Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 21 of 52
Found at i:3256430 original size:32 final size:33
Alignment explanation
Indices: 3256370--3256435 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
3256360 TTCAACGATT
3256370 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
3256403 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
3256435 T
1 T
3256436 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3256494 original size:13 final size:13
Alignment explanation
Indices: 3256476--3256500 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3256466 ATTATTCAAA
3256476 TGTATCGATACAT
1 TGTATCGATACAT
3256489 TGTATCGATACA
1 TGTATCGATACA
3256501 CTGATCTTTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3256546 original size:52 final size:53
Alignment explanation
Indices: 3256489--3256637 Score: 196
Period size: 52 Copynumber: 2.9 Consensus size: 53
3256479 ATCGATACAT
***
3256489 TGTATCGATACACTGAT-CTTTATATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATAAAATATATCGATACATGCAGGCAAATTTGCCCAGA
* *
3256541 TGTATCGATACA-TTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATAAAATATATCGATACATGCAGGCAAATTTGCCCAGA
* * * *
3256593 TGTATCGATACACT-ATTAAATGTATCAATACATGCAGGAAAATTT
1 TGTATCGATACACTGATAAAATATATCGATACATGCAGGCAAATTT
3256638 TCATATTTCG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 3 0.03
52 83 0.95
53 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (53 bp):
TGTATCGATACACTGATAAAATATATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:3267175 original size:13 final size:13
Alignment explanation
Indices: 3267157--3267182 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3267147 CATATCCAGA
3267157 TGTATCGATACAT
1 TGTATCGATACAT
3267170 TGTATCGATACAT
1 TGTATCGATACAT
3267183 GTTCATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3267191 original size:19 final size:19
Alignment explanation
Indices: 3267167--3267222 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
3267157 TGTATCGATA
3267167 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
*
3267186 CATTGTATCGATACATACTT
1 CATTGTATCGATACAT-GTT
* *
3267206 AATTGTATCAATACATG
1 CATTGTATCGATACATG
3267223 AAACTGGCGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:3267212 original size:20 final size:19
Alignment explanation
Indices: 3267168--3267221 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
3267158 GTATCGATAC
* *
3267168 ATTGTATCGATACATGTTC
1 ATTGTATCGATACATCTTA
3267187 ATTGTATCGATACATACTTA
1 ATTGTATCGATACAT-CTTA
*
3267207 ATTGTATCAATACAT
1 ATTGTATCGATACAT
3267222 GAAACTGGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (19 bp):
ATTGTATCGATACATCTTA
Found at i:3269111 original size:24 final size:24
Alignment explanation
Indices: 3269079--3269132 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
3269069 ATCTGACATT
3269079 GAAGAAGAAGAATTTAAATAAGCC
1 GAAGAAGAAGAATTTAAATAAGCC
3269103 GAAGAAGAAGAATTTAAATAAGCC
1 GAAGAAGAAGAATTTAAATAAGCC
*
3269127 AAAGAA
1 GAAGAA
3269133 AAAGGCTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.57, C:0.07, G:0.20, T:0.15
Consensus pattern (24 bp):
GAAGAAGAAGAATTTAAATAAGCC
Found at i:3277288 original size:21 final size:19
Alignment explanation
Indices: 3277264--3277317 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 19
3277254 TTTCAACAAT
3277264 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAA-AGT-A
* *
3277285 TTGTATCGATACATAAGTG
1 TTGTATCGATACAAAAGTA
3277304 TTGTATCGATACAA
1 TTGTATCGATACAA
3277318 TGGATCGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACAAAAGTA
Found at i:3277309 original size:19 final size:19
Alignment explanation
Indices: 3277264--3277380 Score: 87
Period size: 19 Copynumber: 6.7 Consensus size: 19
3277254 TTTCAACAAT
* *
3277264 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACATA-AGT-G
3277285 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
3277304 TTGTATCGATAC--AA-TG
1 TTGTATCGATACATAAGTG
3277320 --G-ATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
3277336 GTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
* *
3277350 -TGTATCAATACATAAGTA
1 TTGTATCGATACATAAGTG
3277368 TTGTATCGATACA
1 TTGTATCGATACA
3277381 ATGTATCGCT
Statistics
Matches: 80, Mismatches: 4, Indels: 26
0.73 0.04 0.24
Matches are distributed among these distances:
13 18 0.22
14 1 0.01
15 4 0.05
16 4 0.05
17 4 0.05
18 1 0.01
19 31 0.39
20 3 0.04
21 14 0.17
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:3277330 original size:32 final size:32
Alignment explanation
Indices: 3277286--3277388 Score: 170
Period size: 32 Copynumber: 3.2 Consensus size: 32
3277276 AAACAGTAAT
3277286 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
3277318 TGGATCGATACATAAGTGGTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
3277350 TGTATCAATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
3277382 TGTATCG
1 TGTATCG
3277389 CTACGAAGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:3279710 original size:12 final size:12
Alignment explanation
Indices: 3279693--3279718 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3279683 CAGTGGCAAC
3279693 TACGAGATACAT
1 TACGAGATACAT
3279705 TACGAGATACAT
1 TACGAGATACAT
3279717 TA
1 TA
3279719 ATTCATTTGC
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:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (12 bp):
TACGAGATACAT
Found at i:3283277 original size:20 final size:20
Alignment explanation
Indices: 3283252--3283302 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
3283242 ACTAGGTTGG
*
3283252 TTGACCTTGATTCACGATGA
1 TTGACCTCGATTCACGATGA
3283272 TTGACCTCGATTCACGATGA
1 TTGACCTCGATTCACGATGA
3283292 TTGACCTCGAT
1 TTGACCTCGAT
3283303 AATTGAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (20 bp):
TTGACCTCGATTCACGATGA
Found at i:3289504 original size:20 final size:21
Alignment explanation
Indices: 3289474--3289513 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3289464 TAATAAGTAG
*
3289474 AAATCAAAAATTAAAAAATAA
1 AAATCAAAAATGAAAAAATAA
3289495 AAAT-AAAAATGAAAAAATA
1 AAATCAAAAATGAAAAAATA
3289514 TTTTGCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (21 bp):
AAATCAAAAATGAAAAAATAA
Found at i:3289623 original size:31 final size:29
Alignment explanation
Indices: 3289582--3289642 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 29
3289572 TGCATGCAAG
3289582 GCAATATAGCATGCAATCATGGGAGACACAT
1 GCAATATAGCATGCAATCATGGG-GA-ACAT
*
3289613 GCAATGTAGCATGCAATCATGGGGAACAT
1 GCAATATAGCATGCAATCATGGGGAACAT
3289642 G
1 G
3289643 AGTAAGTGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 5 0.17
30 2 0.07
31 22 0.76
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (29 bp):
GCAATATAGCATGCAATCATGGGGAACAT
Found at i:3290588 original size:110 final size:110
Alignment explanation
Indices: 3290393--3290607 Score: 378
Period size: 110 Copynumber: 2.0 Consensus size: 110
3290383 TATATATCAG
* *
3290393 CATGTATGTTCATCATGTTTTTAAGTTTATTTAATTATGTGAAGAAGGAACGTGATTTGTTAGCT
1 CATGTATGTTCATCACGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAACGTGATTTGTTAGCT
*
3290458 TGTATATGGTGTTAGTTGCATTTTTTTTATTATC-TTTTTTATTGT
66 TGTATATGGTGTTAGCTGCA-TTTTTTTATTATCATTTTTTATTGT
*
3290503 CATGTATGTTCATCACGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTGTTAGCT
1 CATGTATGTTCATCACGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAACGTGATTTGTTAGCT
3290568 TGTATATGGTGTTAGCTGCATTTTTTTATTATCATTTTTT
66 TGTATATGGTGTTAGCTGCATTTTTTTATTATCATTTTTT
3290608 GCCTCATGAT
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
109 13 0.13
110 87 0.87
ACGTcount: A:0.23, C:0.07, G:0.18, T:0.51
Consensus pattern (110 bp):
CATGTATGTTCATCACGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAACGTGATTTGTTAGCT
TGTATATGGTGTTAGCTGCATTTTTTTATTATCATTTTTTATTGT
Found at i:3298873 original size:20 final size:20
Alignment explanation
Indices: 3298848--3298920 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3298838 CAACTTTTTT
3298848 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
3298868 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
3298889 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
3298909 ATGTATCGATAC
1 ATGTATCGATAC
3298921 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:3298886 original size:41 final size:41
Alignment explanation
Indices: 3298827--3298920 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
3298817 CTGCCAAGAA
*
3298827 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
3298868 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
3298909 ATGTATCGATAC
1 ATGTATCGATAC
3298921 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:3298902 original size:21 final size:21
Alignment explanation
Indices: 3298827--3298902 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
3298817 CTGCCAAGAA
* *
3298827 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
3298848 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
3298868 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
3298889 ATGTATCGATACAT
1 ATGTATCGATACAT
3298903 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:3301899 original size:20 final size:21
Alignment explanation
Indices: 3301867--3301913 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
3301857 GGAGGTGCTG
3301867 AACATGCTGT-AAATGCATGA
1 AACATGCTGTAAAATGCATGA
3301887 AACATAGCT-TAAAATGCATGA
1 AACAT-GCTGTAAAATGCATGA
*
3301908 ATCATG
1 AACATG
3301914 GGCTGTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (21 bp):
AACATGCTGTAAAATGCATGA
Found at i:3302834 original size:35 final size:35
Alignment explanation
Indices: 3302783--3302853 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
3302773 CATGTATTGA
*
3302783 TACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TACATTTAATAATGTATCGATACATCTGGGCAAAT
*
3302818 TACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TACATTTAATAATGTATCGATACATCTGGGCAAAT
3302853 T
1 T
3302854 TGCCTGCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (35 bp):
TACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:3302899 original size:13 final size:13
Alignment explanation
Indices: 3302881--3302905 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3302871 CAAAGATCAG
3302881 TGTATCGATACAA
1 TGTATCGATACAA
3302894 TGTATCGATACA
1 TGTATCGATACA
3302906 TTTGAGTAAT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3302986 original size:13 final size:13
Alignment explanation
Indices: 3302968--3302992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3302958 CAAAAAAATA
3302968 TGTATCGATACAT
1 TGTATCGATACAT
3302981 TGTATCGATACA
1 TGTATCGATACA
3302993 ACACTTTATT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3303618 original size:52 final size:52
Alignment explanation
Indices: 3303560--3303672 Score: 145
Period size: 52 Copynumber: 2.2 Consensus size: 52
3303550 TGTCACACTA
* *
3303560 GACTTAAAGTTGACAAAGACCCCAATATGCTAATTCAAGGCCAACGATATTG
1 GACTTAAAGATGACAAAGACCCCAACATGCTAATTCAAGGCCAACGATATTG
*** * * * *
3303612 GACTTAAAGATGACAAAGGTGCCAGCATGCTGATTCAAGGCTAGCGATATTG
1 GACTTAAAGATGACAAAGACCCCAACATGCTAATTCAAGGCCAACGATATTG
3303664 GACTTAAAG
1 GACTTAAAG
3303673 GTGCCAATGT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (52 bp):
GACTTAAAGATGACAAAGACCCCAACATGCTAATTCAAGGCCAACGATATTG
Found at i:3303811 original size:32 final size:32
Alignment explanation
Indices: 3303770--3304066 Score: 402
Period size: 32 Copynumber: 9.2 Consensus size: 32
3303760 AATATTGGAC
3303770 TTAG-AAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
* *
3303801 TTAGAGAGGGTTGCCACTGACTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
*
3303833 TTAGAAAAGGGTTGCCATCGACTTGTGTGGGCT
1 TTAG-AAAGGGTTGCCACCGACTTGTGTGGGCT
*
3303866 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
* *
3303898 TTGGAGAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
*
3303930 TTAGAAAAGGGTTGCCACCAACTTGTGTGGGCT
1 TTAG-AAAGGGTTGCCACCGACTTGTGTGGGCT
* *
3303963 TTA-AAGAGGGTTGCCACCAACTTGTATGGGCT
1 TTAGAA-AGGGTTGCCACCGACTTGTGTGGGCT
* *
3303995 TTGGAAAAGGGTTGCCACCGATTTGTGTGGGCT
1 TTAG-AAAGGGTTGCCACCGACTTGTGTGGGCT
* * *
3304028 TTAGAAAAAGGTTGCCACCAACTTGTGTGGCCT
1 TTAG-AAAGGGTTGCCACCGACTTGTGTGGGCT
3304061 TT-GAAA
1 TTAGAAA
3304067 AAGGAAAAGG
Statistics
Matches: 239, Mismatches: 21, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
31 9 0.04
32 117 0.49
33 111 0.46
34 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (32 bp):
TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
Found at i:3303878 original size:65 final size:66
Alignment explanation
Indices: 3303774--3304067 Score: 418
Period size: 65 Copynumber: 4.5 Consensus size: 66
3303764 TTGGACTTAG
* *
3303774 AAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAGGGTTGCCACTGACTTGTGTGGGCTTTAGA
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
3303838 A
66 A
* * *
3303839 AAGGGTTGCCATCGACTTGTGTGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTT-GG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
3303902 A
66 A
* *
3303903 GAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCAACTTGTGTGGGCTTTA-A
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
3303967 A
66 A
* * * * *
3303968 GAGGGTTGCCACCAACTTGTATGGGCTTTGGAAAAGGGTTGCCACCGATTTGTGTGGGCTTTAGA
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
3304033 A
66 A
* * *
3304034 AAAGGTTGCCACCAACTTGTGTGGCCTTT-GAAAA
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAA
3304068 AGGAAAAGGT
Statistics
Matches: 209, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
64 31 0.15
65 151 0.72
66 27 0.13
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (66 bp):
AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
A
Found at i:3303941 original size:97 final size:97
Alignment explanation
Indices: 3303770--3304062 Score: 471
Period size: 97 Copynumber: 3.0 Consensus size: 97
3303760 AATATTGGAC
* *
3303770 TTAGA-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACTGACTTGTGTGGGCTT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGAGGGTTGCCACCGACTTGTGTGGGCTT
* *
3303834 TAGAAAAGGGTTGCCATCGACTTGTGTGGGCT
66 TAGAAAAGGGTTGCCACCAACTTGTGTGGGCT
3303866 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGAGGGTTGCCACCGACTTGTGTGGGCTT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGAGGGTTGCCACCGACTTGTGTGGGCTT
3303931 TAGAAAAGGGTTGCCACCAACTTGTGTGGGCT
66 TAGAAAAGGGTTGCCACCAACTTGTGTGGGCT
* * * * *
3303963 TTAAAGAGGGTTGCCACCAACTTGTATGGGCTTTGGAAAAGGGTTGCCACCGATTTGTGTGGGCT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGG-AGAGGGTTGCCACCGACTTGTGTGGGCT
* *
3304028 TTAGAAAAAGGTTGCCACCAACTTGTGTGGCCT
65 TTAGAAAAGGGTTGCCACCAACTTGTGTGGGCT
3304061 TT
1 TT
3304063 GAAAAAGGAA
Statistics
Matches: 184, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
96 5 0.03
97 120 0.65
98 59 0.32
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.29
Consensus pattern (97 bp):
TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGAGGGTTGCCACCGACTTGTGTGGGCTT
TAGAAAAGGGTTGCCACCAACTTGTGTGGGCT
Found at i:3304134 original size:68 final size:68
Alignment explanation
Indices: 3304074--3304254 Score: 247
Period size: 71 Copynumber: 2.6 Consensus size: 68
3304064 AAAAAGGAAA
** * *
3304074 AGGTGCCACGGAGTTGTGGGCTTTTTAA-AAAAAGGGTGCCACGGAGTCGTGGACTTTGAAAAGA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGAAGTCGTGGACTTTGAAAAGA
3304138 AGG
66 AGG
* * * *
3304141 AGAGTGCCATGAAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTGAAA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAGAGTGCCACGAAGTCGTGGACTTTGAAA
3304206 AGAAGG
63 AGAAGG
3304212 AGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGAGTGCCA
3304255 TGGAGTTGTG
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
67 2 0.02
68 22 0.22
69 14 0.14
70 20 0.20
71 41 0.41
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (68 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGAAGTCGTGGACTTTGAAAAGA
AGG
Found at i:3304223 original size:105 final size:102
Alignment explanation
Indices: 3304053--3304276 Score: 290
Period size: 105 Copynumber: 2.2 Consensus size: 102
3304043 CACCAACTTG
* * * *
3304053 TGTGGCCTTTGAAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTTTAAAAAAAGGGTGCCACGG
1 TGTGGGCTTT-AAAAGGGAAAAGGTGCCACGAAGTTGTGGGCTTTTGAAAAAAAGGGTGCCACGG
* **
3304118 AGTCGTGGACTTTGAAAAGAAGGAGAGTGCCATGAAGT
65 AGTCGTGGACTTTAAAAAGAAAAAGAGTGCCATGAAGT
*
3304156 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGC-TTTGAAAAGAAGGAGGTGCCA
1 TGTGGGCTTTAAAAGGG-AAAAG-GTGCCACGAAGTTGTGGGCTTTTGAAAA-AAAG-GGTGCCA
* * *
3304220 CGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCATGGAGT
62 CGGAGTCGTGGACTTTAAAAAGAAAAAGAGTGCCATGAAGT
3304261 TGTGGGC-TTAAAAGGG
1 TGTGGGCTTTAAAAGGG
3304277 TGCCACGAAG
Statistics
Matches: 106, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
102 6 0.06
103 21 0.20
104 30 0.28
105 49 0.46
ACGTcount: A:0.32, C:0.11, G:0.35, T:0.22
Consensus pattern (102 bp):
TGTGGGCTTTAAAAGGGAAAAGGTGCCACGAAGTTGTGGGCTTTTGAAAAAAAGGGTGCCACGGA
GTCGTGGACTTTAAAAAGAAAAAGAGTGCCATGAAGT
Found at i:3304260 original size:35 final size:35
Alignment explanation
Indices: 3304053--3304392 Score: 256
Period size: 34 Copynumber: 10.3 Consensus size: 35
3304043 CACCAACTTG
* *
3304053 TGTGGCCTTTGAAAAAGGAAAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAAGAAAAAGAGTGCCACGGAGT
** *
3304088 TGTGGGCTTT-TTAA-AAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
* * * ** * *
3304121 CGTGGACTTTGAAAAGAAGGAGAGTGCCATGAAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
* *
3304156 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGAAGT
1 TGTGGGCTTTAAAA-AGAAAAAGAGTGCCACGGAGT
* **
3304192 TGTGGGCTTTGAAAAGAAGGAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
*
3304226 TGTGGGCTTTAAAAAGAAAAAGAGTGCCATGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
*
3304261 TGTGGGC-TT-AAAAG-----G-GTGCCACGAAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
* * *
3304288 TGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
* *
3304322 TGTGGGC-TT------AAAATG-GTGCCACAGAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
* * * *
3304349 TATGGACTTT-GAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
3304383 TGTGGGCTTT
1 TGTGGGCTTT
3304393 GAGACAAACC
Statistics
Matches: 242, Mismatches: 44, Indels: 39
0.74 0.14 0.12
Matches are distributed among these distances:
27 34 0.14
28 11 0.05
32 5 0.02
33 33 0.14
34 72 0.30
35 57 0.24
36 30 0.12
ACGTcount: A:0.31, C:0.12, G:0.35, T:0.22
Consensus pattern (35 bp):
TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
Found at i:3304321 original size:61 final size:61
Alignment explanation
Indices: 3304213--3304391 Score: 261
Period size: 61 Copynumber: 2.9 Consensus size: 61
3304203 AAAAGAAGGA
* * * * *
3304213 GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCATGGAGTTGTGGGCTTAAAAG
1 GGTGCCACGAAGTTGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
*
3304275 GGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAT
1 GGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
* *
3304336 GGTGCCAC-AGAGTTATGGACTTTGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 GGTGCCACGA-AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
3304392 TGAGACAAAC
Statistics
Matches: 108, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
60 1 0.01
61 89 0.82
62 18 0.17
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.22
Consensus pattern (61 bp):
GGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
Found at i:3304423 original size:30 final size:29
Alignment explanation
Indices: 3304372--3304615 Score: 186
Period size: 30 Copynumber: 7.9 Consensus size: 29
3304362 GGAAAAAGAG
* * * *
3304372 TGCCACGGAGTTGTGGGCTTTGAGACAAAC
1 TGCCACTGAGTCGTGGACTTTGAGA-AAAA
*
3304402 CGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAA--A
3304434 TGCCACTGAGTCGTGGACTTTG-GAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAA-A-A
* ** *
3304464 TGCCACTGAATTATGGACTTTTAGGACAAAA
1 TGCCACTGAGTCGTGGACTTTGA-GA-AAAA
*
3304495 TGCCACTGAGTCGTGGGCTTTGAGAAGAAAAA
1 TGCCACTGAGTCGTGGACTTT--G-AGAAAAA
*
3304527 GGTGCCACGGAGTCGTGGACTTT-AGGACAAAA
1 --TGCCACTGAGTCGTGGACTTTGA-GA-AAAA
* * *
3304559 TGCCACTGAATCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAA-A-AA
*
3304590 TGCCACTGAGTCGTGGACTTTAAGAA
1 TGCCACTGAGTCGTGGACTTTGAGAA
3304616 GGTATTTGAA
Statistics
Matches: 173, Mismatches: 24, Indels: 33
0.75 0.10 0.14
Matches are distributed among these distances:
29 1 0.01
30 67 0.39
31 49 0.28
32 32 0.18
33 4 0.02
34 20 0.12
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (29 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAA
Found at i:3304562 original size:95 final size:94
Alignment explanation
Indices: 3304389--3304616 Score: 268
Period size: 95 Copynumber: 2.4 Consensus size: 94
3304379 GAGTTGTGGG
** *
3304389 CTTTGAG-ACAAACCGCCACTGAGTCGTGGACTTT-GAAGAAAAGGATGCCACTGAGTCGTGGAC
1 CTTTGAGAACAAAATGCCACTGAGTCGTGGACTTTAGAAGAAAAGGATGCCACGGAGTCGTGGAC
*
3304452 TTTGGAAAGAGATGCCACTGAATTATGGA
66 TTTGGAAAGAGATGCCACTGAATCATGGA
* * *
3304481 CTTTTAGGACAAAATGCCACTGAGTCGTGGGCTTTGAGAAGAAAAAGG-TGCCACGGAGTCGTGG
1 CTTTGAGAACAAAATGCCACTGAGTCGTGGACTTT-AGAAG-AAAAGGATGCCACGGAGTCGTGG
* *
3304545 ACTTTAGGACAA-A-ATGCCACTGAATCGTGGG
64 ACTTT-GGA-AAGAGATGCCACTGAATCATGGA
* * *
3304576 CTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTAAGAAG
1 CTTTGAGAACAAAATGCCACTGAGTCGTGGACTTT-AGAAG
3304617 GTATTTGAAG
Statistics
Matches: 115, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
92 6 0.05
93 24 0.21
95 73 0.63
96 10 0.09
97 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (94 bp):
CTTTGAGAACAAAATGCCACTGAGTCGTGGACTTTAGAAGAAAAGGATGCCACGGAGTCGTGGAC
TTTGGAAAGAGATGCCACTGAATCATGGA
Found at i:3304573 original size:64 final size:61
Alignment explanation
Indices: 3304384--3304611 Score: 212
Period size: 61 Copynumber: 3.7 Consensus size: 61
3304374 CCACGGAGTT
* ** * * *
3304384 GTGGGCTTTGAG-ACAAACCGCCACTGAGTCGTGGACTTTGAAGA-AAAGGATGCCACTGAGTC
1 GTGGGCTTTGAGAAGAAAGTGCCACGGAGTCGTGGACTTT-AGGACAAA--ATGCCACTGAATC
* * * * ** *
3304446 GTGGACTTTG-GAA-AGAGATGCCACTGAATTATGGACTTTTAGGACAAAATGCCACTGAGTC
1 GTGGGCTTTGAGAAGAAAG-TGCCACGGAGTCGTGGAC-TTTAGGACAAAATGCCACTGAATC
3304507 GTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTCGTGGACTTTAGGACAAAATGCCACTGAATC
1 GTGGGCTTTGAGAAG--AAA-GTGCCACGGAGTCGTGGACTTTAGGACAAAATGCCACTGAATC
* * *
3304571 GTGGGCTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTA
1 GTGGGCTTTGAGAAGAAAGTGCCACGGAGTCGTGGACTTTA
3304612 AGAAGGTATT
Statistics
Matches: 139, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
61 46 0.33
62 32 0.23
63 6 0.04
64 38 0.27
65 16 0.12
66 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (61 bp):
GTGGGCTTTGAGAAGAAAGTGCCACGGAGTCGTGGACTTTAGGACAAAATGCCACTGAATC
Found at i:3304616 original size:31 final size:30
Alignment explanation
Indices: 3304403--3304616 Score: 164
Period size: 31 Copynumber: 6.9 Consensus size: 30
3304393 GAGACAAACC
*
3304403 GCCACTGAGTCGTGGACTTTGAAGAAAAGGAT
1 GCCACTGAGTCGTGGACTTT-AAGAAGA-GAT
*
3304435 GCCACTGAGTCGTGGACTTT-GGAAAGAGAT
1 GCCACTGAGTCGTGGACTTTAAG-AAGAGAT
* ** * *
3304465 GCCACTGAATTATGGACTTTTAGGACA-AAAT
1 GCCACTGAGTCGTGGAC-TTTAAGA-AGAGAT
* * *
3304496 GCCACTGAGTCGTGGGCTTTGAGAAGAAAAAGGT
1 GCCACTGAGTCGTGGACTTT---AAG-AAGAGAT
* * *
3304530 GCCACGGAGTCGTGGACTTTAGGACA-AAAT
1 GCCACTGAGTCGTGGACTTTAAGA-AGAGAT
* * *
3304560 GCCACTGAATCGTGGGCTTTGAGAAGAGATT
1 GCCACTGAGTCGTGGACTTTAAGAAGAGA-T
3304591 GCCACTGAGTCGTGGACTTTAAGAAG
1 GCCACTGAGTCGTGGACTTTAAGAAG
3304617 GTATTTGAAG
Statistics
Matches: 143, Mismatches: 27, Indels: 25
0.73 0.14 0.13
Matches are distributed among these distances:
29 1 0.01
30 45 0.31
31 50 0.35
32 23 0.16
33 3 0.02
34 21 0.15
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (30 bp):
GCCACTGAGTCGTGGACTTTAAGAAGAGAT
Found at i:3304746 original size:16 final size:17
Alignment explanation
Indices: 3304715--3304752 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
3304705 GATGCAAATA
* *
3304715 ATGATGTTATTGATGTT
1 ATGATGTCATTGATGTC
3304732 ATGATGTCA-TGATGTC
1 ATGATGTCATTGATGTC
3304748 ATGAT
1 ATGAT
3304753 TACAGCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (17 bp):
ATGATGTCATTGATGTC
Found at i:3312006 original size:35 final size:35
Alignment explanation
Indices: 3311955--3312025 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
3311945 CATGTATCGA
*
3311955 TACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TACATTTAATAATGTATCGATACATCTGGGCAAAT
*
3311990 TACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TACATTTAATAATGTATCGATACATCTGGGCAAAT
3312025 T
1 T
3312026 TGCCTGCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (35 bp):
TACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:3312158 original size:13 final size:13
Alignment explanation
Indices: 3312140--3312164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3312130 CAAAAAAATA
3312140 TGTATCGATACAT
1 TGTATCGATACAT
3312153 TGTATCGATACA
1 TGTATCGATACA
3312165 ACACTTTATT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3312790 original size:52 final size:52
Alignment explanation
Indices: 3312732--3312844 Score: 163
Period size: 52 Copynumber: 2.2 Consensus size: 52
3312722 TGTCACACTA
*
3312732 GACTTAAAGTTGACAAAGACCCCAATATGCTAATTCAAGGCCAACGATATTG
1 GACTTAAAGATGACAAAGACCCCAATATGCTAATTCAAGGCCAACGATATTG
*** * * *
3312784 GACTTAAAGATGACAAAGGTGCCAGTATGCTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGATGACAAAGACCCCAATATGCTAATTCAAGGCCAACGATATTG
3312836 GACTTAAAG
1 GACTTAAAG
3312845 GTGCCAATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (52 bp):
GACTTAAAGATGACAAAGACCCCAATATGCTAATTCAAGGCCAACGATATTG
Found at i:3312859 original size:43 final size:43
Alignment explanation
Indices: 3312798--3312879 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
3312788 TAAAGATGAC
* *
3312798 AAAGGTGCCAGTATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
*
3312841 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
3312880 GCAACATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
Found at i:3312983 original size:32 final size:32
Alignment explanation
Indices: 3312942--3313238 Score: 393
