Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 141 of 318
Found at i:43208906 original size:24 final size:24
Alignment explanation
Indices: 43208855--43208997 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
43208845 GCTTTATCAT
*
43208855 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
43208880 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
43208904 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
43208927 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
43208951 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
43208975 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43208998 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:43208934 original size:47 final size:48
Alignment explanation
Indices: 43208855--43208996 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
43208845 GCTTTATCAT
* *
43208855 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
43208904 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
43208951 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
43208997 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:43208955 original size:71 final size:72
Alignment explanation
Indices: 43208854--43208997 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
43208844 TGCTTTATCA
*
43208854 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
43208919 GCCCTTT
66 GCCCTTT
* * **
43208926 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
43208989 AGCCCTTT
65 AGCCCTTT
43208997 T
1 T
43208998 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:43209072 original size:20 final size:20
Alignment explanation
Indices: 43209047--43209107 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
43209037 TTATGATTAC
43209047 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
43209067 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
43209087 TTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
43209107 A
1 A
43209108 CCATATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:43209078 original size:11 final size:11
Alignment explanation
Indices: 43209047--43209102 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
43209037 TTATGATTAC
43209047 ATCATGTGCAT
1 ATCATGTGCAT
*
43209058 ATCA--TACAT
1 ATCATGTGCAT
43209067 ATCATGTGCAT
1 ATCATGTGCAT
*
43209078 ATCA--TACAT
1 ATCATGTGCAT
*
43209087 TTCATGTGCAT
1 ATCATGTGCAT
43209098 ATCAT
1 ATCAT
43209103 ACATACCATA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:43210779 original size:27 final size:27
Alignment explanation
Indices: 43210492--43210781 Score: 340
Period size: 27 Copynumber: 10.8 Consensus size: 27
43210482 GGTATTTTAG
*
43210492 TAATTTTGTAAATC-GAGGGTAAAAC-A
1 TAATTATGTAAATCAG-GGGTAAAACGA
* *
43210518 GTAATTCTGTAAATCA-AGGTAAAACGA
1 -TAATTATGTAAATCAGGGGTAAAACGA
*
43210545 TAATTATGTAAATCAGGGGTAAAACGG
1 TAATTATGTAAATCAGGGGTAAAACGA
* * *
43210572 TAATTATGTAAATTAAGGGTAAAACGG
1 TAATTATGTAAATCAGGGGTAAAACGA
* *
43210599 TAATTCTGTAAGTC-GAGGGTAAAACGA
1 TAATTATGTAAATCAG-GGGTAAAACGA
* *
43210626 TAATTATGTAAATCAGGGGTAAAATGG
1 TAATTATGTAAATCAGGGGTAAAACGA
*
43210653 TAATTATGTAAATTAGGGGTAAAACGA
1 TAATTATGTAAATCAGGGGTAAAACGA
* *
43210680 TAATTCTGTAAGTC-GAGGGTAAAACGA
1 TAATTATGTAAATCAG-GGGTAAAACGA
43210707 TAATTATGTAAATCAGGGGTAAAAC-A
1 TAATTATGTAAATCAGGGGTAAAACGA
*
43210733 GTAATTATGTAAATTAGGGGTAAAACGA
1 -TAATTATGTAAATCAGGGGTAAAACGA
* *
43210761 TAATTCTGTAAATCGGGGGTA
1 TAATTATGTAAATCAGGGGTA
43210782 CTTTAGTAAT
Statistics
Matches: 226, Mismatches: 28, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
26 24 0.11
27 199 0.88
28 3 0.01
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.28
Consensus pattern (27 bp):
TAATTATGTAAATCAGGGGTAAAACGA
Found at i:43210792 original size:81 final size:81
Alignment explanation
Indices: 43210491--43210781 Score: 453
Period size: 81 Copynumber: 3.6 Consensus size: 81
43210481 GGGTATTTTA
* * * *
43210491 GTAATTTTGTAAA-TCGAGGGTAAAAC-AGTAATTCTGTAAATC-AAGGTAAAACGATAATTATG
1 GTAATTATGTAAATTAG-GGGTAAAACGA-TAATTCTGTAAGTCGAGGGTAAAACGATAATTATG
43210553 TAAATCAGGGGTAAAACG
64 TAAATCAGGGGTAAAACG
* *
43210571 GTAATTATGTAAATTAAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
1 GTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
*
43210636 AATCAGGGGTAAAATG
66 AATCAGGGGTAAAACG
43210652 GTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
1 GTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
*
43210717 AATCAGGGGTAAAACA
66 AATCAGGGGTAAAACG
* *
43210733 GTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAATCGGGGGTA
1 GTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAGTCGAGGGTA
43210782 CTTTAGTAAT
Statistics
Matches: 195, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
80 34 0.17
81 161 0.83
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (81 bp):
GTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
AATCAGGGGTAAAACG
Found at i:43210808 original size:27 final size:27
Alignment explanation
Indices: 43210777--43210876 Score: 107
Period size: 27 Copynumber: 3.7 Consensus size: 27
43210767 TGTAAATCGG
*
43210777 GGGTACTTT-AGTAATTTTACAAGTCGAA
1 GGGTA-TTTCAGTAATTTTACAAATC-AA
* *
43210805 -GGTATTTCGGTAAATTTACAAATCAA
1 GGGTATTTCAGTAATTTTACAAATCAA
*
43210831 GGGTATTTCAGTATTTTTACAAA-CTAA
1 GGGTATTTCAGTAATTTTACAAATC-AA
*
43210858 GGGTATTTCGGTAATTTTA
1 GGGTATTTCAGTAATTTTA
43210877 GTAAACTAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 6 0.10
27 55 0.90
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCAA
Found at i:43210890 original size:27 final size:27
Alignment explanation
Indices: 43210786--43210891 Score: 83
Period size: 27 Copynumber: 3.9 Consensus size: 27
43210776 GGGGTACTTT
* *
43210786 AGTAATTTTACAAGTCGAAG-GTATTTC
1 AGTAATTTTACAA-ACTAAGAGTATTTC
* * *
43210813 GGTAAATTTACAAA-TCAAGGGTATTTC
1 AGTAATTTTACAAACT-AAGAGTATTTC
* *
43210840 AGTATTTTTACAAACTAAGGGTATTTC
1 AGTAATTTTACAAACTAAGAGTATTTC
* *
43210867 GGTAATTTTAGTAAACTAA-AGTATT
1 AGTAATTTTA-CAAACTAAGAGTATT
43210892 CTAAACAGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 3 0.05
27 53 0.83
28 8 0.12
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (27 bp):
AGTAATTTTACAAACTAAGAGTATTTC
Found at i:43221934 original size:33 final size:33
Alignment explanation
Indices: 43221897--43221966 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
43221887 ATGAGCTCAT
*
43221897 CTAAGACAAATTATATGGTATATCATTATGAAA
1 CTAAGACAAATTACATGGTATATCATTATGAAA
* * *
43221930 CTAAGACAAATTACATGGTGTATCGTTATGGAA
1 CTAAGACAAATTACATGGTATATCATTATGAAA
43221963 CTAA
1 CTAA
43221967 CTTTTTGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (33 bp):
CTAAGACAAATTACATGGTATATCATTATGAAA
Found at i:43225734 original size:16 final size:16
Alignment explanation
Indices: 43225709--43225767 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
43225699 GTAGCCAAAC
*
43225709 TTTCGACTTTTCAGCA
1 TTTCGACTTTTCGGCA
* *
43225725 TTTCGGCTTTTTGGCA
1 TTTCGACTTTTCGGCA
43225741 TTTC-AGCTTTTCGGCA
1 TTTCGA-CTTTTCGGCA
43225757 TTTCGACTTTT
1 TTTCGACTTTT
43225768 GCCGATCTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 35 0.97
17 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.17, T:0.49
Consensus pattern (16 bp):
TTTCGACTTTTCGGCA
Found at i:43230244 original size:16 final size:15
Alignment explanation
Indices: 43230223--43230275 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
43230213 AAACTTTAGG
43230223 CTTTTCGGCATTTCGA
1 CTTTTCGGCATTTC-A
*
43230239 CTTTTCGGCACTTCA
1 CTTTTCGGCATTTCA
*
43230254 GCTTTTTGGCATTTCAA
1 -CTTTTCGGCATTTC-A
43230271 CTTTT
1 CTTTT
43230276 GCCGATCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 1 0.03
16 30 0.94
17 1 0.03
ACGTcount: A:0.13, C:0.25, G:0.15, T:0.47
Consensus pattern (15 bp):
CTTTTCGGCATTTCA
Found at i:43232524 original size:79 final size:80
Alignment explanation
Indices: 43232422--43232606 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
43232412 GCTACTCATT
* *
43232422 CAAACGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTT-GGGATCTTAACCC
* *
43232485 AGATTTAGTAAC-TCGCA
63 AGATGTAGTAACTTAGCA
* * * ** *
43232502 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTTGCACGAATGCCTTTGGATCTTAGTCCGG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTGGGATCTTAACCCAG
*
43232566 ATGTAGTCACTTAGCA
65 ATGTAGTAACTTAGCA
43232582 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
43232607 CATCATTCGA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 33 0.37
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTGGGATCTTAACCCAGA
TGTAGTAACTTAGCA
Found at i:43232606 original size:40 final size:39
Alignment explanation
Indices: 43232422--43232606 Score: 196
Period size: 40 Copynumber: 4.7 Consensus size: 39
43232412 GCTACTCATT
* * *
43232422 CAAACGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
43232462 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
43232502 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* * * * *
43232541 CGAATGCCTT-TGGATCTTAGTCCGGATGTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
43232582 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43232607 CATCATTCGA
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 78 0.64
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:43247545 original size:24 final size:24
