Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 280 of 344
Found at i:94025237 original size:12 final size:12
Alignment explanation
Indices: 94025217--94025278 Score: 78
Period size: 12 Copynumber: 5.5 Consensus size: 12
94025207 CATCCAAAAT
94025217 AAAAA-AAATAA
1 AAAAATAAATAA
*
94025228 AAAAATAAATAG
1 AAAAATAAATAA
*
94025240 TAAAATAAATAA
1 AAAAATAAATAA
94025252 AAAAAT--A-AA
1 AAAAATAAATAA
94025261 AAAAATAAATAA
1 AAAAATAAATAA
94025273 AAAAAT
1 AAAAAT
94025279 TGAGTTGCCT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.19
10 1 0.02
11 6 0.14
12 28 0.65
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (12 bp):
AAAAATAAATAA
Found at i:94025246 original size:20 final size:20
Alignment explanation
Indices: 94025221--94025278 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
94025211 CAAAATAAAA
94025221 AAAATAAA-AAAATAAATAGT
1 AAAATAAATAAAA-AAATAGT
**
94025241 AAAATAAATAAAAAAATAAAA
1 AAAATAAATAAAAAAAT-AGT
94025262 AAAATAAATAAAAAAAT
1 AAAATAAATAAAAAAAT
94025279 TGAGTTGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 12 0.35
21 22 0.65
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (20 bp):
AAAATAAATAAAAAAATAGT
Found at i:94025278 original size:8 final size:8
Alignment explanation
Indices: 94025212--94025274 Score: 65
Period size: 9 Copynumber: 7.5 Consensus size: 8
94025202 ATCAACATCC
94025212 AAAATAAAA
1 AAAAT-AAA
94025221 AAAATAAA
1 AAAATAAA
94025229 AAAAT-AA
1 AAAATAAA
* *
94025236 ATAGTAAA
1 AAAATAAA
94025244 ATAAATAAA
1 A-AAATAAA
94025253 AAAATAAAA
1 AAAAT-AAA
94025262 AAAATAAA
1 AAAATAAA
94025270 TAAAA
1 -AAAA
94025275 AAATTGAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
7 5 0.11
8 18 0.39
9 23 0.50
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.16
Consensus pattern (8 bp):
AAAATAAA
Found at i:94025278 original size:33 final size:33
Alignment explanation
Indices: 94025213--94025278 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
94025203 TCAACATCCA
**
94025213 AAATAAAAAAAATAAAAAAATAAATAGTAAAAT
1 AAATAAAAAAAATAAAAAAATAAATAAAAAAAT
94025246 AAAT-AAAAAAATAAAAAAAATAAATAAAAAAAT
1 AAATAAAAAAAAT-AAAAAAATAAATAAAAAAAT
94025279 TGAGTTGCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 8 0.27
33 22 0.73
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.17
Consensus pattern (33 bp):
AAATAAAAAAAATAAAAAAATAAATAAAAAAAT
Found at i:94028149 original size:17 final size:18
Alignment explanation
Indices: 94028127--94028160 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
94028117 ATTTGAATTG
94028127 AAATTGC-AAAATTAAAT
1 AAATTGCGAAAATTAAAT
94028144 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
94028161 ATGAAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:94028910 original size:10 final size:10
Alignment explanation
Indices: 94028883--94028942 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
94028873 TTAAATTCTA
94028883 AAAGATAAAT
1 AAAGATAAAT
94028893 ACAA-ATAAAT
1 A-AAGATAAAT
*
94028903 AAAGATAATT
1 AAAGATAAAT
*
94028913 AAAGACAAAT
1 AAAGATAAAT
94028923 AAAGATAAAT
1 AAAGATAAAT
94028933 GAAA-ATAAAT
1 -AAAGATAAAT
94028943 CCTAAATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:94029814 original size:123 final size:123
Alignment explanation
Indices: 94029590--94029840 Score: 412
Period size: 123 Copynumber: 2.0 Consensus size: 123
94029580 GTCGGGACTA
* ** * *
94029590 AAAATACGAACTCTAAATTGAATCTCTAGAGGAAAAGCCTATGGCCATGGTGCTCTTTCAAAGGG
1 AAAACACGAACTCTAAATTGAATCTCTAGAGGAAAAGCCTATGGCCATGGCACCCTGTCAAAGGG
* *
94029655 CACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAGGATGATGATAGG
66 AACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAAGATGATGATAGG
* * *
94029713 AAAACACGAACTCTAATTTGAATCTCTGGAGGAAAAGCCTATGGCTATGGCACCCTGTCAAAGGG
1 AAAACACGAACTCTAAATTGAATCTCTAGAGGAAAAGCCTATGGCCATGGCACCCTGTCAAAGGG
94029778 AACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAAGATGATGATAGG
66 AACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAAGATGATGATAGG
94029836 AAAAC
1 AAAAC
94029841 CTCACACAAT
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 118 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (123 bp):
AAAACACGAACTCTAAATTGAATCTCTAGAGGAAAAGCCTATGGCCATGGCACCCTGTCAAAGGG
AACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAAGATGATGATAGG
Found at i:94034456 original size:30 final size:30
Alignment explanation
Indices: 94034420--94034501 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 30
94034410 TAGGCATTCT
*
94034420 CACACGGGCTGAG-CACACGCCCGTATGAGC
1 CACACGGGCTG-GCCACACGCCCGTATGAGA
* *
94034450 CACACGGGCTGGCCACACGTCCGTGTGAGA
1 CACACGGGCTGGCCACACGCCCGTATGAGA
94034480 CACACGGGCTGGCCACACGCCC
1 CACACGGGCTGGCCACACGCCC
94034502 ATGTGCCAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
29 1 0.02
30 46 0.98
ACGTcount: A:0.21, C:0.39, G:0.30, T:0.10
Consensus pattern (30 bp):
CACACGGGCTGGCCACACGCCCGTATGAGA
Found at i:94038343 original size:110 final size:111
Alignment explanation
Indices: 94038157--94038369 Score: 340
Period size: 110 Copynumber: 1.9 Consensus size: 111
94038147 TATATATATA
* * *
94038157 AAAGGAAGGTCCAGGTTTACTCATAGATTTTTAAATTACATTAAATGAACAATTAATTATAACGA
1 AAAGGAAGCTCCAGCTTAACTCATAGATTTTTAAATTACATTAAATGAACAATTAATTATAACGA
*
94038222 TTTATTTAGAGAAATGGAAGAGTTTGAGATGGTACACCTATATCTT
66 TTTAATTAGAGAAATGGAAGAGTTTGAGATGGTACACCTATATCTT
* * *
94038268 AAAGGAAGCTCCAGCTTAACTCTTAGA-TTTTAAATTACATT-AATTATACAATTAATTATAGCG
1 AAAGGAAGCTCCAGCTTAACTCATAGATTTTTAAATTACATTAAATGA-ACAATTAATTATAACG
94038331 ATTTAATTAGAGAAATGGAAGAGTTTGAGATGGTACACC
65 ATTTAATTAGAGAAATGGAAGAGTTTGAGATGGTACACC
94038370 CATCTTAATT
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
109 4 0.04
110 67 0.71
111 23 0.24
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (111 bp):
AAAGGAAGCTCCAGCTTAACTCATAGATTTTTAAATTACATTAAATGAACAATTAATTATAACGA
TTTAATTAGAGAAATGGAAGAGTTTGAGATGGTACACCTATATCTT
Found at i:94042112 original size:14 final size:14
Alignment explanation
Indices: 94042093--94042137 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
94042083 AACTCATCTT
*
94042093 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
94042107 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
94042120 AATTTAATTTAATG
1 AGTTTAATTTAATG
94042134 AGTT
1 AGTT
94042138 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:94045006 original size:43 final size:43
Alignment explanation
Indices: 94044957--94045044 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
94044947 TGACGTTTAT
* *
94044957 TTAAAAAAACGCCACTAAAAGCCATGACTTTTAGCGGCGTTTG
1 TTAAAAAAACACCACTAAAAGCCATGACTTTTAGCAGCGTTTG
* * * *
94045000 TTAAAAAAGCACCACTAAAAGTCATGGCTTTTAGTAGCGTTTG
1 TTAAAAAAACACCACTAAAAGCCATGACTTTTAGCAGCGTTTG
94045043 TT
1 TT
94045045 GGGATGGCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (43 bp):
TTAAAAAAACACCACTAAAAGCCATGACTTTTAGCAGCGTTTG
Found at i:94045215 original size:31 final size:31
Alignment explanation
Indices: 94045180--94045262 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
94045170 CTTCCTGCAT
* *
94045180 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
94045211 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
94045242 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
94045263 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:94045507 original size:21 final size:21
Alignment explanation
Indices: 94045483--94045544 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
94045473 TTTTGCTCTA
94045483 CTCTG-CTGCCATCGCTGCTGC
1 CTCTGCCT-CCATCGCTGCTGC
* *
94045504 CTCTGCCTCCCTCGCTGCTGT
1 CTCTGCCTCCATCGCTGCTGC
* * *
94045525 CGCTACCTCCTTCGCTGCTG
1 CTCTGCCTCCATCGCTGCTG
94045545 TCGCTGCCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 33 0.94
22 2 0.06
ACGTcount: A:0.03, C:0.45, G:0.21, T:0.31
Consensus pattern (21 bp):
CTCTGCCTCCATCGCTGCTGC
Found at i:94045545 original size:21 final size:21
Alignment explanation
Indices: 94045494--94045549 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
94045484 TCTGCTGCCA
* * *
94045494 TCGCTGCTGCCTCTGCCTCCC
1 TCGCTGCTGTCGCTACCTCCC
*
94045515 TCGCTGCTGTCGCTACCTCCT
1 TCGCTGCTGTCGCTACCTCCC
94045536 TCGCTGCTGTCGCT
1 TCGCTGCTGTCGCT
94045550 GCCACTGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.02, C:0.45, G:0.21, T:0.32
Consensus pattern (21 bp):
TCGCTGCTGTCGCTACCTCCC
Found at i:94045560 original size:27 final size:27
Alignment explanation
Indices: 94045499--94045570 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 27
94045489 TGCCATCGCT
*
94045499 GCTGCCTCTGCCTCCCTCGCTGCTGTC
1 GCTGCCACTGCCTCCCTCGCTGCTGTC
*
94045526 GCT---A---CCTCCTTCGCTGCTGTC
1 GCTGCCACTGCCTCCCTCGCTGCTGTC
*
94045547 GCTGCCACTGCCTCCCTCTCTGCT
1 GCTGCCACTGCCTCCCTCGCTGCT
94045571 TCATCGGCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
21 19 0.54
24 1 0.03
27 15 0.43
ACGTcount: A:0.03, C:0.47, G:0.19, T:0.31
Consensus pattern (27 bp):
GCTGCCACTGCCTCCCTCGCTGCTGTC
Found at i:94049326 original size:12 final size:12
Alignment explanation
Indices: 94049311--94049335 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94049301 TCATCCTTTC
94049311 CATCAGATTCAT
1 CATCAGATTCAT
94049323 CATCAGATTCAT
1 CATCAGATTCAT
94049335 C
1 C
94049336 CCTCGATCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CATCAGATTCAT