Period size: 32 Copynumber: 9.2 Consensus size: 32
3312932 AATATTGGAC
3312942 TTAG-AAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
* *
3312973 TTAGAGAGGGTTGCCACTGACTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
*
3313005 TTAGAAAAGGGTTGCCATCGACTTGTGTGGGCT
1 TTAG-AAAGGGTTGCCACCGACTTGTGTGGGCT
* *
3313038 TTAGAGAGGGTTGCCACCGATTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
* *
3313070 TTGGAGAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
*
3313102 TTAGAAAAGGGTTGCCACCAACTTGTGTGGGCT
1 TTAG-AAAGGGTTGCCACCGACTTGTGTGGGCT
* *
3313135 TTA-AAGTGGGTTGCCACCAACTTGTGTGGGCT
1 TTAGAA-AGGGTTGCCACCGACTTGTGTGGGCT
* *
3313167 TTGGAAAAGGGTTGCCACCGATTTGTGTGGGCT
1 TTAG-AAAGGGTTGCCACCGACTTGTGTGGGCT
* * *
3313200 TTAGAAAAAGGTTGCCACCAACTTGTGTGGCCT
1 TTAG-AAAGGGTTGCCACCGACTTGTGTGGGCT
3313233 TT-GAAA
1 TTAGAAA
3313239 AAGGAAAAGG
Statistics
Matches: 237, Mismatches: 23, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
31 9 0.04
32 115 0.49
33 111 0.47
34 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.30
Consensus pattern (32 bp):
TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
Found at i:3313050 original size:65 final size:66
Alignment explanation
Indices: 3312946--3313239 Score: 409
Period size: 65 Copynumber: 4.5 Consensus size: 66
3312936 TTGGACTTAG
* *
3312946 AAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAGGGTTGCCACTGACTTGTGTGGGCTTTAGA
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
3313010 A
66 A
* * * *
3313011 AAGGGTTGCCATCGACTTGTGTGGGCTTTAG-AGAGGGTTGCCACCGATTTGTGTGGGCTTT-GG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
3313074 A
66 A
* *
3313075 GAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCAACTTGTGTGGGCTTTA-A
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
3313139 A
66 A
** * * *
3313140 GTGGGTTGCCACCAACTTGTGTGGGCTTTGGAAAAGGGTTGCCACCGATTTGTGTGGGCTTTAGA
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
3313205 A
66 A
* * *
3313206 AAAGGTTGCCACCAACTTGTGTGGCCTTT-GAAAA
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAA
3313240 AGGAAAAGGT
Statistics
Matches: 207, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
64 31 0.15
65 149 0.72
66 27 0.13
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (66 bp):
AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
A
Found at i:3313113 original size:97 final size:97
Alignment explanation
Indices: 3312942--3313234 Score: 462
Period size: 97 Copynumber: 3.0 Consensus size: 97
3312932 AATATTGGAC
* *
3312942 TTAGA-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACTGACTTGTGTGGGCTT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGAGGGTTGCCACCGACTTGTGTGGGCTT
* *
3313006 TAGAAAAGGGTTGCCATCGACTTGTGTGGGCT
66 TAGAAAAGGGTTGCCACCAACTTGTGTGGGCT
*
3313038 TTAGAGAGGGTTGCCACCGATTTGTGTGGGCTTTGGAGAGGGTTGCCACCGACTTGTGTGGGCTT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGAGGGTTGCCACCGACTTGTGTGGGCTT
3313103 TAGAAAAGGGTTGCCACCAACTTGTGTGGGCT
66 TAGAAAAGGGTTGCCACCAACTTGTGTGGGCT
* * * * *
3313135 TTAAAGTGGGTTGCCACCAACTTGTGTGGGCTTTGGAAAAGGGTTGCCACCGATTTGTGTGGGCT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGG-AGAGGGTTGCCACCGACTTGTGTGGGCT
* *
3313200 TTAGAAAAAGGTTGCCACCAACTTGTGTGGCCT
65 TTAGAAAAGGGTTGCCACCAACTTGTGTGGGCT
3313233 TT
1 TT
3313235 GAAAAAGGAA
Statistics
Matches: 182, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
96 5 0.03
97 118 0.65
98 59 0.32
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (97 bp):
TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGAGGGTTGCCACCGACTTGTGTGGGCTT
TAGAAAAGGGTTGCCACCAACTTGTGTGGGCT
Found at i:3313306 original size:68 final size:68
Alignment explanation
Indices: 3313246--3313426 Score: 229
Period size: 71 Copynumber: 2.6 Consensus size: 68
3313236 AAAAAGGAAA
* ** * **
3313246 AGGTGCCACGGAGTTGTAGGCTTTTTAA-AAAAAGGGTGCCACGGAGTCGTGGACTTTGAAAAGA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACAAAGTCGTGGACTTTGAAAAGA
3313310 AGG
66 AGG
* * * *
3313313 AGAGTGCCATGAAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTGAAA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAGAGTGCCACAAAGTCGTGGACTTTGAAA
3313378 AGAAGG
63 AGAAGG
3313384 AGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGAGTGCCA
3313427 TGGAGTTGTG
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
67 2 0.02
68 21 0.22
69 14 0.14
70 20 0.21
71 40 0.41
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (68 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACAAAGTCGTGGACTTTGAAAAGA
AGG
Found at i:3313393 original size:105 final size:102
Alignment explanation
Indices: 3313225--3313448 Score: 272
Period size: 105 Copynumber: 2.2 Consensus size: 102
3313215 CACCAACTTG
* * ** *
3313225 TGTGGCCTTTGAAAAAGGAAAAGGTGCCACGGAGTTGTAGGCTTTTTAAAAAAAGGGTGCCACGG
1 TGTGGGCTTT-AAAAGGGAAAAGGTGCCACAAAGTTGTAGGCTTTTGAAAAAAAGGGTGCCACGG
* **
3313290 AGTCGTGGACTTTGAAAAGAAGGAGAGTGCCATGAAGT
65 AGTCGTGGACTTTAAAAAGAAAAAGAGTGCCATGAAGT
* *
3313328 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGC-TTTGAAAAGAAGGAGGTGCCA
1 TGTGGGCTTTAAAAGGG-AAAAG-GTGCCACAAAGTTGTAGGCTTTTGAAAA-AAAG-GGTGCCA
* * *
3313392 CGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCATGGAGT
62 CGGAGTCGTGGACTTTAAAAAGAAAAAGAGTGCCATGAAGT
3313433 TGTGGGC-TTAAAAGGG
1 TGTGGGCTTTAAAAGGG
3313449 TGCCACGAAG
Statistics
Matches: 104, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
102 6 0.06
103 21 0.20
104 28 0.27
105 49 0.47
ACGTcount: A:0.33, C:0.11, G:0.34, T:0.22
Consensus pattern (102 bp):
TGTGGGCTTTAAAAGGGAAAAGGTGCCACAAAGTTGTAGGCTTTTGAAAAAAAGGGTGCCACGGA
GTCGTGGACTTTAAAAAGAAAAAGAGTGCCATGAAGT
Found at i:3313432 original size:35 final size:35
Alignment explanation
Indices: 3313225--3313564 Score: 238
Period size: 34 Copynumber: 10.3 Consensus size: 35
3313215 CACCAACTTG
* *
3313225 TGTGGCCTTTGAAAAAGGAAAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAAGAAAAAGAGTGCCACGGAGT
* ** *
3313260 TGTAGGCTTT-TTAA-AAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
* * * ** * *
3313293 CGTGGACTTTGAAAAGAAGGAGAGTGCCATGAAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
* **
3313328 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTTAAAA-AGAAAAAGAGTGCCACGGAGT
* **
3313364 TGTGGGCTTTGAAAAGAAGGAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
*
3313398 TGTGGGCTTTAAAAAGAAAAAGAGTGCCATGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
*
3313433 TGTGGGC-TT-AAAAG-----G-GTGCCACGAAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
* * *
3313460 TGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
* *
3313494 TGTGGGC-TT------AAAATG-GTGCCACAGAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
* * * *
3313521 TATGGACTTT-GAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
3313555 TGTGGGCTTT
1 TGTGGGCTTT
3313565 GAGACAAACC
Statistics
Matches: 238, Mismatches: 48, Indels: 39
0.73 0.15 0.12
Matches are distributed among these distances:
27 34 0.14
28 11 0.05
32 5 0.02
33 32 0.13
34 71 0.30
35 56 0.24
36 29 0.12
ACGTcount: A:0.31, C:0.12, G:0.34, T:0.22
Consensus pattern (35 bp):
TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
Found at i:3313493 original size:61 final size:61
Alignment explanation
Indices: 3313385--3313563 Score: 261
Period size: 61 Copynumber: 2.9 Consensus size: 61
3313375 AAAAGAAGGA
* * * * *
3313385 GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCATGGAGTTGTGGGCTTAAAAG
1 GGTGCCACGAAGTTGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
*
3313447 GGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAT
1 GGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
* *
3313508 GGTGCCAC-AGAGTTATGGACTTTGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 GGTGCCACGA-AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
3313564 TGAGACAAAC
Statistics
Matches: 108, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
60 1 0.01
61 89 0.82
62 18 0.17
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.22
Consensus pattern (61 bp):
GGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
Found at i:3313595 original size:30 final size:29
Alignment explanation
Indices: 3313544--3313787 Score: 186
Period size: 30 Copynumber: 7.9 Consensus size: 29
3313534 GGAAAAAGAG
* * * *
3313544 TGCCACGGAGTTGTGGGCTTTGAGACAAAC
1 TGCCACTGAGTCGTGGACTTTGAGA-AAAA
*
3313574 CGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAA--A
3313606 TGCCACTGAGTCGTGGACTTTG-GAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAA-A-A
* ** *
3313636 TGCCACTGAATTATGGACTTTTAGGACAAAA
1 TGCCACTGAGTCGTGGACTTTGA-GA-AAAA
*
3313667 TGCCACTGAGTCGTGGGCTTTGAGAAGAAAAA
1 TGCCACTGAGTCGTGGACTTT--G-AGAAAAA
*
3313699 GGTGCCACGGAGTCGTGGACTTT-AGGACAAAA
1 --TGCCACTGAGTCGTGGACTTTGA-GA-AAAA
* * *
3313731 TGCCACTGAATCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAA-A-AA
*
3313762 TGCCACTGAGTCGTGGACTTTAAGAA
1 TGCCACTGAGTCGTGGACTTTGAGAA
3313788 GGTATTTGAA
Statistics
Matches: 173, Mismatches: 24, Indels: 33
0.75 0.10 0.14
Matches are distributed among these distances:
29 1 0.01
30 67 0.39
31 49 0.28
32 32 0.18
33 4 0.02
34 20 0.12
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (29 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAA
Found at i:3313734 original size:95 final size:94
Alignment explanation
Indices: 3313561--3313788 Score: 268
Period size: 95 Copynumber: 2.4 Consensus size: 94
3313551 GAGTTGTGGG
** *
3313561 CTTTGAG-ACAAACCGCCACTGAGTCGTGGACTTT-GAAGAAAAGGATGCCACTGAGTCGTGGAC
1 CTTTGAGAACAAAATGCCACTGAGTCGTGGACTTTAGAAGAAAAGGATGCCACGGAGTCGTGGAC
*
3313624 TTTGGAAAGAGATGCCACTGAATTATGGA
66 TTTGGAAAGAGATGCCACTGAATCATGGA
* * *
3313653 CTTTTAGGACAAAATGCCACTGAGTCGTGGGCTTTGAGAAGAAAAAGG-TGCCACGGAGTCGTGG
1 CTTTGAGAACAAAATGCCACTGAGTCGTGGACTTT-AGAAG-AAAAGGATGCCACGGAGTCGTGG
* *
3313717 ACTTTAGGACAA-A-ATGCCACTGAATCGTGGG
64 ACTTT-GGA-AAGAGATGCCACTGAATCATGGA
* * *
3313748 CTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTAAGAAG
1 CTTTGAGAACAAAATGCCACTGAGTCGTGGACTTT-AGAAG
3313789 GTATTTGAAG
Statistics
Matches: 115, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
92 6 0.05
93 24 0.21
95 73 0.63
96 10 0.09
97 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (94 bp):
CTTTGAGAACAAAATGCCACTGAGTCGTGGACTTTAGAAGAAAAGGATGCCACGGAGTCGTGGAC
TTTGGAAAGAGATGCCACTGAATCATGGA
Found at i:3313745 original size:64 final size:61
Alignment explanation
Indices: 3313556--3313783 Score: 212
Period size: 61 Copynumber: 3.7 Consensus size: 61
3313546 CCACGGAGTT
* ** * * *
3313556 GTGGGCTTTGAG-ACAAACCGCCACTGAGTCGTGGACTTTGAAGA-AAAGGATGCCACTGAGTC
1 GTGGGCTTTGAGAAGAAAGTGCCACGGAGTCGTGGACTTT-AGGACAAA--ATGCCACTGAATC
* * * * ** *
3313618 GTGGACTTTG-GAA-AGAGATGCCACTGAATTATGGACTTTTAGGACAAAATGCCACTGAGTC
1 GTGGGCTTTGAGAAGAAAG-TGCCACGGAGTCGTGGAC-TTTAGGACAAAATGCCACTGAATC
3313679 GTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTCGTGGACTTTAGGACAAAATGCCACTGAATC
1 GTGGGCTTTGAGAAG--AAA-GTGCCACGGAGTCGTGGACTTTAGGACAAAATGCCACTGAATC
* * *
3313743 GTGGGCTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTA
1 GTGGGCTTTGAGAAGAAAGTGCCACGGAGTCGTGGACTTTA
3313784 AGAAGGTATT
Statistics
Matches: 139, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
61 46 0.33
62 32 0.23
63 6 0.04
64 38 0.27
65 16 0.12
66 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (61 bp):
GTGGGCTTTGAGAAGAAAGTGCCACGGAGTCGTGGACTTTAGGACAAAATGCCACTGAATC
Found at i:3313788 original size:31 final size:30
Alignment explanation
Indices: 3313575--3313788 Score: 164
Period size: 31 Copynumber: 6.9 Consensus size: 30
3313565 GAGACAAACC
*
3313575 GCCACTGAGTCGTGGACTTTGAAGAAAAGGAT
1 GCCACTGAGTCGTGGACTTT-AAGAAGA-GAT
*
3313607 GCCACTGAGTCGTGGACTTT-GGAAAGAGAT
1 GCCACTGAGTCGTGGACTTTAAG-AAGAGAT
* ** * *
3313637 GCCACTGAATTATGGACTTTTAGGACA-AAAT
1 GCCACTGAGTCGTGGAC-TTTAAGA-AGAGAT
* * *
3313668 GCCACTGAGTCGTGGGCTTTGAGAAGAAAAAGGT
1 GCCACTGAGTCGTGGACTTT---AAG-AAGAGAT
* * *
3313702 GCCACGGAGTCGTGGACTTTAGGACA-AAAT
1 GCCACTGAGTCGTGGACTTTAAGA-AGAGAT
* * *
3313732 GCCACTGAATCGTGGGCTTTGAGAAGAGATT
1 GCCACTGAGTCGTGGACTTTAAGAAGAGA-T
3313763 GCCACTGAGTCGTGGACTTTAAGAAG
1 GCCACTGAGTCGTGGACTTTAAGAAG
3313789 GTATTTGAAG
Statistics
Matches: 143, Mismatches: 27, Indels: 25
0.73 0.14 0.13
Matches are distributed among these distances:
29 1 0.01
30 45 0.31
31 50 0.35
32 23 0.16
33 3 0.02
34 21 0.15
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (30 bp):
GCCACTGAGTCGTGGACTTTAAGAAGAGAT
Found at i:3313918 original size:16 final size:17
Alignment explanation
Indices: 3313887--3313924 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
3313877 GATGCAAATA
* *
3313887 ATGATGTTATTGATGTT
1 ATGATGTCATTGATGTC
3313904 ATGATGTCA-TGATGTC
1 ATGATGTCATTGATGTC
3313920 ATGAT
1 ATGAT
3313925 TACAGCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (17 bp):
ATGATGTCATTGATGTC
Found at i:3321265 original size:52 final size:52
Alignment explanation
Indices: 3321187--3321311 Score: 187
Period size: 52 Copynumber: 2.4 Consensus size: 52
3321177 CGAAATATGA
* * * **
3321187 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGACACATTTAATAATGTATCGATACATCTCAGC
