Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 374 of 770
Found at i:115121797 original size:27 final size:27
Alignment explanation
Indices: 115121768--115121983 Score: 154
Period size: 27 Copynumber: 8.0 Consensus size: 27
115121758 ACACTACCAA
* *
115121768 GGTATTACGGTAATTTTCCAAA-TTGG
1 GGTATTTCGGTAATTTTCCAAACTAGG
* *
115121794 AGGTATTTTGGTAATTTTCCAAACCAGG
1 -GGTATTTCGGTAATTTTCCAAACTAGG
* *
115121822 GGTATTTTGGTAATTTTCTAAACTAGG
1 GGTATTTCGGTAATTTTCCAAACTAGG
* * * * *
115121849 GGTATTTCGATAACTATCTAAA-TCGG
1 GGTATTTCGGTAATTTTCCAAACTAGG
*
115121875 GGTATTTCGGTAATTTTCCAAAC-CGAG
1 GGTATTTCGGTAATTTTCCAAACTAG-G
** * *
115121902 GGTATTTCAATAATTTTACAATCT-GG
1 GGTATTTCGGTAATTTTCCAAACTAGG
** * *
115121928 GAGTATTTCGACAATTTTTCAAA-TCGG
1 G-GTATTTCGGTAATTTTCCAAACTAGG
* * *
115121955 GGATATTTCAGTAATTTTACAATCTAGG
1 GG-TATTTCGGTAATTTTCCAAACTAGG
115121983 G
1 G
115121984 TCTTAACGAC
Statistics
Matches: 152, Mismatches: 29, Indels: 15
0.78 0.15 0.08
Matches are distributed among these distances:
26 27 0.18
27 119 0.78
28 6 0.04
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTCCAAACTAGG
Found at i:115121916 original size:80 final size:80
Alignment explanation
Indices: 115121786--115121972 Score: 202
Period size: 80 Copynumber: 2.3 Consensus size: 80
115121776 GGTAATTTTC
* * ***
115121786 CAAATTGGAGGTATTTTGGTAATTTTCCAAACCAGGGGTATTTTGGTAATTTT-CTAAACTAGGG
1 CAAATCGG-GGTATTTCGGTAATTTTCCAAACCAGGGGTATTTCAATAATTTTAC-AAACT-GGG
*
115121850 -GTATTTCGATAACTATCT
63 AGTATTTCGACAA-TATCT
*
115121868 -AAATCGGGGTATTTCGGTAATTTTCCAAACC-GAGGGTATTTCAATAATTTTACAATCTGGGAG
1 CAAATCGGGGTATTTCGGTAATTTTCCAAACCAG-GGGTATTTCAATAATTTTACAAACTGGGAG
* *
115121931 TATTTCGACAATTTTT
65 TATTTCGACAATATCT
*
115121947 CAAATCGGGGATATTTCAGTAATTTT
1 CAAATCGGGG-TATTTCGGTAATTTT
115121973 ACAATCTAGG
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
79 7 0.08
80 62 0.69
81 21 0.23
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.39
Consensus pattern (80 bp):
CAAATCGGGGTATTTCGGTAATTTTCCAAACCAGGGGTATTTCAATAATTTTACAAACTGGGAGT
ATTTCGACAATATCT
Found at i:115125152 original size:33 final size:33
Alignment explanation
Indices: 115125115--115125185 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
115125105 CTCAGCCCTC
**
115125115 ATCAG-AATTAATTGGGCCTAGCCCATTCTCAAA
1 ATCAGTAA-TAATTGGGCCTAGCCCATTAACAAA
* * *
115125148 ATCAGTAATAGTTGGGCTTATCCCATTAACAAA
1 ATCAGTAATAATTGGGCCTAGCCCATTAACAAA
115125181 ATCAG
1 ATCAG
115125186 GTGGACCTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.28
Consensus pattern (33 bp):
ATCAGTAATAATTGGGCCTAGCCCATTAACAAA
Found at i:115125667 original size:27 final size:28
Alignment explanation
Indices: 115125637--115125706 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 28
115125627 ATATAGGAGC
*
115125637 ATTACGGTCATTTTACCCA-ACAGGGGT
1 ATTACGGTCATTTTACCCATACAAGGGT
*
115125664 ATTATGGTCATTTTA-CCATACAAGGGT
1 ATTACGGTCATTTTACCCATACAAGGGT
*
115125691 ATTACGGTCTTTTTAC
1 ATTACGGTCATTTTAC
115125707 ACTACCAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 3 0.08
27 34 0.92
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (28 bp):
ATTACGGTCATTTTACCCATACAAGGGT
Found at i:115125716 original size:28 final size:26
Alignment explanation
Indices: 115125637--115125720 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 26
115125627 ATATAGGAGC
* *
115125637 ATTACGGTCATTTTACCCAACAGGGGT
1 ATTACGGTCATTTTA-CCTACAAGGGT
*
115125664 ATTATGGTCATTTTACCATACAAGGGT
1 ATTACGGTCATTTTACC-TACAAGGGT
*
115125691 ATTACGGTCTTTTTACACTACCAA-GGT
1 ATTACGGTCATTTTAC-CTA-CAAGGGT
115125718 ATT
1 ATT
115125721 TTAGTAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.04
27 43 0.88
28 4 0.08
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (26 bp):
ATTACGGTCATTTTACCTACAAGGGT
Found at i:115125774 original size:27 final size:26
Alignment explanation
Indices: 115125744--115125866 Score: 122
Period size: 27 Copynumber: 4.6 Consensus size: 26
115125734 GAACCATAGC
* * *
115125744 TATTTTGGTAATTTTCTAAATTTGGGG
1 TATTTCGGTAATTTT-TAAACTAGGGG
* *
115125771 TATTTCAGTAATTTTTCAAACCAGGGG
1 TATTTCGGTAATTTTT-AAACTAGGGG
*
115125798 TATTTCGATAATTTTTTAAACTAGGGG
1 TATTTCGGTAA-TTTTTAAACTAGGGG
*
115125825 TATTTCGGTAATTTTTGAAA-TCGAGGG
1 TATTTCGGTAATTTTT-AAACTAG-GGG
*
115125852 TATTTCGTTAATTTT
1 TATTTCGGTAATTTT
115125867 GCAATGCGGG
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
26 8 0.10
27 68 0.84
28 5 0.06
ACGTcount: A:0.26, C:0.08, G:0.20, T:0.46
Consensus pattern (26 bp):
TATTTCGGTAATTTTTAAACTAGGGG
Found at i:115125793 original size:54 final size:53
Alignment explanation
Indices: 115125715--115125866 Score: 135
Period size: 54 Copynumber: 2.8 Consensus size: 53
115125705 ACACTACCAA
* * * * * * *
115125715 GGTATTTTAGTAATTTTATGAACCATAGCTATTTTGGTAATTTTCTAAATTTGG
1 GGTATTTCAGTAATTTT-TAAACCAGAGCTATTTCGATAATTTTCTAAACTAGG
* * *
115125769 GGTATTTCAGTAATTTTTCAAACCAGGGGTATTTCGATAATTTTTTAAACTAGG
1 GGTATTTCAGTAATTTTT-AAACCAGAGCTATTTCGATAATTTTCTAAACTAGG
* * * *
115125823 GGTATTTCGGTAATTTTTGAAATC-GAGGGTATTTCGTTAATTTT
1 GGTATTTCAGTAATTTTT-AAACCAGA-GCTATTTCGATAATTTT
115125867 GCAATGCGGG
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 2 0.02
54 79 0.98
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.45
Consensus pattern (53 bp):
GGTATTTCAGTAATTTTTAAACCAGAGCTATTTCGATAATTTTCTAAACTAGG
Found at i:115129251 original size:40 final size:40
Alignment explanation
Indices: 115129166--115129316 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
115129156 AATTGAATGA
* * *
115129166 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
115129206 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
115129247 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
115129286 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
115129317 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:115129330 original size:40 final size:40
Alignment explanation
Indices: 115129203--115129332 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
115129193 ATGCTGGAAA
* * * *
115129203 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
115129243 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
115129283 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
115129323 TTATATCCGG
1 TTATATCCGG
115129333 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:115137200 original size:40 final size:40
Alignment explanation
Indices: 115137134--115137284 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
115137124 AAATTGAATG
* * *
115137134 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
115137173 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
115137213 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
115137253 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
115137285 ACGGTTATAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:115145590 original size:40 final size:41
Alignment explanation
Indices: 115145458--115145598 Score: 195
Period size: 40 Copynumber: 3.6 Consensus size: 41
115145448 ATTCCAAACC
*
115145458 CAAATACCTTCGGGAT-TTAG-CCGGATATAGCAACTCGCA
1 CAAATGCCTTCGGGATCTTAGTCCGGATATAGCAACTCGCA
*
115145497 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGCAACTCGCA
1 CAAATGCCTTCGGGATCTTAGTCCGGATATAGCAACTCGCA
* *
115145537 CAAATGCCTTC-GGATCTTAGTCCGGATGTAGTC-ACTAGCA
1 CAAATGCCTTCGGGATCTTAGTCCGGATATAG-CAACTCGCA
115145577 CAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGATCTTAGTC
115145599 TGGTTATCGT
Statistics
Matches: 94, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
39 21 0.22
40 72 0.77
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGATCTTAGTCCGGATATAGCAACTCGCA
Found at i:115148271 original size:29 final size:29
Alignment explanation
Indices: 115148238--115148324 Score: 124
Period size: 29 Copynumber: 3.1 Consensus size: 29
115148228 CTATATTCAC
115148238 ATGGCCCATTAGGCCCAAATCACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATTTAT
* *
115148267 ATGGCCCTTTAGGCCCAAATCACATTTCT
1 ATGGCCCATTAGGCCCAAATCACATTTAT
* *
115148296 GTGGCCCA-TAGGCCCAAATAACA-TTAT
1 ATGGCCCATTAGGCCCAAATCACATTTAT
115148323 AT
1 AT
115148325 TCATGCTCAC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 4 0.08
28 14 0.27
29 33 0.65
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATTTAT
Found at i:115148563 original size:16 final size:16
Alignment explanation
Indices: 115148542--115148578 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
115148532 AAACTTTTAG
115148542 CTTTTCAGCATTTCGA
1 CTTTTCAGCATTTCGA
*
115148558 CTTTTCGGCATTTCGA
1 CTTTTCAGCATTTCGA
115148574 CTTTT
1 CTTTT
115148579 GCCGATCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.14, C:0.24, G:0.14, T:0.49
Consensus pattern (16 bp):
CTTTTCAGCATTTCGA
Found at i:115157592 original size:27 final size:27
Alignment explanation
Indices: 115157490--115157594 Score: 88
Period size: 27 Copynumber: 3.9 Consensus size: 27
115157480 TTTAGAATAG
* *
115157490 TTTACCAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
* ** *
115157517 CTTGTAAAATTACC-AAAGTACCC-CTAA
1 TTTACAAAATTACCGAAA-TACCCTC-GA
* ***
115157544 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
115157571 TTTACAAAATTACCGAAATACCCT
1 TTTACAAAATTACCGAAATACCCT
115157595 TGTAGGGTAA
Statistics
Matches: 56, Mismatches: 18, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
26 4 0.07
27 51 0.91
28 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTCGA
Found at i:115157658 original size:27 final size:27
Alignment explanation
Indices: 115157581--115157658 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
115157571 TTTACAAAAT
*
115157581 TACCGAAATACCCTTGTAGGGTAAAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
115157608 TACCGAAATACCTTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