Found at i:94051218 original size:9 final size:9
Alignment explanation
Indices: 94051204--94051455 Score: 228
Period size: 9 Copynumber: 28.4 Consensus size: 9
94051194 TATTTAAGTA
*
94051204 TTATGTAAG
1 TTATATAAG
*
94051213 TTATGTAAG
1 TTATATAAG
*
94051222 TTATGATATG
1 TTAT-ATAAG
* *
94051232 ATATAT-AT
1 TTATATAAG
*
94051240 TTATGTAAG
1 TTATATAAG
*
94051249 TTATAT-AT
1 TTATATAAG
*
94051257 TTATCTAAG
1 TTATATAAG
94051266 TTATATAAG
1 TTATATAAG
*
94051275 TTATGTAAG
1 TTATATAAG
*
94051284 TTATGTAAG
1 TTATATAAG
*
94051293 TTATAT-AT
1 TTATATAAG
94051301 TTATCA-AAG
1 TTAT-ATAAG
*
94051310 TTATATCAG
1 TTATATAAG
94051319 TTATATAAG
1 TTATATAAG
*
94051328 TTATGTAAG
1 TTATATAAG
94051337 TTATATAAG
1 TTATATAAG
94051346 TTATATAAG
1 TTATATAAG
*
94051355 TTATAT-AC
1 TTATATAAG
*
94051363 TTATCTAAG
1 TTATATAAG
94051372 TTATATAAG
1 TTATATAAG
*
94051381 TTATGTAAG
1 TTATATAAG
* *
94051390 TTATGTTAG
1 TTATATAAG
*
94051399 TTATAT-AT
1 TTATATAAG
*
94051407 TTATCTAAG
1 TTATATAAG
*
94051416 TTATCTAAG
1 TTATATAAG
94051425 TTATATAAG
1 TTATATAAG
*
94051434 TTATGTAAG
1 TTATATAAG
* *
94051443 TTTTGTAAG
1 TTATATAAG
94051452 TTAT
1 TTAT
94051456 GTTAAATATT
Statistics
Matches: 200, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
8 28 0.14
9 166 0.83
10 6 0.03
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATATAAG
Found at i:94051275 original size:53 final size:52
Alignment explanation
Indices: 94051204--94051455 Score: 281
Period size: 53 Copynumber: 4.8 Consensus size: 52
94051194 TATTTAAGTA
* * * * * * *
94051204 TTATGTAAGTTATGTAAGTTATGATATGATATAT-ATTTATGTAAGTTATATAT
1 TTATCTAAGTTATATAAGTTATG-TAAGTTATATAAGTTATAT-AGTTATATAG
* * *
94051257 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAG
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAGTTAT-ATAG
* * *
94051310 TTATATCAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAC
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATAT-AGTTATATAG
* * * *
94051363 TTATCTAAGTTATATAAGTTATGTAAGTTATGTTAGTTATATATTTATCTAAG
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAGTTATAT-AG
* *
94051416 TTATCTAAGTTATATAAGTTATGTAAGTTTTGTAAGTTAT
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTAT
94051456 GTTAAATATT
Statistics
Matches: 170, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
52 18 0.11
53 147 0.86
54 5 0.03
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (52 bp):
TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAGTTATATAG
Found at i:94051288 original size:44 final size:44
Alignment explanation
Indices: 94051204--94051444 Score: 254
Period size: 44 Copynumber: 5.5 Consensus size: 44
94051194 TATTTAAGTA
* * * * *
94051204 TTATGTAAGTTATGTAAGTTATGATA-TGATATATATTTATGTAAG
1 TTATATAAGTTATCTAAGTTAT-ATAGTTATCTA-AGTTATGTAAG
* *
94051249 TTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAG
1 TTATATAAGTTATCTAAGTTATAT-AGTTATCTAAGTTATGTAAG
* * *
94051293 TTATAT-ATTTATCAAAGTTATATCAGTTATATAAGTTATGTAAG
1 TTATATAAGTTATCTAAGTTATAT-AGTTATCTAAGTTATGTAAG
* * *
94051337 TTATATAAGTTATATAAGTTATATACTTATCTAAGTTATATAAG
1 TTATATAAGTTATCTAAGTTATATAGTTATCTAAGTTATGTAAG
* * * * *
94051381 TTATGTAAGTTATGTTAGTTATATATTTATCTAAGTTATCTAAG
1 TTATATAAGTTATCTAAGTTATATAGTTATCTAAGTTATGTAAG
*
94051425 TTATATAAGTTATGTAAGTT
1 TTATATAAGTTATCTAAGTT
94051445 TTGTAAGTTA
Statistics
Matches: 171, Mismatches: 22, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
43 2 0.01
44 145 0.85
45 24 0.14
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (44 bp):
TTATATAAGTTATCTAAGTTATATAGTTATCTAAGTTATGTAAG
Found at i:94051588 original size:15 final size:15
Alignment explanation
Indices: 94051568--94051652 Score: 90
Period size: 15 Copynumber: 5.8 Consensus size: 15
94051558 TAAGTTGCGG
94051568 ATTAAATAATATTTA
1 ATTAAATAATATTTA
94051583 ATTAAATAATATTT-
1 ATTAAATAATATTTA
94051597 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
94051612 ATTAAATAATATTGA
1 ATTAAATAATATTTA
*
94051627 A--AAATATTATTTTA
1 ATTAAATAATA-TTTA
94051641 ATTAAATAATAT
1 ATTAAATAATAT
94051653 ACATGTCATT
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
12 2 0.03
13 13 0.22
14 8 0.14
15 20 0.34
16 13 0.22
17 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:94051616 original size:29 final size:29
Alignment explanation
Indices: 94051571--94051652 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 29
94051561 GTTGCGGATT
* *
94051571 AAATAATA-TTTAATTAAATAATATTTATA
1 AAATATTATTTTAATTAAATAATATTGA-A
94051600 AAA-ATTATTTTAATTAAATAATATTGAA
1 AAATATTATTTTAATTAAATAATATTGAA
94051628 AAATATTATTTTAATTAAATAATAT
1 AAATATTATTTTAATTAAATAATAT
94051653 ACATGTCATT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 7 0.14
29 42 0.86
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (29 bp):
AAATATTATTTTAATTAAATAATATTGAA
Found at i:94051858 original size:24 final size:24
Alignment explanation
Indices: 94051826--94051896 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
94051816 TTAACTTAGA
94051826 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
94051850 TGATAAAACGGACAATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
94051874 TGATAAAACGGACGAGAATATTT
1 TGATAAAACGGACGATAATATTT
94051897 CAATAATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (24 bp):
TGATAAAACGGACGATAATATTTG
Found at i:94052015 original size:57 final size:57
Alignment explanation
Indices: 94051946--94052059 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
94051936 ATTTTATTAA
*
94051946 ATATTTATATATTAGATGGGACATATTATATTAATAAATAAATTTATTAAAAATCGT
1 ATATTTATATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGT
*
94052003 ATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGT
1 ATATTTATATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGT
94052060 GATAGAAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (57 bp):
ATATTTATATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGT
Found at i:94054269 original size:18 final size:18
Alignment explanation
Indices: 94054225--94054272 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
94054215 GCTATGGATT
*
94054225 TTGGGGAAATTTTAGGGA
1 TTGGGGAAATTTTAGGAA
*
94054243 TT-AGGAAATTTGT-GGAA
1 TTGGGGAAATTT-TAGGAA
94054260 TTGGGGAAATTTT
1 TTGGGGAAATTTT
94054273 GTTTTGGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (18 bp):
TTGGGGAAATTTTAGGAA
Found at i:94055966 original size:41 final size:41
Alignment explanation
Indices: 94055911--94056081 Score: 213
Period size: 41 Copynumber: 4.2 Consensus size: 41
94055901 GGCGTTTGGT
*
94055911 GGCGTTTGGACTAAAAACGCCGCTACTT-CTCAGTTTTTAGT
1 GGCGTTTGGACTAAAAACGCCGCTA-TTACTCAGTTTTTAGC
* *
94055952 GGCGTTTGGACTAAAAACGCCGCTATTTCTAAGTTTTTAGC
1 GGCGTTTGGACTAAAAACGCCGCTATTACTCAGTTTTTAGC
* * *
94055993 GGCGTTTGGACCAAAAATGCCGCTATTACTCA-ATTTTAGC
1 GGCGTTTGGACTAAAAACGCCGCTATTACTCAGTTTTTAGC
* *
94056033 GGCATTTGGAGC-AAAAACGCCACTATTACTCAGTTTTTTAGC
1 GGCGTTTGGA-CTAAAAACGCCGCTATTACTCAG-TTTTTAGC
*
94056075 AGCGTTT
1 GGCGTTT
94056082 TTGTGAAAAT
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
40 36 0.32
41 65 0.58
42 12 0.11
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (41 bp):
GGCGTTTGGACTAAAAACGCCGCTATTACTCAGTTTTTAGC
Found at i:94062062 original size:21 final size:20
Alignment explanation
Indices: 94062038--94062082 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
94062028 TATAACATAA
* * *
94062038 AACAAAATATATAAATAAAG
1 AACAAAAGATAGAAACAAAG
94062058 CAACAAAAGATAGAAACAAAG
1 -AACAAAAGATAGAAACAAAG
94062079 AACA
1 AACA
94062083 GAGGAAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.69, C:0.11, G:0.09, T:0.11
Consensus pattern (20 bp):
AACAAAAGATAGAAACAAAG
Found at i:94064987 original size:46 final size:46
Alignment explanation
Indices: 94064920--94065182 Score: 384
Period size: 46 Copynumber: 5.7 Consensus size: 46
94064910 TGGCAACTTG
94064920 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
94064966 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* * *
94065012 TGTGTAAGAACATGGTTGAAAGATACCATGGCAACGTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
94065058 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
94065104 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
94065150 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
94065183 TCACGTCAAA
Statistics
Matches: 201, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 200 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:94065112 original size:138 final size:130
Alignment explanation
Indices: 94064871--94065182 Score: 428
Period size: 138 Copynumber: 2.3 Consensus size: 130
94064861 AGTGTGCTCT
94064871 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGTGTGTAAGACCATGGT
* * **
94064936 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
94065001 CTGATATGAAATGTGTAAGAACATGGTTGAAAGATACCATGGCAACGTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC----T-T--G-TGTGTAAG
*
94065066 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
58 ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
94065131 ATGGCAAC
123 ATGGCAAC
* * * * * *
94065139 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
94065183 TCACGTCAAA
Statistics
Matches: 160, Mismatches: 13, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
130 45 0.28
134 1 0.01