* *
3321239 AAATTTGCCTGCATGTATTGACACATTTTATAATGTATCGATACATCTCAGC
1 AAATTTGCCTGCATGTATCGACACATTTAATAATGTATCGATACATCTCAGC
3321291 AAATTTGCCTGCATGTATCGA
1 AAATTTGCCTGCATGTATCGA
3321312 TACAAAGATC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGACACATTTAATAATGTATCGATACATCTCAGC
Found at i:3321328 original size:52 final size:51
Alignment explanation
Indices: 3321187--3321336 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 51
3321177 CGAAATATGA
* **
3321187 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTCAGC
* * * *
3321239 AAATTTGCCTGCATGTATTGACACATTTTATAATGTATCGATACATCTCAGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTCAGC
*
3321291 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACAT
3321337 TTGAGTAATG
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTCAGC
Found at i:3321413 original size:33 final size:33
Alignment explanation
Indices: 3321376--3321442 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
3321366 AGTAGCTTAA
3321376 ATTGTACCGATACAAAAAAATATGTATCGATAC
1 ATTGTACCGATACAAAAAAATATGTATCGATAC
* * ***
3321409 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTACCGATACAAAAAAATATGTATCGATAC
3321442 A
1 A
3321443 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (33 bp):
ATTGTACCGATACAAAAAAATATGTATCGATAC
Found at i:3321416 original size:13 final size:13
Alignment explanation
Indices: 3321398--3321422 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3321388 CAAAAAAATA
3321398 TGTATCGATACAT
1 TGTATCGATACAT
3321411 TGTATCGATACA
1 TGTATCGATACA
3321423 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3326798 original size:42 final size:43
Alignment explanation
Indices: 3326678--3326846 Score: 209
Period size: 43 Copynumber: 4.0 Consensus size: 43
3326668 TAAACTTCTG
* * *
3326678 GAGACTTT-CTTTCCCTTATTCTACCTGTCGGCTTTGA-CCTT
1 GAGACTTTCCTATCCCTTAGTCTACCTATCGGCTTTGACCCTT
* *
3326719 GGAGACTTGCCTATCCCTTAGTCTGCCTATCGGCTTTGACCCTT
1 -GAGACTTTCCTATCCCTTAGTCTACCTATCGGCTTTGACCCTT
* * *
3326763 GAGACTTTCCT-TCCCTTAGTCTACCTGTCGACTTTGACCCTA
1 GAGACTTTCCTATCCCTTAGTCTACCTATCGGCTTTGACCCTT
* * *
3326805 GAGACTTTTCTATCCCTCAGTCTGCCTATCGGCTTTGACCCT
1 GAGACTTTCCTATCCCTTAGTCTACCTATCGGCTTTGACCCT
3326847 GAAGACTGCC
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
42 44 0.40
43 61 0.56
44 4 0.04
ACGTcount: A:0.14, C:0.32, G:0.17, T:0.37
Consensus pattern (43 bp):
GAGACTTTCCTATCCCTTAGTCTACCTATCGGCTTTGACCCTT
Found at i:3326853 original size:85 final size:85
Alignment explanation
Indices: 3326678--3326846 Score: 266
Period size: 85 Copynumber: 2.0 Consensus size: 85
3326668 TAAACTTCTG
* * * * * *
3326678 GAGACTTTCTTTCCCTTATTCTACCTGTCGGCTTTGACCTTGGAGACTTGCCTATCCCTTAGTCT
1 GAGACTTTCCTTCCCTTAGTCTACCTGTCGACTTTGACCCTAGAGACTTGCCTATCCCTCAGTCT
3326743 GCCTATCGGCTTTGACCCTT
66 GCCTATCGGCTTTGACCCTT
**
3326763 GAGACTTTCCTTCCCTTAGTCTACCTGTCGACTTTGACCCTAGAGACTTTTCTATCCCTCAGTCT
1 GAGACTTTCCTTCCCTTAGTCTACCTGTCGACTTTGACCCTAGAGACTTGCCTATCCCTCAGTCT
3326828 GCCTATCGGCTTTGACCCT
66 GCCTATCGGCTTTGACCCT
3326847 GAAGACTGCC
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.14, C:0.32, G:0.17, T:0.37
Consensus pattern (85 bp):
GAGACTTTCCTTCCCTTAGTCTACCTGTCGACTTTGACCCTAGAGACTTGCCTATCCCTCAGTCT
GCCTATCGGCTTTGACCCTT
Found at i:3327510 original size:31 final size:31
Alignment explanation
Indices: 3327445--3327515 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
3327435 TTCCTTGCAT
3327445 ACAAGGCAATATAGCATGCAATCATAGGAGAC
1 ACAA-GCAATATAGCATGCAATCATAGGAGAC
* * *
3327477 ACATGCAATGTAGCATGCAATCCTAGG-GAAC
1 ACAAGCAATATAGCATGCAATCATAGGAG-AC
3327508 ACAAGCAA
1 ACAAGCAA
3327516 ATGGAACTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.03
31 30 0.88
32 3 0.09
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.15
Consensus pattern (31 bp):
ACAAGCAATATAGCATGCAATCATAGGAGAC
Found at i:3328414 original size:98 final size:98
Alignment explanation
Indices: 3328245--3328443 Score: 380
Period size: 98 Copynumber: 2.0 Consensus size: 98
3328235 TATATATAAG
*
3328245 CATGTATGTTCATCATGTTTTCAAGTTTTTTTAATTATGTGAAGAAGGAATGTGATTTGTTAACT
1 CATGTATGTTCATCATGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTGTTAACT
3328310 TGTATATGGTGTTAGTTGCATTTTTTTTATTAT
66 TGTATATGGTGTTAGTTGCATTTTTTTTATTAT
*
3328343 CATGTATGTTCATCATGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTGTTAGCT
1 CATGTATGTTCATCATGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTGTTAACT
3328408 TGTATATGGTGTTAGTTGCATTTTTTTTATTAT
66 TGTATATGGTGTTAGTTGCATTTTTTTTATTAT
3328441 CAT
1 CAT
3328444 TTTTTGCCTC
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 99 1.00
ACGTcount: A:0.25, C:0.07, G:0.19, T:0.50
Consensus pattern (98 bp):
CATGTATGTTCATCATGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTGTTAACT
TGTATATGGTGTTAGTTGCATTTTTTTTATTAT
Found at i:3329395 original size:151 final size:151
Alignment explanation
Indices: 3329118--3329398 Score: 341
Period size: 151 Copynumber: 1.9 Consensus size: 151
3329108 TGGCCACTTA
* * * *
3329118 AGTCATGCTTTCATATTCCCATGGTTTTCCGTAGGGGTATGAAAATTTTTAACACTTTTTGCATC
1 AGTCATGCTTTCATATTCCCATGGTTTTCCGTAGGAGTATGAAAAATTTTAACACCTTTCGCATC
* ** * * * *
3329183 CCCCGGTTTTTTCGTTGGGTGCGAAACGTAACTTTTGAAATTAGAAGTTTAATTTTAAAAAAAAC
66 CCCCAGTTTTTTCGTCAGGTACAAAACATAACTTTTAAAATTAGAAGTTTAATTTTAAAAAAAAC
3329248 ATGGTCAGCTATGCTCACTCG
131 ATGGTCAGCTATGCTCACTCG
* * * *
3329269 AGTCATGTTTTCATATTCCTATGGTTTTCCGTAGGAGTATGAAAAATTTTAATACCTTTCGTATC
1 AGTCATGCTTTCATATTCCCATGGTTTTCCGTAGGAGTATGAAAAATTTTAACACCTTTCGCATC
** * **
3329334 CCTTAG-TTTTTCGTCAGGTACAAAACATAA-TTTTCAAAACTTTGAAGTTATTTTTTTAAAAAA
66 CCCCAGTTTTTTCGTCAGGTACAAAACATAACTTTT-AAAA-TTAGAAGTT-TAATTTTAAAAAA
3329397 AA
128 AA
3329399 ATCAAATTTC
Statistics
Matches: 107, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
149 4 0.04
150 22 0.21
151 68 0.64
152 13 0.12
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (151 bp):
AGTCATGCTTTCATATTCCCATGGTTTTCCGTAGGAGTATGAAAAATTTTAACACCTTTCGCATC
CCCCAGTTTTTTCGTCAGGTACAAAACATAACTTTTAAAATTAGAAGTTTAATTTTAAAAAAAAC
ATGGTCAGCTATGCTCACTCG
Found at i:3331847 original size:20 final size:19
Alignment explanation
Indices: 3331822--3331895 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
3331812 TTTACCCAGA
3331822 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
* *
3331842 TGTATCTATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
3331862 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
3331882 TGTATCGATACATT
1 TGTATCGATACATT
3331896 CAAGCATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:3334335 original size:28 final size:28
Alignment explanation
Indices: 3334295--3334370 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
3334285 ATTTTTCACA
*
3334295 ATTGGGGATACTCCAGCCCCGTCATCTC
1 ATTGGGGATACTCCAACCCCGTCATCTC
* * *
3334323 ATTGGGGATACTCTAACCCCGTTATTTC
1 ATTGGGGATACTCCAACCCCGTCATCTC
*
3334351 -TGAGGGGATACTCCAACCCC
1 AT-TGGGGATACTCCAACCCC
3334371 AGCTTTATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (28 bp):
ATTGGGGATACTCCAACCCCGTCATCTC
Found at i:3334570 original size:110 final size:107
Alignment explanation
Indices: 3334248--3334560 Score: 316
Period size: 110 Copynumber: 2.9 Consensus size: 107
3334238 TTCTTAATCA
* * * *
3334248 GGGATACTCCAACTCCGATTTTATTTCTAAAATACCAATTTTTCACAATTGGGGATACTCCAGCC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTTCACAATCGGGGATACTCCAACC
* * *
3334313 CCGTCATCTCATTG--GGGATAC-TCTAACCCCGTTATTTCTGAG
66 CCGT--TTTTATTGCAGGGATACTTC-AACCCCGTTATTTCCGAG
* * * * * *
3334355 GGGATACTCCAACCCC-AGCTTTATATCCAAAATATTGATTTTTTTTCATAATC-GGGAGTACTC
1 GGGATACTCCAACCCCGA-TTTTATTTCTAAAATACT-A--ATTTTTCACAATCGGGGA-TACTC
* * * *
3334418 TAACCCCGTTATGTCA-T-CAGGGATACTCCAATCCCGTTATTTCCGAG
61 CAACCCCGTT-T-TTATTGCAGGGATACTTCAACCCCGTTATTTCCGAG
3334465 GGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTTCACAATCGGGGATACTCCAACC
* *
3334530 CCATTTTTTTTGCAGGGATACTTCAACCCCG
66 CCGTTTTTATTGCAGGGATACTTCAACCCCG
3334561 GCCTTATTTC
Statistics
Matches: 165, Mismatches: 27, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
105 1 0.01
106 3 0.02
107 69 0.42
108 6 0.04
109 6 0.04
110 78 0.47
111 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (107 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTTCACAATCGGGGATACTCCAACC
CCGTTTTTATTGCAGGGATACTTCAACCCCGTTATTTCCGAG
Found at i:3334695 original size:78 final size:78
Alignment explanation
Indices: 3334433--3334763 Score: 348
Period size: 78 Copynumber: 4.2 Consensus size: 78
3334423 CCGTTATGTC
3334433 ATCAGGGATACTCCAATCCC-GTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAA
1 ATCAGGGATACTCCAA-CCCTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTC-AAAA
3334497 TA-CTAATTTTTCACA
64 TATC-AATTTTTCACA
* * * * * *** *
3334512 ATCGGGGATACTCCAACCCCATTTTTTTTGC-A-GGGATACTTCAACCCCGGCCTTATTTCTAAA
1 ATCAGGGATACTCCAA-CCC-TGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCAAAA
3334575 TCATCAATTTTTTCACA
64 T-ATCAA-TTTTTCACA
* * *
3334592 ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTCATTTTCAAAAT
1 ATCAGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTA-TTTCAAAAT
* *
3334657 ATCGATTTTT-ATA
65 ATCAATTTTTCACA
* *** *
3334670 ATTAGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTTTGGAAC
1 ATCAGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTA-TTTCAAAAT
* *
3334735 ACCAATTTTTCATA
65 ATCAATTTTTCACA
*
3334749 ATCGGGGATACTCCA
1 ATCAGGGATACTCCA
3334764 GCCCCGTTGT
Statistics
Matches: 210, Mismatches: 33, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
78 78 0.37
79 69 0.33
80 49 0.23
81 14 0.07
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.34
Consensus pattern (78 bp):
ATCAGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCAAAATA
TCAATTTTTCACA
Found at i:3343423 original size:315 final size:314
Alignment explanation
Indices: 3342851--3343479 Score: 1222
Period size: 315 Copynumber: 2.0 Consensus size: 314
3342841 AGACTTGAAC
3342851 TTTCCTTGTTTCCCGGAATAAGGGTTGTTGGCCTAGTTTCTCCCTCTCTTTGCTATTATTTAGCA
1 TTTCCTTGTTTCCCGGAATAAGGGTTGTTGGCCTAGTTTCTCCCTCTCTTTGCTATTATTTAGCA
3342916 AGAAAAGGATGAAAGGAGGTAGCTTTTGGGTAGTATGGTTGAGAGAGGAGCTGTTTTTGGGTGAA
66 AGAAAAGGATGAAAGGAGGTAGCTTTTGGGTAGTATGGTTGAGAGAGGAGCTGTTTTTGGGTGAA
3342981 AGTGTGAGGAATATGGAGTTTTTGGAGGGTTTTTAGTGGTGGCTTTTGGAGCTACGGGAATGGAG
131 AGTGTGAGGAATATGGAGTTTTTGGAGGGTTTTTAGTGGTGGCTTTTGGAGCTACGGGAATGGAG
3343046 TTTGGAAACCAATGGAATAGTGTTTTTTTTGTGTTTTTTGGTTTTTTGTTGCTAAAAGATTTCCT
196 TTTGGAAACCAATGGAATAGTGTTTTTTTTGTGTTTTTTGGTTTTTTGTTGCTAAAAGATTTCCT
*
3343111 GAGAGTTTCTTGCTGCTGGAAAATGGTTTTTTTTTTCAGAAAAGGATCTTTTTTT
261 GAGAGTTTCTTGCTGCTAGAAAATGG-TTTTTTTTTCAGAAAAGGATCTTTTTTT
3343166 TTTCCTTGTTTCCCGGAATAAGGGTTGTTGGCCTAGTTTCTCCCTCTCTTTGCTATTATTTAGCA
1 TTTCCTTGTTTCCCGGAATAAGGGTTGTTGGCCTAGTTTCTCCCTCTCTTTGCTATTATTTAGCA
3343231 AGAAAAGGATGAAAGGAGGTAGCTTTTGGGTAGTATGGTTGAGAGAGGAGCTGTTTTTGGGTGAA
66 AGAAAAGGATGAAAGGAGGTAGCTTTTGGGTAGTATGGTTGAGAGAGGAGCTGTTTTTGGGTGAA
*
3343296 AGTGTGAGGAATATGGAGTTTTTGGAGGGTTTTTGGTGGTGGCTTTTGGAGCTACGGGAATGGAG
131 AGTGTGAGGAATATGGAGTTTTTGGAGGGTTTTTAGTGGTGGCTTTTGGAGCTACGGGAATGGAG
3343361 TTTGGAAACCAATGGAATAGTGTTTTTTTTGTGTTTTTTGGTTTTTTGTTGCTAAAAGATTTCCT
196 TTTGGAAACCAATGGAATAGTGTTTTTTTTGTGTTTTTTGGTTTTTTGTTGCTAAAAGATTTCCT
*
3343426 GAGGGTTTCTTGCTGCTAGAAAATGGTTTTTTTTTCAGAAAAGGATCTTTTTTT
261 GAGAGTTTCTTGCTGCTAGAAAATGGTTTTTTTTTCAGAAAAGGATCTTTTTTT
3343480 GCTGAGCCAA
Statistics
Matches: 311, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
314 28 0.09
315 283 0.91
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.41
Consensus pattern (314 bp):
TTTCCTTGTTTCCCGGAATAAGGGTTGTTGGCCTAGTTTCTCCCTCTCTTTGCTATTATTTAGCA
AGAAAAGGATGAAAGGAGGTAGCTTTTGGGTAGTATGGTTGAGAGAGGAGCTGTTTTTGGGTGAA
AGTGTGAGGAATATGGAGTTTTTGGAGGGTTTTTAGTGGTGGCTTTTGGAGCTACGGGAATGGAG
TTTGGAAACCAATGGAATAGTGTTTTTTTTGTGTTTTTTGGTTTTTTGTTGCTAAAAGATTTCCT
GAGAGTTTCTTGCTGCTAGAAAATGGTTTTTTTTTCAGAAAAGGATCTTTTTTT
Found at i:3343964 original size:20 final size:20
Alignment explanation
Indices: 3343919--3343973 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
3343909 TAAAATTCCC
*
3343919 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
3343939 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
*
3343959 AAATGTATTGATACA
1 AAATGTATCGATACA
3343974 TTTCCTTGGC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:3348037 original size:21 final size:21
Alignment explanation
Indices: 3348004--3348044 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3347994 CTAAGTAAAA
3348004 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
3348025 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
3348045 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:3348109 original size:20 final size:19
Alignment explanation
Indices: 3348084--3348154 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
3348074 ACCCTGAAAA
3348084 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
3348104 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
3348123 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
3348144 GTATCGATACA
1 GTATCGATACA