Alignment explanation
Indices: 43247518--43247580 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
43247508 CTTATTATGT
43247518 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
43247542 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
43247566 TCGCACACATAGTGC
1 TCGCACACATAGTGC
43247581 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:43255299 original size:24 final size:24
Alignment explanation
Indices: 43255272--43255358 Score: 174
Period size: 24 Copynumber: 3.6 Consensus size: 24
43255262 CTTATTATGT
43255272 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
43255296 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
43255320 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
43255344 TCGCACACATAGTGC
1 TCGCACACATAGTGC
43255359 ATTTGAGTTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:43264715 original size:18 final size:18
Alignment explanation
Indices: 43264653--43264768 Score: 94
Period size: 18 Copynumber: 6.1 Consensus size: 18
43264643 GCTCTGATGA
*
43264653 GCTTTAGTTAGCCTTCGG
1 GCTTCAGTTAGCCTTCGG
43264671 GCTTTC-GTTTAGCACTT-GTG
1 GC-TTCAG-TTAGC-CTTCG-G
43264691 TGCTTCAGTTAGCCTTCGG
1 -GCTTCAGTTAGCCTTCGG
43264710 GCTTCAGTTAGCCTTCGG
1 GCTTCAGTTAGCCTTCGG
* *
43264728 GCTTCCGTTTAACACTT-GTG
1 GCTTCAG-TTAGC-CTTCG-G
*
43264748 TGCTTTAGTTAGCCTTCGG
1 -GCTTCAGTTAGCCTTCGG
43264767 GC
1 GC
43264769 ATCTGTTTAG
Statistics
Matches: 80, Mismatches: 6, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
18 29 0.36
19 21 0.26
20 22 0.28
21 8 0.10
ACGTcount: A:0.11, C:0.24, G:0.26, T:0.39
Consensus pattern (18 bp):
GCTTCAGTTAGCCTTCGG
Found at i:43264722 original size:57 final size:57
Alignment explanation
Indices: 43264653--43264768 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 57
43264643 GCTCTGATGA
* * *
43264653 GCTTTAGTTAGCCTTCGGGCTTTCGTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGG
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGTGCTTCAGTTAGCCTTCGG
*
43264710 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGTGCTTTAGTTAGCCTTCGG
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGTGCTTCAGTTAGCCTTCGG
43264767 GC
1 GC
43264769 ATCTGTTTAG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.11, C:0.24, G:0.26, T:0.39
Consensus pattern (57 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGTGCTTCAGTTAGCCTTCGG
Found at i:43264758 original size:39 final size:39
Alignment explanation
Indices: 43264710--43264810 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 39
43264700 TAGCCTTCGG
*
43264710 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
* * * *
43264749 GCTTTAGTTAGCCTTCGGGCATCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
** *
43264788 GCTTCAACTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
43264811 AAATCACTAT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
Found at i:43269100 original size:40 final size:40
Alignment explanation
Indices: 43269041--43269246 Score: 270
Period size: 40 Copynumber: 5.2 Consensus size: 40
43269031 GAATTTAGCT
* ** * * *
43269041 GGATATAACCACAAGCACAATTGCCTTCGGGTCTAAACCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
* *
43269081 GGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
43269121 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
* *
43269161 AGATATAAAAACTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
* * * *
43269201 GGGTATAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCC
1 GGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGCCC
43269241 GGATAT
1 GGATAT
43269247 CATTCAAATG
Statistics
Matches: 146, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
Found at i:43271749 original size:40 final size:40
Alignment explanation
Indices: 43271690--43271944 Score: 346
Period size: 40 Copynumber: 6.5 Consensus size: 40
43271680 CATTTGAATG
*
43271690 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
43271730 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA---GTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
43271767 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
43271807 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* *
43271847 ATATCCGGGCTAAGACCCGAA-G--TTTGTGCTAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * ** *
43271884 ATGTCCGAGTTAAGACCCGAAGGCAATTGGGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
43271924 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
43271945 AAACTTGGGT
Statistics
Matches: 194, Mismatches: 14, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
37 68 0.35
38 2 0.01
39 12 0.06
40 112 0.58
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:43271817 original size:77 final size:78
Alignment explanation
Indices: 43271690--43271908 Score: 338
Period size: 77 Copynumber: 2.8 Consensus size: 78
43271680 CATTTGAATG
*
43271690 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
43271755 TTTGTGCGA-GTT
66 TTTGTGCGATGTT
43271767 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
43271832 TTTGTGCGAGTTGTT
66 TTTGTGCGA--TGTT
* * * * *
43271847 ATATCCGGGCTAAGACCCGAA-G--TTTGTGCTAGTTGCTATGTCCGAGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
43271909 ATTGGGCTTG
Statistics
Matches: 133, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
77 108 0.81
79 1 0.01
80 24 0.18
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (78 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGATGTT
Found at i:43271898 original size:117 final size:116
Alignment explanation
Indices: 43271690--43271944 Score: 347
Period size: 117 Copynumber: 2.2 Consensus size: 116
43271680 CATTTGAATG
*
43271690 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGG-A
* * * *
43271755 TTTGTGCGAGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
65 TTTGTGCGAGTTATATCCGAGCTAAGACCCGAAGGCAATTGGGCGAGTGGTT
43271807 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAA-G-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGAT
* * * **
43271870 TTGTGCTAGTTGCTATGTCCGAGTTAAGACCCGAAGGCAATTGGGCTTGTGGTT
66 TTGTGCGAG-T--TATATCCGAGCTAAGACCCGAAGGCAATTGGGCGAGTGGTT
43271924 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
43271945 AAACTTGGGT
Statistics
Matches: 124, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
114 9 0.07
115 2 0.02
116 14 0.11
117 99 0.80
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (116 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGAT
TTGTGCGAGTTATATCCGAGCTAAGACCCGAAGGCAATTGGGCGAGTGGTT
Found at i:43271925 original size:77 final size:77
Alignment explanation
Indices: 43271690--43271944 Score: 322
Period size: 77 Copynumber: 3.3 Consensus size: 77
43271680 CATTTGAATG
*
43271690 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGG-ATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
43271755 TTTGTGCG-AGTT
65 TTTGTGCGTAGTT
43271767 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGG-ATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
*
43271832 TTTGTGCGAGTTGTT
65 TTTGTGC--GTAGTT
* * * * * *
43271847 ATATCCGGGCTAAGACCCGAA-G-TTTGTGCTAGTTGCTATGTCCGAGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGACCCGAAGGATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCAT
* *
43271910 TTGGGCTTGTGGTT
66 TTGTGC--GTAGTT
43271924 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
43271945 AAACTTGGGT
Statistics
Matches: 161, Mismatches: 12, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
75 1 0.01
76 12 0.07
77 122 0.76
79 2 0.01
80 24 0.15
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (77 bp):
ATATCCGGGCTAAGACCCGAAGGATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGTAGTT
Found at i:43276111 original size:40 final size:40
Alignment explanation
Indices: 43276066--43276233 Score: 200
Period size: 40 Copynumber: 4.2 Consensus size: 40
43276056 CGGAATACAA
* *
43276066 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGC
* *
43276106 CCGGATATAACAACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGC
**
43276146 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGC
* *
43276186 CCGGATA-AAGTC-ACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA--CAAC-ACGCACGAA-TGCCTTCGGGTATTAGC
43276226 CCGGATAT
1 CCGGATAT
43276234 CATTCAATTG
Statistics
Matches: 114, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
39 4 0.04
40 109 0.96
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGC
Found at i:43276206 original size:80 final size:80
Alignment explanation
Indices: 43276066--43276233 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
43276056 CGGAATACAA
* * *
43276066 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACAACTAGCACAAATG
*
43276131 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
43276146 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AAGTC-ACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAA--CAACTAGCACAAA
*
43276209 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
43276226 CCGGATAT
1 CCGGATAT
43276234 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACAACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:43282867 original size:40 final size:40
Alignment explanation
Indices: 43282767--43282985 Score: 329
Period size: 40 Copynumber: 5.5 Consensus size: 40