135 1 0.01
137 2 0.01
138 111 0.69
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:94065488 original size:23 final size:25
Alignment explanation
Indices: 94065443--94065489 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
94065433 AATAAATATA
*
94065443 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
94065468 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
94065490 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:94068092 original size:9 final size:9
Alignment explanation
Indices: 94068074--94068109 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
94068064 CTAATACGTA
94068074 TATATATAT
1 TATATATAT
*
94068083 TATATGTAT
1 TATATATAT
94068092 TATATATAT
1 TATATATAT
*
94068101 TATGTATAT
1 TATATATAT
94068110 ATTTTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (9 bp):
TATATATAT
Found at i:94068126 original size:24 final size:23
Alignment explanation
Indices: 94068099--94068184 Score: 68
Period size: 23 Copynumber: 3.6 Consensus size: 23
94068089 TATTATATAT
94068099 ATTATGTATATATTTTTTAATACC
1 ATTATGTATATATTTTTT-ATACC
* *
94068123 ATTA-GTTATATATTTCTTATACT
1 ATTATG-TATATATTTTTTATACC
* * *
94068146 ATTCCATGTATGTATTTTATATCATC
1 ATT--ATGTATATATTTTTTAT-ACC
94068172 -TTATGTATATATT
1 ATTATGTATATATT
94068185 CTTAAATACT
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
23 18 0.37
24 15 0.31
25 14 0.29
26 2 0.04
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (23 bp):
ATTATGTATATATTTTTTATACC
Found at i:94068483 original size:19 final size:19
Alignment explanation
Indices: 94068403--94068487 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 19
94068393 TAATATTTTC
*
94068403 TTTTATTGTAGATATTATTA
1 TTTTA-TGTACATATTATTA
94068423 TTATTAT-TACATACTT-TTA
1 TT-TTATGTACATA-TTATTA
* * *
94068442 TTATATGCATATATATATGTA
1 TTTTATGTACATAT-TAT-TA
94068463 TTTTATGTACATATTATTA
1 TTTTATGTACATATTATTA
94068482 TTTTAT
1 TTTTAT
94068488 ATTATTATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
19 23 0.44
20 9 0.17
21 16 0.31
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.58
Consensus pattern (19 bp):
TTTTATGTACATATTATTA
Found at i:94086875 original size:11 final size:11
Alignment explanation
Indices: 94086859--94086883 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
94086849 TTCAGCTGAT
94086859 GAAAATGAAGA
1 GAAAATGAAGA
94086870 GAAAATGAAGA
1 GAAAATGAAGA
94086881 GAA
1 GAA
94086884 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:94089860 original size:12 final size:12
Alignment explanation
Indices: 94089843--94089868 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
94089833 ATAACAAAAC
94089843 ATAAATAAAAGA
1 ATAAATAAAAGA
94089855 ATAAATAAAAGA
1 ATAAATAAAAGA
94089867 AT
1 AT
94089869 TTAGGTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (12 bp):
ATAAATAAAAGA
Found at i:94092814 original size:13 final size:14
Alignment explanation
Indices: 94092796--94092825 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
94092786 TACTTTTAAA
94092796 TTTTTAGTTTTT-T
1 TTTTTAGTTTTTAT
94092809 TTTTTAGTTTTTAT
1 TTTTTAGTTTTTAT
94092823 TTT
1 TTT
94092826 AGCTTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (14 bp):
TTTTTAGTTTTTAT
Found at i:94100421 original size:31 final size:31
Alignment explanation
Indices: 94100386--94100447 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
94100376 TCTGGTGCAC
94100386 TTTATCGTGTTCAATTTTGGAATTTTTACTT
1 TTTATCGTGTTCAATTTTGGAATTTTTACTT
94100417 TTTATCGTGTTCAATTTTGGAATTTTTACTT
1 TTTATCGTGTTCAATTTTGGAATTTTTACTT
94100448 ACTTCCTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.10, G:0.13, T:0.58
Consensus pattern (31 bp):
TTTATCGTGTTCAATTTTGGAATTTTTACTT
Found at i:94109228 original size:14 final size:14
Alignment explanation
Indices: 94109209--94109238 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
94109199 AGAATTTTAA
94109209 AATTAAAAAAATAT
1 AATTAAAAAAATAT
94109223 AATTAAAAAAATAT
1 AATTAAAAAAATAT
94109237 AA
1 AA
94109239 AGATTAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATTAAAAAAATAT
Found at i:94111996 original size:15 final size:15
Alignment explanation
Indices: 94111969--94112007 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
94111959 GAAAAAATAT
*
94111969 TAATAAGAATAATTA
1 TAATAAAAATAATTA
* *
94111984 TAGTAAAAATAATTT
1 TAATAAAAATAATTA
94111999 TAATAAAAA
1 TAATAAAAA
94112008 GAATAATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (15 bp):
TAATAAAAATAATTA
Found at i:94113580 original size:44 final size:43
Alignment explanation
Indices: 94113531--94113954 Score: 194
Period size: 44 Copynumber: 9.6 Consensus size: 43
94113521 CAATTATTAG
94113531 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTGAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTGAA
* * * * * ** *
94113575 CCTGCTCCACTACAACTTTAGGGAGACAAGGTTGGTGGCTTAAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTATCTTGAA
* * * * * **
94113619 TCTGCTCCATTGCCGA-TACATGGAGATAAAATTCGTCATCTTCTA
1 TCTGCTCCACTG-CAACTTCAGGGAGATAAGATT-GT-ATCTTGAA
* ** ** * * *
94113664 TCTGCTCCACTACTGCTT-AGGGAGATAAGATATACAATTTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-GTATCTTGAA
* * *
94113708 TTTGCTCCACTACAACTTCAAGGAGATAAGACTTGTATCTTGAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTGAA
* * * * ** *
94113752 CCTGCTCCACTGCAACTTTAGGGAGACAAGGTTGGTGGCTTAAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTATCTTGAA
* * * * * *
94113796 TCTGCTCCATTGCTGA-TACATGAAGATAAGATT-CACCGTCTTCG-A
1 TCTGCTCCACTGC-AACTTCAGGGAGATAAGATTGTA---TCTT-GAA
* **** * * * *
94113841 TCTACTCCACTATTGCTT-AGGGAGATAAGATATGCAATTTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-TATCTTGAA
* *
94113885 TCTGCTCCACTGCAATTTCAAGGAGATAAGACTTGTATCTTGAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTGAA
*
94113929 CCTGCTCCACTGCAACTTCAGGGAGA
1 TCTGCTCCACTGCAACTTCAGGGAGA
94113955 CAAGGCTGAT
Statistics
Matches: 264, Mismatches: 96, Indels: 40
0.66 0.24 0.10
Matches are distributed among these distances:
43 4 0.02
44 198 0.75
45 59 0.22
46 2 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTGAA
Found at i:94113699 original size:177 final size:177
Alignment explanation
Indices: 94113400--94114058 Score: 978
Period size: 177 Copynumber: 3.7 Consensus size: 177
94113390 ATCTTCATTT
* * * * * * * *
94113400 TGCTCCATTGCAACTTCAGGGAAATAAGACTT-GTGGCTTAAATCTGTTTCATTGCCGCTACATG
1 TGCTCCACTGCAACTTTAGGGAGACAAG-GTTGGTGGCTTAAATCTGCTCCATTGCCGATACATG
* * * * *
94113464 GAGATAAGATTCGCCGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAAATATACAATTATT
65 AAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATATACAATTTTT
*
94113529 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTGAACC
130 AGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTATCTTGAACC
* *
94113577 TGCTCCACTACAACTTTAGGGAGACAAGGTTGGTGGCTTAAATCTGCTCCATTGCCGATACATGG
1 TGCTCCACTGCAACTTTAGGGAGACAAGGTTGGTGGCTTAAATCTGCTCCATTGCCGATACATGA
* ** * * *
94113642 AGATAAAATTCGTCATCTTCTATCTGCTCCACTACTGCTTAGGGAGATAAGATATACAATTTTTA
66 AGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATATACAATTTTTA
* *
94113707 GTTTGCTCCACTACAACTTCAAGGAGATAAGACTTGTATCTTGAACC
131 GTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTATCTTGAACC
*
94113754 TGCTCCACTGCAACTTTAGGGAGACAAGGTTGGTGGCTTAAATCTGCTCCATTGCTGATACATGA
1 TGCTCCACTGCAACTTTAGGGAGACAAGGTTGGTGGCTTAAATCTGCTCCATTGCCGATACATGA
* *
94113819 AGATAAGATTCACCGTCTTCGATCTACTCCACTATTGCTTAGGGAGATAAGATATGCAATTTTTA
66 AGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATATACAATTTTTA
*
94113884 GTCTGCTCCACTGCAATTTCAAGGAGATAAGACTTGTATCTTGAACC
131 GTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTATCTTGAACC
* * * *
94113931 TGCTCCACTGCAACTTCAGGGAGACAAGGCTGATGGCTTAAATCTGCTCCATTACCGATACATGA
1 TGCTCCACTGCAACTTTAGGGAGACAAGGTTGGTGGCTTAAATCTGCTCCATTGCCGATACATGA
* * * *
94113996 AGATAAGATTCACCGTTTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATTTT
66 AGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATATACAATTTT
94114059 CTTCAATCCA
Statistics
Matches: 436, Mismatches: 45, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
176 2 0.00
177 434 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (177 bp):
TGCTCCACTGCAACTTTAGGGAGACAAGGTTGGTGGCTTAAATCTGCTCCATTGCCGATACATGA
AGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATATACAATTTTTA
GTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTATCTTGAACC
Found at i:94113978 original size:44 final size:44
Alignment explanation
Indices: 94113885--94113981 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
94113875 CAATTTTTAG
* * *
94113885 TCTGCTCCACTGCAATTTCAAGGAGATAAGACTTGTATCTTGAA
1 TCTGCTCCACTGCAACTTCAAGGAGACAAGACTTGTATCTTAAA
* * *
94113929 CCTGCTCCACTGCAACTTCAGGGAGACAAGGC-TG-ATGGCTTAAA
1 TCTGCTCCACTGCAACTTCAAGGAGACAAGACTTGTAT--CTTAAA
94113973 TCTGCTCCA
1 TCTGCTCCA
94113982 TTACCGATAC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 2 0.05
43 2 0.05
44 40 0.91
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAAGGAGACAAGACTTGTATCTTAAA
Found at i:94114040 original size:88 final size:87
Alignment explanation
Indices: 94113768--94114042 Score: 188
Period size: 88 Copynumber: 3.1 Consensus size: 87
94113758 CCACTGCAAC
* * *
94113768 TTTAGGGAGACAAGGTTGGTGGCTTAAATCTGCTCCATTGCTGATACATGAAGATAAGATTCACC