115157635 TACCGAAATACCCCTGTAGGGTAG
1 TACCGAAATACCCTTGTAGGGTAG
115157659 GACTACTGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:115157674 original size:54 final size:53
Alignment explanation
Indices: 115157576--115157688 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 53
115157566 CTCGATTTAC
* * *
115157576 AAAATTACCGAAATACCCTTGTAGGGTAAAAATACCGAAATACCTTTGTAGGGT
1 AAAA-TACCGAAATACCCCTGTAGGGTAAAAATACCGAAATACCTCTGGAGGGT
** * * **
115157630 AGAAATACCGAAATACCCCTGTAGGGTAGGACTACTGATTTACCTCTGGAGGGT
1 A-AAATACCGAAATACCCCTGTAGGGTAAAAATACCGAAATACCTCTGGAGGGT
115157684 AAAAT
1 AAAAT
115157689 GACTATTTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
53 4 0.08
54 42 0.86
55 3 0.06
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (53 bp):
AAAATACCGAAATACCCCTGTAGGGTAAAAATACCGAAATACCTCTGGAGGGT
Found at i:115158360 original size:27 final size:26
Alignment explanation
Indices: 115158316--115158367 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
115158306 TTCGCTGCAA
*
115158316 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
115158343 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
115158368 GCAACCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:115158579 original size:23 final size:23
Alignment explanation
Indices: 115158553--115158600 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
115158543 TACGGGGGTG
115158553 TTATGGATGGCTCTAGGTTGCGA
1 TTATGGATGGCTCTAGGTTGCGA
115158576 TTATGGATGGCTCTAGGTTGCGA
1 TTATGGATGGCTCTAGGTTGCGA
115158599 TT
1 TT
115158601 TCTGCATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.17, C:0.12, G:0.33, T:0.38
Consensus pattern (23 bp):
TTATGGATGGCTCTAGGTTGCGA
Found at i:115165308 original size:27 final size:26
Alignment explanation
Indices: 115165278--115165348 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 26
115165268 AAAATTATCG
115165278 AAATACCCTTGTAGGGTAGAAATACCA
1 AAATACCCTTGTAGGGTAGAAATA-CA
*
115165305 AAATACCCTTGTAGGGTAGAAATACT
1 AAATACCCTTGTAGGGTAGAAATACA
*
115165331 GAATACCC-TGTAGGGTAG
1 AAATACCCTTGTAGGGTAG
115165349 GACTACCGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 10 0.24
26 8 0.19
27 24 0.57
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.24
Consensus pattern (26 bp):
AAATACCCTTGTAGGGTAGAAATACA
Found at i:115165364 original size:26 final size:26
Alignment explanation
Indices: 115165279--115165357 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
115165269 AAATTATCGA
*
115165279 AATACCCTTGTAGGGTAGAAATACCAA
1 AATACCCTTGTAGGGTAGAAATACC-G
*
115165306 AATACCCTTGTAGGGTAGAAATACTG
1 AATACCCTTGTAGGGTAGAAATACCG
* *
115165332 AATACCC-TGTAGGGTAGGACTACCG
1 AATACCCTTGTAGGGTAGAAATACCG
115165357 A
1 A
115165358 TTTACCCCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 16 0.34
26 7 0.15
27 24 0.51
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (26 bp):
AATACCCTTGTAGGGTAGAAATACCG
Found at i:115184521 original size:21 final size:21
Alignment explanation
Indices: 115184478--115184523 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
115184468 CTTTCAAAAG
* * * *
115184478 AAAATAATAAAATTGAAATTA
1 AAAAAAATAAAAATAAAAATA
115184499 AAAAAAATAAAAATAAAAATA
1 AAAAAAATAAAAATAAAAATA
115184520 AAAA
1 AAAA
115184524 GATAAGAGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAAATAAAAATAAAAATA
Found at i:115188163 original size:16 final size:17
Alignment explanation
Indices: 115188142--115188180 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
115188132 GATGTAATGC
115188142 CCCAAAAATCCCGAAA-
1 CCCAAAAATCCCGAAAT
*
115188158 CCCAAAAATCCTGAAAT
1 CCCAAAAATCCCGAAAT
115188175 CCCAAA
1 CCCAAA
115188181 CTTTCTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.49, C:0.36, G:0.05, T:0.10
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:115189789 original size:22 final size:22
Alignment explanation
Indices: 115189764--115189808 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
115189754 CATATTTAAG
115189764 TAAGGAAATTTAAGCCATTTTC
1 TAAGGAAATTTAAGCCATTTTC
115189786 TAAGGAAATTTAAGCCATTTTC
1 TAAGGAAATTTAAGCCATTTTC
115189808 T
1 T
115189809 CATGGCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (22 bp):
TAAGGAAATTTAAGCCATTTTC
Found at i:115194345 original size:27 final size:27
Alignment explanation
Indices: 115194307--115194478 Score: 213
Period size: 27 Copynumber: 6.4 Consensus size: 27
115194297 TGGATAGTTA
*
115194307 TAGAATTACCGAAATACCCTTGTAAGG
1 TAGAATTACCGAAATACCCTTGTAGGG
*
115194334 TAGAATTACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCTTGTAGGG
* *
115194361 TAGAATTACCGAGATA-CCTCTGTAGGA
1 TAGAATTACCGAAATACCCT-TGTAGGG
*
115194388 TAGAATTACCAAAATACCCTTGTAGGG
1 TAGAATTACCGAAATACCCTTGTAGGG
* * *
115194415 TAGAAATACCGAAACACCCCTGTAGGG
1 TAGAATTACCGAAATACCCTTGTAGGG
* *
115194442 TAGAATTACC-AAGATACCTTTGTGGGG
1 TAGAATTACCGAA-ATACCCTTGTAGGG
*
115194469 TAAAATTACC
1 TAGAATTACC
115194479 ATTTTGCCCT
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.03
27 117 0.94
28 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCTTGTAGGG
Found at i:115194405 original size:81 final size:81
Alignment explanation
Indices: 115194306--115194479 Score: 267
Period size: 81 Copynumber: 2.1 Consensus size: 81
115194296 GTGGATAGTT
* * *
115194306 ATAGAATTACCGAAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
1 ATAGAATTACCAAAATACCCTTGTAAGGTAGAAATACCGAAACACCCCTGTAGGGTAGAATTACC
*
115194371 GAGATACCTCTGTAGG
66 AAGATACCTCTGTAGG
*
115194387 ATAGAATTACCAAAATACCCTTGTAGGGTAGAAATACCGAAACACCCCTGTAGGGTAGAATTACC
1 ATAGAATTACCAAAATACCCTTGTAAGGTAGAAATACCGAAACACCCCTGTAGGGTAGAATTACC
* *
115194452 AAGATACCTTTGTGGG
66 AAGATACCTCTGTAGG
* *
115194468 GTAAAATTACCA
1 ATAGAATTACCA
115194480 TTTTGCCCTA
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (81 bp):
ATAGAATTACCAAAATACCCTTGTAAGGTAGAAATACCGAAACACCCCTGTAGGGTAGAATTACC
AAGATACCTCTGTAGG
Found at i:115194508 original size:26 final size:26
Alignment explanation
Indices: 115194479--115194531 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
115194469 TAAAATTACC
115194479 ATTTTG-CCCTAGGGTGTTAAATGACT
1 ATTTTGCCCCTAGGGTG-TAAATGACT
* *
115194505 ATTTTGCCCCTTGTGTGTAAATGACT
1 ATTTTGCCCCTAGGGTGTAAATGACT
115194531 A
1 A
115194532 AATTGTGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTTGCCCCTAGGGTGTAAATGACT
Found at i:115195228 original size:71 final size:71
Alignment explanation
Indices: 115195108--115195253 Score: 211
Period size: 71 Copynumber: 2.1 Consensus size: 71
115195098 GAGGAAGCAT
* * *
115195108 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATATATCTGTTCTGGTGACTTCGTC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATATATCTGTTCTGGTGACCTAGCC
115195173 ACAATA
66 ACAATA
* * * * * *
115195179 TCTGGCAGCCTCGCTGTAATCTGGTGGCTTCGCCACATATATATGTCTGTTTTGGTGGCCTAGCC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATATATCTGTTCTGGTGACCTAGCC
115195244 ACAATA
66 ACAATA
115195250 TCTG
1 TCTG
115195254 TATCTGGTGA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (71 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATATATCTGTTCTGGTGACCTAGCC
ACAATA
Found at i:115199339 original size:43 final size:42
Alignment explanation
Indices: 115199291--115199429 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 42
115199281 AGACGTGGTT
* * *
115199291 TTACAAGTAATGAAATATCGATGCC-ACTGTCCCAGATAGGGTC
1 TTACAAGAAATCAAATA-CGATGCCGA-TGTCCCAGACAGGGTC
*
115199334 TTACAAGAAATCAAATACGATGCCGATGTCCCAGACATGGTC
1 TTACAAGAAATCAAATACGATGCCGATGTCCCAGACAGGGTC
* * *
115199376 TTACACATAAATCATAAGTA-AATGCCAATGTCCCAGAC-GTGGTC
1 TTACA-AGAAATCA-AA-TACGATGCCGATGTCCCAGACAG-GGTC
*
115199420 TTACAGGAAA
1 TTACAAGAAA
115199430 ACACATATCG
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
42 26 0.32
43 26 0.32
44 27 0.33
45 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (42 bp):
TTACAAGAAATCAAATACGATGCCGATGTCCCAGACAGGGTC
Found at i:115199364 original size:42 final size:40
Alignment explanation
Indices: 115199291--115199429 Score: 118
Period size: 42 Copynumber: 3.2 Consensus size: 40
115199281 AGACGTGGTT
* *
115199291 TTACAAGTAATGAAATATCGATGCCACTGTCCCAGATAGGGTC
1 TTACAAGAAATCAAATA-CGATGCCA-TGTCCCAGA-AGGGTC
*
115199334 TTACAAGAAATCAAATACGATGCCGATGTCCCAGACATGGTC
1 TTACAAGAAATCAAATACGATGCC-ATGTCCCAGA-AGGGTC
* * *
115199376 TTACACATAAATCATAAGTA-AATGCCAATGTCCCAGACGTGGTC
1 TTACA-AGAAATCA-AA-TACGATGCC-ATGTCCCAGAAG-GGTC
*
115199420 TTACAGGAAA
1 TTACAAGAAA
115199430 ACACATATCG
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
42 26 0.32
43 26 0.32
44 26 0.32
45 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (40 bp):
TTACAAGAAATCAAATACGATGCCATGTCCCAGAAGGGTC
Found at i:115199410 original size:44 final size:42
Alignment explanation
Indices: 115199263--115199429 Score: 147
Period size: 43 Copynumber: 3.9 Consensus size: 42
115199253 TGGAAATCTT
* * * * * * *
115199263 ATACAATGCAAACGTCCTAGACGTGGTTTTACAAGTAATGAA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACAAGAAATCAA
* * * *
115199305 ATATCGATGCCACTGTCCCAGATAGGGTCTTACAAGAAATCAA
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACAAGAAATCAA
* * *
115199348 ATACGATGCCGATGTCCCAGACATGGTCTTACACATAAATCATA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACA-AGAAATCA-A
* *
115199392 AGTA-AATGCCAATGTCCCAGACGTGGTCTTACAGGAAA
1 A-TACAATGCCAATGTCCCAGACATGGTCTTACAAGAAA
115199430 ACACATATCG
Statistics
Matches: 100, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
42 29 0.29
43 41 0.41
44 28 0.28
45 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACAAGAAATCAA
Found at i:115201383 original size:40 final size:40
Alignment explanation
Indices: 115201325--115201492 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
115201315 TCTTTGGGAT
*
115201325 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