43282757 CATTTGAATG
*
43282767 ATATCCGGGCTAAG-CCCCAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
43282806 ATATCC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
43282845 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
43282885 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
43282925 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
43282965 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
43282986 AAACTTGGGT
Statistics
Matches: 166, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 8 0.05
39 48 0.29
40 110 0.66
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:43295835 original size:46 final size:46
Alignment explanation
Indices: 43295768--43296027 Score: 212
Period size: 46 Copynumber: 5.6 Consensus size: 46
43295758 TGTCACCTGC
* * *
43295768 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
43295814 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* * *
43295864 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * *
43295907 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTTGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGC-TCG--GAC--GTTCGCAT
* * * *
43295957 -C-TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
43296000 CTATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGCGAACTCGGACTCAACTCAAC
43296028 AAGTTCAGAT
Statistics
Matches: 167, Mismatches: 29, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
42 5 0.03
43 6 0.04
44 4 0.02
45 4 0.02
46 76 0.46
47 51 0.31
48 4 0.02
49 5 0.03
50 6 0.04
51 6 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:43295886 original size:47 final size:47
Alignment explanation
Indices: 43295822--43295990 Score: 186
Period size: 47 Copynumber: 3.6 Consensus size: 47
43295812 ATCCATAAGT
43295822 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
* * * * *
43295869 GAACTCGGACTCAACTCAATGAGTTCGGA---C--GTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
**
43295915 GAACTCGGACTCAACTCAACGAGCTTTGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
* *
43295962 GAACTCGAACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
43295991 CATTCGCATC
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 25 0.26
47 52 0.54
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:43295889 original size:93 final size:93
Alignment explanation
Indices: 43295775--43296027 Score: 425
Period size: 93 Copynumber: 2.7 Consensus size: 93
43295765 TGCCCATAAG
* * *
43295775 CGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
43295840 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
43295868 CGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
**
43295933 ACGAGCTTTGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * * *
43295961 CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
43296026 AC
66 AC
43296028 AAGTTCAGAT
Statistics
Matches: 151, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 151 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:43298496 original size:30 final size:29
Alignment explanation
Indices: 43298453--43298510 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
43298443 AAAGATAACA
43298453 AGAAAACCGAATAAAGAAATCCAAGATAG
1 AGAAAACCGAATAAAGAAATCCAAGATAG
*
43298482 AGAAACCCAGAATAAAGAAATCCAAGATA
1 AGAAAACC-GAATAAAGAAATCCAAGATA
43298511 CGATACTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.59, C:0.16, G:0.16, T:0.10
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAATCCAAGATAG
Found at i:43298500 original size:15 final size:15
Alignment explanation
Indices: 43298452--43298501 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
43298442 TAAAGATAAC
43298452 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
*
43298466 AAGAAATCCA-AGATA
1 AAGAAAACCAGA-ATA
* *
43298481 GAGAAACCCAGAATA
1 AAGAAAACCAGAATA
43298496 AAGAAA
1 AAGAAA
43298502 TCCAAGATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 9 0.31
15 19 0.66
16 1 0.03
ACGTcount: A:0.62, C:0.14, G:0.16, T:0.08
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:43301602 original size:47 final size:50
Alignment explanation
Indices: 43301474--43301745 Score: 271
Period size: 46 Copynumber: 5.8 Consensus size: 50
43301464 TGTCACCTGC
* * * *
43301474 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTCACAT
*
43301520 CCATAAGTGAACT-GGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTCACAT
* *
43301569 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGA---CA-TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTCACAT
*
43301612 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTCACAT
* * *
43301662 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---C-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTCACAT
*
43301705 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
43301746 CAAATATCCG
Statistics
Matches: 189, Mismatches: 15, Indels: 41
0.77 0.06 0.17
Matches are distributed among these distances:
42 5 0.03
43 7 0.04
44 4 0.02
45 26 0.14
46 75 0.40
47 53 0.28
48 4 0.02
49 6 0.03
50 7 0.04
51 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (50 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTCACAT
Found at i:43301671 original size:93 final size:93
Alignment explanation
Indices: 43301481--43301745 Score: 460
Period size: 93 Copynumber: 2.9 Consensus size: 93
43301471 TGCCCATAAG
* * *
43301481 CGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACT-GGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
43301545 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
43301573 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
43301638 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
43301666 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
43301731 ACAAGTTCGGATGCC
66 ACGAGCTCGGATGCC
43301746 CAAATATCCG
Statistics
Matches: 163, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 47 0.29
93 116 0.71
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:43306267 original size:25 final size:25
Alignment explanation
Indices: 43306238--43306289 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
43306228 TTTTTAGCCA
*
43306238 TATGAGCTTACTAAGGTTAATAGCT
1 TATGAGCTTACTAAGCTTAATAGCT
43306263 TATGAGCTTACTAAGCTTAATAGCT
1 TATGAGCTTACTAAGCTTAATAGCT
43306288 TA
1 TA
43306290 CTTTGTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (25 bp):
TATGAGCTTACTAAGCTTAATAGCT
Found at i:43308525 original size:46 final size:45
Alignment explanation
Indices: 43308475--43308650 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
43308465 TGGTTGAGCA
43308475 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
43308521 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
43308568 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
43308614 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43308651 GTGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:43308587 original size:93 final size:93
Alignment explanation
Indices: 43308472--43308643 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
43308462 GGATGGTTGA
* * *
43308472 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43308537 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
*
43308565 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43308630 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
43308644 CTTATGGGTG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:43316386 original size:37 final size:37
Alignment explanation
Indices: 43316333--43316423 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
43316323 TATAAAAGAA
43316333 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
43316370 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
43316407 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
43316424 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:43316574 original size:49 final size:49
Alignment explanation
Indices: 43316519--43316822 Score: 473
Period size: 49 Copynumber: 6.4 Consensus size: 49
43316509 TTTTACATTA
43316519 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
43316568 GCCATTAGGCCTTATCACATATACATACACTTTTACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
43316617 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
43316657 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
43316706 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
43316755 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
43316804 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
43316823 CACATATGTA
Statistics
Matches: 236, Mismatches: 10, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
40 36 0.15
41 1 0.00
42 1 0.00
43 1 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 194 0.82
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:43316633 original size:89 final size:89
Alignment explanation
Indices: 43316540--43316817 Score: 421
Period size: 89 Copynumber: 3.0 Consensus size: 89
43316530 TTATCACATA
*
43316540 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTTACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
43316605 TTCACCACATCGGCCATTAGGCCT
66 TTCACCACATCGGCCATTAGGCCT
43316629 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
43316694 TTCACCACATCGGCCATTAGGCCT
66 TTCACCACATCGGCCATTAGGCCT