3348155 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:3348199 original size:54 final size:54
Alignment explanation
Indices: 3348124--3348261 Score: 260
Period size: 54 Copynumber: 2.6 Consensus size: 54
3348114 AAATTGCATA
3348124 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
3348178 GTATCGATACACACAAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
3348232 GTATCGATACACA-AAATATGTATCGATACA
1 GTATCGATACACACAAATATGTATCGATACA
3348262 TTGGAAGTAG
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
53 17 0.20
54 66 0.80
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (54 bp):
GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:3348200 original size:20 final size:20
Alignment explanation
Indices: 3348171--3348208 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3348161 TGGCAGTAGC
*
3348171 CAAATTTGTATCGATACACA
1 CAAATATGTATCGATACACA
3348191 CAAATATGTATCGATACA
1 CAAATATGTATCGATACA
3348209 GGTCATTGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (20 bp):
CAAATATGTATCGATACACA
Found at i:3348336 original size:23 final size:23
Alignment explanation
Indices: 3348295--3348352 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
3348285 TTCACTGTTC
* *
3348295 ATCACTATTAATCACTGTTCATAT
1 ATCACTATTCA-CACTGTTCACAT
* *
3348319 ATCACTGTTCACACTGTTCACGT
1 ATCACTATTCACACTGTTCACAT
3348342 ATCACTATTCA
1 ATCACTATTCA
3348353 TGTATCGTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (23 bp):
ATCACTATTCACACTGTTCACAT
Found at i:3348424 original size:13 final size:13
Alignment explanation
Indices: 3348406--3348431 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3348396 ACATATTTGT
3348406 GTGTATCGATACA
1 GTGTATCGATACA
3348419 GTGTATCGATACA
1 GTGTATCGATACA
3348432 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:3352172 original size:13 final size:13
Alignment explanation
Indices: 3352154--3352178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3352144 TTTTCCAGAT
3352154 TATATCGATACAA
1 TATATCGATACAA
3352167 TATATCGATACA
1 TATATCGATACA
3352179 TTGCTTCAGT
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TATATCGATACAA
Found at i:3353882 original size:21 final size:21
Alignment explanation
Indices: 3353849--3353889 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3353839 CTAAGTAAAA
3353849 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
3353870 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
3353890 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:3353954 original size:20 final size:19
Alignment explanation
Indices: 3353929--3353999 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
3353919 ACCCTGAAAA
3353929 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
3353949 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
3353968 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
3353989 GTATCGATACA
1 GTATCGATACA
3354000 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:3354159 original size:13 final size:13
Alignment explanation
Indices: 3354141--3354166 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3354131 ACATATTTGT
3354141 GTGTATCGATACA
1 GTGTATCGATACA
3354154 GTGTATCGATACA
1 GTGTATCGATACA
3354167 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:3357298 original size:13 final size:13
Alignment explanation
Indices: 3357280--3357305 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3357270 CAATTTTTTA
3357280 TGTATCGATACAT
1 TGTATCGATACAT
3357293 TGTATCGATACAT
1 TGTATCGATACAT
3357306 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3359179 original size:13 final size:13
Alignment explanation
Indices: 3359161--3359186 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3359151 CAATTTTTTG
3359161 TGTATCGATACAT
1 TGTATCGATACAT
3359174 TGTATCGATACAT
1 TGTATCGATACAT
3359187 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3359934 original size:21 final size:21
Alignment explanation
Indices: 3359893--3359936 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3359883 CTCCCCTTTA
* *
3359893 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
3359914 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
3359935 TC
1 TC
3359937 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:3361761 original size:13 final size:13
Alignment explanation
Indices: 3361743--3361768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3361733 ATAATCACCC
3361743 TGTATCGATACAA
1 TGTATCGATACAA
3361756 TGTATCGATACAA
1 TGTATCGATACAA
3361769 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3365719 original size:21 final size:21
Alignment explanation
Indices: 3365690--3365734 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3365680 AAGTTTTCAT
*
3365690 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
3365710 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
3365732 TTT
1 TTT
3365735 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:3376017 original size:20 final size:21
Alignment explanation
Indices: 3375992--3376044 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
3375982 TATAAGCCAA
* *
3375992 TGTATCGATACAAT-TTTTTG
1 TGTATCGATACAATACTTTGG
3376012 TGTATCGATAC-ATACTTTGG
1 TGTATCGATACAATACTTTGG
3376032 TGTATCGATACAA
1 TGTATCGATACAA
3376045 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.90
21 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACAATACTTTGG
Found at i:3376049 original size:19 final size:19
Alignment explanation
Indices: 3375992--3376050 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
3375982 TATAAGCCAA
* *
3375992 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA-CTTTGG
3376012 TGTATCGATACATACTTTGG
1 TGTATCGATACA-ACTTTGG
*
3376032 TGTATCGATACAAGTTTGG
1 TGTATCGATACAACTTTGG
3376051 CTACTGCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.17
20 28 0.80
21 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (19 bp):
TGTATCGATACAACTTTGG
Found at i:3382771 original size:175 final size:175
Alignment explanation
Indices: 3382473--3382823 Score: 675
Period size: 175 Copynumber: 2.0 Consensus size: 175
3382463 ATCGAGCACT
*
3382473 CCAAGTTAGCAACAAGGTCGACAAATGAGGGTTAGGGTTTAAATCAAACACTCATCAGTAAAGAA
1 CCAAGTCAGCAACAAGGTCGACAAATGAGGGTTAGGGTTTAAATCAAACACTCATCAGTAAAGAA
3382538 GGCAAGCTCAAAAAGCTCATGAAAAGAGAATGGCTAGGTTAATAGGATAGAATTAGGAATCAGAA
66 GGCAAGCTCAAAAAGCTCATGAAAAGAGAATGGCTAGGTTAATAGGATAGAATTAGGAATCAGAA
3382603 CCTATGGTGTTCCCACCCTTGCACAAGAGCTTCCGCTTAGGGGAA
131 CCTATGGTGTTCCCACCCTTGCACAAGAGCTTCCGCTTAGGGGAA
3382648 CCAAGTCAGCAACAAGGTCGACAAATGAGGGTTAGGGTTTAAATCAAACACTCATCAGTAAAGAA
1 CCAAGTCAGCAACAAGGTCGACAAATGAGGGTTAGGGTTTAAATCAAACACTCATCAGTAAAGAA
*
3382713 GGCAAGCTCAAAAAGCTCATGAAAAGAGAATGGCTAGGTTAATGGGATAGAATTAGGAATCAGAA
66 GGCAAGCTCAAAAAGCTCATGAAAAGAGAATGGCTAGGTTAATAGGATAGAATTAGGAATCAGAA
*
3382778 CCTATGTTGTTCCCACCCTTGCACAAGAGCTTCCGCTTAGGGGAA
131 CCTATGGTGTTCCCACCCTTGCACAAGAGCTTCCGCTTAGGGGAA
3382823 C
1 C
3382824 TCATGAATCC
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
175 173 1.00
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (175 bp):
CCAAGTCAGCAACAAGGTCGACAAATGAGGGTTAGGGTTTAAATCAAACACTCATCAGTAAAGAA
GGCAAGCTCAAAAAGCTCATGAAAAGAGAATGGCTAGGTTAATAGGATAGAATTAGGAATCAGAA
CCTATGGTGTTCCCACCCTTGCACAAGAGCTTCCGCTTAGGGGAA
Found at i:3391722 original size:19 final size:17
Alignment explanation
Indices: 3391696--3391793 Score: 86
Period size: 19 Copynumber: 5.9 Consensus size: 17
3391686 AAATTCAACG
3391696 ATTTGTATCGATACATA
1 ATTTGTATCGATACATA
3391713 AGTGTTGTATCGATAC---
1 A-T-TTGTATCGATACATA
3391729 A-TTGTATCGATACATA
1 ATTTGTATCGATACATA
3391745 ACTGTTGTATCGATAC--A
1 A-T-TTGTATCGATACATA
3391762 A--TGTATCGATACATA
1 ATTTGTATCGATACATA
3391777 AGTTTTGTATCGATACA
1 A--TTTGTATCGATACA
3391794 ATGTATCGCT
Statistics
Matches: 67, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 23 0.34
15 2 0.03
16 2 0.03
17 3 0.04
18 1 0.01
19 36 0.54
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (17 bp):
ATTTGTATCGATACATA
Found at i:3391734 original size:32 final size:32
Alignment explanation
Indices: 3391699--3391801 Score: 179
Period size: 32 Copynumber: 3.2 Consensus size: 32
3391689 TTCAACGATT
*
3391699 TGTATCGATACATAAGTGTTGTATCGATACAT
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
3391731 TGTATCGATACATAACTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
3391763 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
3391795 TGTATCG
1 TGTATCG
3391802 CTATGAAGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:3391735 original size:13 final size:13
Alignment explanation
Indices: 3391717--3391775 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 13
3391707 TACATAAGTG
3391717 TTGTATCGATACA
1 TTGTATCGATACA
3391730 TTGTATCGATACATAA
1 TTGTATCGATAC---A
3391746 CTGTTGTATCGATACA
1 ---TTGTATCGATACA
*
3391762 ATGTATCGATACA
1 TTGTATCGATACA
3391775 T
1 T
3391776 AAGTTTTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 24 0.63
16 2 0.05
19 12 0.32
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3391864 original size:13 final size:13
Alignment explanation
Indices: 3391846--3391870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3391836 ATTACTCAAA
3391846 TGTATCGATACAT
1 TGTATCGATACAT
3391859 TGTATCGATACA
1 TGTATCGATACA
3391871 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3391965 original size:51 final size:52
Alignment explanation
Indices: 3391898--3392006 Score: 175
Period size: 51 Copynumber: 2.1 Consensus size: 52
3391888 ACATGCAAGT
3391898 AAATTTGCCCAAATGTATCGATACACTATGAAATGTATC-ATACATAAAGGC
1 AAATTTGCCCAAATGTATCGATACACTATGAAATGTATCAATACATAAAGGC
* * **
3391949 AAATTTGCCCAGATGTATCGTTACACTATGAAATGTATCAATACATGCAGGC
1 AAATTTGCCCAAATGTATCGATACACTATGAAATGTATCAATACATAAAGGC
3392001 AAATTT
1 AAATTT
3392007 TTATATTTCG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 37 0.70
52 16 0.30
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (52 bp):
AAATTTGCCCAAATGTATCGATACACTATGAAATGTATCAATACATAAAGGC
Found at i:3392885 original size:21 final size:22
Alignment explanation
Indices: 3392851--3392891 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3392841 TCATGTTAAC
3392851 AGCTCATGATTCATGCATTTTG
1 AGCTCATGATTCATGCATTTTG
*
3392873 AGCT-ATGTTTCATGCATTT
1 AGCTCATGATTCATGCATTT
3392892 ACAGCATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (22 bp):
AGCTCATGATTCATGCATTTTG
Found at i:3397611 original size:11 final size:11
Alignment explanation
Indices: 3397595--3397635 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
3397585 TTTCATATTT
3397595 TTTTTTCTTTC
1 TTTTTTCTTTC
3397606 TTTTTTCTTCATC
1 TTTTTTCTT--TC
*
3397619 TTCTTTCTTTC
1 TTTTTTCTTTC
3397630 TTTTTT
1 TTTTTT
3397636 ACCTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:3397649 original size:24 final size:22
Alignment explanation
Indices: 3397595--3397649 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
3397585 TTTCATATTT
**
3397595 TTTTTTCTTTCTTTTTTCTTCA
1 TTTTTTCTTTCTTTTTTCTAAA
3397617 TCTTCTTTCTTTCTTTTTTACCTAAA
1 T-TT-TTTCTTTCTTTTTT--CTAAA
3397643 TTTTTTC
1 TTTTTTC
3397650 AACCCATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 2 0.07
24 18 0.67
25 2 0.07
26 4 0.15
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTCTTTCTTTTTTCTAAA
Found at i:3398016 original size:23 final size:22
Alignment explanation
Indices: 3397990--3398034 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3397980 CCACTCAATC
3397990 GGAAAACCCACTTTGGTTTTTTT
1 GGAAAACCC-CTTTGGTTTTTTT
* **
3398013 GGAAAGCCCCTTTTTTTTTTTT
1 GGAAAACCCCTTTGGTTTTTTT
3398035 TTTTTTCGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (22 bp):
GGAAAACCCCTTTGGTTTTTTT
Found at i:3398835 original size:45 final size:48
Alignment explanation
Indices: 3398734--3398839 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 48
3398724 AATGTGCCAT
* *
3398734 TTCAAGGTCAGCGACATCGGGCTAAGGGAAAAGTGGACCAATGTGCTGA
1 TTCAAGGCCAGCGACATCGGGCTAA-GGAAAAGTGGACCAATATGCTGA
* * * *
3398783 CTCAAGGCCAGCGACATTGGGCTTA-GAAAGGT-G-CCAATATGCTGA
1 TTCAAGGCCAGCGACATCGGGCTAAGGAAAAGTGGACCAATATGCTGA
3398828 TTCAAGGCCAGC
1 TTCAAGGCCAGC
3398840 AATATCGGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 22 0.44
46 1 0.02
47 6 0.12
49 21 0.42
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.19
Consensus pattern (48 bp):
TTCAAGGCCAGCGACATCGGGCTAAGGAAAAGTGGACCAATATGCTGA
Found at i:3398928 original size:32 final size:32
Alignment explanation
Indices: 3398872--3400317 Score: 1972
Period size: 32 Copynumber: 46.8 Consensus size: 32
3398862 AAAATGGTGA
* ** **
3398872 TTTGAAAAGGGTTGCCACTAACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
3398904 TTTTAAATGGGTTGCCCCCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
3398936 TTTGAAAAGGGTCGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3398968 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399000 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
3399032 TTTGAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399064 TTTGAAATGGG-TGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399095 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