1 TTTAGGGAGACAAGGATGATGGCTTAAATCTGCTCCATT-CCGATACATGAAGATAAGATTCACC
* * *
94113833 GTCTTCGATCTACTCCACTATTG
65 GTTTTCGATCTGCTCCACTACTG
* * * * * * * * * *
94113856 CTTAGGGAGATAA-GAT-AT-GCAATTTTTAGTCTGCTCCACTGCAATTTCAAGGAGATAAGACT
1 TTTAGGGAGACAAGGATGATGGC----TTAAATCTGCTCCATTCCGA-TACATGAAGATAAGA-T
* * **
94113918 T----GTATCTT-GAACCTGCTCCACTGCAAC
60 TCACCGT-T-TTCG-ATCTGCTCCACTAC-TG
* *
94113945 TTCAGGGAGACAAGGCTGATGGCTTAAATCTGCTCCATTACCGATACATGAAGATAAGATTCACC
1 TTTAGGGAGACAAGGATGATGGCTTAAATCTGCTCCATT-CCGATACATGAAGATAAGATTCACC
94114010 GTTTTCGATCTGCTCCACTACTG
65 GTTTTCGATCTGCTCCACTACTG
94114033 TTTAGGGAGA
1 TTTAGGGAGA
94114043 TAAGATCTAC
Statistics
Matches: 131, Mismatches: 37, Indels: 38
0.64 0.18 0.18
Matches are distributed among these distances:
85 2 0.02
86 3 0.02
87 5 0.04
88 58 0.44
89 51 0.39
90 6 0.05
91 4 0.03
92 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (87 bp):
TTTAGGGAGACAAGGATGATGGCTTAAATCTGCTCCATTCCGATACATGAAGATAAGATTCACCG
TTTTCGATCTGCTCCACTACTG
Found at i:94126018 original size:3 final size:3
Alignment explanation
Indices: 94126012--94126066 Score: 60
Period size: 3 Copynumber: 18.0 Consensus size: 3
94126002 GGAAATAGAA
*
94126012 AAT AAT AAT AAT AAT AGATT AAT -AT GGAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT A-A-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT
94126059 AA- AAT AAT
1 AAT AAT AAT
94126067 GGGGAAAAGG
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
2 4 0.09
3 36 0.78
4 4 0.09
5 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:94126113 original size:15 final size:15
Alignment explanation
Indices: 94126086--94126124 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
94126076 GGGAAAATAT
*
94126086 TAATAAGAATAATTA
1 TAATAAAAATAATTA
* *
94126101 TAGTAAAAATAATTT
1 TAATAAAAATAATTA
94126116 TAATAAAAA
1 TAATAAAAA
94126125 GAATAATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (15 bp):
TAATAAAAATAATTA
Found at i:94126156 original size:27 final size:25
Alignment explanation
Indices: 94126126--94126213 Score: 77
Period size: 25 Copynumber: 3.3 Consensus size: 25
94126116 TAATAAAAAG
94126126 AATAATAAAAGTAAAAAAAATGAATGT
1 AATAATAAAA-T-AAAAAAATGAATGT
* *
94126153 AATAGTAACATAAAAAAATGAATGT
1 AATAATAAAATAAAAAAATGAATGT
* * **
94126178 AATAGTAACATATAATAATAATGAATAC
1 AATAATAA-A-ATAA-AAAAATGAATGT
94126206 AATAATAA
1 AATAATAA
94126214 TATTATTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
25 22 0.43
26 1 0.02
27 12 0.24
28 16 0.31
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.25
Consensus pattern (25 bp):
AATAATAAAATAAAAAAATGAATGT
Found at i:94126209 original size:28 final size:25
Alignment explanation
Indices: 94126139--94126203 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 25
94126129 AATAAAAGTA
94126139 AAAAAAATGAATGTAATAGTAACAT
1 AAAAAAATGAATGTAATAGTAACAT
94126164 AAAAAAATGAATGTAATAGTAACAT
1 AAAAAAATGAATGTAATAGTAACAT
94126189 ATAATAATAATGAAT
1 A-AA-AA-AATGAAT
94126204 ACAATAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
25 26 0.70
26 2 0.05
27 2 0.05
28 7 0.19
ACGTcount: A:0.60, C:0.03, G:0.11, T:0.26
Consensus pattern (25 bp):
AAAAAAATGAATGTAATAGTAACAT
Found at i:94128349 original size:18 final size:18
Alignment explanation
Indices: 94128328--94128367 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
94128318 TAAAAAATTT
*
94128328 TATTTTAATTT-TTAAAAA
1 TATTTAAATTTATT-AAAA
94128346 TATTTAAATTTATTAAAA
1 TATTTAAATTTATTAAAA
94128364 TATT
1 TATT
94128368 AATATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTAAATTTATTAAAA
Found at i:94128570 original size:15 final size:15
Alignment explanation
Indices: 94128552--94128606 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
94128542 TATCAATATT
94128552 AATATTTTAATAATA
1 AATATTTTAATAATA
*
94128567 AATATTTATTAAAATTATA
1 AATA-TT-TT--AATAATA
*
94128586 AATATATTAATAATA
1 AATATTTTAATAATA
94128601 AATATT
1 AATATT
94128607 CTGTAGTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 15 0.47
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:94129096 original size:14 final size:14
Alignment explanation
Indices: 94129060--94129098 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
94129050 CCAGGAAAGT
94129060 AAGTCATTTTCCAG
1 AAGTCATTTTCCAG
* * *
94129074 AAATTATTTTTCAG
1 AAGTCATTTTCCAG
94129088 AAGTCATTTTC
1 AAGTCATTTTC
94129099 AGTGAAACAA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (14 bp):
AAGTCATTTTCCAG
Found at i:94135149 original size:31 final size:31
Alignment explanation
Indices: 94135062--94135152 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 31
94135052 TGATCTATGT
*
94135062 AAATTA-A-ATTAAATAAAAATTTCATGTATA
1 AAATTACACATTAAATAAAAA-TTCATATATA
* * *
94135092 AAATTACACA--AAATTAAAATTTATATATG
1 AAATTACACATTAAATAAAAATTCATATATA
* *
94135121 ACATTACACATTAAATCAAAATTCATATATA
1 AAATTACACATTAAATAAAAATTCATATATA
94135152 A
1 A
94135153 TTTTAATATT
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
29 16 0.33
30 14 0.29
31 18 0.37
32 1 0.02
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (31 bp):
AAATTACACATTAAATAAAAATTCATATATA
Found at i:94135808 original size:20 final size:18
Alignment explanation
Indices: 94135783--94135819 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
94135773 CATTTTAAAA
94135783 TAAATATACATATATATAAC
1 TAAATATA-ATATA-ATAAC
94135803 TAAATATAATATAATAA
1 TAAATATAATATAATAA
94135820 TAATAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAATATAATATAATAAC
Found at i:94135848 original size:23 final size:23
Alignment explanation
Indices: 94135780--94135833 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
94135770 AGACATTTTA
94135780 AAATA-AATATACATATATATAACT
1 AAATATAATATA-ATA-ATATAACT
*
94135804 AAATATAATATAATAATAATAACA
1 AAATATAATATAATAAT-ATAACT
94135828 AAATAT
1 AAATAT
94135834 TGATAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 2 0.07
24 19 0.70
25 6 0.22
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (23 bp):
AAATATAATATAATAATATAACT
Found at i:94137117 original size:18 final size:18
Alignment explanation
Indices: 94137094--94137153 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
94137084 AAAAGTTATG
94137094 ATAATTATATATTTATAA
1 ATAATTATATATTTATAA
*
94137112 ATAATTATA-ATTTAATAG
1 ATAATTATATATTT-ATAA
* * *
94137130 GTGA-TATATATTTAAAA
1 ATAATTATATATTTATAA
94137147 ATAATTA
1 ATAATTA
94137154 GAAAATTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
17 12 0.38
18 20 0.62
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
ATAATTATATATTTATAA
Found at i:94137232 original size:25 final size:25
Alignment explanation
Indices: 94137180--94137233 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
94137170 AAATATACAA
*
94137180 AAAAAGTTGAGTTAATTTTATTTTT
1 AAAAAGTTGAGTTAATTTTATTTGT
94137205 AAAAAGTT-A-TTAATTTTATTGATGT
1 AAAAAGTTGAGTTAATTTTATT--TGT
94137230 AAAA
1 AAAA
94137234 TAGAGTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 11 0.42
24 1 0.04
25 14 0.54
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (25 bp):
AAAAAGTTGAGTTAATTTTATTTGT
Found at i:94137501 original size:27 final size:27
Alignment explanation
Indices: 94137450--94137502 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
94137440 CCTTAATTAC
*
94137450 TATAATTAAAAATAAAATATTTAAAAA
1 TATAATTAAAAATAAAATATGTAAAAA
* * *
94137477 TATAATTAAATATTAAATGTGTAAAA
1 TATAATTAAAAATAAAATATGTAAAA
94137503 TTACTTGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (27 bp):
TATAATTAAAAATAAAATATGTAAAAA
Found at i:94137896 original size:13 final size:13
Alignment explanation
Indices: 94137878--94137902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94137868 TTGGTAATGC
94137878 TTTTGAAAAGTGA
1 TTTTGAAAAGTGA
94137891 TTTTGAAAAGTG
1 TTTTGAAAAGTG
94137903 TTGAGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTGA
Found at i:94138127 original size:18 final size:18
Alignment explanation
Indices: 94138092--94138130 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
94138082 TTTAAGCAAT
*
94138092 AAATATTAATTATTTATA
1 AAATATTAATTATATATA
94138110 AAAT-TTAATTATAATATA
1 AAATATTAATTAT-ATATA
94138128 AAA
1 AAA
94138131 ACTATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATTAATTATATATA
Found at i:94139817 original size:16 final size:15
Alignment explanation
Indices: 94139791--94139820 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
94139781 CAACTCCGAA
94139791 CTCTTCTTTCTCTCT
1 CTCTTCTTTCTCTCT
94139806 CTCTTCCTTTCTCTC
1 CTCTT-CTTTCTCTC
94139821 CATTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (15 bp):
CTCTTCTTTCTCTCT
Found at i:94140753 original size:13 final size:13
Alignment explanation
Indices: 94140735--94140762 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
94140725 GTTGCAACTA
94140735 GTGAATTGATATG
1 GTGAATTGATATG
94140748 GTGAATTGATATG
1 GTGAATTGATATG
94140761 GT
1 GT
94140763 TTTCTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (13 bp):
GTGAATTGATATG
Found at i:94144138 original size:23 final size:23
Alignment explanation
Indices: 94144111--94144161 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
94144101 AGGGTTGACG
94144111 TCACGCGATGAGGGGGTTCCTTA
1 TCACGCGATGAGGGGGTTCCTTA
* *
94144134 TCACGCGGTGAGGGGGTTCCTTG
1 TCACGCGATGAGGGGGTTCCTTA
94144157 TCACG
1 TCACG