115201364 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * *
115201404 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* * * *
115201444 ATAGCCCGGATATAGCAACTCGCACGAATGCGTTCGGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
115201484 TTAGTCCGG
1 TTAGCCCGG
115201493 TTATCATCCG
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 6 0.05
40 103 0.93
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:115210923 original size:39 final size:39
Alignment explanation
Indices: 115210830--115210981 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
115210820 GAATGTTCGA
* *
115210830 GTGATATCCGGGCTAAGCCCGAAGGCAATTCTG-GAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
115210868 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
115210907 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
115210946 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
115210982 GGTTACCATA
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 32 0.31
39 55 0.53
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:115210997 original size:40 final size:39
Alignment explanation
Indices: 115210831--115211011 Score: 229
Period size: 39 Copynumber: 4.6 Consensus size: 39
115210821 AATGTTCGAG
* * *
115210831 TGATATCCGGGCTAAGCCCGAAGGCAATTCTG-GAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
115210869 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
115210908 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
115210947 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
115210987 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
115211012 TGTTTTGAAC
Statistics
Matches: 126, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
38 31 0.25
39 55 0.44
40 40 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:115213974 original size:27 final size:27
Alignment explanation
Indices: 115213936--115213990 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
115213926 TTTGTAATCG
115213936 GGTGTCAAACCCCTTGGGTCATTACGT
1 GGTGTCAAACCCCTTGGGTCATTACGT
115213963 GGTGTCAAACCCCTTGGGTCATTACGT
1 GGTGTCAAACCCCTTGGGTCATTACGT
115213990 G
1 G
115213991 CTCGTCAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.29
Consensus pattern (27 bp):
GGTGTCAAACCCCTTGGGTCATTACGT
Found at i:115218493 original size:39 final size:39
Alignment explanation
Indices: 115218375--115218557 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
115218365 TCGTTCAAAC
* * ** * **
115218375 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
115218415 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
115218455 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
115218494 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
115218533 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
115218558 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:115226303 original size:29 final size:28
Alignment explanation
Indices: 115226238--115226340 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 28
115226228 GCATGAGTAT
* *
115226238 AATATGATTTAGGCCTAATGGGCCATATG
1 AATATGAATTGGGCCTAAT-GGCCATATG
** *
115226267 AAGGTGAATTGGGCCTAATGGACCATAAG
1 AATATGAATTGGGCCTAATGG-CCATATG
* * *
115226296 AATATGAACTGGGCCAAATAGGCCATTTG
1 AATATGAATTGGGCCTAAT-GGCCATATG
*
115226325 AATA-AAATTGGGCCTA
1 AATATGAATTGGGCCTA
115226341 GTGGGCTATA
Statistics
Matches: 58, Mismatches: 14, Indels: 5
0.75 0.18 0.06
Matches are distributed among these distances:
28 11 0.19
29 45 0.78
30 2 0.03
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (28 bp):
AATATGAATTGGGCCTAATGGCCATATG
Found at i:115228363 original size:39 final size:39
Alignment explanation
Indices: 115228245--115228427 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
115228235 TCGTTCAAAC
* * ** * **
115228245 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
115228285 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
115228325 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
115228364 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
115228403 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
115228428 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:115238984 original size:492 final size:492
Alignment explanation
Indices: 115238060--115239537 Score: 2929
Period size: 492 Copynumber: 3.0 Consensus size: 492
115238050 CTCTGATTCA
115238060 ATTTCTACTATTTTTGGTGATTTTTCAAATTCACATCACTGCTACTGTCCAAAAAAGTTTTATTG
1 ATTTCTACTATTTTTGGTGATTTTTCAAATTCACATCACTGCTACTGTCCAAAAAAGTTTTATTG
115238125 CTAATTCACTCTTTCACACTTTCTTTGTATTAACCTCATTTTAACATACATATCACAAATCATTT
66 CTAATTCACTCTTTCACACTTTCTTTGTATTAACCTCATTTTAACATACATATCACAAATCATTT
115238190 TCACCACATTTCATACATCACAAGTATAGGCCCATGATTACAAGGTCACCATAAAATCATCCTCA
131 TCACCACATTTCATACATCACAAGTATAGGCCCATGATTACAAGGTCACCATAAAATCATCCTCA
115238255 CATGTAATTTACTTGTTTATAACCTTACCACATCCCGGTCACTTAATGTACACATCATTCACATA
196 CATGTAATTTACTTGTTTATAACCTTACCACATCCCGGTCACTTAATGTACACATCATTCACATA
115238320 ACCAAGTTCCTGCACTTATTCATCGCAAAACTCACAAAGCAATACATAGAGAGTCTCCCATTGAA
261 ACCAAGTTCCTGCACTTATTCATCGCAAAACTCACAAAGCAATACATAGAGAGTCTCCCATTGAA
115238385 CACTTCGGATCAATCCTCGATACTTGGTGGTTTCAGTACATAGCTCCACTCATCATATAGTTCGG
326 CACTTCGGATCAATCCTCGATACTTGGTGGTTTCAGTACATAGCTCCACTCATCATATAGTTCGG
115238450 CTCTCTTGTGCACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTAGCT
391 CTCTCTTGTGCACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTAGCT
115238515 CTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGC
456 CTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGC
115238552 ATTTCTACTATTTTTGGTGATTTTTCAAATTCACATCACTGCTACTGTCCAAAAAAGTTTTATTG
1 ATTTCTACTATTTTTGGTGATTTTTCAAATTCACATCACTGCTACTGTCCAAAAAAGTTTTATTG
115238617 CTAATTCACTCTTTCACACTTTCTTTGTATTAACCTCATTTTAACATACATATCACAAATCATTT
66 CTAATTCACTCTTTCACACTTTCTTTGTATTAACCTCATTTTAACATACATATCACAAATCATTT
115238682 TCACCACATTTCATACATCACAAGTATAGGCCCATGATTACAAGGTCACCATAAAATCATCCTCA
131 TCACCACATTTCATACATCACAAGTATAGGCCCATGATTACAAGGTCACCATAAAATCATCCTCA
115238747 CATGTAATTTACTTGTTTATAACCTTACCACATCCCGGTCACTTAATGTACACATCATTCACATA
196 CATGTAATTTACTTGTTTATAACCTTACCACATCCCGGTCACTTAATGTACACATCATTCACATA
115238812 ACCAAGTTCCTGCACTTATTCATCGCAAAACTCACAAAGCAATACATAGAGAGTCTCCCATTGAA
261 ACCAAGTTCCTGCACTTATTCATCGCAAAACTCACAAAGCAATACATAGAGAGTCTCCCATTGAA
115238877 CACTTCGGATCAATCCTCGATACTTGGTGGTTTCAGTACATAGCTCCACTCATCATATAGTTCGG
326 CACTTCGGATCAATCCTCGATACTTGGTGGTTTCAGTACATAGCTCCACTCATCATATAGTTCGG
115238942 CTCTCTTGTGCACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTAGCT
391 CTCTCTTGTGCACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTAGCT
115239007 CTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGC
456 CTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGC
*
115239044 ATTTCTACTATTTTTGGTGATTTTTCAAATTCACATCACTGCTACTGTCCAAAACAGTTTTATTG
1 ATTTCTACTATTTTTGGTGATTTTTCAAATTCACATCACTGCTACTGTCCAAAAAAGTTTTATTG
115239109 CTAATTCACTCTTTCACACTTTCTTTGTATTAACCTCATTTTAACATACATATCACAAATCATTT
66 CTAATTCACTCTTTCACACTTTCTTTGTATTAACCTCATTTTAACATACATATCACAAATCATTT
115239174 TCACCACATTTCATACATCACAAGTATAGGCCCATGATTACAAGGTCACCATAAAATCATCCTCA
131 TCACCACATTTCATACATCACAAGTATAGGCCCATGATTACAAGGTCACCATAAAATCATCCTCA
115239239 CATGTAATTTACTTGTTTATAACCTTACCACATCCCGGTCACTTAATGTACACATCATTCACATA
196 CATGTAATTTACTTGTTTATAACCTTACCACATCCCGGTCACTTAATGTACACATCATTCACATA
*
115239304 ACCAAGTTCCTGCACTTATTCATCACAAAACTCACAAAGCAATACATAGAGAGTCTCCCATTGAA
261 ACCAAGTTCCTGCACTTATTCATCGCAAAACTCACAAAGCAATACATAGAGAGTCTCCCATTGAA
*
115239369 CACTTCGGATCAATTCTCGATACTTGGTGGTTTCAGTACATAGCTCCACTCATCATATAGTTCGG
326 CACTTCGGATCAATCCTCGATACTTGGTGGTTTCAGTACATAGCTCCACTCATCATATAGTTCGG
115239434 CTCTCTTGTGCACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTAGCT
391 CTCTCTTGTGCACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTAGCT
115239499 CTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGC
456 CTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGC
115239536 AT
1 AT
115239538 GCGACCTAGC
Statistics
Matches: 983, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
492 983 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (492 bp):
ATTTCTACTATTTTTGGTGATTTTTCAAATTCACATCACTGCTACTGTCCAAAAAAGTTTTATTG
CTAATTCACTCTTTCACACTTTCTTTGTATTAACCTCATTTTAACATACATATCACAAATCATTT
TCACCACATTTCATACATCACAAGTATAGGCCCATGATTACAAGGTCACCATAAAATCATCCTCA
CATGTAATTTACTTGTTTATAACCTTACCACATCCCGGTCACTTAATGTACACATCATTCACATA
ACCAAGTTCCTGCACTTATTCATCGCAAAACTCACAAAGCAATACATAGAGAGTCTCCCATTGAA
CACTTCGGATCAATCCTCGATACTTGGTGGTTTCAGTACATAGCTCCACTCATCATATAGTTCGG
CTCTCTTGTGCACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTAGCT
CTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGC
Found at i:115244787 original size:30 final size:30
Alignment explanation
Indices: 115244753--115244813 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
115244743 TCCTTAACTC
115244753 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
115244783 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
115244813 A
1 A
115244814 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:115245822 original size:27 final size:26
Alignment explanation
Indices: 115245778--115245829 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
115245768 CTTGCTGCAA
*
115245778 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
115245805 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
115245830 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:115248278 original size:40 final size:40
Alignment explanation
Indices: 115248161--115248378 Score: 338
Period size: 40 Copynumber: 5.5 Consensus size: 40
115248151 TTCGGATGAC
* *
115248161 ATCCAGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
*
115248200 ATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
115248239 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