*
43316718 CATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATAC
1 --T-AC--AT--A--CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATAC
* * * *
43316783 ACTTTCACATTCATCGCATTGGCCATTCGGCCT
57 ACTTTCACATTCACCACATCGGCCATTAGGCCT
43316816 TA
1 TA
43316818 TCACACACAT
Statistics
Matches: 174, Mismatches: 6, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
89 88 0.51
91 1 0.01
92 2 0.01
94 2 0.01
95 1 0.01
96 2 0.01
98 78 0.45
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (89 bp):
TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
TTCACCACATCGGCCATTAGGCCT
Found at i:43316767 original size:138 final size:138
Alignment explanation
Indices: 43316519--43316768 Score: 464
Period size: 138 Copynumber: 1.8 Consensus size: 138
43316509 TTTTACATTA
*
43316519 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
*
43316584 ACATATACATACACTTTTACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
43316649 CCACATCG
131 CCACATCG
43316657 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
* *
43316722 ACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTA
43316769 TCACATATAC
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 108 1.00
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (138 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
CCACATCG
Found at i:43320236 original size:29 final size:29
Alignment explanation
Indices: 43320200--43320392 Score: 341
Period size: 29 Copynumber: 6.7 Consensus size: 29
43320190 TGTTGAAAAA
*
43320200 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
43320229 CTCGCACACGTAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
43320258 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
43320287 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
43320316 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
43320345 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
43320374 CTCGCACACATAGTGCCTC
1 CTCGCACACATAGTGCCTC
43320393 TATTCATTCG
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 158 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACTGAT
Found at i:43320623 original size:40 final size:40
Alignment explanation
Indices: 43320566--43320810 Score: 346
Period size: 40 Copynumber: 6.1 Consensus size: 40
43320556 CGAATACACG
* *
43320566 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
43320606 TCACTAGCACGAATGCTCTTCGGGACTTTGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
43320646 TCACTAGCACGAATGCTCTTCGGGACTTTGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
43320686 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
43320726 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * *
43320766 TCACTAGCATGAATGCTCTTCGGAACTTAGTCTGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
43320806 TCACT
1 TCACT
43320811 CTCAATTCTC
Statistics
Matches: 195, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 195 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:43322681 original size:37 final size:37
Alignment explanation
Indices: 43322628--43322718 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
43322618 TATAAAAGAA
43322628 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
43322665 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
43322702 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
43322719 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:43322869 original size:49 final size:49
Alignment explanation
Indices: 43322814--43323116 Score: 473
Period size: 49 Copynumber: 6.4 Consensus size: 49
43322804 TTTTACATTA
43322814 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
43322863 GCCATTAGGCCTTATCACATATACATACACTTT-ACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
43322911 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
43322951 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
43323000 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
43323049 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
43323098 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
43323117 CACATATGTA
Statistics
Matches: 236, Mismatches: 8, Indels: 20
0.89 0.03 0.08
Matches are distributed among these distances:
39 12 0.05
40 25 0.11
41 1 0.00
42 1 0.00
46 1 0.00
47 1 0.00
48 25 0.11
49 170 0.72
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:43326019 original size:40 final size:40
Alignment explanation
Indices: 43325956--43326126 Score: 170
Period size: 40 Copynumber: 4.3 Consensus size: 40
43325946 CATTTGAATG
* * *
43325956 ATATCCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
* *
43325995 ATATTCGGGCTAAGACCCGAAGGCATTCGTGTG-AATTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATT--TGTGCAAGTGATT
* **
43326035 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
* * * ** *
43326075 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
43326115 ATATCC-GGCTAA
1 ATATCCGGGCTAA
43326127 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
38 4 0.04
39 21 0.20
40 75 0.71
41 3 0.03
42 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
Found at i:43328237 original size:55 final size:55
Alignment explanation
Indices: 43328158--43328313 Score: 282
Period size: 55 Copynumber: 2.9 Consensus size: 55
43328148 ATAGTGAATC
*
43328158 CGCACACTTAGT-C--TAAAATCAGCTCGCACACATAGTGTTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
43328210 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
43328265 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
43328314 TTGAGCTCGC
Statistics
Matches: 100, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
52 12 0.12
53 1 0.01
55 87 0.87
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:43328248 original size:27 final size:27
Alignment explanation
Indices: 43328171--43328332 Score: 180
Period size: 27 Copynumber: 5.9 Consensus size: 27
43328161 ACACTTAGTC
*
43328171 TAAAATCAGCTCGCACACATAGTGTTA
1 TAAAATCAGCTCGCACACATAGTGCTA
* ** *
43328198 TATAATCAAATTCGCACACTTAGTGCTA
1 TAAAATC-AGCTCGCACACATAGTGCTA
43328226 TAAAATCAGCTCGCACACATAGTGCTA
1 TAAAATCAGCTCGCACACATAGTGCTA
* ** *
43328253 TATAATCAAATTCGCACACTTAGTGCTA
1 TAAAATC-AGCTCGCACACATAGTGCTA
43328281 TAAAATCAGCTCGCACACATAGTGCTA
1 TAAAATCAGCTCGCACACATAGTGCTA
* * *
43328308 TATAATTTGAGCTCGCACACTTAGT
1 TA-AA-ATCAGCTCGCACACATAGT
43328333 CCATATATTT
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 48 0.43
28 47 0.42
29 16 0.14
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (27 bp):
TAAAATCAGCTCGCACACATAGTGCTA
Found at i:43328342 original size:27 final size:30
Alignment explanation
Indices: 43328209--43328364 Score: 111
Period size: 27 Copynumber: 5.6 Consensus size: 30
43328199 ATAATCAAAT
**
43328209 TCGCACACTTAGTG-C-TATAAAAT-CAGC
1 TCGCACACTTAGTGCCATATAATTTCCAGC
* * * **
43328236 TCGCACACATAGTGCTATATAA--TCAAAT
1 TCGCACACTTAGTGCCATATAATTTCCAGC
**
43328264 TCGCACACTTAGTG-C-TATAAAAT-CAGC
1 TCGCACACTTAGTGCCATATAATTTCCAGC
* * *
43328291 TCGCACACATAGTGCTATATAATTT-GAGC
1 TCGCACACTTAGTGCCATATAATTTCCAGC
43328320 TCGCACACTTAGT-CCATAT-ATTTCCA-C
1 TCGCACACTTAGTGCCATATAATTTCCAGC
*
43328347 TTGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
43328365 TCTCGTCACC
Statistics
Matches: 101, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
26 5 0.05
27 45 0.45
28 25 0.25
29 26 0.26
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.29
Consensus pattern (30 bp):
TCGCACACTTAGTGCCATATAATTTCCAGC
Found at i:43328982 original size:2 final size:2
Alignment explanation
Indices: 43328970--43328999 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
43328960 TGATGGTCGA
*
43328970 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43329000 CAACTATGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43336073 original size:29 final size:27
Alignment explanation
Indices: 43336039--43336219 Score: 179
Period size: 29 Copynumber: 6.5 Consensus size: 27
43336029 ATAGTGAATC
43336039 CGCACACTTAGTGCTATACAAAT-AGTGCT
1 CGCACACTTAGTGCTATA-AAATCA--GCT
43336068 CGCACACTTAGTGCTAT-AAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* **
43336094 CGCACACATAGTGCTAT-AAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
43336121 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
43336148 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
43336177 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
43336206 TGCACACTTAGTGC
1 CGCACACTTAGTGC
43336220 CATTCTCGTC
Statistics
Matches: 132, Mismatches: 14, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
26 24 0.18
27 41 0.31
28 10 0.08
29 57 0.43
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:43336132 original size:27 final size:26
Alignment explanation
Indices: 43336039--43336190 Score: 153
Period size: 27 Copynumber: 5.5 Consensus size: 26
43336029 ATAGTGAATC
*
43336039 CGCACACTTAGTGCTATACAAAT-AGTGCT
1 CGCACACATAGTGCTAT--AAATCA--GCT
*
43336068 CGCACACTTAGTGCTATAAATCAGCT
1 CGCACACATAGTGCTATAAATCAGCT
**
43336094 CGCACACATAGTGCTATAAATCAAATT
1 CGCACACATAGTGCTATAAATC-AGCT
*
43336121 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACATAGTGCTAT-AAATCAGCT
*
43336148 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACATAGTGCTATA-AA--TCAGCT
*
43336177 CGCACACTTAGTGC
1 CGCACACATAGTGC
43336191 CATATATTTC