94144162 ACACAACATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.14, C:0.24, G:0.37, T:0.25
Consensus pattern (23 bp):
TCACGCGATGAGGGGGTTCCTTA
Found at i:94145890 original size:30 final size:30
Alignment explanation
Indices: 94145832--94145892 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
94145822 AGGGGTAGGA
*
94145832 TGGGAGGAGAGCAAAAGTTATGGGGGAAAG
1 TGGGAGGAGAGCAAAAGTTATGGAGGAAAG
* *
94145862 TGGGAGG-GAGTAAAAGTTTTAGGAGGAAAG
1 TGGGAGGAGAGCAAAAGTTAT-GGAGGAAAG
94145892 T
1 T
94145893 AAAGAGGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.36, C:0.02, G:0.44, T:0.18
Consensus pattern (30 bp):
TGGGAGGAGAGCAAAAGTTATGGAGGAAAG
Found at i:94148337 original size:23 final size:24
Alignment explanation
Indices: 94148292--94148337 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
94148282 AAAGCTCGAT
* *
94148292 CATATTATATAAACAATCATTTAC
1 CATATTATATAAAAAACCATTTAC
*
94148316 CATA-TATATAAAAAACCCTTTA
1 CATATTATATAAAAAACCATTTA
94148338 ACAAATAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (24 bp):
CATATTATATAAAAAACCATTTAC
Found at i:94153980 original size:63 final size:63
Alignment explanation
Indices: 94153875--94154101 Score: 247
Period size: 63 Copynumber: 3.6 Consensus size: 63
94153865 CTAGACACAC
* * * *
94153875 GCCCGTGTGACCCTAATTCAAAAACAGTGAGATACACAGCCTGGACACATGTTCATGTCTCTA
1 GCCCGTGTGACCTTAATTCACAAACAGTGAGTTACACAGCCTGGACACACGTTCATGTCTCTA
* * * ** ** * *
94153938 GCCCATGTTACCTTAATTCACAAACAATGAGTTACATGGCCTGGAGGCACGTTCGTGTTTCTA
1 GCCCGTGTGACCTTAATTCACAAACAGTGAGTTACACAGCCTGGACACACGTTCATGTCTCTA
** ** * **
94154001 GCTTGTGTGACCTTAATTTTCAAACAGTGAGTTACACAGTCTGGACACACGCCCATGTCTCTA
1 GCCCGTGTGACCTTAATTCACAAACAGTGAGTTACACAGCCTGGACACACGTTCATGTCTCTA
* * *
94154064 GCCCGTGTGACCCTAATTCTCAAACAGTAAGTTACACA
1 GCCCGTGTGACCTTAATTCACAAACAGTGAGTTACACA
94154102 ACTTGCCACA
Statistics
Matches: 130, Mismatches: 34, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
63 130 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (63 bp):
GCCCGTGTGACCTTAATTCACAAACAGTGAGTTACACAGCCTGGACACACGTTCATGTCTCTA
Found at i:94158632 original size:47 final size:47
Alignment explanation
Indices: 94158569--94158879 Score: 475
Period size: 47 Copynumber: 6.6 Consensus size: 47
94158559 CCCTTCGGGA
* * *
94158569 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
94158616 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
94158663 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
94158710 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
94158757 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
94158804 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
94158853 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
94158880 TATTCAAATA
Statistics
Matches: 249, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 204 0.82
49 43 0.17
50 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:94160638 original size:56 final size:56
Alignment explanation
Indices: 94160571--94160690 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
94160561 TATTAGTTTA
94160571 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
94160627 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
94160683 TTGCCCAT
1 TTGCCCAT
94160691 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:94164728 original size:63 final size:63
Alignment explanation
Indices: 94164653--94164846 Score: 201
Period size: 63 Copynumber: 3.1 Consensus size: 63
94164643 CAAATTCCCA
* * * ** *
94164653 AAACAATAAGTTATACGGCCTAGACACACGCCTGTATCTCTGGCCCGTGTGACCCTAATTCAC
1 AAACAGTAAGTTACACGGCCTAGACACAAGCCCCTATCTCTAGCCCGTGTGACCCTAATTCAC
* * * * * *
94164716 AAACAGTGAGTTACACAGCTTAGAGACAAGCCCCTGTCTCTAGCCTGTGTGACCCTAATTCAC
1 AAACAGTAAGTTACACGGCCTAGACACAAGCCCCTATCTCTAGCCCGTGTGACCCTAATTCAC
* * * ** * *
94164779 AAACAGTAAGTTACACGGCCTAGACACATA-CCCATGTCTCCAGCCTATGTGACCCTAGTTCCC
1 AAACAGTAAGTTACACGGCCTAGACACA-AGCCCCTATCTCTAGCCCGTGTGACCCTAATTCAC
94164842 AAACA
1 AAACA
94164847 ATGCGTTACA
Statistics
Matches: 109, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
63 108 0.99
64 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (63 bp):
AAACAGTAAGTTACACGGCCTAGACACAAGCCCCTATCTCTAGCCCGTGTGACCCTAATTCAC
Found at i:94164855 original size:63 final size:64
Alignment explanation
Indices: 94164700--94164872 Score: 224
Period size: 63 Copynumber: 2.7 Consensus size: 64
94164690 CTCTGGCCCG
* * * *
94164700 TGTGACCCTAATTCACAAACAGTGAGTTACACAGCTTAGAGACA-AGCCCCTGTCTCTAGCCTG
1 TGTGACCCTAATTCACAAACAGTGAGTTACACAGCTTAGACACATAGCCCATGTCTCCAGCCTA
* * *
94164763 TGTGACCCTAATTCACAAACAGTAAGTTACACGGCCTAGACACATA-CCCATGTCTCCAGCCTA
1 TGTGACCCTAATTCACAAACAGTGAGTTACACAGCTTAGACACATAGCCCATGTCTCCAGCCTA
* * * * *
94164826 TGTGACCCTAGTTCCCAAACAATGCGTTACACAGTTTAGACACATAG
1 TGTGACCCTAATTCACAAACAGTGAGTTACACAGCTTAGACACATAG
94164873 TCATATGGTG
Statistics
Matches: 93, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
63 92 0.99
64 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (64 bp):
TGTGACCCTAATTCACAAACAGTGAGTTACACAGCTTAGACACATAGCCCATGTCTCCAGCCTA
Found at i:94175815 original size:27 final size:27
Alignment explanation
Indices: 94175767--94175871 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
94175757 GCGAGGCTGC
* *
94175767 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
94175794 CAGATATTGTGGCGGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
94175820 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
94175847 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
94175872 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
26 8 0.11
27 59 0.84
28 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:94177509 original size:24 final size:26
Alignment explanation
Indices: 94177442--94177521 Score: 121
Period size: 25 Copynumber: 3.2 Consensus size: 26
94177432 TGAAATGCCC
94177442 ATCATGGAACATTTA-CTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
94177467 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
94177493 ATCAT-GAA-ATTTACCTAACCTATAT
1 ATCATGGAACATTTACCTAACCCAT-T
94177518 ATCA
1 ATCA
94177522 ATTTTTATCA
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
24 14 0.27
25 23 0.44
26 15 0.29
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:94191096 original size:20 final size:21
Alignment explanation
Indices: 94191073--94191111 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
94191063 CAATCTTTAT
94191073 AAAT-TTT-TTTTTGTTTTTGA
1 AAATCTTTGTTTTT-TTTTTGA
94191093 AAATCTTTGTTTTTTTTTT
1 AAATCTTTGTTTTTTTTTT
94191112 AAACCCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 8 0.47
22 5 0.29
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.72
Consensus pattern (21 bp):
AAATCTTTGTTTTTTTTTTGA
Found at i:94192115 original size:27 final size:27
Alignment explanation
Indices: 94192067--94192225 Score: 177
Period size: 27 Copynumber: 5.9 Consensus size: 27
94192057 GCGAGGCTGC
* * *
94192067 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
94192094 CAGATATTGTGGCGGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
94192120 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
94192147 CAGATAATTGTGGCATAGCCACC--ATGA
1 CAGAT-ATTGTGGCAGAGCCACCAGAT-A
94192174 CAGATATATGTGGCAGAGCCACCA-AT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
94192200 CAGATAATTGTGGCATAGCCACCAGA
1 CAGAT-ATTGTGGCAGAGCCACCAGA
94192226 CCCTTCCTCC
Statistics
Matches: 115, Mismatches: 8, Indels: 18
0.82 0.06 0.13
Matches are distributed among these distances:
25 2 0.02
26 30 0.26
27 79 0.69
28 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:94192157 original size:54 final size:54
Alignment explanation
Indices: 94192067--94192225 Score: 227
Period size: 54 Copynumber: 3.0 Consensus size: 54
94192057 GCGAGGCTGC
* * * **
94192067 CAGATAT-TGTGACAAAGTCACCAGATACAGAT-ATTGTGGCGGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
94192120 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCATG-A
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCA-GAA
94192174 CAGATATATGTGGCAGAGCCACCA-ATCAGATAATTGTGGCATAGCCACCAGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGA
94192226 CCCTTCCTCC
Statistics
Matches: 97, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
52 1 0.01
53 38 0.39
54 57 0.59
55 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:94193847 original size:26 final size:26
Alignment explanation
Indices: 94193817--94193898 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
94193807 TGAAATTCCC
94193817 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
94193843 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
94193869 ATCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
94193895 ATCA
1 ATCA
94193899 ATTTATATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:94198965 original size:40 final size:40
Alignment explanation
Indices: 94198921--94199017 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
94198911 GTACAAATAA
* * * *
94198921 GGGCACTTATGTACATTTAAAAGTACCAAAGTCTAAGCAG
1 GGGCACGTATGTGCATTTAAAAGTACCAAAGTCCAAACAG
**
94198961 GGGCACGTATGTGCATTTAAGGGTACCAAAGTCCAAACAG
1 GGGCACGTATGTGCATTTAAAAGTACCAAAGTCCAAACAG
*
94199001 GGTCACGTATGTGCATT
1 GGGCACGTATGTGCATT
94199018 CAAGGTCATT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (40 bp):