*
115248279 ATCCGGGCTAAGTCCCGAAGGCATTTGTACTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
*
115248319 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACTAT
115248359 ATCC-GGCTATA-TCCCGAAGG
1 ATCCGGGCTA-AGTCCCGAAGG
115248379 TACTTGGGTT
Statistics
Matches: 171, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
39 75 0.44
40 93 0.54
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
Found at i:115256677 original size:27 final size:26
Alignment explanation
Indices: 115256633--115256684 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
115256623 CTCGTTGCAA
*
115256633 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
115256660 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
115256685 GCAGCGTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:115258462 original size:33 final size:34
Alignment explanation
Indices: 115258415--115258479 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
115258405 CTGAGTTTAA
*
115258415 ATAAAATTT-TAAAAAAAAGAAAGTAAAAAAGCT
1 ATAAAATTTAAAAAAAAAAGAAAGTAAAAAAGCT
115258448 ATAAAATTTAAAAAAAAAAAGAAAGTAAAAAA
1 ATAAAATTT-AAAAAAAAAAGAAAGTAAAAAA
115258480 AAGTTAACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 9 0.31
35 20 0.69
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (34 bp):
ATAAAATTTAAAAAAAAAAGAAAGTAAAAAAGCT
Found at i:115261730 original size:19 final size:18
Alignment explanation
Indices: 115261698--115261741 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
115261688 TTGGGTAAAC
115261698 AATTA-ATTAAATTATTT
1 AATTATATTAAATTATTT
*
115261715 AACTTATATTATATTATTT
1 AA-TTATATTAAATTATTT
115261734 AATTATAT
1 AATTATAT
115261742 AGTACATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 9 0.38
19 13 0.54
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTATATTAAATTATTT
Found at i:115291761 original size:24 final size:23
Alignment explanation
Indices: 115291729--115291793 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 23
115291719 GTGCTATTTG
115291729 TCGCACACATAGTGCATAGTAAAA
1 TCGCACACATAGTGCATAGT-AAA
115291753 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTG-CATAGTAAA
*
115291777 TCACACACATAGTGCAT
1 TCGCACACATAGTGCAT
115291794 TTGAGATTCC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
23 3 0.08
24 30 0.77
25 6 0.15
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (23 bp):
TCGCACACATAGTGCATAGTAAA
Found at i:115301206 original size:28 final size:28
Alignment explanation
Indices: 115301166--115301237 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
115301156 AAAATTGTAC
* *
115301166 AGCACTAAGTGTGCGAGCTTG-ATTCTAT
1 AGCACTAAGTGTGCGAGC-TGAAATATAT
115301194 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTG-AAATATAT
115301223 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
115301238 GATTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 20 0.50
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGAAATATAT
Found at i:115309794 original size:40 final size:40
Alignment explanation
Indices: 115309749--115309915 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
115309739 CGGAATATAA
115309749 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
115309789 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** ** *
115309829 CCGGATATAGCCACTAGCACATTTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
115309869 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
115309908 CCGGATAT
1 CCGGATAT
115309916 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:115312352 original size:29 final size:28
Alignment explanation
Indices: 115312285--115312356 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
115312275 AAAATTGTAC
* *
115312285 AGCACTAAGTGTGCGAGCTTGATTCTAT
1 AGCACTAAGTGTGCGAGCTTGAATATAT
*
115312313 AGCACTAAGTGTGTGAGC-TGAAAATATAT
1 AGCACTAAGTGTGCGAGCTTG--AATATAT
115312342 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
115312357 GATTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.05
28 17 0.45
29 19 0.50
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGAATATAT
Found at i:115315449 original size:49 final size:49
Alignment explanation
Indices: 115315377--115315590 Score: 387
Period size: 49 Copynumber: 4.4 Consensus size: 49
115315367 TTTACCACAT
*
115315377 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
115315426 ATATATATACACTTTCACATTCATCACATCGGCCATGAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
115315475 ATATATATAC-CTTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
115315524 ATATATATAC-CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
115315572 ATATATATACACTTTCACA
1 ATATATATACACTTTCACA
115315591 AATTTTGATA
Statistics
Matches: 160, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
48 48 0.30
49 112 0.70
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:115318762 original size:19 final size:19
Alignment explanation
Indices: 115318738--115318793 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
115318728 GTATTCGATT
115318738 ACATGTGAATTTATATTGA
1 ACATGTGAATTTATATTGA
* *
115318757 ACATGTGTATTTA-GTT--
1 ACATGTGAATTTATATTGA
*
115318773 ACATGTGAGTTTATATTGA
1 ACATGTGAATTTATATTGA
115318792 AC
1 AC
115318794 TTATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 11 0.38
17 2 0.07
18 2 0.07
19 14 0.48
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (19 bp):
ACATGTGAATTTATATTGA
Found at i:115318809 original size:33 final size:35
Alignment explanation
Indices: 115318736--115318802 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
115318726 GAGTATTCGA
*
115318736 TTACATGTGAATTTATATTGAACATGTGTATTTAG
1 TTACATGTGAATTTATATTGAACATGTATATTTAG
*
115318771 TTACATGTGAGTTTATATTGAAC-T-TATATTTA
1 TTACATGTGAATTTATATTGAACATGTATATTTA
115318803 TATACATTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 7 0.23
34 1 0.03
35 22 0.73
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (35 bp):
TTACATGTGAATTTATATTGAACATGTATATTTAG
Found at i:115319612 original size:40 final size:40
Alignment explanation
Indices: 115319556--115319761 Score: 376
Period size: 40 Copynumber: 5.2 Consensus size: 40
115319546 AACTAAGATT
*
115319556 CGAAGGCATTTATGCTAGTTGCTATATCCGGGCTAAATCC
1 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
*
115319596 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
* *
115319636 CGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
115319676 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
1 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
115319716 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
1 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
115319756 CGAAGG
1 CGAAGG
115319762 TACTTGGGTT
Statistics
Matches: 161, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 161 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
Found at i:115326501 original size:19 final size:19
Alignment explanation
Indices: 115326477--115326532 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
115326467 GTATTCGATT
115326477 ACATGTGAATTTATATTGA
1 ACATGTGAATTTATATTGA
* *
115326496 ACATGTGTATTTA-GTT--
1 ACATGTGAATTTATATTGA
*
115326512 ACATGTGAGTTTATATTGA
1 ACATGTGAATTTATATTGA
115326531 AC
1 AC
115326533 TTATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 11 0.38
17 2 0.07
18 2 0.07
19 14 0.48
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (19 bp):
ACATGTGAATTTATATTGA
Found at i:115326548 original size:33 final size:35
Alignment explanation
Indices: 115326475--115326541 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
115326465 GAGTATTCGA
*
115326475 TTACATGTGAATTTATATTGAACATGTGTATTTAG
1 TTACATGTGAATTTATATTGAACATGTATATTTAG
*
115326510 TTACATGTGAGTTTATATTGAAC-T-TATATTTA
1 TTACATGTGAATTTATATTGAACATGTATATTTA
115326542 TATACATTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 7 0.23
34 1 0.03
35 22 0.73
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (35 bp):
TTACATGTGAATTTATATTGAACATGTATATTTAG
Found at i:115327743 original size:43 final size:44
Alignment explanation
Indices: 115327696--115327809 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 44
115327686 GGAACGTTGA
* * *
115327696 CTTCGATCTGATATAT-CATGTAAGACCGTGTTTGGGACACAGG
1 CTTCGATCTGAGATATACATGTAAGACCCTGTCTGGGACACAGG
* * * *
115327739 CTTCGATTTGAGATTTACGTGTAAGACCCTGTCTGGGACAGAGG
1 CTTCGATCTGAGATATACATGTAAGACCCTGTCTGGGACACAGG
* *
115327783 CATCGATATTGA-AT-TACATGTAAGACC
1 CTTCGAT-CTGAGATATACATGTAAGACC
115327810 ACGTCCAGGA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
43 25 0.42
44 31 0.52
45 4 0.07
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
CTTCGATCTGAGATATACATGTAAGACCCTGTCTGGGACACAGG
Found at i:115327764 original size:44 final size:43
Alignment explanation
Indices: 115327712--115327809 Score: 126
Period size: 44 Copynumber: 2.3 Consensus size: 43
115327702 TCTGATATAT
* * *
115327712 CATGTAAGACCGTGTTTGGGACACAGGCTTCGAT-TTGAGATTTA
1 CATGTAAGACCCTGTCTGGGACACAGGCATCGATATTGA-A-TTA
* *
115327756 CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTA
1 CATGTAAGACCCTGTCTGGGACACAGGCATCGATATTGAATTA
115327799 CATGTAAGACC
1 CATGTAAGACC
115327810 ACGTCCAGGA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 13 0.28
44 30 0.64
45 4 0.09
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
CATGTAAGACCCTGTCTGGGACACAGGCATCGATATTGAATTA
Found at i:115334961 original size:45 final size:45
Alignment explanation
Indices: 115334897--115335070 Score: 196
Period size: 45 Copynumber: 3.9 Consensus size: 45
115334887 TATCGTACAG
* *
115334897 TACTATTCGGGCCTTTGAGCCTACCAGGCTATGATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
* *
115334942 TACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
* * * *
115334987 TACTATTCAGGCCTTCGAGCTTAGCAGGCTATAATGCC-GTTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAG-TGAGA