Statistics
Matches: 108, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
26 25 0.23
27 42 0.39
28 6 0.06
29 35 0.32
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (26 bp):
CGCACACATAGTGCTATAAATCAGCT
Found at i:43336840 original size:2 final size:2
Alignment explanation
Indices: 43336827--43336857 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
43336817 TTGATGGTCG
*
43336827 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43336858 CAACTATGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43345076 original size:40 final size:40
Alignment explanation
Indices: 43345017--43345188 Score: 186
Period size: 40 Copynumber: 4.3 Consensus size: 40
43345007 CATTTGAATG
* * * *
43345017 ATATCCGGGCTATGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
* *
43345057 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTGATT
* **
43345097 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
* * * ** *
43345137 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
43345177 ATATCC-GGCTAA
1 ATATCCGGGCTAA
43345189 ATTCCGAAGA
Statistics
Matches: 108, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 8 0.07
40 97 0.90
41 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
Found at i:43347043 original size:125 final size:125
Alignment explanation
Indices: 43346809--43347050 Score: 403
Period size: 125 Copynumber: 1.9 Consensus size: 125
43346799 CAAGACACAT
* *
43346809 GCCCGTGTGTTTACTACTGAGCATACTGACTTGCAAAATTAGAGTGCAGGGGACACACGGCCATT
1 GCCCGTGTGTTTACTACTGAGCATACTAACTTGCAAAATTAGAGTGCAGGGGACACACAGCCATT
* * *
43346874 CAACACGCACGTGGGGCAGACCGTGTGTCACATATGGCCAAGACACACGCCCGTGTCTTA
66 CAACACACACGTGGGGCAGACCGTGTGTCACACACGGCCAAGACACACGCCCGTGTCTTA
43346934 GCCCGTGTGTTTACTACTGAGCATACTAACTTGCAAAATTAGAGTGCAGGGGACACACAGCCATT
1 GCCCGTGTGTTTACTACTGAGCATACTAACTTGCAAAATTAGAGTGCAGGGGACACACAGCCATT
* * * *
43346999 CAACACACCCGTGGGGCAGACCTTGTGTCACACACGGCCTAGACACATGCCC
66 CAACACACACGTGGGGCAGACCGTGTGTCACACACGGCCAAGACACACGCCC
43347051 ATGTGTCTAC
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 108 1.00
ACGTcount: A:0.26, C:0.29, G:0.25, T:0.20
Consensus pattern (125 bp):
GCCCGTGTGTTTACTACTGAGCATACTAACTTGCAAAATTAGAGTGCAGGGGACACACAGCCATT
CAACACACACGTGGGGCAGACCGTGTGTCACACACGGCCAAGACACACGCCCGTGTCTTA
Found at i:43349294 original size:47 final size:48
Alignment explanation
Indices: 43349184--43349312 Score: 144
Period size: 47 Copynumber: 2.8 Consensus size: 48
43349174 GTTATTGTGA
* * *
43349184 GCTAGTGTAAGACATGTCTGGGACAT-GCATTGGCCATATTATGAGAT
1 GCTAGTGTAAGACATGTCTGGGATATGGCATCGGCCATATGATGAGAT
*
43349231 -CCAGTGTAAGACCATGTCTGGGATATGGCATCGG-CAT-TGA-GACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGATATGGCATCGGCCATATGATGA-GA-T
*
43349278 GCTAGTGTAAGACATGTCTGGGATAT-GTATCGGCC
1 GCTAGTGTAAGACATGTCTGGGATATGGCATCGGCC
43349313 TCGAGATGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
45 2 0.03
46 20 0.29
47 32 0.46
48 16 0.23
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGATATGGCATCGGCCATATGATGAGAT
Found at i:43349333 original size:46 final size:47
Alignment explanation
Indices: 43349182--43349399 Score: 148
Period size: 46 Copynumber: 4.7 Consensus size: 47
43349172 GGGTTATTGT
* * * * *
43349182 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATTGGCCAT--ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGATATGGCATCGG-CATCGA-GACGA
* *
43349228 GATCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGATATGGCATCGGCATCGAGACGA
* * * * *
43349276 GTGCTAGTGTAAGACATGTCTGGGATAT-GTATCGGCCTCGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGATATGGCATCGGCATCGAGACG-A
* * *
43349323 -AGCCAGTGTAAGACATGTTTGGGACAT-GCATCAGC-TACGAGA-G-
1 GAGCCAGTGTAAGACATGTCTGGGATATGGCATCGGCAT-CGAGACGA
* * * *
43349366 GTGTCAGTGTAAAACCATGTCTGGGACATGGCAT
1 GAGCCAGTGTAAGA-CATGTCTGGGATATGGCAT
43349400 TGACACAGAT
Statistics
Matches: 140, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 63 0.45
47 31 0.22
48 20 0.14
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGATATGGCATCGGCATCGAGACGA
Found at i:43350175 original size:12 final size:12
Alignment explanation
Indices: 43350158--43350189 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
43350148 TATATTCTCT
43350158 ACACGGGTAGAC
1 ACACGGGTAGAC
43350170 ACACGGGTAGAC
1 ACACGGGTAGAC
43350182 ACACGGGT
1 ACACGGGT
43350190 GTGTGTCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.25, G:0.34, T:0.09
Consensus pattern (12 bp):
ACACGGGTAGAC
Found at i:43350659 original size:21 final size:22
Alignment explanation
Indices: 43350620--43350660 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
43350610 TCGAGTTGGT
43350620 CACACGGGCATGTTGCCCCTCC
1 CACACGGGCATGTTGCCCCTCC
*
43350642 CACACGGGCGTG-TGCCCCT
1 CACACGGGCATGTTGCCCCT
43350661 ATACCTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGGGCATGTTGCCCCTCC
Found at i:43351292 original size:44 final size:44
Alignment explanation
Indices: 43351205--43351292 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
43351195 ATTACATGTA
* **
43351205 TCGCATCCATAATGAACTCGGACCAACTTAACGTGCTTGGATGC
1 TCGCATCCATAATGAACTCGGACCAACTTAACGAGCTCAGATGC
*
43351249 TCGCATCCATAATGAACTCGGACCAA-TTCAATGAGCTCAGATGC
1 TCGCATCCATAATGAACTCGGACCAACTT-AACGAGCTCAGATGC
43351293 CTTATACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 2 0.05
44 37 0.95
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (44 bp):
TCGCATCCATAATGAACTCGGACCAACTTAACGAGCTCAGATGC
Found at i:43354069 original size:28 final size:28
Alignment explanation
Indices: 43354029--43354085 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
43354019 CCTTAACTGA
43354029 AACTGGATCTGATACTGAAAAAGGACTT
1 AACTGGATCTGATACTGAAAAAGGACTT
43354057 AACTGGATCTGATACTGAAAAAGGACTT
1 AACTGGATCTGATACTGAAAAAGGACTT
43354085 A
1 A
43354086 GGCCCAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (28 bp):
AACTGGATCTGATACTGAAAAAGGACTT
Found at i:43355580 original size:25 final size:25
Alignment explanation
Indices: 43355552--43355605 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
43355542 ACTTCTAATG
*
43355552 ATTATTTTAGGCCTCGAGGGCTCGT
1 ATTATTTTAGGCCTCGAAGGCTCGT
* *
43355577 ATTATTTTAGGTCTGGAAGGCTCGT
1 ATTATTTTAGGCCTCGAAGGCTCGT
43355602 ATTA
1 ATTA
43355606 GGGACCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.15, G:0.26, T:0.39
Consensus pattern (25 bp):
ATTATTTTAGGCCTCGAAGGCTCGT
Found at i:43366158 original size:2 final size:2
Alignment explanation
Indices: 43366151--43366190 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
43366141 TTATAAAGTT
43366151 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
43366191 TTATAGTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:43369074 original size:18 final size:18
Alignment explanation
Indices: 43369044--43369082 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
43369034 ATAGAGTGAA
43369044 TAATTTAATCAATTTTTT
1 TAATTTAATCAATTTTTT
43369062 TAATGTTAA-CAATTTTTT
1 TAAT-TTAATCAATTTTTT
43369080 TAA
1 TAA
43369083 ATGATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (18 bp):
TAATTTAATCAATTTTTT
Found at i:43369078 original size:19 final size:19
Alignment explanation
Indices: 43369044--43369094 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
43369034 ATAGAGTGAA
43369044 TAAT-TTAATCAA-TTTTTT
1 TAATGTTAA-CAATTTTTTT
43369062 TAATGTTAACAATTTTTTT
1 TAATGTTAACAATTTTTTT
*
43369081 AAATGATTAA-AATT
1 TAATG-TTAACAATT
43369095 AGAATAACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 7 0.24
19 18 0.62
20 4 0.14
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (19 bp):
TAATGTTAACAATTTTTTT
Found at i:43373489 original size:43 final size:43
Alignment explanation
Indices: 43373423--43373567 Score: 247
Period size: 43 Copynumber: 3.4 Consensus size: 43
43373413 TTATTTAAAA
*
43373423 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCAAGACCTTTAGCGGCGCTTTTCCCAC
*
43373466 AAACGCCGCTAAAGGTCAAGACCTATAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCAAGACCTTTAGCGGCGCTTTTCCCAC
*
43373509 AAACGCCGCTAAAGGTCAAGA-CTTATAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGGTCAAGACCTT-TAGCGGCGCTTTTCCCAC
43373552 AAACGCCGCTAAAGGT
1 AAACGCCGCTAAAGGT
43373568 AATGAAATTT
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
42 2 0.02
43 95 0.98
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:43376715 original size:27 final size:27
Alignment explanation
Indices: 43376675--43376749 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
43376665 AAGAGCAGCG
*
43376675 CGACGACGACGCAGCAGATGGTCAAGT
1 CGACGACGATGCAGCAGATGGTCAAGT
* **
43376702 CGACGGCGATGCAGCAGATGGTCGGGT
1 CGACGACGATGCAGCAGATGGTCAAGT
*
43376729 C--CGACGATGCAGCATATGGTC
1 CGACGACGATGCAGCAGATGGTC
43376750 GGGTCTGGCG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 18 0.43
27 24 0.57
ACGTcount: A:0.24, C:0.25, G:0.36, T:0.15
Consensus pattern (27 bp):
CGACGACGATGCAGCAGATGGTCAAGT
Found at i:43376742 original size:25 final size:25
Alignment explanation
Indices: 43376678--43376771 Score: 100
Period size: 25 Copynumber: 3.7 Consensus size: 25
43376668 AGCAGCGCGA
* **
43376678 CGACGACGCAGCAGATGGTCAAGTC
1 CGACGATGCAGCAGATGGTCGGGTC
*
43376703 GACGGCGATGCAGCAGATGGTCGGGTC
1 --CGACGATGCAGCAGATGGTCGGGTC
*
43376730 CGACGATGCAGCATATGGTCGGGTC