3399127 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399159 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399191 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * **
3399223 TTTGGAAT--GATGCCACTAAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
3399251 TTTGAAATGGATTGCCACCGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
3399281 TTTGAAA--GGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
3399309 TTTGAAA--GGATGCCACCAACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
3399339 TTTGAAA--AGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399367 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399399 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
3399431 TTTGGAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399463 TTTGAAATGGG-TGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
3399494 TTTGAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399526 TTTGAAATGGG-TGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399557 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
3399589 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399621 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399653 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * **
3399685 TTTGGAAT--GATGCCACTAAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
3399713 TTTGAAATGGATTGCCACCGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
3399743 TTTGAAA--GGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
3399771 TTTGAAA--GGATGCCACCAACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
3399801 TTTGAAA--AGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399829 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399861 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
3399893 TTTGGAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399925 TTTGAAATGGG-TGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3399956 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
3399988 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3400020 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3400052 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * **
3400084 TTTGGAAT--GATGCCACTAAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
3400112 TTTGAAATAGATTGCCACCGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
3400142 TTTGAAA--GGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
3400170 TTTGAAA--GGATGCCACCAACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
3400200 TTTGAAA--AGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3400228 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
3400260 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
3400292 TTTGGAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
3400318 GATTTAAAAG
Statistics
Matches: 1286, Mismatches: 100, Indels: 57
0.89 0.07 0.04
Matches are distributed among these distances:
28 189 0.15
29 9 0.01
30 195 0.15
31 136 0.11
32 757 0.59
ACGTcount: A:0.18, C:0.19, G:0.33, T:0.30
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:3399764 original size:462 final size:462
Alignment explanation
Indices: 3398884--3400317 Score: 2427
Period size: 462 Copynumber: 3.1 Consensus size: 462
3398874 TGAAAAGGGT
* * * * *
3398884 TGCCACTAACTTGCATGGGCTTTTAAATGGGTTGCCCCCGACTTGTGTGGGCTTTGAAAAGGGTC
1 TGCCACTGACTTG--TGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTT
* *
3398949 GCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTG
64 GCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGG-TG
3399014 CCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCC
128 CCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCC
3399079 ACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCA
193 ACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCA
3399144 CCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCAC
258 CCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCAC
3399209 CGACTTGTGTGGGCTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATGGATTGCCACCGACT
323 CGACTTGTGTGGGCTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATGGATTGCCACCGACT
3399274 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGAC
388 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGAC
3399339 TTTGAAAAGA
453 TTTGAAAAGA
3399349 TGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGC
1 TGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGC
3399414 CACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCA
66 CACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCA
3399479 CCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACC
131 CCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACC
3399544 GACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCG
196 GACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCG
3399609 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGA
261 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGA
3399674 CTTGTGTGGGCTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATGGATTGCCACCGACTTGT
326 CTTGTGTGGGCTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATGGATTGCCACCGACTTGT
3399739 GGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGACTTT
391 GGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGACTTT
3399804 GAAAAGA
456 GAAAAGA
3399811 TGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGC
1 TGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGC
3399876 CACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCA
66 CACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCA
* *
3399941 CCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCAC
131 CCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGG-TGCCAC
*
3400006 CGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
195 CGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACC
* * ** * *
3400071 GACTTGTGTGGGCTTTGGAAT--GATGCCACTAAC-T-TGTGGGCTTTGAAATAGATTGCCACCG
260 GACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * * *
3400132 AC-T-TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA-GGA-TGCCACCAACTTG
325 ACTTGTGTGGGCTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATGGATTGCCACCGACTTG
* * *
3400193 TGTGGACTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
390 TG-GG-CTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA--GGATGCCACCAACTTGTGTGG
* * *
3400258 GCTTTGAAATGGGT
451 ACTTTGAAA--AGA
* * * *
3400272 TGCCACCGACTTGTGTGGGCTTTGGAATGGG-TGCCACAGAGTTGTG
1 TGCCACTGAC-T-TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTG
3400318 GATTTAAAAG
Statistics
Matches: 930, Mismatches: 30, Indels: 21
0.95 0.03 0.02
Matches are distributed among these distances:
455 14 0.02
456 5 0.01
457 74 0.08
458 1 0.00
459 54 0.06
460 1 0.00
461 19 0.02
462 537 0.58
463 213 0.23
465 12 0.01
ACGTcount: A:0.18, C:0.19, G:0.33, T:0.30
Consensus pattern (462 bp):
TGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGC
CACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCA
CCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACC
GACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCG
ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGA
CTTGTGTGGGCTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATGGATTGCCACCGACTTGT
GGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGACTTT
GAAAAGA
Found at i:3399909 original size:399 final size:402
Alignment explanation
Indices: 3398884--3400308 Score: 2254
Period size: 399 Copynumber: 3.5 Consensus size: 402
3398874 TGAAAAGGGT
* * * *
3398884 TGCCACTAACTTGCATGGGCTTTTAAATGGGTTGCCCCCGACTTGTGTGGGCTTTGAAAAGGGTC
1 TGCCACTAACTTG--TGGGCTTTGAAATGGATTGCCACCGAC-T-TGTGGGCTTTG-AAAGGAT-
* * * * * *
3398949 GCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTG
60 GCCACTGAC-T-TGTGGGCTTTGAAA-GGGATGCCACCAACTTGTGTGGACTTTGAAA-GAGATG
3399014 CCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCC
121 CCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCC
* *
3399079 ACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCA
186 ACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGG-TGCCA
*
3399144 CCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCAC
250 CCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCAC
* * ** *
3399209 CGACTTGTGTGGGCTTTGGAAT--GATGCCACTAAC-T-TGTGGGCTTTGAAATGGATTGCCACC
315 CGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* *
3399270 GAC-T-TGTGGGCTTTGAAAGGA
380 GACTTGTGTGGGCTTTGGAATGA
* * *
3399291 TGCCACTGACTTGTGGGCTTTGAAA-GGA-TGCCACCAACTTGTGTGGACTTTGAAAAGATGCCA
1 TGCCACTAACTTGTGGGCTTTGAAATGGATTGCCACCGACTTGTG-GG-CTTTGAAAGGATGCCA
* * * * *
3399354 CTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
64 CTGACTTGTGGGCTTTGAAA-GGGATGCCACCAACTTGTGTGGACTTTGAAA-GAGATGCCACCG
*
3399419 ACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGAC
127 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGAC
3399484 TTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTT
192 TTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTT
3399549 GTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTG
257 GTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTG
3399614 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
322 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
3399679 GTGGGCTTTGGAATGA
387 GTGGGCTTTGGAATGA
3399695 TGCCACTAACTTGTGGGCTTTGAAATGGATTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACT
1 TGCCACTAACTTGTGGGCTTTGAAATGGATTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACT
*
3399760 GACTTGTGGGCTTTGAAA-GGATGCCACCAACTTGTGTGGACTTTGAAA-AGATGCCACTGAC-T
66 GACTTGTGGGCTTTGAAAGGGATGCCACCAACTTGTGTGGACTTTGAAAGAGATGCCACCGACTT
*
3399822 -TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTG
131 GTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGG-TGCCACCGACTTG
*
3399886 TGTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTTGTG
195 TGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTTGTG
3399951 TGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGT
260 TGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGT
3400016 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTG
325 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTG
3400081 GGCTTTGGAATGA
390 GGCTTTGGAATGA
*
3400094 TGCCACTAACTTGTGGGCTTTGAAATAGATTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACT
1 TGCCACTAACTTGTGGGCTTTGAAATGGATTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACT
*
3400159 GACTTGTGGGCTTTGAAA-GGATGCCACCAACTTGTGTGGACTTTGAAA-AGATGCCACTGAC-T
66 GACTTGTGGGCTTTGAAAGGGATGCCACCAACTTGTGTGGACTTTGAAAGAGATGCCACCGACTT
*
3400221 -TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTG
131 GTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGG-TGCCACCGACTTG
*
3400285 TGTGGGCTTTGGAATGGG-TGCCAC
195 TGTGGGCTTTGAAATGGGTTGCCAC
3400309 AGAGTTGTGG
Statistics
Matches: 975, Mismatches: 32, Indels: 31
0.94 0.03 0.03
Matches are distributed among these distances:
398 144 0.15
399 603 0.62
400 20 0.02
401 13 0.01
402 63 0.06
403 14 0.01
404 76 0.08
405 16 0.02
406 14 0.01
407 12 0.01
ACGTcount: A:0.18, C:0.19, G:0.33, T:0.30
Consensus pattern (402 bp):
TGCCACTAACTTGTGGGCTTTGAAATGGATTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACT
GACTTGTGGGCTTTGAAAGGGATGCCACCAACTTGTGTGGACTTTGAAAGAGATGCCACCGACTT
GTGTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTTGT
GTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTTGTGT
GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTG
GGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
GCTTTGGAATGA
Found at i:3400334 original size:27 final size:27
Alignment explanation
Indices: 3400300--3401557 Score: 2120
Period size: 27 Copynumber: 46.0 Consensus size: 27
3400290 GCTTTGGAAT
* *
3400300 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
3400327 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3400354 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3400381 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3400408 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
3400436 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
3400463 GAGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
3400490 GGGTGCCACGGAGTTGTGGACCTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
3400517 GGGTGCCACGGAGTTGTGAACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3400544 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
3400572 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3400599 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
3400626 GGGATGCCACGGAGTTGTGAACTTCAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
3400654 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
3400682 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3400709 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3400736 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
* *
3400764 GGATGCCACGGAGCTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3400791 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