* * *
115335032 TGA-TA-TCGGG-CTTCGAACCTAGCAGGC-AAAATGCCAGTG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTG
115335071 GATGAATTCG
Statistics
Matches: 113, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
42 9 0.08
43 16 0.14
44 5 0.04
45 82 0.73
46 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
Found at i:115335626 original size:16 final size:18
Alignment explanation
Indices: 115335595--115335627 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
115335585 AACTCGTCAC
115335595 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
115335613 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
115335628 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:115342697 original size:45 final size:45
Alignment explanation
Indices: 115342633--115342751 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 45
115342623 AATATCGTAC
*
115342633 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCCGTGA
1 GATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATACCCGTGA
* * * *
115342678 GATACTATTCGAGCCTTTGAGCCTAGCGGGTTATAATGCCGGTGA
1 GATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATACCCGTGA
* *
115342723 AATGA-TA-TCGAG-CTTCGAGCCTAGCAGGC
1 GAT-ACTATTCGAGCCTTTGAGCCTAGCAGGC
115342752 GAAATGCCGG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 14 0.22
44 5 0.08
45 44 0.69
46 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (45 bp):
GATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATACCCGTGA
Found at i:115344139 original size:45 final size:45
Alignment explanation
Indices: 115344073--115344335 Score: 257
Period size: 45 Copynumber: 5.9 Consensus size: 45
115344063 TTTCGACATC
* * * * *
115344073 TGATTTCGTGTAAGACAACGTCTAGGACATTGGCTTCAATATATG
1 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
* * *
115344118 TGATTTCATGTAAGACCACGTCTGGGATGTTGGCATTGATATATG
1 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
* * *
115344163 TGATTTTGTGTAAGACCACGTCTGGGATGTTGGCAACGATATATG
1 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
* * *
115344208 TTATTTCGTGTAAGACCACGTTTGGGACGTTGGCATCGATATATA
1 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
* * * * * *
115344253 TGGTTACGTGTAAGACCATGTTTGGGACATTAGCATCG-TAT-T-
1 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
* * * **
115344295 CGA-TTCATGTAAGACC-CTGTCTAGGACAATGGCATCGATAT
1 TGATTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATCGATAT
115344336 GAGATAACAT
Statistics
Matches: 183, Mismatches: 33, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
41 26 0.14
42 4 0.02
43 1 0.01
44 3 0.02
45 149 0.81
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (45 bp):
TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
Found at i:115363043 original size:2 final size:2
Alignment explanation
Indices: 115363036--115363079 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
115363026 GAGACTAGTC
*
115363036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115363078 AT
1 AT
115363080 CATGATACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:115366158 original size:45 final size:45
Alignment explanation
Indices: 115366082--115366304 Score: 215
Period size: 45 Copynumber: 5.0 Consensus size: 45
115366072 TAGGATTCCA
* * * * *
115366082 ATATGTTATTTCATGTAAGACCACGTCTGGGACATTGGCATCGAT
1 ATATGTGATTTCGTGTAAAACCATGTTTGGGACATTGGCATCGAT
*
115366127 ATATGTGATTTCATGTAAAACCATGTTTGGGACATTGGCAAT-GAT
1 ATATGTGATTTCGTGTAAAACCATGTTTGGGACATTGGC-ATCGAT
* * * *
115366172 ATATGTGATTTCGTGTAAAACCACGTCTAGGACGTTGGCATCGAT
1 ATATGTGATTTCGTGTAAAACCATGTTTGGGACATTGGCATCGAT
* * * **
115366217 ATATATGGTTACGTG-AAAGACCATGTTTGGGACACCGGCATCG-T
1 ATATGTGATTTCGTGTAAA-ACCATGTTTGGGACATTGGCATCGAT
* * * *
115366261 AT-T-CGA-TTCGTGTAAGACCCTGTTTGGGACAGTGGCATCGAT
1 ATATGTGATTTCGTGTAAAACCATGTTTGGGACATTGGCATCGAT
115366303 AT
1 AT
115366305 GATATAACAT
Statistics
Matches: 148, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
41 26 0.18
42 6 0.04
43 1 0.01
44 8 0.05
45 105 0.71
46 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (45 bp):
ATATGTGATTTCGTGTAAAACCATGTTTGGGACATTGGCATCGAT
Found at i:115366240 original size:90 final size:90
Alignment explanation
Indices: 115366082--115366250 Score: 241
Period size: 90 Copynumber: 1.9 Consensus size: 90
115366072 TAGGATTCCA
* * * * *
115366082 ATATGTTATTTCATGTAAGACCACGTCTGGGACATTGGCATCGATATATGTGATTTCATGTAAAA
1 ATATGTGATTTCATGTAAAACCACGTCTAGGACATTGGCATCGATATATATGATTACATGTAAAA
115366147 CCATGTTTGGGACATTGGCAATGAT
66 CCATGTTTGGGACATTGGCAATGAT
* * * *
115366172 ATATGTGATTTCGTGTAAAACCACGTCTAGGACGTTGGCATCGATATATATGGTTACGTG-AAAG
1 ATATGTGATTTCATGTAAAACCACGTCTAGGACATTGGCATCGATATATATGATTACATGTAAA-
115366236 ACCATGTTTGGGACA
65 ACCATGTTTGGGACA
115366251 CCGGCATCGT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
89 3 0.04
90 66 0.96
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (90 bp):
ATATGTGATTTCATGTAAAACCACGTCTAGGACATTGGCATCGATATATATGATTACATGTAAAA
CCATGTTTGGGACATTGGCAATGAT
Found at i:115367411 original size:17 final size:18
Alignment explanation
Indices: 115367369--115367417 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
115367359 AGTTGAAAAG
115367369 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
115367388 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
115367405 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
115367418 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:115368306 original size:40 final size:39
Alignment explanation
Indices: 115368240--115368405 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
115368230 AAATTGAATG
* * *
115368240 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
115368279 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
115368318 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
115368358 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
115368398 ATATCCGG
1 ATATCCGG
115368406 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:115369741 original size:13 final size:14
Alignment explanation
Indices: 115369723--115369751 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
115369713 GTTTGTTAAC
115369723 CCTC-GGTCCGACA
1 CCTCGGGTCCGACA
115369736 CCTCGGGTCCGACA
1 CCTCGGGTCCGACA
115369750 CC
1 CC
115369752 GGCGATGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.14, C:0.48, G:0.24, T:0.14
Consensus pattern (14 bp):
CCTCGGGTCCGACA
Found at i:115372484 original size:80 final size:80
Alignment explanation
Indices: 115372400--115372548 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
115372390 TATGGTAACC
* * * *
115372400 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
115372464 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
115372480 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
115372545 CCGG
66 CCGG
115372549 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:115372490 original size:40 final size:38
Alignment explanation
Indices: 115372441--115372548 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
115372431 ATCACGATTT
*
115372441 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
115372481 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
115372521 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
115372549 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:115380601 original size:80 final size:80
Alignment explanation
Indices: 115380517--115380665 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
115380507 TATGGTAACC
* * * *
115380517 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
115380581 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
115380597 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
115380662 CCGG
66 CCGG
115380666 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:115380607 original size:40 final size:38
Alignment explanation
Indices: 115380558--115380665 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
115380548 ATCACGATTT
*
115380558 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
115380598 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
115380638 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
115380666 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:115384463 original size:51 final size:51
Alignment explanation
Indices: 115384379--115384628 Score: 376
Period size: 51 Copynumber: 4.9 Consensus size: 51
115384369 CGGATGCACG
* *
115384379 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTTACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
* * * *
115384430 GTAGCCTTCACATAATAACACACTTGTGTCCAAAGCTATTTTATTCAAAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
115384481 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTCATGCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
115384532 GTGGCCTTCACATAGTACCACACTTGTGTTCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
115384583 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGTTATTATATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
115384629 CTAAGGTTCA
Statistics
Matches: 180, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 1 0.01
51 179 0.99
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:115386476 original size:39 final size:37
Alignment explanation
Indices: 115386399--115386485 Score: 88
Period size: 39 Copynumber: 2.3 Consensus size: 37
115386389 AGAATTATTT
* *
115386399 GAATATAATTTTATAAAATATAATTTAAATTTATAAA
1 GAATATAATTTTATAAAATAGAATTTAAATTTACAAA
115386436 GAATATATATTTATATAAAAT-GAATTTGAAAATTT-CAAA
1 GAATATA-ATTT-TATAAAATAGAATTT--AAATTTACAAA
*
115386475 GATTAATAATT
1 GAAT-ATAATT
115386486 CTATGCCAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
37 7 0.17
38 9 0.21
39 17 0.40
40 9 0.21
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (37 bp):