GGGCACGTATGTGCATTTAAAAGTACCAAAGTCCAAACAG
Found at i:94203621 original size:19 final size:20
Alignment explanation
Indices: 94203597--94203634 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
94203587 GGTACCACCA
94203597 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
94203616 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
94203635 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:94203930 original size:46 final size:45
Alignment explanation
Indices: 94203863--94204030 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 45
94203853 CGCCCCTAAG
*
94203863 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* *
94203909 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* ** * *
94203956 CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCATAAA
94204002 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
94204031 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 55 0.54
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:94203974 original size:93 final size:93
Alignment explanation
Indices: 94203864--94204034 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
94203854 GCCCCTAAGT
** *
94203864 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
94203929 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
94203957 GAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
94204022 CGAGTTCGGATGC
66 CGAGTTCGGATGC
94204035 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:94204486 original size:30 final size:30
Alignment explanation
Indices: 94204452--94204511 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
94204442 ATCTAATACG
94204452 AACTTTTAAAAAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
** *
94204482 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
94204512 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTTAAAAAATTACACTTTTGCCCCTA
Found at i:94211203 original size:19 final size:20
Alignment explanation
Indices: 94211179--94211216 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
94211169 GGTACCACCA
94211179 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
94211198 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
94211217 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:94211557 original size:93 final size:93
Alignment explanation
Indices: 94211446--94211616 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
94211436 GCCCCTAAGT
* ** *
94211446 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
94211511 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
94211539 GAACTCAGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
94211604 CGAGTTCGGATGC
66 CGAGTTCGGATGC
94211617 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:94211604 original size:46 final size:46
Alignment explanation
Indices: 94211441--94211611 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
94211431 AACCCGCCCC
* ** * *
94211441 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCA
* * * * *
94211487 TAAATGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-ATTTGCATCCA
* * *
94211535 TCA-CGAACTCAGACTCAACTCAACGAGTTCGAACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCA
94211580 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
94211612 GATGCTCAAC
Statistics
Matches: 99, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 56 0.57
47 25 0.25
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCA
Found at i:94212070 original size:30 final size:30
Alignment explanation
Indices: 94212036--94212095 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
94212026 ATTTAATACG
94212036 AACTTTTAAAAAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
** *
94212066 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
94212096 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTTAAAAAATTACACTTTTGCCCCTA
Found at i:94215420 original size:16 final size:18
Alignment explanation
Indices: 94215381--94215422 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
94215371 AAAGTTCTTA
94215381 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
94215398 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
94215415 A-ATTTATA
1 ATATTTATA
94215423 ACACATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:94216682 original size:23 final size:22
Alignment explanation
Indices: 94216651--94216699 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
94216641 CTTTTTCACC
*
94216651 TTTTTTCTTCTTC-TTTTCTTCTA
1 TTTTCTCTTCTTCATTTT-TT-TA
94216674 TTTTCTCTTCTTCATTTTTTTA
1 TTTTCTCTTCTTCATTTTTTTA
94216696 TTTT
1 TTTT
94216700 GATTTTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTCTCTTCTTCATTTTTTTA
Found at i:94218733 original size:144 final size:144
Alignment explanation
Indices: 94218473--94218758 Score: 554
Period size: 144 Copynumber: 2.0 Consensus size: 144
94218463 ACATGTATAT
94218473 CAATAAGCTACCTAATTTTCATGTTCTATCAATTCCATTTAATCATGCAAATTACAGTTTGAAGA
1 CAATAAGCTACCTAATTTTCATGTTCTATCAATTCCATTTAATCATGCAAATTACAGTTTGAAGA
*
94218538 TCTTTCTAGAGTCTATTGACTCATTCGTATTCAGTTCGGCCACCAAGGCTCAATTCTAAATGGAT
66 TCTTTCTAGAGTCTATTGACTCATTCATATTCAGTTCGGCCACCAAGGCTCAATTCTAAATGGAT
94218603 CGCATAATCTTTAA
131 CGCATAATCTTTAA
94218617 CAATAAGCTACCTAATTTTCATGTTCTATCAATTCCATTTAATCATGCAAATTACAGTTTGAAGA
1 CAATAAGCTACCTAATTTTCATGTTCTATCAATTCCATTTAATCATGCAAATTACAGTTTGAAGA
*
94218682 TCTTTCTAGAGTCTATTGACTCATTCATATTCAGTTCGGCCACCAAGGCTCAATTCTAATTGGAT
66 TCTTTCTAGAGTCTATTGACTCATTCATATTCAGTTCGGCCACCAAGGCTCAATTCTAAATGGAT
94218747 CGCATAATCTTT
131 CGCATAATCTTT
94218759 TATATACTTT
Statistics
Matches: 140, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 140 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (144 bp):
CAATAAGCTACCTAATTTTCATGTTCTATCAATTCCATTTAATCATGCAAATTACAGTTTGAAGA
TCTTTCTAGAGTCTATTGACTCATTCATATTCAGTTCGGCCACCAAGGCTCAATTCTAAATGGAT
CGCATAATCTTTAA
Found at i:94219007 original size:19 final size:19
Alignment explanation
Indices: 94218985--94219022 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
94218975 ACTGGTGCAA
* *
94218985 GAAGTGCATCTTGGCACAC
1 GAAGCGCATCTTCGCACAC
94219004 GAAGCGCATCTTCGCACAC
1 GAAGCGCATCTTCGCACAC
94219023 AAAATGCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.32, G:0.24, T:0.18
Consensus pattern (19 bp):
GAAGCGCATCTTCGCACAC
Found at i:94219031 original size:19 final size:19
Alignment explanation
Indices: 94218989--94219031 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
94218979 GTGCAAGAAG
* * *
94218989 TGCATCTTGGCACACGAAG
1 TGCATCTTCGCACACAAAA
*
94219008 CGCATCTTCGCACACAAAA
1 TGCATCTTCGCACACAAAA
94219027 TGCAT
1 TGCAT
94219032 AAACCCGTAC
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (19 bp):
TGCATCTTCGCACACAAAA
Found at i:94222984 original size:42 final size:43
Alignment explanation
Indices: 94222937--94223048 Score: 149
Period size: 41 Copynumber: 2.7 Consensus size: 43
94222927 TAACAGTGAT
* *
94222937 ATATCAGGCTTATTGCCTAGTAGGCTTTGATGCCGGTGTA-TG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCAGTGTATTG
* *
94222979 ATATCAAGCTTATTGCCTAGCAGGCTTT-ATGCTAGTGTATTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCAGTGTATTG
* *
94223021 A-ATCAGGTTTATTACCTAGCAGGCTTTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTG
94223049 TGTCGATGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
41 32 0.52
42 29 0.48
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (43 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCAGTGTATTG
Found at i:94228544 original size:107 final size:107
Alignment explanation
Indices: 94228358--94228571 Score: 349
Period size: 107 Copynumber: 2.0 Consensus size: 107
94228348 ACAATAACCC
* *
94228358 GTATCATTGTTTAAATCAAAGTATTTAGCTTAAGAAGAGTTGTTTTAAGTACATATTAACTTAGT
1 GTATCATTGTTTAAATCAAAGTATTTAGCATAAGAAGAGTTGTTTTAAGTACATATTAACTTAGC
*
94228423 CTTTTTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
66 CTTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
* *
94228465 GTATCATTGTTTAAATCAAAGTATTTAGCATAGGGAA-AGTTGTTTTAAGTACATATTAAGTTAG
1 GTATCATTGTTTAAATCAAAGTATTTAGCATA-AGAAGAGTTGTTTTAAGTACATATTAACTTAG
* *
94228529 CCTTTCTATATATCTCTCTTTTTCCTTCGCTTTTGCATGCATT
65 CCTTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
94228572 TCAACAGATA
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
107 96 0.97
108 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (107 bp):
GTATCATTGTTTAAATCAAAGTATTTAGCATAAGAAGAGTTGTTTTAAGTACATATTAACTTAGC
CTTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
Found at i:94235130 original size:234 final size:234
Alignment explanation
Indices: 94234721--94235185 Score: 876
Period size: 234 Copynumber: 2.0 Consensus size: 234
94234711 CTGTTTGAAG
94234721 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
1 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
*
94234786 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAC
66 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTACCTATGTTTAACAAAATCATTCCATTTGCTAC
94234851 AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
131 AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
94234916 TTAGTCAAATCCAACAGGATGAAGTAGTAGAAATTCAAC
196 TTAGTCAAATCCAACAGGATGAAGTAGTAGAAATTCAAC
* *
94234955 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACGAAATGGTGGTTCTTT
1 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
*
94235020 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTACCTATGTTTAACAAAATCATTCCATTTGCTAG
66 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTACCTATGTTTAACAAAATCATTCCATTTGCTAC
94235085 AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
131 AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
* *
94235150 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTC
196 TTAGTCAAATCCAACAGGATGAAGTAGTAGAAATTC
94235186 CAAGTACTCA
Statistics
Matches: 225, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
234 225 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (234 bp):
AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTACCTATGTTTAACAAAATCATTCCATTTGCTAC
AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
TTAGTCAAATCCAACAGGATGAAGTAGTAGAAATTCAAC
Found at i:94242838 original size:14 final size:14
Alignment explanation
Indices: 94242798--94242838 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
94242788 AAAAAGAAGA
94242798 TACACTCTCTCTTC
1 TACACTCTCTCTTC
94242812 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
94242823 TACACTCTTTCTTC
1 TACACTCTCTCTTC
94242837 TA
1 TA
94242839 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:94243400 original size:20 final size:22
Alignment explanation
Indices: 94243372--94243417 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
94243362 TATCATTTTT
94243372 TAAAATTA-TAA-AAATATATA
1 TAAAATTATTAATAAATATATA
* *
94243392 TAAAGTTATTAATAAATATGTA
1 TAAAATTATTAATAAATATATA
94243414 TAAA
1 TAAA
94243418 TGAATATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 3 0.14
22 12 0.55
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (22 bp):
TAAAATTATTAATAAATATATA
Found at i:94252538 original size:42 final size:42
Alignment explanation
Indices: 94252472--94252612 Score: 228
Period size: 42 Copynumber: 3.4 Consensus size: 42
94252462 TGTGGATACT
* ** * * *
94252472 CCACAGCTTGTGTGAGTGGCATCGTATAGCTTACATTCCGAC
1 CCACAGCTCGTGTGAGCAGTATCGTATAACTTACATTCCAAC
94252514 CCACAGCTCGTGTGAGCAGTATCGTATAACTTACATTCCAAC
1 CCACAGCTCGTGTGAGCAGTATCGTATAACTTACATTCCAAC
94252556 CCACAGCTCGTGTGAGCAGTATCGTATAACTTACATTCCAAC
1 CCACAGCTCGTGTGAGCAGTATCGTATAACTTACATTCCAAC
94252598 CCACAGCTCGTGTGA
1 CCACAGCTCGTGTGA
94252613 ACAGGCCTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (42 bp):
CCACAGCTCGTGTGAGCAGTATCGTATAACTTACATTCCAAC
Found at i:94253531 original size:37 final size:37
Alignment explanation
Indices: 94253481--94253553 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
94253471 ATTCTAGGTG
94253481 AATTTTGGGTCCACAAGACCTAAGACACAGGCGTGTA
1 AATTTTGGGTCCACAAGACCTAAGACACAGGCGTGTA
* *
94253518 AATTTTGGGTCCACAAGGCCTAAGACACAGTCGTGT
1 AATTTTGGGTCCACAAGACCTAAGACACAGGCGTGT
94253554 GACTTAGCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (37 bp):
AATTTTGGGTCCACAAGACCTAAGACACAGGCGTGTA
Found at i:94254725 original size:16 final size:16
Alignment explanation
Indices: 94254704--94254738 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
94254694 AAACAATTGA
*
94254704 ATTATAGCTCTATTTC
1 ATTATAGCTCTATTCC
*
94254720 ATTATATCTCTATTCC
1 ATTATAGCTCTATTCC
94254736 ATT
1 ATT
94254739 TGCTCCAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.20, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTATAGCTCTATTCC
Found at i:94260980 original size:18 final size:18
Alignment explanation
Indices: 94260963--94261012 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
94260953 TTAATGATAT
94260963 TTTTATTAA-TAATAATA
1 TTTTATTAAGTAATAATA
*
94260980 TTTTAATAAGTAATAATA
1 TTTTATTAAGTAATAATA
*
94260998 TTTTATTAATTAATA
1 TTTTATTAAGTAATA
94261013 TTATAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTTATTAAGTAATAATA
Found at i:94266327 original size:25 final size:25
Alignment explanation
Indices: 94266293--94266342 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
94266283 ATCAGTAAAC
94266293 TCATTAACAACTGGTAGTTGATCTA
1 TCATTAACAACTGGTAGTTGATCTA
94266318 TCATTAACAACTGGTAGTTGATCTA
1 TCATTAACAACTGGTAGTTGATCTA
94266343 ACTTCAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (25 bp):
TCATTAACAACTGGTAGTTGATCTA
Found at i:94269494 original size:40 final size:40
Alignment explanation
Indices: 94269431--94269539 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
94269421 AGAGATATTG
* * * *
94269431 AAGTACAAATAGGTGCACTTATGTGCATTTAAAAGTACCA
1 AAGTCCAAACAGGGGCACGTATGTGCATTTAAAAGTACCA
** * **
94269471 AAGTCTGAGCAGGGGCACGTATGTGCATTTAAGGGTACCA
1 AAGTCCAAACAGGGGCACGTATGTGCATTTAAAAGTACCA
94269511 AAGTCCAAACAGGGGCACGTATGTGCATT
1 AAGTCCAAACAGGGGCACGTATGTGCATT
94269540 CAAGGTCATT
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (40 bp):
AAGTCCAAACAGGGGCACGTATGTGCATTTAAAAGTACCA
Found at i:94278121 original size:19 final size:22
Alignment explanation
Indices: 94278082--94278121 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
94278072 AGAAACCCAA
94278082 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
94278104 CCAT-TCCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
94278122 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 7 0.39
22 4 0.22
ACGTcount: A:0.30, C:0.47, G:0.03, T:0.20
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:94278220 original size:27 final size:28
Alignment explanation
Indices: 94278183--94278322 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
94278173 AGCATGGCTG
* *
94278183 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
94278209 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
94278237 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
94278264 CCAGAT-CAAATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
94278291 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
94278318 CCAGA
1 CCAGA
94278323 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.79
28 17 0.16
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:94279974 original size:26 final size:26
Alignment explanation
Indices: 94279938--94280047 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
94279928 CATGAAATTC
94279938 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
94279964 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
94279990 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
94280016 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
94280042 TTATCA
1 TTATCA
94280048 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:94287614 original size:234 final size:234
Alignment explanation
Indices: 94287205--94287669 Score: 912
Period size: 234 Copynumber: 2.0 Consensus size: 234
94287195 CTGTTTGAAG
94287205 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
1 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
94287270 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
66 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
94287335 AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
131 AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
94287400 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
196 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
*
94287439 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACGAAACGGTGGTTCTTT
1 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
*
94287504 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAGCAAAATCATTCCATTTGCTAG
66 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
94287569 AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
131 AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
94287634 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTC
196 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTC
94287670 CAAGTACTCA
Statistics
Matches: 229, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
234 229 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (234 bp):
AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
Found at i:94288945 original size:27 final size:28
Alignment explanation
Indices: 94288877--94288950 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
94288867 GTCATTATCA
* * *
94288877 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATGAGATTCTTCCTAT
*
94288905 ACCCCATAAGTTATGAGATTTTTCCTAT
1 ACCCCATAAGTTATGAGATTCTTCCTAT
94288933 A-CCCATAAGTTATGAGAT
1 ACCCCATAAGTTATGAGAT
94288951 AAAAGGTCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 17 0.40
28 25 0.60
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (28 bp):
ACCCCATAAGTTATGAGATTCTTCCTAT
Found at i:94295073 original size:20 final size:22
Alignment explanation
Indices: 94295045--94295090 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
94295035 TATCATTTTT
94295045 TAAAATTA-TAA-AAATATATA
1 TAAAATTATTAATAAATATATA
* *
94295065 TAAAGTTATTAATAAATATGTA
1 TAAAATTATTAATAAATATATA
94295087 TAAA
1 TAAA
94295091 TGAATATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 3 0.14
22 12 0.55
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (22 bp):
TAAAATTATTAATAAATATATA
Found at i:94302436 original size:56 final size:56
Alignment explanation
Indices: 94302376--94302487 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
94302366 TACCTTACAC
94302376 CCATTATTTTTATCCATCCCACCATTAAGGCCATGCTTGGTTCAATATAATAGTTA
1 CCATTATTTTTATCCATCCCACCATTAAGGCCATGCTTGGTTCAATATAATAGTTA
