAATCACTTAAATGTCTATGGAAACATTCCCATGTGCTAGTCATGTAAATAGTTCTTATTAGACT
1873765 TGTGATACTAGGTCACC
66 TGTGATACTAGGTCACC
* **
1873782 TAATCACTTAAGTGTCTATGGAAACATTTTCATGTGCTAGTCATGTAAATAGTTCTTATTAGACT
1 TAATCACTTAAATGTCTATGGAAACATTCCCATGTGCTAGTCATGTAAATAGTTCTTATTAGACT
1873847 TGTGATACTAGGTCACC
66 TGTGATACTAGGTCACC
1873864 T
1 T
1873865 TTTAGAGGGA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (82 bp):
TAATCACTTAAATGTCTATGGAAACATTCCCATGTGCTAGTCATGTAAATAGTTCTTATTAGACT
TGTGATACTAGGTCACC
Found at i:1877218 original size:30 final size:30
Alignment explanation
Indices: 1877184--1877243 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
1877174 TTTTTATCTG
*
1877184 TTTTATTATTTTTATTTATTTATTTTGATA
1 TTTTATTATTTCTATTTATTTATTTTGATA
1877214 TTTTATTATTTCTATTTATTTATTTTGATA
1 TTTTATTATTTCTATTTATTTATTTTGATA
1877244 ATTATTACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (30 bp):
TTTTATTATTTCTATTTATTTATTTTGATA
Found at i:1883263 original size:19 final size:18
Alignment explanation
Indices: 1883239--1883288 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
1883229 ACACTATATC
**
1883239 GATACATGATCTTGGTATT
1 GATACATGAAATT-GTATT
1883258 GATACATAGCAAATTGTATT
1 GATACAT-G-AAATTGTATT
1883278 GATACATGAAA
1 GATACATGAAA
1883289 CTGGCAGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 3 0.11
19 8 0.30
20 13 0.48
21 3 0.11
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (18 bp):
GATACATGAAATTGTATT
Done.