GAATATAATTTTATAAAATAGAATTTAAATTTACAAA
Found at i:115386672 original size:29 final size:30
Alignment explanation
Indices: 115386630--115386689 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
115386620 TTTGGTTCAA
* *
115386630 TGTGTAATGTTATACATGA-ATTTTGATTT
1 TGTGCAATGTTATACATAATATTTTGATTT
* *
115386659 TGTGCAATTTTATATATAATATTTTGATTT
1 TGTGCAATGTTATACATAATATTTTGATTT
115386689 T
1 T
115386690 ATTCATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.55
Consensus pattern (30 bp):
TGTGCAATGTTATACATAATATTTTGATTT
Found at i:115390954 original size:28 final size:28
Alignment explanation
Indices: 115390914--115390992 Score: 122
Period size: 28 Copynumber: 2.8 Consensus size: 28
115390904 GAATCATTCG
115390914 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGTACACTAAGTGCCATTCTCA
* *
115390942 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGTACACTAAGTGCCATTCTCA
* *
115390970 ATATTTTGTACACTGAGTGCCAT
1 ATATTTCGTACACTAAGTGCCAT
115390993 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (28 bp):
ATATTTCGTACACTAAGTGCCATTCTCA
Found at i:115420504 original size:44 final size:46
Alignment explanation
Indices: 115420414--115420523 Score: 152
Period size: 44 Copynumber: 2.4 Consensus size: 46
115420404 GACAGAACGA
*
115420414 AATGAGCCATGTAAGTCCATATTTGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTTGAAATATGGCATTGGAGACAGG
* *
115420460 ATTGAGCCATGTAAGTCCATA-TT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTTGAAATATGGCATTGGAGACAGG
* **
115420504 AATAATTCATGTAAGTCCAT
1 AATGAGCCATGTAAGTCCAT
115420524 GTCAAAGACA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.61
45 2 0.04
46 20 0.35
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (46 bp):
AATGAGCCATGTAAGTCCATATTTGAAATATGGCATTGGAGACAGG
Found at i:115431594 original size:16 final size:15
Alignment explanation
Indices: 115431573--115431610 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
115431563 AGCAAAGAAA
115431573 AGAGAAAAGCAGATTT
1 AGAGAAAAG-AGATTT
*
115431589 AGAGAATAGAGATTT
1 AGAGAAAAGAGATTT
115431604 -GAGAAAA
1 AGAGAAAA
115431611 AGACAGATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 6 0.30
15 6 0.30
16 8 0.40
ACGTcount: A:0.53, C:0.03, G:0.26, T:0.18
Consensus pattern (15 bp):
AGAGAAAAGAGATTT
Found at i:115433447 original size:46 final size:46
Alignment explanation
Indices: 115433397--115433569 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
115433387 TGGTTGAGCA
**
115433397 TCCGAACTTATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115433443 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
115433488 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115433536 CCCGAGCTCGTTCAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
115433570 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.56
47 30 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:115433553 original size:93 final size:93
Alignment explanation
Indices: 115433394--115433565 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
115433384 GGATGGTTGA
* * * *
115433394 GCATCCGAACTTATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAGT
115433459 TGAGTCCGAGTTCATGAAATGTAACTAG
66 TGAGTCCGAGTTCATGAAATGTAACTAG
* *
115433487 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTCAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAGT
115433552 TGAGTCCGAGTTCA
66 TGAGTCCGAGTTCA
115433566 CTTAGGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAGT
TGAGTCCGAGTTCATGAAATGTAACTAG
Found at i:115438015 original size:39 final size:39
Alignment explanation
Indices: 115437900--115438120 Score: 298
Period size: 39 Copynumber: 5.6 Consensus size: 39
115437890 TCGTTCAAAC
* * ** * **
115437900 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
115437940 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
115437980 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
115438019 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* * *
115438058 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
115438097 GCCTTCGGGCTTAGCCCGGATATC
1 GCCTTCGGGCTTAGCCCGGATATC
115438121 CTCGAACATT
Statistics
Matches: 163, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 125 0.77
40 38 0.23
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:115438100 original size:117 final size:119
Alignment explanation
Indices: 115437900--115438120 Score: 356
Period size: 117 Copynumber: 1.9 Consensus size: 119
115437890 TCGTTCAAAC
* **
115437900 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
115437965 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
66 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* * ** *
115438019 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
115438082 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATC
66 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATC
115438121 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
117 53 0.56
118 32 0.34
119 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (119 bp):
GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:115446099 original size:79 final size:79
Alignment explanation
Indices: 115445985--115446142 Score: 201
Period size: 79 Copynumber: 2.0 Consensus size: 79
115445975 TCGTTCAAAC
* **
115445985 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGG-CTTAACCCGGATATC
* *
115446050 ACAATTTGCACAATT
65 ACAACTCGCACAATT
* * ** *
115446065 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGCTTAACCCGGATATCA
*
115446129 TAACTCGCACAATT
66 CAACTCGCACAATT
115446143 TCGTAGCCCG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
78 26 0.39
79 32 0.48
80 9 0.13
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGCTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:115446100 original size:39 final size:39
Alignment explanation
Indices: 115445985--115446197 Score: 219
Period size: 39 Copynumber: 5.6 Consensus size: 39
115445975 TCGTTCAAAC
* * ** * **
115445985 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
115446025 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
115446065 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
115446104 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAA-T
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* * *
115446142 ---TTC--G--TAGCCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
115446174 G-CTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
115446198 CTCGAACATT
Statistics
Matches: 148, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
31 23 0.16
32 1 0.01
33 1 0.01
34 3 0.02
35 3 0.02
36 1 0.01
38 15 0.10
39 63 0.43
40 38 0.26
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:115455408 original size:40 final size:40
Alignment explanation
Indices: 115455363--115455489 Score: 191
Period size: 40 Copynumber: 3.2 Consensus size: 40
115455353 CGGAATACAA
*
115455363 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
115455403 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
115455443 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
115455483 CCGGATA
1 CCGGATA
115455490 AAGTCACTAG
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:115455503 original size:80 final size:79
Alignment explanation
Indices: 115455363--115455529 Score: 221
Period size: 80 Copynumber: 2.1 Consensus size: 79
115455353 CGGAATACAA
* * *
115455363 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
115455428 CCTTCGGGTATTAGC
66 CCTTC-GGTATTAAC
** *
115455443 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
115455506 TGCCTTCGGTCTTAAC
64 TGCCTTCGGTATTAAC
115455522 CCGGATAT
1 CCGGATAT
115455530 CATTCAATTG
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 17 0.22
80 59 0.77
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (79 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGTATTAAC
Found at i:115455510 original size:40 final size:39
Alignment explanation
Indices: 115455363--115455529 Score: 180
Period size: 40 Copynumber: 4.2 Consensus size: 39
115455353 CGGAATACAA
* *
115455363 CCGGATATAACCAC-ACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTA-GCAC-AATGCCTTCGGGTATTAGC
* *
115455403 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTATTAGC
*
115455443 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTATTAGC
* *
115455483 CCGGATA-AAGTC-ACTAGCACAATTGCCTTC-GGTCTTAAC
1 CCGGATATAA--CAACTAGCACAA-TGCCTTCGGGTATTAGC
115455522 CCGGATAT
1 CCGGATAT
115455530 CATTCAATTG
Statistics
Matches: 112, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
39 18 0.16
40 93 0.83
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
CCGGATATAACAACTAGCACAATGCCTTCGGGTATTAGC
Found at i:115457953 original size:53 final size:53
Alignment explanation
Indices: 115457761--115457965 Score: 223
Period size: 55 Copynumber: 3.8 Consensus size: 53
115457751 ATGGTTTAAG
* * * * *
115457761 GATACCATGTAAGACCATGCCAAGGCATGACAGTGGGTAAGGTTTC-TAACGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCA-TTGGTAA-G-TTCATAAGGCAAA
* *
115457816 GATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGCAAA
* * * * *
115457871 GGTCCCATGTAAGACCGTGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAA
* * *
115457924 GATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
115457966 TAAATAGGAT
Statistics
Matches: 125, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 46 0.37
54 6 0.05
55 71 0.57
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAA
Found at i:115457964 original size:108 final size:110
Alignment explanation
Indices: 115457765--115457965 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
115457755 TTTAAGGATA
*
115457765 CCATGTAAGACCATGCCAAGGCATGACAGTGGGTAAGGTTTCTAACGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGACAGTGGGTAAGGTTTCTAACGCAAAGATACCATGTAAGA
*