3400819 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
3400846 GGGGGCCACGGAGTTGTGGACTTAAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
*
3400874 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
3400901 GAGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
3400928 GGGTGCCACGGAGTTGTGGACCTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
3400955 GGGTGCCACGGAGTTGTGAACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3400982 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
3401010 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3401037 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
3401064 GGGATGCCACGGAGTTGTGAACTTCAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
3401092 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
3401120 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3401147 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3401174 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
* *
3401202 GGATGCCACGGAGCTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3401229 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
3401257 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3401284 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
3401312 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3401339 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3401366 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
3401393 GGGGGCCACGGAGTTGTGGACTTAAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
*
3401421 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
3401448 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** *
3401475 GAATGCCACGGAGTTGTGGACTTGAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
3401502 GGGTGCCACGAAGTTGGGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
3401529 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
3401557 G
1 G
3401558 AAAATGTGAA
Statistics
Matches: 1162, Mismatches: 56, Indels: 25
0.93 0.05 0.02
Matches are distributed among these distances:
27 795 0.68
28 367 0.32
ACGTcount: A:0.28, C:0.15, G:0.36, T:0.22
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:3400470 original size:82 final size:81
Alignment explanation
Indices: 3400300--3401557 Score: 2120
Period size: 82 Copynumber: 15.3 Consensus size: 81
3400290 GCTTTGGAAT
* * *
3400300 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
3400365 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
*
3400381 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
3400446 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
3400463 GAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACCTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
3400528 AGTTGTGAACTTAAAA
66 AGTTGTGGACTTAAAA
3400544 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
3400609 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
3400626 GGGATGCCACGGAGTTGTGAACTTCAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
3400691 GGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
*
3400709 GGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
3400774 GAGCTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
3400791 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGGGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
3400856 GAGTTGTGGACTTAAAAA
65 GAGTTGTGGACTT-AAAA
* *
3400874 GGGTGCCACAGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
3400939 AGTTGTGGACCTAAAA
66 AGTTGTGGACTTAAAA
*
3400955 GGGTGCCACGGAGTTGTGAACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
3401020 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
3401037 GGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGAACTTCAAAGGGATGCCAC
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCAC
3401102 GGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
3401120 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
3401185 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
3401202 GGATGCCACGGAGCTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
3401267 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
3401284 GGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
3401349 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
3401366 GGGTGCCACGGAGTTGTGGACTTAAAAGGGGGCCACGGAGTTGTGGACTTAAAAAGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACG
3401431 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* ** * *
3401448 GGGTGCCACAGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTGAAAGGGTGCCACGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
3401513 AGTTGGGGACTTAAAA
66 AGTTGTGGACTTAAAA
3401529 GGGTGCCACGGAGTTGTGGACTTTAAAAG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAG
3401558 AAAATGTGAA
Statistics
Matches: 1116, Mismatches: 50, Indels: 21
0.94 0.04 0.02
Matches are distributed among these distances:
81 200 0.18
82 722 0.65
83 194 0.17
ACGTcount: A:0.28, C:0.15, G:0.36, T:0.22
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:3401172 original size:438 final size:437
Alignment explanation
Indices: 3400303--3401557 Score: 2282
Period size: 438 Copynumber: 2.9 Consensus size: 437
3400293 TTGGAATGGG
* * *
3400303 TGCCACAGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGCTGTGGACTTAAAAGGGATGCCACGGAG
3400367 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTT
66 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TT
3400432 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
130 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
3400497 ACGGAGTTGTGGACCTAAAAGGGTGCCACGGAGTTGTGAACTTAAAAGGGATGCCACGGAGTTGT
195 ACGGAGTTGTGGACCTAAAAGGGTGCCACGGAGTTGTGAACTTAAAAGGGATGCCACGGAGTTGT
3400562 GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
260 GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
3400627 GGATGCCACGGAGTTGTGAACTTCAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
325 GGATGCCACGGAGTTGTGAACTTCAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
3400692 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGA
390 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGA
3400740 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGCTGTGGACTTAAAAGGGATGCCACGGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGCTGTGGACTTAAAAGGGATGCCACGGAG
*
3400805 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGGGCCACGGAGTTGTGGACTTA
66 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-
3400870 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
130 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
3400935 ACGGAGTTGTGGACCTAAAAGGGTGCCACGGAGTTGTGAACTTAAAAGGGATGCCACGGAGTTGT
195 ACGGAGTTGTGGACCTAAAAGGGTGCCACGGAGTTGTGAACTTAAAAGGGATGCCACGGAGTTGT
3401000 GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
260 GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
3401065 GGATGCCACGGAGTTGTGAACTTCAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
325 GGATGCCACGGAGTTGTGAACTTCAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
3401130 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGA
390 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGA
3401178 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGCTGTGGACTTAAAAGGGATGCCACGGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGCTGTGGACTTAAAAGGGATGCCACGGAG
3401243 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTT
66 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTT
* * *
3401308 AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
130 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
* * * *
3401373 ACGGAGTTGTGGACTTAAAAGGGGGCCACGGAGTTGTGGACTTAAAAAGGATGCCACGGAGTTGT
195 ACGGAGTTGTGGACCTAAAAGGGTGCCACGGAGTTGTGAACTTAAAAGGGATGCCACGGAGTTGT
* ** *
3401438 GGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTGAAAG
260 GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
* * * *
3401503 GG-TGCCACGAAGTTGGGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTTAAAAG
325 GGATGCCACGGAGTTGTGAACTTCAAAGGGATGCCACGGAGTTGTGGAC-TTAAAAG
3401558 AAAATGTGAA
Statistics
Matches: 794, Mismatches: 20, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
436 18 0.02
437 83 0.10
438 674 0.85
439 19 0.02
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.22
Consensus pattern (437 bp):
TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGCTGTGGACTTAAAAGGGATGCCACGGAG
TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
AAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
CGGAGTTGTGGACCTAAAAGGGTGCCACGGAGTTGTGAACTTAAAAGGGATGCCACGGAGTTGTG
GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
GATGCCACGGAGTTGTGAACTTCAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGA
Found at i:3401588 original size:46 final size:46
Alignment explanation
Indices: 3401521--3401609 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
3401511 GAAGTTGGGG
*
3401521 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAAAATGTGA
1 ACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAAAATGTGA
3401567 ACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAAAATG
1 ACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAAAATG
3401610 CCACTGAGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (46 bp):
ACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAAAATGTGA
Found at i:3401613 original size:30 final size:31
Alignment explanation
Indices: 3401577--3401634 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
3401567 ACTTAAAAGG
*
3401577 ATGCCACGGAGTTGTGGACTTT-AAAAGAAA
1 ATGCCACGGAGTCGTGGACTTTGAAAAGAAA
*
3401607 ATGCCACTGAGTCGTGGACTTTGAAAAG
1 ATGCCACGGAGTCGTGGACTTTGAAAAG
3401635 GTCACAGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (31 bp):
ATGCCACGGAGTCGTGGACTTTGAAAAGAAA
Found at i:3409444 original size:11 final size:11
Alignment explanation
Indices: 3409428--3409468 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
3409418 TTTCATATTT
3409428 TTTTTTCTTTC
1 TTTTTTCTTTC
3409439 TTTTTTCTTCATC
1 TTTTTTCTT--TC
*
3409452 TTCTTTCTTTC
1 TTTTTTCTTTC
3409463 TTTTTT
1 TTTTTT
3409469 ACCTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:3409482 original size:24 final size:22
Alignment explanation
Indices: 3409428--3409482 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
3409418 TTTCATATTT
**
3409428 TTTTTTCTTTCTTTTTTCTTCA
1 TTTTTTCTTTCTTTTTTCTAAA
3409450 TCTTCTTTCTTTCTTTTTTACCTAAA
1 T-TT-TTTCTTTCTTTTTT--CTAAA
3409476 TTTTTTC
1 TTTTTTC
3409483 AACCCATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 2 0.07
24 18 0.67
25 2 0.07
26 4 0.15
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTCTTTCTTTTTTCTAAA
Found at i:3412466 original size:18 final size:18
Alignment explanation
Indices: 3412439--3412474 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3412429 GTTCTTTAAA
3412439 CCAGCACATTGATTCGAT
1 CCAGCACATTGATTCGAT
*
3412457 CCAGCGCATTGATTCGAT
1 CCAGCACATTGATTCGAT
3412475 AGATGCTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (18 bp):
CCAGCACATTGATTCGAT
Found at i:3412857 original size:25 final size:26
Alignment explanation
Indices: 3412810--3412859 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
3412800 GGCATTTGAC
* *
3412810 AAAGGGGGAGAAATTATTTTTTTAACA
1 AAAGGGAGAGAAA-TATTGTTTTAACA
3412837 AAAGGGAGAGAAA-ATTGTTTTAA
1 AAAGGGAGAGAAATATTGTTTTAA
3412860 AAGGGAGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
27 12 0.57
ACGTcount: A:0.44, C:0.02, G:0.24, T:0.30
Consensus pattern (26 bp):
AAAGGGAGAGAAATATTGTTTTAACA
Found at i:3412920 original size:21 final size:21
Alignment explanation
Indices: 3412871--3412912 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3412861 AGGGAGCTTT
3412871 AATTATTTTATCAAGGGGGAG
1 AATTATTTTATCAAGGGGGAG
** *
3412892 AAAAATTTTATTAAGGGGGAG
1 AATTATTTTATCAAGGGGGAG
3412913 TTTTATTTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.02, G:0.29, T:0.31
Consensus pattern (21 bp):
AATTATTTTATCAAGGGGGAG
Found at i:3413555 original size:13 final size:13
Alignment explanation
Indices: 3413537--3413563 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3413527 ACATTATGCT
3413537 TTGTATCGATACA
1 TTGTATCGATACA
3413550 TTGTATCGATACA
1 TTGTATCGATACA
3413563 T
1 T
3413564 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3416693 original size:37 final size:36
Alignment explanation
Indices: 3416610--3416694 Score: 89
Period size: 37 Copynumber: 2.3 Consensus size: 36
3416600 ACCCATTTCA
* * *
3416610 TCTTCTTTTCCCTTTGTTCTCAAAGAGTAAGATGCCT
1 TCTT-TTTTCCCTTTGTCCTCAAAAAGCAAGATGCCT
* * *
3416647 ACTCATTTTCCCTTTGTCCTCAAAAAGCAAGATGCATT
1 TCT-TTTTTCCCTTTGTCCTCAAAAAGCAAGATGC-CT
3416685 TCTTTTTTCC
1 TCTTTTTTCC
3416695 TTTTTTCGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
37 35 0.92
38 3 0.08
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (36 bp):
TCTTTTTTCCCTTTGTCCTCAAAAAGCAAGATGCCT
Found at i:3416724 original size:121 final size:119
Alignment explanation
Indices: 3416532--3416816 Score: 349
Period size: 121 Copynumber: 2.4 Consensus size: 119
3416522 GACATACTTC
* * * ** *
3416532 TTTTCCCTTGGTCCTTAAGGAGCAAGACACATTCCTTTTTT-CTTTTTCCCTTGTCCTCAAGGAA