1 CGACGATGCAGCAGATGGTCGGGTC
* *
43376755 TGGCGATGCAG-AGATGG
1 CGACGATGCAGCAGATGG
43376772 GTTGGGATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.09
25 32 0.55
27 21 0.36
ACGTcount: A:0.22, C:0.22, G:0.39, T:0.16
Consensus pattern (25 bp):
CGACGATGCAGCAGATGGTCGGGTC
Found at i:43377467 original size:21 final size:21
Alignment explanation
Indices: 43377443--43377485 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
43377433 AAACCTAACA
43377443 CTTA-ACCCCTAACCCCTAAGC
1 CTTAGACCCC-AACCCCTAAGC
* *
43377464 CTTAGACCTCAACCCTTAAGC
1 CTTAGACCCCAACCCCTAAGC
43377485 C
1 C
43377486 ATAAACCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.28, C:0.44, G:0.07, T:0.21
Consensus pattern (21 bp):
CTTAGACCCCAACCCCTAAGC
Found at i:43377679 original size:7 final size:7
Alignment explanation
Indices: 43377667--43377795 Score: 68
Period size: 7 Copynumber: 18.0 Consensus size: 7
43377657 ACTAATTAAT
43377667 CTAAACC
1 CTAAACC
43377674 CTAAACTC
1 CTAAAC-C
**
43377682 CTAGTCC
1 CTAAACC
43377689 CTAAACC
1 CTAAACC
43377696 CTAAACC
1 CTAAACC
* *
43377703 AT-AACTA
1 CTAAAC-C
*
43377710 CTAAAAC
1 CTAAACC
*
43377717 ATAAACC
1 CTAAACC
*
43377724 ATAAACCC
1 CTAAA-CC
43377732 CT-AACC
1 CTAAACC
43377738 CTAAACC
1 CTAAACC
*
43377745 TTTAAACCC
1 -CTAAA-CC
*
43377754 CTAACCC
1 CTAAACC
43377761 CT-AACAC
1 CTAAAC-C
43377768 CTAAACC
1 CTAAACC
*
43377775 TTAAACC
1 CTAAACC
*
43377782 C-CAACC
1 CTAAACC
43377788 CTTAAACC
1 C-TAAACC
43377796 ACCCTTAAAC
Statistics
Matches: 91, Mismatches: 20, Indels: 21
0.69 0.15 0.16
Matches are distributed among these distances:
6 14 0.15
7 51 0.56
8 24 0.26
9 2 0.02
ACGTcount: A:0.41, C:0.40, G:0.01, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:43377751 original size:29 final size:28
Alignment explanation
Indices: 43377718--43377810 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 28
43377708 TACTAAAACA
43377718 TAAACCATAAACCCCTAAC-CCTAAACCTT
1 TAAACCAT-AACCCCTAACACCTAAACC-T
*
43377747 TAAACCCCTAACCCCTAACACCTAAACCT
1 TAAA-CCATAACCCCTAACACCTAAACCT
** * *
43377776 TAAACCCCAACCCTTAA-ACC--ACCCT
1 TAAACCATAACCCCTAACACCTAAACCT
43377801 TAAACCATAA
1 TAAACCATAA
43377811 TTCCTAAACC
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
25 12 0.21
27 3 0.05
28 11 0.20
29 19 0.34
30 11 0.20
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (28 bp):
TAAACCATAACCCCTAACACCTAAACCT
Found at i:43377790 original size:14 final size:14
Alignment explanation
Indices: 43377741--43377806 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
43377731 CCTAACCCTA
*
43377741 AACCTTTAAACCCC
1 AACCCTTAAACCCC
* *
43377755 TAACCCCT-AACACCT
1 -AACCCTTAAAC-CCC
*
43377770 AAACCTTAAACCCC
1 AACCCTTAAACCCC
43377784 AACCCTTAAA--CC
1 AACCCTTAAACCCC
43377796 -ACCCTTAAACC
1 AACCCTTAAACC
43377807 ATAATTCCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
11 9 0.22
12 2 0.05
14 19 0.47
15 10 0.25
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (14 bp):
AACCCTTAAACCCC
Found at i:43378187 original size:41 final size:40
Alignment explanation
Indices: 43378142--43378219 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 40
43378132 CGTTTCTTAG
* *
43378142 AAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTGCC
1 AAAAGCGCCACTAATGCTCT-GTCTTTAGCGGCATTTTGCC
*
43378183 AAAAGCGCCACTAATGCTCTGTTTTTAGCGGCATTTT
1 AAAAGCGCCACTAATGCTCTGTCTTTAGCGGCATTTT
43378220 AACAAAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 15 0.44
41 19 0.56
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (40 bp):
AAAAGCGCCACTAATGCTCTGTCTTTAGCGGCATTTTGCC
Found at i:43378226 original size:40 final size:41
Alignment explanation
Indices: 43378142--43378226 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 41
43378132 CGTTTCTTAG
* * **
43378142 AAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTGCC
1 AAAAGCGCCACTAATGCTCTGGTCTTTAGCGGCATTTTAAC
*
43378183 AAAAGCGCCACTAATGCTCT-GTTTTTAGCGGCATTTTAAC
1 AAAAGCGCCACTAATGCTCTGGTCTTTAGCGGCATTTTAAC
43378223 AAAA
1 AAAA
43378227 AACACCGCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 20 0.51
41 19 0.49
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (41 bp):
AAAAGCGCCACTAATGCTCTGGTCTTTAGCGGCATTTTAAC
Found at i:43382299 original size:5 final size:5
Alignment explanation
Indices: 43382289--43382327 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
43382279 ACCAATTTGT
43382289 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
43382328 GAACACACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:43389000 original size:45 final size:45
Alignment explanation
Indices: 43388873--43389049 Score: 181
Period size: 44 Copynumber: 4.0 Consensus size: 45
43388863 TAGAATTCCG
* * *
43388873 ATATGTGATTTCGTGTAAGACCACATCTGGGACGTTGACATCGAT
1 ATATGTGATTTCGTGTAAGACCACATCTGGAACATTGGCATCGAT
* * *
43388918 ATATGTG-TTTTGTGTAAGACCACGTCTGGGAA-GTTGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCACATCT-GGAACATTGGCATCGAT
* **
43388962 ATATGTGATTACGTGTAAGACCATGTCTGGAACATTGGCATCG-T
1 ATATGTGATTTCGTGTAAGACCACATCTGGAACATTGGCATCGAT
*
43389006 AT-T-TGA-TTCGTGTAAGACC-CTATCT-GAGACAGTGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCAC-ATCTGGA-ACATTGGCATCGAT
43389048 AT
1 AT
43389050 GAGATAGCAT
Statistics
Matches: 114, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
40 2 0.02
41 26 0.23
42 6 0.05
43 1 0.01
44 43 0.38
45 36 0.32
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (45 bp):
ATATGTGATTTCGTGTAAGACCACATCTGGAACATTGGCATCGAT
Found at i:43389084 original size:84 final size:88
Alignment explanation
Indices: 43388886--43389086 Score: 218
Period size: 84 Copynumber: 2.3 Consensus size: 88
43388876 TGTGATTTCG
* * * * * *
43388886 TGTAAGACCACATCTGGGACGTTGACATCGATATATGTGTTTTGTGTAAGACCACGTCTGGGAAG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGATTCGTGTAAGACCACATCTGAGAAG
* *
43388951 TTGGCATCGATATATGTGATTACG
66 TTGGCATCGA-ATATGAGATTACA
* * *
43388975 TGTAAGACCATGTCTGGAACATTGGCATCG-TAT-T-TGATTCGTGTAAGACC-CTATCTGAGAC
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGATTCGTGTAAGACCAC-ATCTGAGA-
43389036 AG-TGGCATCG-ATATGAGA-TAGCA
64 AGTTGGCATCGAATATGAGATTA-CA
43389059 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
43389087 TGTACGATAT
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
83 2 0.02
84 33 0.35
85 1 0.01
86 28 0.29
87 3 0.03
88 3 0.03
89 25 0.26
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (88 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGATTCGTGTAAGACCACATCTGAGAAG
TTGGCATCGAATATGAGATTACA
Found at i:43396900 original size:18 final size:19
Alignment explanation
Indices: 43396858--43396944 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 19
43396848 CTCACTCTCC
43396858 TTTTCAA-TCT-TCTTTTCT
1 TTTTCAAGTCTCT-TTTTCT
**
43396876 TGATCAAGT-TCTTTTTCT
1 TTTTCAAGTCTCTTTTTCT
43396894 TTTTCAA-TCTCATTTTTCT
1 TTTTCAAGTCTC-TTTTTCT
*
43396913 TTCTCTC-ATTCTCTTTTTCT
1 TT-T-TCAAGTCTCTTTTTCT
43396933 TTTTCACAGTCT
1 TTTTCA-AGTCT
43396945 TTCTCTTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
17 1 0.02
18 21 0.38
19 12 0.22
20 15 0.27
21 6 0.11
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTCAAGTCTCTTTTTCT
Found at i:43396964 original size:17 final size:17
Alignment explanation
Indices: 43396944--43396976 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43396934 TTTCACAGTC
43396944 TTTCTCTTTTTCTTTCT
1 TTTCTCTTTTTCTTTCT
*
43396961 TTTCTTTTTTTCTTTC
1 TTTCTCTTTTTCTTTC
43396977 ACACTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCTCTTTTTCTTTCT
Found at i:43400261 original size:21 final size:20
Alignment explanation
Indices: 43400218--43400271 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
43400208 GATAAAAAAA
*
43400218 TATAACATATTT-TTATAAT
1 TATAACATTTTTATTATAAT
*
43400237 TATAACATTTTTATTAATCAT
1 TATAACATTTTTATT-ATAAT
**
43400258 TATATTATTTTTAT
1 TATAACATTTTTAT
43400272 AATATTTAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 11 0.38
20 2 0.07
21 16 0.55
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (20 bp):
TATAACATTTTTATTATAAT
Found at i:43400916 original size:26 final size:26
Alignment explanation
Indices: 43400887--43400936 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
43400877 TGTTTGGAAT
*
43400887 AGAAATTTAAAATTTTAAGATTTTAA
1 AGAAATTTAAAATGTTAAGATTTTAA
* *
43400913 AGAAATTTAGAATGTTAATATTTT
1 AGAAATTTAAAATGTTAAGATTTT
43400937 TAGAATTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (26 bp):
AGAAATTTAAAATGTTAAGATTTTAA
Found at i:43412357 original size:47 final size:44
Alignment explanation
Indices: 43412245--43412371 Score: 148
Period size: 47 Copynumber: 2.8 Consensus size: 44
43412235 TCATTTGTGT
*
43412245 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-TATTACGA
* *
43412291 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-TATTGGGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATT---ACGA
*
43412339 GTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC
43412372 AGCCTCGGGA
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
45 4 0.06
46 18 0.26
47 26 0.37
48 22 0.31
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTATTACGA
Found at i:43412495 original size:50 final size:48
Alignment explanation
Indices: 43412433--43412567 Score: 164