115457830 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * * *
115457875 CCATGTAAGACCGTGCCAAGGCATGGCA-TTGGTGA-G-TTCATAAGGCAAAGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGACAGTGGGTAAGGTTTC-TAACGCAAAGATACCATGTAAG
* *
115457937 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
115457966 TAAATAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 5 0.06
110 26 0.32
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGACAGTGGGTAAGGTTTCTAACGCAAAGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:115459910 original size:23 final size:23
Alignment explanation
Indices: 115459880--115459932 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
115459870 TAGTTAGATC
115459880 CAAGTGTGGGTGTTCGAATGAGT
1 CAAGTGTGGGTGTTCGAATGAGT
*
115459903 CAAGTGTGGGTGTTCGAATGATT
1 CAAGTGTGGGTGTTCGAATGAGT
*
115459926 CTAGTGT
1 CAAGTGT
115459933 TGTGTTGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.09, G:0.36, T:0.34
Consensus pattern (23 bp):
CAAGTGTGGGTGTTCGAATGAGT
Found at i:115460475 original size:20 final size:20
Alignment explanation
Indices: 115460452--115460493 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
115460442 GGCTTGTCCA
*
115460452 CAATATTGGCAGTTTAGCTG
1 CAATATTGACAGTTTAGCTG
* *
115460472 CAATATTGATAGTTTATCTG
1 CAATATTGACAGTTTAGCTG
115460492 CA
1 CA
115460494 TTACTGGTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (20 bp):
CAATATTGACAGTTTAGCTG
Found at i:115460524 original size:60 final size:60
Alignment explanation
Indices: 115460422--115460534 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
115460412 AAGTACTGGC
* ***
115460422 AGTTTATCTACATTATTGGTGGCTTGTCCACAATATTGGCAGTTTAG-CTGCAATATTGAT
1 AGTTTATCTACATTACTGGTGGCTTGTCCACAATACCAGCAGTTT-GTCTGCAATATTGAT
* *
115460482 AGTTTATCTGCATTACTGGTGGCTTGTCCACATTACCAGCAGTTTGTCTGCAA
1 AGTTTATCTACATTACTGGTGGCTTGTCCACAATACCAGCAGTTTGTCTGCAA
115460535 GTTTGGCGGC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 1 0.02
60 45 0.98
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (60 bp):
AGTTTATCTACATTACTGGTGGCTTGTCCACAATACCAGCAGTTTGTCTGCAATATTGAT
Found at i:115462077 original size:23 final size:23
Alignment explanation
Indices: 115462051--115462112 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
115462041 TCCAAATAGA
*
115462051 GCCTTTGTAGCATATTCTAAAAT
1 GCCTTTGTGGCATATTCTAAAAT
* **
115462074 GCCTTTGTGGCATATCCTGTAAT
1 GCCTTTGTGGCATATTCTAAAAT
115462097 GCCTTTGTGGCATATT
1 GCCTTTGTGGCATATT
115462113 ACAATACAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (23 bp):
GCCTTTGTGGCATATTCTAAAAT
Found at i:115464011 original size:24 final size:24
Alignment explanation
Indices: 115463964--115464027 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
115463954 GATGAGATAC
* **
115463964 CGACCTCTTCATTGCAATCATTTT
1 CGACCTTTTCATTGTTATCATTTT
* *
115463988 TGACCTTTTCATTGTTATCCTTTT
1 CGACCTTTTCATTGTTATCATTTT
* *
115464012 CAACCTTCTCATTGTT
1 CGACCTTTTCATTGTT
115464028 TCAGTGTAAC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.17, C:0.27, G:0.08, T:0.48
Consensus pattern (24 bp):
CGACCTTTTCATTGTTATCATTTT
Found at i:115467934 original size:33 final size:34
Alignment explanation
Indices: 115467868--115467934 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
115467858 GCAGAGTTAA
* *
115467868 ACAGTCTTGGGCCTAAGCCCTTTTAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCTCTCAGTATCAGTG
*
115467902 ACAGT-TTGGGCCTTAGCCCATCTCAGTA-CAGTG
1 ACAGTCTTGGGCCTAAGCCC-TCTCAGTATCAGTG
115467935 TAAAAAATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCTCTCAGTATCAGTG
Found at i:115481256 original size:25 final size:24
Alignment explanation
Indices: 115481212--115481262 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 24
115481202 ATTTCGAAGT
*
115481212 TTTAATACAATTGCTAATTTTATCA
1 TTTAATACAATT-CTAATTTAATCA
115481237 TTTAATACATATT-TATATTTAATCA
1 TTTAATACA-ATTCTA-ATTTAATCA
115481262 T
1 T
115481263 GTATATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 2 0.09
25 18 0.78
26 3 0.13
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTAATACAATTCTAATTTAATCA
Found at i:115483618 original size:46 final size:44
Alignment explanation
Indices: 115483557--115483675 Score: 154
Period size: 46 Copynumber: 2.7 Consensus size: 44
115483547 ATTGTGACGA
115483557 GTGCTAGTGTAAGACATGTCTGGGACATGCAACGGCCT-CGAGAC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCAACGG-CTACGAGAC
* *
115483601 GTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAT
1 GT--GCTAGTGTAAGACATGTCTGGGACATGCAACGGCTACGAGAC
115483647 GTG-TCAGTGTAAGACCATGTCT-GGACATG
1 GTGCT-AGTGTAAGA-CATGTCTGGGACATG
115483676 GCATCGGCAC
Statistics
Matches: 68, Mismatches: 2, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
43 1 0.01
44 19 0.28
45 9 0.13
46 39 0.57
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (44 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCAACGGCTACGAGAC
Found at i:115490120 original size:46 final size:46
Alignment explanation
Indices: 115490062--115490281 Score: 184
Period size: 46 Copynumber: 4.7 Consensus size: 46
115490052 GGGTTATTGT
*
115490062 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
* * *
115490108 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CA-TTGTGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-T-ATGA
* * * * *
115490156 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGA-GACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-A
* * *
115490203 -AGCTAGTGTAAGACATGTCTGAGACATGCATCGG-C-TATGA-GA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
* *
115490245 TGTGTTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 -GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
115490282 ACACAGATAT
Statistics
Matches: 142, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 13 0.09
45 14 0.10
46 59 0.42
47 31 0.22
48 22 0.15
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
Found at i:115491560 original size:43 final size:44
Alignment explanation
Indices: 115491493--115491620 Score: 117
Period size: 44 Copynumber: 3.0 Consensus size: 44
115491483 CTCGTACAAC
* * *
115491493 GCCAACATCCCAGACGT-GTCTTACATGTAATCACATAA-CGAT
1 GCCAACGTCCCAGAAGTGGTCTTACATGAAATCACATAATCGAT
* *
115491535 GCC-ACTTTCCCAGATAG-GGTCTTACACGCAAATCACA-AATCGAT
1 GCCAAC-GTCCCAGA-AGTGGTCTTACATG-AAATCACATAATCGAT
*
115491579 GCCAACGTCCCAGACGTGGTCTTACATGGAAA-CACAT-ATCGA
1 GCCAACGTCCCAGAAGTGGTCTTACAT-GAAATCACATAATCGA
115491621 AATCCTATGT
Statistics
Matches: 70, Mismatches: 7, Indels: 17
0.74 0.07 0.18
Matches are distributed among these distances:
41 2 0.03
42 10 0.14
43 22 0.31
44 33 0.47
45 3 0.04
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (44 bp):
GCCAACGTCCCAGAAGTGGTCTTACATGAAATCACATAATCGAT
Found at i:115492743 original size:13 final size:13
Alignment explanation
Indices: 115492725--115492751 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
115492715 CGCAAATGAT
115492725 AAAATTTTCACAC
1 AAAATTTTCACAC
115492738 AAAATTTTCACAC
1 AAAATTTTCACAC
115492751 A
1 A
115492752 TATAATATAT
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:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:115495639 original size:43 final size:43
Alignment explanation
Indices: 115495547--115495658 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 43
115495537 ATCGAGATGA
* * * * *
115495547 GATTACATGTAAAACCATGTCTAGGACATTGGCATTGTATTGC
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
115495590 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGC
* *
115495633 GGTTACGTGTAAGACCCTGTCTGGGA
1 GATTACGTGTAAGACCATGTCTGGGA
115495659 TAGTTGTGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 58 0.95
44 3 0.05
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
Found at i:115512158 original size:44 final size:44
Alignment explanation
Indices: 115512085--115512192 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 44
115512075 TAGCCCAGTT
* *
115512085 ATGGTCTTACACGAAATTA-ATTAACGATGCCAATG-TCCGTAGAC
1 ATGGTCTTACACGTAATCACATTAACGATGCCAATGTTCC--AGAC
*
115512129 ATGGTCTTACACGTAATCACA-TAATGATGCCAATGTTCCAGAC
1 ATGGTCTTACACGTAATCACATTAACGATGCCAATGTTCCAGAC
*
115512172 ATGGTCTTACACATAATCACA
1 ATGGTCTTACACGTAATCACA
115512193 ACTCCTTAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
43 24 0.41
44 30 0.52
45 4 0.07
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (44 bp):
ATGGTCTTACACGTAATCACATTAACGATGCCAATGTTCCAGAC
Found at i:115515399 original size:29 final size:29
Alignment explanation
Indices: 115515357--115515438 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
115515347 TTATTTTTTT
115515357 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
115515386 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
115515415 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
115515439 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:115523283 original size:29 final size:29
Alignment explanation
Indices: 115523241--115523322 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
115523231 TTATTTTTTT
115523241 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
115523270 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
115523299 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
115523323 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:115529603 original size:28 final size:28
Alignment explanation
Indices: 115529538--115529635 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
115529528 TCATGAATTG
* ** *
115529538 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-TGATTATATA
115529567 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
115529595 GCACTAAGTGTGCGAG-TTGACTAT-TAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
115529622 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
115529636 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 22 0.35