1 TTTTCCCTTTGTCCTCAAAGAGCAAGATGCATTTCTTTTTTCCTTTTTCCCTTGTCCTCAAGGAA
* *
3416596 CAAAACCCATTTCATCTTCTTTTCCCTTTGTTCTCAAAGAGTAAGATGCCTACTCA
66 CAAAACCCATTTCATCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGATG-C-ACTCA
* * * *
3416652 TTTTCCCTTTGTCCTCAAAAAGCAAGATGCATTTCTTTTTTCCTTTTTTCGTTGTCCTCAAGGAG
1 TTTTCCCTTTGTCCTCAAAGAGCAAGATGCATTTCTTTTTTCCTTTTTCCCTTGTCCTCAAGGAA
* * *
3416717 CATAACCCATTTCATCTTCTTTTCCCTTTGTCCTTAAAGAGCAGGATGCACTCA
66 CAAAACCCATTTCATCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGATGCACTCA
* * * * *
3416771 TTTT-CCTTTATCCTCAAAGAGTAGGATGCCTATTCTTTTTCCCTTT
1 TTTTCCCTTTGTCCTCAAAGAGCAAGATGCAT-TTCTTTTTTCCTTT
3416817 ATGATTAAGG
Statistics
Matches: 142, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
118 22 0.15
119 22 0.15
120 35 0.25
121 63 0.44
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (119 bp):
TTTTCCCTTTGTCCTCAAAGAGCAAGATGCATTTCTTTTTTCCTTTTTCCCTTGTCCTCAAGGAA
CAAAACCCATTTCATCTTCTTTTCCCTTTGTCCTCAAAGAGCAAGATGCACTCA
Found at i:3416787 original size:155 final size:152
Alignment explanation
Indices: 3416628--3416945 Score: 345
Period size: 155 Copynumber: 2.1 Consensus size: 152
3416618 TCCCTTTGTT
* * ** *
3416628 CTCAAAGAGTAAGATGCCTACTCATTTTCCCTTTGTCCTCAAAAAGCAAGATGCATT-TCTTTTT
1 CTCAAAGAGTAAGATGCCTACTCATTTTCCCTTTATCATCAAAAAGCAAGACACATTCCCTTTTT
* * * *
3416692 TCCTTTTTTCGTTGTCCTCAAGGAGCATAACCCATTTCA-TCTTCTTTTCCCTTTGTCCTT-AAA
66 TCCTTTTTCCGTTATCCTCAAAGAGCAGAACCCATTTCATTC-TC-TTT---TTT-TCCTTCAAA
*
3416755 GAGCAGGATGCACTCATTTTCCTTTATC
125 GAGCAGGACGCACTCATTTTCCTTTATC
* * * * * ** *
3416783 CTCAAAGAGTAGGATGCCTATTCTTTTTCCCTTTATGATTAAGGAGCAGGACACATTCCCTTTTT
1 CTCAAAGAGTAAGATGCCTACTCATTTTCCCTTTATCATCAAAAAGCAAGACACATTCCCTTTTT
* * *
3416848 TCCTTTTTCCTTTATCCTCAAAGAGTAGGACCCATTTCATTCTCTTTTTTTCCTTCAAAGAGCAG
66 TCCTTTTTCCGTTATCCTCAAAGAGCAGAACCCATTTCATTCTCTTTTTTTCCTTCAAAGAGCAG
* *
3416913 GACGTACTCCTTTTCCTTTATC
131 GACGCACTCATTTTCCTTTATC
*
3416935 CTTAAAGAGTA
1 CTCAAAGAGTA
3416946 GGACGCTCAC
Statistics
Matches: 136, Mismatches: 24, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
151 5 0.04
152 41 0.30
155 48 0.35
156 40 0.29
157 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (152 bp):
CTCAAAGAGTAAGATGCCTACTCATTTTCCCTTTATCATCAAAAAGCAAGACACATTCCCTTTTT
TCCTTTTTCCGTTATCCTCAAAGAGCAGAACCCATTTCATTCTCTTTTTTTCCTTCAAAGAGCAG
GACGCACTCATTTTCCTTTATC
Found at i:3416960 original size:35 final size:36
Alignment explanation
Indices: 3416848--3416967 Score: 95
Period size: 36 Copynumber: 3.4 Consensus size: 36
3416838 TTCCCTTTTT
* ** *
3416848 TCCTTTTTCCTTTATCC-TCAAAGAGTAGGACCCAT
1 TCCTTTTTCCTTTATCCTTCAAAGAGCAGGACGTAC
* * * * *
3416883 TTCATTCTCTTTTTTTCCTTCAAAGAGCAGGACGTAC
1 TCCTTTTTC-CTTTATCCTTCAAAGAGCAGGACGTAC
*
3416920 TCC-TTTTCCTTTATCCTT-AAAGAGTAGGACGCTCAC
1 TCCTTTTTCCTTTATCCTTCAAAGAGCAGGACG-T-AC
3416956 -CCTTTTTCCTTT
1 TCCTTTTTCCTTT
3416968 CTCTTTAATA
Statistics
Matches: 66, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
34 12 0.18
35 17 0.26
36 21 0.32
37 16 0.24
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.41
Consensus pattern (36 bp):
TCCTTTTTCCTTTATCCTTCAAAGAGCAGGACGTAC
Found at i:3417313 original size:148 final size:148
Alignment explanation
Indices: 3417045--3417624 Score: 795
Period size: 148 Copynumber: 3.9 Consensus size: 148
3417035 GTCCAAACCC
*
3417045 GCACAAGTTGG-GGACACCTGAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTTCGAGTCAAG
1 GCACAAGTTGGCGG-CACCTAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTTCGAGTCAAG
* * * * *
3417109 TACAAATTAGTTGGCACTTATCGAAGGAGGTCAAGCCTTTGAATGTTAAAGCCTGCACAAGCTGG
65 TACAAATTAGTTGGCACCTATCGAAAGAGGTCAAGCCTTAGAATGTCAAAGCCTGCACAAGCTAG
* **
3417174 TGGCACTGGAGTCTAAGCT
130 CGGCACCCGAGTCTAAGCT
* * ** *
3417193 GCACAAGTTGGCAGCACCTAAGTCAAAGCTCACACAAGCAAGTGGCACCTAAGTTCGAGTGAAGT
1 GCACAAGTTGGCGGCACCTAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTTCGAGTCAAGT
* * * * *
3417258 ACAAATTAGTTGGCACTTATCTAAAAAGGTCAAGCCTTCGAATGTCAAAGCCTGCACAAGCTGGC
66 ACAAATTAGTTGGCACCTATCGAAAGAGGTCAAGCCTTAGAATGTCAAAGCCTGCACAAGCTAGC
*
3417323 AGCACCCGAGTCTAAGCT
131 GGCACCCGAGTCTAAGCT
*
3417341 GCACAAGTTGGCGGCACCTAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTTCGAGTCAAGG
1 GCACAAGTTGGCGGCACCTAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTTCGAGTCAAGT
* * * * *
3417406 CCAAATTAGTTGGCACCTATCTAAGGTGGTCGAGCCTTAGAATGTCAAAGCCTGCACAAGCTAGC
66 ACAAATTAGTTGGCACCTATCGAAAGAGGTCAAGCCTTAGAATGTCAAAGCCTGCACAAGCTAGC
* * *
3417471 GGCACCCGAGTTTAAACCC
131 GGCACCCGAGTCT-AAGCT
* * * * * * *
3417490 CCACAAGTTGGTGGCACCTGAGTTAAAGCCCACACAAGCTGATAGCACCTAAGTTTGAGTCAAGT
1 GCACAAGTTGGCGGCACCTAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTTCGAGTCAAGT
3417555 -CTAAATTAGTTGGCACCTATCGAAAGAGGTCAAGCCTTAGAATGTCAAAGCCTGCACAAGCTAG
66 AC-AAATTAGTTGGCACCTATCGAAAGAGGTCAAGCCTTAGAATGTCAAAGCCTGCACAAGCTAG
3417619 CGGCAC
130 CGGCAC
3417625 TCAAGAAAAG
Statistics
Matches: 384, Mismatches: 45, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
148 259 0.67
149 125 0.33
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (148 bp):
GCACAAGTTGGCGGCACCTAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTTCGAGTCAAGT
ACAAATTAGTTGGCACCTATCGAAAGAGGTCAAGCCTTAGAATGTCAAAGCCTGCACAAGCTAGC
GGCACCCGAGTCTAAGCT
Found at i:3417538 original size:31 final size:30
Alignment explanation
Indices: 3417472--3417544 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 30
3417462 CAAGCTAGCG
* * * * *
3417472 GCACCCGAGTTTAAACCCCCACAAGTTGGTG
1 GCACCTGAG-TTAAACCCACACAAGCTGATA
3417503 GCACCTGAGTTAAAGCCCACACAAGCTGATA
1 GCACCTGAGTTAAA-CCCACACAAGCTGATA
*
3417534 GCACCTAAGTT
1 GCACCTGAGTT
3417545 TGAGTCAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 5 0.14
31 30 0.86
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (30 bp):
GCACCTGAGTTAAACCCACACAAGCTGATA
Found at i:3417603 original size:297 final size:297
Alignment explanation
Indices: 3417004--3417661 Score: 837
Period size: 297 Copynumber: 2.2 Consensus size: 297
3416994 TAACACCCTA
* *
3417004 GTCAAAG-CTCGCACAAACTGGCAGCACCCAAGTCCAAACCCGCACAAGTTGGGGACACCTGAGT
1 GTCAAAGCCT-GCACAAGCTGGCAGCACCCAAGTCCAAACCCGCACAAGTTGGGGACACCTAAGT
* *
3417068 CAAAGCCCACACAAGCTGGTGGCACCTAAGTTCGAGTCAAGTACAAATTAGTTGGCACTTATCGA
65 CAAAGCCCACACAAGCTGGTGGCACCTAAGTTCGAGTCAAGGACAAATTAGTTGGCACCTATCGA
* * * * ** * **
3417133 AGGAGGTCAAGCCTTTGAATGTTAAAGCCTGCACAAGCTGGTGGCACTGGAGTCTAAGCTGCACA
130 AGGAGGTCAAGCCTTAGAATGTCAAAGCCTGCACAAGCTAGCGGCACCCGAGTCTAACCCCCACA
* * *
3417198 AGTTGGCAGCACCTAAGTCAAAGCTCACACAAGCAAGTGGCACCTAAGTTCGAGTGAAGTACAAA
195 AGTTGGCAGCACCTAAGTCAAAGCCCACACAAGCAAGTAGCACCTAAGTTCGAGTCAAGTACAAA
* * *
3417263 TTAGTTGGCACTTATCTAAAAAGGTCAAGCCTTCGAAT
260 TTAGTTGGCACCTATCGAAAAAGGTCAAGCCTTAGAAT
* * * *
3417301 GTCAAAGCCTGCACAAGCTGGCAGCACCCGAGT-CTAAGCTGCACAAGTTGGCGG-CACCTAAGT
1 GTCAAAGCCTGCACAAGCTGGCAGCACCCAAGTCCAAACCCGCACAAGTTGG-GGACACCTAAGT
* *
3417364 CAAAGCCCACACAAGCTGGTGGCACCTAAGTTCGAGTCAAGGCCAAATTAGTTGGCACCTATCTA
65 CAAAGCCCACACAAGCTGGTGGCACCTAAGTTCGAGTCAAGGACAAATTAGTTGGCACCTATCGA
* * *
3417429 AGGTGGTCGAGCCTTAGAATGTCAAAGCCTGCACAAGCTAGCGGCACCCGAGTTTAAACCCCCAC
130 AGGAGGTCAAGCCTTAGAATGTCAAAGCCTGCACAAGCTAGCGGCACCCGAGTCT-AACCCCCAC
** * * * *
3417494 AAGTTGGTGGCACCTGAGTTAAAGCCCACACAAGC-TGATAGCACCTAAGTTTGAGTCAAGT-CT
194 AAGTTGGCAGCACCTAAGTCAAAGCCCACACAAGCAAG-TAGCACCTAAGTTCGAGTCAAGTAC-
*
3417557 AAATTAGTTGGCACCTATCGAAAGAGGTCAAGCCTTAGAAT
257 AAATTAGTTGGCACCTATCGAAAAAGGTCAAGCCTTAGAAT
* * * * *
3417598 GTCAAAGCCTGCACAAGCTAGCGGCACTCAAG--AAAAGCCCACACAAGTTGGTGG-CACCTAAG
1 GTCAAAGCCTGCACAAGCTGGCAGCACCCAAGTCCAAA-CCCGCACAAGTTGG-GGACACCTAAG
3417660 TC
64 TC
3417662 TGAGTCAAAA
Statistics
Matches: 310, Mismatches: 45, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
296 134 0.43
297 174 0.56
298 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (297 bp):
GTCAAAGCCTGCACAAGCTGGCAGCACCCAAGTCCAAACCCGCACAAGTTGGGGACACCTAAGTC
AAAGCCCACACAAGCTGGTGGCACCTAAGTTCGAGTCAAGGACAAATTAGTTGGCACCTATCGAA
GGAGGTCAAGCCTTAGAATGTCAAAGCCTGCACAAGCTAGCGGCACCCGAGTCTAACCCCCACAA
GTTGGCAGCACCTAAGTCAAAGCCCACACAAGCAAGTAGCACCTAAGTTCGAGTCAAGTACAAAT
TAGTTGGCACCTATCGAAAAAGGTCAAGCCTTAGAAT
Found at i:3417701 original size:31 final size:31
Alignment explanation
Indices: 3417663--3417732 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
3417653 ACCTAAGTCT
*
3417663 GAGTCAAAACCCGCACAAACTGGTGGCACCC
1 GAGTCAAAACCCACACAAACTGGTGGCACCC
* * * *
3417694 GAGTCAAAGCCCATAGAAGCTGGTGGCACCC
1 GAGTCAAAACCCACACAAACTGGTGGCACCC
3417725 GAGTCAAA
1 GAGTCAAA
3417733 GATCACCGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.33, C:0.30, G:0.26, T:0.11
Consensus pattern (31 bp):
GAGTCAAAACCCACACAAACTGGTGGCACCC
Found at i:3417744 original size:31 final size:31
Alignment explanation
Indices: 3417682--3417750 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
3417672 CCCGCACAAA
* *
3417682 CTGGTGGCACCCGAGTCAAAGCCCATAGAAG
1 CTGGTGGCACCCGAGTCAAAGACCACAGAAG
* *
3417713 CTGGTGGCACCCGAGTCAAAGATCACCGAAG
1 CTGGTGGCACCCGAGTCAAAGACCACAGAAG
3417744 CTGGTGG
1 CTGGTGG
3417751 TACTTAGGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.32, T:0.14
Consensus pattern (31 bp):
CTGGTGGCACCCGAGTCAAAGACCACAGAAG
Found at i:3422991 original size:20 final size:20
Alignment explanation
Indices: 3422966--3423043 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
3422956 GTAAAGAAAC
3422966 AAAATGTATCAATACATTGA
1 AAAATGTATCAATACATTGA
** *
3422986 AAAATGTATTGATACATTCA
1 AAAATGTATCAATACATTGA
* *
3423006 TACATGTATCAATACATTGA
1 AAAATGTATCAATACATTGA
3423026 AAAATGTAT-AGATACATT
1 AAAATGTATCA-ATACATT
3423044 TGGGTAAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
19 1 0.02
20 46 0.98
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (20 bp):
AAAATGTATCAATACATTGA
Found at i:3428484 original size:164 final size:165
Alignment explanation
Indices: 3428186--3428621 Score: 546
Period size: 164 Copynumber: 2.7 Consensus size: 165
3428176 TCGAAAATGT
* * * * *
3428186 CATTTCATACATTAACGGAAACCCGAAATGATATGAAAAGTTTTTGAAACCTTTTATACCCTTT-
1 CATTTCGTACCTTAATGGAAACCCGAAAAGATATGAAAAGTTTTTGAAATCTTTTATACCCTTTA
* * * * *
3428250 C-AGACTCCCATAGGAATATAAAAGATTAGAAAGATGATTAATGTTTATTTCAATCGTGACAGTA
66 CGA-ACACCCATAGGAATATAAAAGATTAGAAAAATAATTAATATTTATTTCAATCATGACAGTA
* * *
3428314 TTAATTTAATTTTATTTATTTGTTTTCGAAAATTAC
130 TTAATTTAATTTTATTTACTTATTTTCGAAAAATAC
* *
3428350 CTTTTTGTACCTTAATGGAAACCCGAAAAGATATGAAAAGTTTTTGAAATCTTTTATA-CCTTTA
1 CATTTCGTACCTTAATGGAAACCCGAAAAGATATGAAAAGTTTTTGAAATCTTTTATACCCTTTA
* * * *
3428414 CGAACACCCATAGGAATATGAAAGATTAGAAAAATAATTAATATTTGTTTCAATTATGGA-AGTG
66 CGAACACCCATAGGAATATAAAAGATTAGAAAAATAATTAATATTTATTTCAATCAT-GACAGTA
*
3428478 TTAATTTAATTTTATTTACTTATTTTTGAAAAATAC
130 TTAATTTAATTTTATTTACTTATTTTCGAAAAATAC
* * * * *
3428514 CATTTCGTAGCTTAATAGAAACCCGAAGAGATATGAAAAGTTTTAGAAATCTTTTATACCCCTAT
1 CATTTCGTACCTTAATGGAAACCCGAAAAGATATGAAAAGTTTTTGAAATCTTTTATA-CCCTTT
*
3428579 A-G-ACCCCCATAGGAATATAAAAGATTA-AAAAA-AGATTAATATT
65 ACGAACACCCATAGGAATATAAAAGATTAGAAAAATA-ATTAATATT
3428622 GAAATATCTT
Statistics
Matches: 237, Mismatches: 29, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
162 1 0.00
163 19 0.08
164 208 0.88
165 4 0.02
166 5 0.02
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (165 bp):
CATTTCGTACCTTAATGGAAACCCGAAAAGATATGAAAAGTTTTTGAAATCTTTTATACCCTTTA
CGAACACCCATAGGAATATAAAAGATTAGAAAAATAATTAATATTTATTTCAATCATGACAGTAT
TAATTTAATTTTATTTACTTATTTTCGAAAAATAC
Found at i:3430299 original size:167 final size:165
Alignment explanation
Indices: 3429942--3430366 Score: 516
Period size: 167 Copynumber: 2.6 Consensus size: 165
3429932 TTCCAAAATT
* * * ** *
3429942 GATTTACTATGAATTTAATGAA-AATA-TTAGATGAATTTTAAAAGTTTTAAATCGAGAAAAATC
1 GATTTAATATGAATTAAAT-AATAATATTTA-ATGAATTTTAAAAATTAAAAACCGAGAAAAAT-
** * * *
3430005 CCCCCGAAAAAATTTACGAAGAAGAAAATTTGATTTTTAGAAAAAGAGAAATTTCATGGAAAAAA
63 CCTTCGAAAAAATTTACGAAGAAGAAAACTTAATTTTTAGAAAAAGAGAAATTTCAAGGAAAAAA
* * * *
3430070 TTCAAAAATTCATTAAATTGAATGAATTTTTGAAAACA
128 TTCAAAAACTCATGAAAATGAATAAATTTTTGAAAACA
* * *
3430108 AATTTAATAGGAATTAAATAATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCA
1 GATTTAATATGAATTAAATAATAATATTTAATGAATTTTAAAAATTAAAAACCGAGAAAAATCC-
*
3430173 TTCGAAAAAATTTACGAAGAAGAAAACTTAATATTTT-GAAAATAG-GAAAATTTTAAGGAAAAA
65 TTCGAAAAAATTTACGAAGAAGAAAACTTAAT-TTTTAGAAAA-AGAG-AAATTTCAAGGAAAAA
*
3430236 ATTTAAAAACTCATGAAAATGAATAAATTTTTGAAAACA
127 ATTCAAAAACTCATGAAAATGAATAAATTTTTGAAAACA
* * **
3430275 GATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAAATAAAAACCGTTAAAAATCCT
1 GATTTAATATGAATTAAATAATAATATTTAATGAATTTTAAAAATTAAAAACCGAGAAAAATCCT
* *
3430340 CTCGAAAAAATTTACAAAGATGAAAAC
66 -TCGAAAAAATTTACGAAGAAGAAAAC
3430367 CTCGTAATTT
Statistics
Matches: 223, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
165 4 0.02
166 81 0.36
167 138 0.62
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (165 bp):
GATTTAATATGAATTAAATAATAATATTTAATGAATTTTAAAAATTAAAAACCGAGAAAAATCCT
TCGAAAAAATTTACGAAGAAGAAAACTTAATTTTTAGAAAAAGAGAAATTTCAAGGAAAAAATTC
AAAAACTCATGAAAATGAATAAATTTTTGAAAACA
Done.