Period size: 49 Copynumber: 2.8 Consensus size: 48
43412423 ATAAATGTTT
* *
43412433 TAGTGTAAGACCATGTCTGGGACATTGCATCGGTACAGTTATG-TGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGTAC-G--AAGATGAGAGC
* * * *
43412483 TAGTGTAAGACCATGTCTGGGGCATGGCATCAGCTTCGAAGATGATAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATC-GGTACGAAGATGAGAGC
*
43412532 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTAC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGTAC
43412568 CTTACCCATG
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 5 0.07
49 35 0.48
50 30 0.41
51 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGAAGATGAGAGC
Found at i:43412978 original size:13 final size:13
Alignment explanation
Indices: 43412960--43412985 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43412950 TTCGGTATAG
43412960 TTGGATTTATATT
1 TTGGATTTATATT
43412973 TTGGATTTATATT
1 TTGGATTTATATT
43412986 AGAACTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (13 bp):
TTGGATTTATATT
Found at i:43415908 original size:26 final size:26
Alignment explanation
Indices: 43415870--43415923 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
43415860 CTAATTTTTG
43415870 TAAAAGTGAGCCTTTGTGGCTATCTC
1 TAAAAGTGAGCCTTTGTGGCTATCTC
43415896 TAAAAG-GACGCCTTTGTGGCTATCTC
1 TAAAAGTGA-GCCTTTGTGGCTATCTC
43415922 TA
1 TA
43415924 TTAAAAGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (26 bp):
TAAAAGTGAGCCTTTGTGGCTATCTC
Found at i:43416020 original size:36 final size:36
Alignment explanation
Indices: 43415977--43416049 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
43415967 TTTTGGCAAG
43415977 TATTGAAGGCTAAAAGGAAGCCTTTGTGACTATCTC
1 TATTGAAGGCTAAAAGGAAGCCTTTGTGACTATCTC
43416013 TATTGAAGGCTAAAAGGAAGCCTTTGTGACTATCTC
1 TATTGAAGGCTAAAAGGAAGCCTTTGTGACTATCTC
43416049 T
1 T
43416050 TTTAAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (36 bp):
TATTGAAGGCTAAAAGGAAGCCTTTGTGACTATCTC
Found at i:43416096 original size:29 final size:29
Alignment explanation
Indices: 43416029--43416099 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
43416019 AGGCTAAAAG
* * *
43416029 GAAGCCTTTGTGACTATCTCTTTTAAATT
1 GAAGCCTTTGTGGCCATCTCTTATAAATT
43416058 -AAGCCTTTGTGGCCATCT-TTGATAAATT
1 GAAGCCTTTGTGGCCATCTCTT-ATAAATT
43416086 GAAGCCTTTGTGGC
1 GAAGCCTTTGTGGC
43416100 TATTTCTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 2 0.05
28 22 0.59
29 13 0.35
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (29 bp):
GAAGCCTTTGTGGCCATCTCTTATAAATT
Found at i:43416136 original size:29 final size:29
Alignment explanation
Indices: 43416023--43416147 Score: 103
Period size: 29 Copynumber: 4.4 Consensus size: 29
43416013 TATTGAAGGC
43416023 TAAAAGGAAGCCTTTGTGACTATCTCT-T
1 TAAAAGGAAGCCTTTGTGACTATCTCTAT
* ** * * *
43416051 TTAAATTAAGCCTTTGTGGCCATCTTTGA-
1 TAAAAGGAAGCCTTTGTGACTATCTCT-AT
** * *
43416080 TAAATTGAAGCCTTTGTGGCTATTTCTAT
1 TAAAAGGAAGCCTTTGTGACTATCTCTAT
* *
43416109 TAAAAGGAACCCTTTGTGACAATCTCTAT
1 TAAAAGGAAGCCTTTGTGACTATCTCTAT
*
43416138 T-TAAGGAAGC
1 TAAAAGGAAGC
43416148 TTTATGGTGA
Statistics
Matches: 74, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
28 29 0.39
29 45 0.61
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (29 bp):
TAAAAGGAAGCCTTTGTGACTATCTCTAT
Found at i:43418437 original size:56 final size:55
Alignment explanation
Indices: 43418370--43418508 Score: 156
Period size: 56 Copynumber: 2.5 Consensus size: 55
43418360 TAATCCTAGG
*
43418370 CTAGGTCTTACACTATGTGGTCTTCTTTTTCCC-ATATAATGCCATAGCCACCATGA
1 CTAGGTCTTACACTATATGGTCTTCTTTTTCCCTATATAATGCCATAGCC-CCA-GA
* *** * * * *
43418426 CTAGGTCTTACACTATATGTTCTT-GACTTCCCTATATGATTCCATAGTCCTAGA
1 CTAGGTCTTACACTATATGGTCTTCTTTTTCCCTATATAATGCCATAGCCCCAGA
*
43418480 TTAGGTCTTACACTATATGGTCTTCTTTT
1 CTAGGTCTTACACTATATGGTCTTCTTTT
43418509 CATGGCCATG
Statistics
Matches: 67, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
54 24 0.36
55 8 0.12
56 35 0.52
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (55 bp):
CTAGGTCTTACACTATATGGTCTTCTTTTTCCCTATATAATGCCATAGCCCCAGA
Found at i:43419792 original size:18 final size:18
Alignment explanation
Indices: 43419754--43419794 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
43419744 TTCTTAAATT
*
43419754 TTTTTTCATTTCTTCTTC
1 TTTTTTCATTTCTTCTCC
43419772 TTTTTTCATTT-TCTCTCC
1 TTTTTTCATTTCT-TCTCC
43419790 TTTTT
1 TTTTT
43419795 GACAAACAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTTCATTTCTTCTCC
Found at i:43422971 original size:24 final size:24
Alignment explanation
Indices: 43422944--43423028 Score: 161
Period size: 24 Copynumber: 3.5 Consensus size: 24
43422934 TATTATGTTT
43422944 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
*
43422968 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
43422992 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
43423016 GCACACATAGTGC
1 GCACACATAGTGC
43423029 ATTTGAGATT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAATC
Found at i:43426179 original size:30 final size:29
Alignment explanation
Indices: 43426144--43426217 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
43426134 CTTCGAGCTC
* *
43426144 GCACACCCAGTGCCGTATTTTTTCCAGCAT
1 GCACACCCAGTGCCATA-TATTTCCAGCAT
**
43426174 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
43426203 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
43426218 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 26 0.65
30 14 0.35
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.28
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:43427415 original size:19 final size:18
Alignment explanation
Indices: 43427379--43427436 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 18
43427369 AGAATGAACA
*
43427379 CTTT-TTTTT-TTCTTTT
1 CTTTGTTTTTCTTCATTT
43427395 CTTTGTTTTTCTTCATATT
1 CTTTGTTTTTCTTCAT-TT
* *
43427414 CTCTTTTTTTTTTTCATTT
1 CT-TTGTTTTTCTTCATTT
43427433 CTTT
1 CTTT
43427437 ATTCTTCCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 4 0.11
17 5 0.14
18 6 0.17
19 8 0.23
20 12 0.34
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.78
Consensus pattern (18 bp):
CTTTGTTTTTCTTCATTT
Found at i:43431751 original size:40 final size:39
Alignment explanation
Indices: 43431586--43431769 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
43431576 AAATTGAATG
* * *
43431586 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
43431626 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
43431666 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
43431706 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
43431745 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
43431770 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:43431794 original size:80 final size:81
Alignment explanation
Indices: 43431626--43431814 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
43431616 GCTGGAAATT
* * * *
43431626 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
43431691 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
43431707 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
43431770 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
43431786 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
43431815 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:43437552 original size:27 final size:26
Alignment explanation
Indices: 43437508--43437559 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
43437498 CTCGCTGCAA
43437508 TCTGGTGACCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
43437535 TCTGGTGACTTCGTCACAATATCTA
1 TCTGGTGACCTCGCCACAATATCTA
43437560 GCAGCCTCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:43437599 original size:2 final size:2
Alignment explanation
Indices: 43437592--43437625 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
43437582 GCTTCGCCGC
43437592 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43437626 CTGTTCTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43437674 original size:27 final size:26
Alignment explanation
Indices: 43437622--43437681 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
43437612 ATATATATAT
*
43437622 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
43437648 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
43437675 ATATCTG
1 ATATCTG
43437682 GCAGCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:43446008 original size:42 final size:42
Alignment explanation
Indices: 43445961--43446109 Score: 280
Period size: 42 Copynumber: 3.5 Consensus size: 42
43445951 TATTGGTCTC
43445961 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
43446003 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
43446045 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
43446087 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
43446110 ATTGTACAGC
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 105 1.00
ACGTcount: A:0.30, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:43446174 original size:27 final size:28
Alignment explanation
Indices: 43446117--43446186 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
43446107 AAAATTGTAC
**
43446117 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
43446145 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