28 23 0.37
29 17 0.27
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:115529624 original size:27 final size:28
Alignment explanation
Indices: 115529563--115529635 Score: 114
Period size: 27 Copynumber: 2.6 Consensus size: 28
115529553 GTTCAAATTG
*
115529563 TATAGCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGAGTTTGACTA
115529591 TATAGCACTAAGTGTGCGAG-TTGACTA
1 TATAGCACTAAGTGTGCGAGTTTGACTA
115529618 T-TAAGCACTAAGTGTGCG
1 TAT-AGCACTAAGTGTGCG
115529636 GGCTTATTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
26 1 0.02
27 22 0.51
28 20 0.47
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTTGACTA
Found at i:115531905 original size:40 final size:40
Alignment explanation
Indices: 115531831--115532012 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
115531821 AACCCAAGTA
* * *
115531831 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
115531870 CCTTCGGGTCTTAGCCCGGATATAGTTAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
115531910 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
115531950 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
115531990 CCTTCGGGACTTAGCCCGAATAT
1 CCTTCGGGACTTAGCCCGGATAT
115532013 CATTCGAATA
Statistics
Matches: 127, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 11 0.09
40 114 0.90
41 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:115535335 original size:40 final size:40
Alignment explanation
Indices: 115535276--115535462 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
115535266 CATTGGAATG
* * * *
115535276 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
115535316 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
115535356 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
115535396 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
115535436 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
115535463 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:115535378 original size:80 final size:80
Alignment explanation
Indices: 115535276--115535429 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
115535266 CATTGGAATG
* * ** *
115535276 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
115535341 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
115535356 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
115535421 ATCGTGCGA
66 ATCGTGCGA
115535430 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:115535444 original size:80 final size:80
Alignment explanation
Indices: 115535280--115535462 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
115535270 GGAATGATAT
* ** * *
115535280 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
115535345 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
115535360 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
115535425 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
115535440 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
115535463 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:115535482 original size:80 final size:80
Alignment explanation
Indices: 115535280--115535497 Score: 181
Period size: 80 Copynumber: 2.7 Consensus size: 80
115535270 GGAATGATAT
* * * * * * * *
115535280 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
115535344 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
115535360 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
115535425 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
115535440 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA-ATCCCGAAGG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGA-CCCGAAGG
115535498 TACGTGATTC
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.13
80 94 0.86
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:115543386 original size:40 final size:40
Alignment explanation
Indices: 115543327--115543513 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
115543317 CATTGGAATG
* * * *
115543327 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
115543367 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
115543407 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
115543447 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
115543487 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
115543514 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:115543429 original size:80 final size:80
Alignment explanation
Indices: 115543327--115543480 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
115543317 CATTGGAATG
* * ** *
115543327 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
115543392 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
115543407 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
115543472 ATCGTGCGA
66 ATCGTGCGA
115543481 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:115543495 original size:80 final size:80
Alignment explanation
Indices: 115543331--115543513 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
115543321 GGAATGATAT
* ** * *
115543331 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
115543396 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
115543411 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
115543476 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
115543491 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
115543514 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:115543533 original size:80 final size:80
Alignment explanation
Indices: 115543331--115543548 Score: 181
Period size: 80 Copynumber: 2.7 Consensus size: 80
115543321 GGAATGATAT
* * * * * * * *
115543331 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
115543395 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
115543411 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
115543476 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
115543491 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA-ATCCCGAAGG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGA-CCCGAAGG
115543549 TACGTGATTC
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.13
80 94 0.86
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:115549132 original size:8 final size:8
Alignment explanation
Indices: 115549119--115549167 Score: 80
Period size: 8 Copynumber: 6.1 Consensus size: 8
115549109 TTAGATCGGC
115549119 AAAAGCCG
1 AAAAGCCG
115549127 AAAAGCCG
1 AAAAGCCG
*
115549135 AAATGCCG
1 AAAAGCCG
115549143 AAAAGCCG
1 AAAAGCCG
*
115549151 AAATGCCG
1 AAAAGCCG
115549159 AAAAGCCG
1 AAAAGCCG
115549167 A
1 A
115549168 TATTTTGAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.47, C:0.24, G:0.24, T:0.04
Consensus pattern (8 bp):
AAAAGCCG
Found at i:115549144 original size:16 final size:16
Alignment explanation
Indices: 115549123--115549167 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
115549113 ATCGGCAAAA
115549123 GCCGAAAAGCCGAAAT
1 GCCGAAAAGCCGAAAT
115549139 GCCGAAAAGCCGAAAT
1 GCCGAAAAGCCGAAAT
115549155 GCCGAAAAGCCGA
1 GCCGAAAAGCCGA
115549168 TATTTTGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.42, C:0.27, G:0.27, T:0.04
Consensus pattern (16 bp):
GCCGAAAAGCCGAAAT
Found at i:115549665 original size:54 final size:53
Alignment explanation
Indices: 115549581--115549691 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 53
115549571 AGGAAACATC
**
115549581 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGAATCTGCCACAT-TATCTGTT
* * *
115549635 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGAATCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGAATCTGCCACATTATCTGTT
115549688 CTGG
1 CTGG
115549692 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGAATCTGCCACATTATCTGTT
Found at i:115549688 original size:26 final size:26
Alignment explanation
Indices: 115549581--115549691 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
115549571 AGGAAACATC
* *
115549581 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
115549608 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
115549635 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
** *
115549662 CTGGTGAATCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
115549688 CTGG
1 CTGG
115549692 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 16 0.21
27 59 0.77
28 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:115549797 original size:20 final size:20
Alignment explanation
Indices: 115549772--115549813 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
115549762 GTTGGTATGG
115549772 GGGTGCATGTGGTTGGATAT
1 GGGTGCATGTGGTTGGATAT
115549792 GGGTGCATGTGGTTGGATAT
1 GGGTGCATGTGGTTGGATAT
115549812 GG
1 GG
115549814 ACATCCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.05, G:0.48, T:0.33
Consensus pattern (20 bp):
GGGTGCATGTGGTTGGATAT
Found at i:115553236 original size:28 final size:28
Alignment explanation
Indices: 115553167--115553267 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
115553157 GACAAGATTG
* * * *
115553167 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
115553197 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
115553225 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
115553254 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
115553268 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:115561198 original size:28 final size:28
Alignment explanation
Indices: 115561129--115561229 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
115561119 GACAAGATTG
* * * *
115561129 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
115561159 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
115561187 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
115561216 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
115561230 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Done.