94302432 CCATTATTTTTATCCATCCCACCATTAAGGCCATGCTTGGTTCAATATAATAGTTA
1 CCATTATTTTTATCCATCCCACCATTAAGGCCATGCTTGGTTCAATATAATAGTTA
94302488 TGTCATTACA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (56 bp):
CCATTATTTTTATCCATCCCACCATTAAGGCCATGCTTGGTTCAATATAATAGTTA
Found at i:94306518 original size:21 final size:21
Alignment explanation
Indices: 94306489--94306528 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
94306479 AGCTCTTGGA
*
94306489 GCTTGTTTTAGTTTGTATAGT
1 GCTTGTTTTAGCTTGTATAGT
*
94306510 GCTTTTTTTAGCTTGTATA
1 GCTTGTTTTAGCTTGTATA
94306529 CCTTACTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.07, G:0.20, T:0.57
Consensus pattern (21 bp):
GCTTGTTTTAGCTTGTATAGT
Found at i:94313489 original size:49 final size:49
Alignment explanation
Indices: 94313412--94313539 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 49
94313402 TGTTGTGTGT
* * *
94313412 CAGTGTAAGACCTGTCTGGGACATGGCATTAACAC-CGATATATGAAAGC
1 CAGTATAAGACCTGTTTGGGACATGGCATCAAC-CTCGATATATGAAAGC
* *
94313461 CAGTATAAGA-CTTTTATGGGACATGGCATCAACCTCGATATATGAAAGT
1 CAGTATAAGACCTGTT-TGGGACATGGCATCAACCTCGATATATGAAAGC
* *
94313510 CAGTGTAAGACCTGTTTGGGACACGGCATC
1 CAGTATAAGACCTGTTTGGGACATGGCATC
94313540 GCCTTTAATG
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
48 4 0.06
49 60 0.88
50 4 0.06
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (49 bp):
CAGTATAAGACCTGTTTGGGACATGGCATCAACCTCGATATATGAAAGC
Found at i:94313530 original size:142 final size:144
Alignment explanation
Indices: 94313325--94313584 Score: 318
Period size: 142 Copynumber: 1.8 Consensus size: 144
94313315 AGAGCTAGTG
* **
94313325 TAAGACATTTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTATCTGGGAC
1 TAAGACATTTATGGGACATGCATCAACCTCGAGATATACAAGCTAGTGTAAGACCTATCTGGGAC
* * *
94313390 ATAGCGTCAG-CTTGT-TGTG-T-GTCAGTGTAAGACC-TGTCTGGGACATGGCATTAACACCGA
66 ACAGCATC-GCCTT-TATGTGTTAGCCAGTGTAAGACCATGTCTGGGACATGGCATTAACACCGA
94313450 TATATGAAAGCCAGTA
129 TATATGAAAGCCAGTA
* * * *
94313466 TAAGACTTTTATGGGACATGGCATCAACCTCGATATATGA-AAG-TCAGTGTAAGACCTGTTTGG
1 TAAGACATTTATGGGACAT-GCATCAACCTCGAGATAT-ACAAGCT-AGTGTAAGACCTATCTGG
*
94313529 GACACGGCATCGCCTTTAATGTGTTAGCCAGTGTAAGACCATGTCTGGGACATGGC
63 GACACAGCATCGCCTTT-ATGTGTTAGCCAGTGTAAGACCATGTCTGGGACATGGC
94313585 GTCGGCATTT
Statistics
Matches: 99, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
141 20 0.20
142 45 0.45
143 5 0.05
144 1 0.01
145 13 0.13
146 15 0.15
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (144 bp):
TAAGACATTTATGGGACATGCATCAACCTCGAGATATACAAGCTAGTGTAAGACCTATCTGGGAC
ACAGCATCGCCTTTATGTGTTAGCCAGTGTAAGACCATGTCTGGGACATGGCATTAACACCGATA
TATGAAAGCCAGTA
Found at i:94314408 original size:15 final size:13
Alignment explanation
Indices: 94314369--94314404 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
94314359 GGTAGACATA
94314369 TAGG-CGTGTGAC
1 TAGGCCGTGTGAC
94314381 TAGGCCGTGTGAC
1 TAGGCCGTGTGAC
94314394 TAGGCCGTGTG
1 TAGGCCGTGTG
94314405 TGACACACGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.14, C:0.19, G:0.42, T:0.25
Consensus pattern (13 bp):
TAGGCCGTGTGAC
Found at i:94320612 original size:28 final size:28
Alignment explanation
Indices: 94320572--94320627 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
94320562 ACACGGGCTA
*
94320572 GGACACGGGTGTGTG-ATGGCCGTGTGAG
1 GGACACAGGTGTGTGTA-GGCCGTGTGAG
94320600 GGACACAGGTGTGTGTCAGGCCGTGTGA
1 GGACACAGGTGTGTGT-AGGCCGTGTGA
94320628 AAACTCCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 14 0.56
29 10 0.40
30 1 0.04
ACGTcount: A:0.16, C:0.16, G:0.46, T:0.21
Consensus pattern (28 bp):
GGACACAGGTGTGTGTAGGCCGTGTGAG
Found at i:94320768 original size:21 final size:20
Alignment explanation
Indices: 94320744--94320783 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
94320734 ATGTTCAAGT
*
94320744 TCCACACGGGCGTGTTGCCCA
1 TCCACACGAGCGTG-TGCCCA
*
94320765 TCCACATGAGCGTGTGCCC
1 TCCACACGAGCGTGTGCCC
94320784 TGTTTCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.15, C:0.38, G:0.28, T:0.20
Consensus pattern (20 bp):
TCCACACGAGCGTGTGCCCA
Found at i:94322763 original size:34 final size:33
Alignment explanation
Indices: 94322724--94322805 Score: 96
Period size: 34 Copynumber: 2.5 Consensus size: 33
94322714 AAATGCTAAT
* *
94322724 AAAAGAAAATGAGAGAAT-ATGAAATGAAATTGA
1 AAAAGAAAAAGAGAGAATAATGAAA-AAAATTGA
*
94322757 GAAAAGAAAAAAAGA-AATGAATGAAAAAAATTGA
1 -AAAAGAAAAAGAGAGAAT-AATGAAAAAAATTGA
94322791 AAAAGAAAAAGAGAG
1 AAAAGAAAAAGAGAG
94322806 TGAGAGAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
33 16 0.39
34 19 0.46
35 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (33 bp):
AAAAGAAAAAGAGAGAATAATGAAAAAAATTGA
Found at i:94322825 original size:21 final size:20
Alignment explanation
Indices: 94322792--94322831 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
94322782 AAAAATTGAA
94322792 AAAGAAAAAGAGAGTGAGAG
1 AAAGAAAAAGAGAGTGAGAG
* *
94322812 AAAGCAAAACGAGATTGAGA
1 AAAG-AAAAAGAGAGTGAGA
94322832 TTGAAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.57, C:0.05, G:0.30, T:0.07
Consensus pattern (20 bp):
AAAGAAAAAGAGAGTGAGAG
Found at i:94322882 original size:18 final size:17
Alignment explanation
Indices: 94322817--94322895 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 17
94322807 GAGAGAAAGC
*
94322817 AAAACGAGATTGAGATTG
1 AAAA-GAGATTGAGAATG
94322835 AAAA-AGAATGTGAGAATG
1 AAAAGAG-AT-TGAGAATG
* *
94322853 AAAAGAAAATTGAAAATG
1 AAAAG-AGATTGAGAATG
*
94322871 AGAAAGAGATTGGAGAAAG
1 A-AAAGAGATT-GAGAATG
94322890 AAAAGA
1 AAAAGA
94322896 AAGAGAGCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
16 2 0.04
17 2 0.04
18 32 0.65
19 12 0.24
20 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.27, T:0.15
Consensus pattern (17 bp):
AAAAGAGATTGAGAATG
Found at i:94322893 original size:37 final size:37
Alignment explanation
Indices: 94322783--94322897 Score: 101
Period size: 37 Copynumber: 3.1 Consensus size: 37
94322773 ATGAATGAAA
* *
94322783 AAAATTGAAAAAGAAAAAGAGAGTGAGAGAAAGCAAAACG
1 AAAATTGAAAATG-AAAAGAGAATGAGAGAAAG-AAAA-G
* * * * *
94322823 -AGATTGAGATTGAAAA-AGAATGTGAGAATGAAAAG
1 AAAATTGAAAATGAAAAGAGAATGAGAGAAAGAAAAG
*
94322858 AAAATTGAAAATGAGAAAGAGATTG-GAGAAAGAAAAG
1 AAAATTGAAAATGA-AAAGAGAATGAGAGAAAGAAAAG
94322895 AAA
1 AAA
94322898 GAGAGCAAGA
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
35 1 0.02
36 14 0.23
37 28 0.47
38 9 0.15
39 8 0.13
ACGTcount: A:0.59, C:0.02, G:0.26, T:0.13
Consensus pattern (37 bp):
AAAATTGAAAATGAAAAGAGAATGAGAGAAAGAAAAG
Found at i:94327495 original size:27 final size:26
Alignment explanation
Indices: 94327465--94327540 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 26
94327455 AACTTCCAAA
94327465 AAATTATTACGGTGTAGGAATTGGAGG
1 AAATT-TTACGGTGTAGGAATTGGAGG
*
94327492 AAATTCGTACGGTGTAGGAATTGGAGG
1 AAATT-TTACGGTGTAGGAATTGGAGG
94327519 AAATTTGTACGGTGTAGGAATT
1 AAATTT-TACGGTGTAGGAATT
94327541 TCCAAATGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.32, C:0.05, G:0.33, T:0.30
Consensus pattern (26 bp):
AAATTTTACGGTGTAGGAATTGGAGG
Found at i:94330505 original size:18 final size:18
Alignment explanation
Indices: 94330486--94330535 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
94330476 TAAATGATAT
94330486 TTTTATTAA-TAATAATA
1 TTTTATTAAGTAATAATA
* *
94330503 TTTTAATAAGTACTAATA
1 TTTTATTAAGTAATAATA
*
94330521 TTTTATTAATTAATA
1 TTTTATTAAGTAATA
94330536 TTATAATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTTATTAAGTAATAATA
Found at i:94344251 original size:42 final size:44
Alignment explanation
Indices: 94344193--94344320 Score: 138
Period size: 44 Copynumber: 3.0 Consensus size: 44
94344183 TAATTAAACA
* *
94344193 TCGATGCCACTGTCCCAGATAGGGTCTTACACG-AAA-CCGAA-
1 TCGATGCCAATGTCCCAGATAGGGTCTTACACGTAAAGCAGAAG
* *
94344234 TACGATGCCAATGTCCCAGACATGGTCTTACACGTAAAGCAGAAG
1 T-CGATGCCAATGTCCCAGATAGGGTCTTACACGTAAAGCAGAAG
* * * *
94344279 TTGATGCCAACGTCTCAGAT-GTGGTCTTACACGTAAAACAGA
1 TCGATGCCAATGTCCCAGATAG-GGTCTTACACGTAAAGCAGA
94344321 TATCGAAAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 29 0.40
43 3 0.04
44 38 0.53
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (44 bp):
TCGATGCCAATGTCCCAGATAGGGTCTTACACGTAAAGCAGAAG
Found at i:94352921 original size:29 final size:29
Alignment explanation
Indices: 94352851--94352910 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
94352841 ACCATGAGAA
*
94352851 ACATTGCCACTCAGTCTCGAATTTTGCAC
1 ACATTGCCACTCGGTCTCGAATTTTGCAC
94352880 ACATTGCCACTCGGTCTCGAATTTTGCAC
1 ACATTGCCACTCGGTCTCGAATTTTGCAC
94352909 AC
1 AC
94352911 TTTCTTACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (29 bp):
ACATTGCCACTCGGTCTCGAATTTTGCAC
Found at i:94354128 original size:28 final size:29
Alignment explanation
Indices: 94354055--94354142 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
94354045 AGCATGGCTG
* * *
94354055 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGACATAGCCA
* *
94354082 CCAGATACAGATATTTTGTGGCA-ATGCCA
1 CCAGATACAGATAATTTGTGACATA-GCCA
94354111 CCAGA-ACAGATAATTTGTGACATAGCCA
1 CCAGATACAGATAATTTGTGACATAGCCA
94354139 CCAG
1 CCAG
94354143 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 11 0.22
28 25 0.49
29 15 0.29
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGACATAGCCA
Done.