43446172 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43446187 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:43447898 original size:46 final size:46
Alignment explanation
Indices: 43447831--43447950 Score: 222
Period size: 46 Copynumber: 2.6 Consensus size: 46
43447821 ATTGTGGTCT
*
43447831 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
43447877 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
43447923 CTGATATGAAATGTGTAAGACCATGGTT
1 CTGATATGAAATGTGTAAGACCATGGTT
43447951 TAAGACCATG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:43447948 original size:30 final size:30
Alignment explanation
Indices: 43447912--43448007 Score: 78
Period size: 30 Copynumber: 3.2 Consensus size: 30
43447902 GTTGAAAGAT
43447912 ACCATGGCAGCCTGATATGAAATGTGTAAG
1 ACCATGGCAGCCTGATATGAAATGTGTAAG
* * *
43447942 ACCATGGTTTAAGACCATGGT-TGAAA---G--AT
1 ACCATGG---CAG-CC-TGATATGAAATGTGTAAG
43447971 ACCATGGCAGCCTGATATGAAATGTGTAAG
1 ACCATGGCAGCCTGATATGAAATGTGTAAG
43448001 ACCATGG
1 ACCATGG
43448008 TTGAAAGATA
Statistics
Matches: 49, Mismatches: 6, Indels: 22
0.64 0.08 0.29
Matches are distributed among these distances:
24 3 0.06
25 7 0.14
26 2 0.04
28 1 0.02
29 8 0.16
30 15 0.31
31 1 0.02
33 2 0.04
34 7 0.14
35 3 0.06
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (30 bp):
ACCATGGCAGCCTGATATGAAATGTGTAAG
Found at i:43447956 original size:13 final size:13
Alignment explanation
Indices: 43447938--43447963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43447928 ATGAAATGTG
43447938 TAAGACCATGGTT
1 TAAGACCATGGTT
43447951 TAAGACCATGGTT
1 TAAGACCATGGTT
43447964 GAAAGATACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
TAAGACCATGGTT
Found at i:43447962 original size:59 final size:59
Alignment explanation
Indices: 43447892--43448009 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
43447882 ATGAAATGTG
43447892 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTT
1 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTT
43447951 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTT
1 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTT
43448010 GAAAGATACC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (59 bp):
TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTT
Found at i:43448003 original size:46 final size:46
Alignment explanation
Indices: 43447951--43448163 Score: 275
Period size: 46 Copynumber: 4.6 Consensus size: 46
43447941 GACCATGGTT
*
43447951 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
* *
43447997 TAAGACCATGGTTGAAAGATACCGTCGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
* * *
43448043 TAAGACCATGATTGAAAGATAACATGACAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
* * * * *
43448089 TAAGATCATGGTTGAAAGATACCATGGAAACATGACA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTG
* * * *
43448135 CAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
43448164 TCATGTCAAA
Statistics
Matches: 144, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
45 1 0.01
46 143 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
Found at i:43448031 original size:105 final size:105
Alignment explanation
Indices: 43447846--43448113 Score: 382
Period size: 105 Copynumber: 2.7 Consensus size: 105
43447836 ATAAAATGTG
43447846 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
* *
43447911 TACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTT
66 TACCATCGCAACCTGATATGAAATGTGTAAGACCATGGTT
*
43447951 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
*
43448016 TACCGTCGCAACCTGATATGAAATGTGTAAGACCA-----
66 TACCATCGCAACCTGATATGAAATGTGTAAGACCATGGTT
* * *
43448051 T--G---A---TTGAAAGATAACATGACAACCTGATATGAAATGTGTAAGATCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
43448108 TACCAT
66 TACCAT
43448114 GGAAACATGA
Statistics
Matches: 154, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
92 55 0.36
95 1 0.01
98 1 0.01
100 1 0.01
105 96 0.62
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (105 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
TACCATCGCAACCTGATATGAAATGTGTAAGACCATGGTT
Found at i:43450055 original size:27 final size:26
Alignment explanation
Indices: 43450007--43450066 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
43449997 GCGAGGCTGC
* *
43450007 CAGATATTGTGACGAAGTCACCAAATG
1 CAGATATTGTGACGAAGCCACCAAA-A
* * *
43450034 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
43450060 CAGATAT
1 CAGATAT
43450067 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:43450153 original size:27 final size:26
Alignment explanation
Indices: 43450106--43450156 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
43450096 CGAGGCTGCT
*
43450106 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
43450132 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
43450157 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:43453837 original size:46 final size:46
Alignment explanation
Indices: 43453672--43453845 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
43453662 TGTAACCCAC
***
43453672 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGTGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCAT
* * * * * *
43453718 CCATGAGTGAACTCAGACTCAACTCAACGAGTTAGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
43453768 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
43453811 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCG
43453846 AATGCCCAAA
Statistics
Matches: 103, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 56 0.54
47 27 0.26
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:43453851 original size:93 final size:93
Alignment explanation
Indices: 43453679--43453851 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 93
43453669 CACCCATAAG
*** *
43453679 CGAACTCGGACTCAACTCAACGAGCTTGGGTGTTTGCATCCATGAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTTGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCA
*
43453744 ACGAGTTAGGATGCCTAGTTACATCTCA
66 ACGAGTTAGAATGCCTAGTTACATCTCA
**
43453772 CGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCATAAGTGAACTTGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTT-GGACATTTGCATCCATAAGTGAACTCAGACTCAACTC
*
43453836 AACGAGTTCGAATGCC
65 AACGAGTTAGAATGCC
43453852 CAAACATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTTGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTAGAATGCCTAGTTACATCTCA
Found at i:43456259 original size:23 final size:23
Alignment explanation
Indices: 43456229--43456273 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
43456219 CCCAAATATG
43456229 AAAACAC-ATACATTTCATTTAC
1 AAAACACAATACATTTCATTTAC
43456251 AAAATCACATATACATTTCATTT
1 AAAA-CACA-ATACATTTCATTT
43456274 GGCCAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 3 0.15
25 13 0.65
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAACACAATACATTTCATTTAC
Found at i:43456690 original size:41 final size:40
Alignment explanation
Indices: 43456628--43456806 Score: 243
Period size: 41 Copynumber: 4.3 Consensus size: 40
43456618 ATAAAATTTT
* * *
43456628 CTAGGCATAAAGCCTAGTATAATACACCGGCATAGAGCCTG
1 CTAGGCATAAAGCCGA-TATAATACACCGGCACAAAGCCTG
* *
43456669 TTAGGCA-ATAAGCTTGATATAATACACCGGCACAAAGCCTG
1 CTAGGCATA-AAGC-CGATATAATACACCGGCACAAAGCCTG
*
43456710 CTAGGCATAAAGCCCGATATTATACACCGGCACAAAGCCTG
1 CTAGGCATAAAG-CCGATATAATACACCGGCACAAAGCCTG
43456751 CTAGGCATAAAGGCCGATATAATACACCGGCACAAAGCCTG
1 CTAGGCATAAA-GCCGATATAATACACCGGCACAAAGCCTG
43456792 CTAGGCAATAAAGCC
1 CTAGGC-ATAAAGCC
43456807 CGAATATCAC
Statistics
Matches: 123, Mismatches: 9, Indels: 12
0.85 0.06 0.08
Matches are distributed among these distances:
40 1 0.01
41 113 0.92
42 9 0.07
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.18
Consensus pattern (40 bp):
CTAGGCATAAAGCCGATATAATACACCGGCACAAAGCCTG
Found at i:43458514 original size:27 final size:27
Alignment explanation
Indices: 43458483--43458540 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
43458473 ACAAACATAC
* *
43458483 ATCACATAGGGGC-AAATTAGTCATTTT
1 ATCACATAAGGGCGAAA-CAGTCATTTT
*
43458510 ATCACATAAGGGCGTAACAGTCATTTT
1 ATCACATAAGGGCGAAACAGTCATTTT
43458537 ATCA
1 ATCA
43458541 ATTAGAGGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (27 bp):
ATCACATAAGGGCGAAACAGTCATTTT
Found at i:43460866 original size:12 final size:12
Alignment explanation
Indices: 43460849--43460877 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
43460839 ACAGGGTATC
43460849 GAATAGTTGATT
1 GAATAGTTGATT
43460861 GAATAGTTGATT
1 GAATAGTTGATT
43460873 GAATA
1 GAATA
43460878 AGAAAACCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (12 bp):
GAATAGTTGATT
Found at i:43467262 original size:17 final size:18
Alignment explanation
Indices: 43467231--43467282 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 18
43467221 ACCTCTAATC
*
43467231 CTCTCTAAAACCCTAAAAT
1 CTCT-TAAAACCCTAAAAA
43467250 CTCTTAAAA-CCTAAAAA
1 CTCTTAAAACCCTAAAAA
*
43467267 CACTTAAAACCCTAAA
1 CTCTTAAAACCCTAAA
43467283 TTTTATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 15 0.50
18 11 0.37
19 4 0.13
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (18 bp):
CTCTTAAAACCCTAAAAA
Found at i:43469485 original size:55 final size:55
Alignment explanation
Indices: 43469400--43469513 Score: 192
Period size: 55 Copynumber: 2.1 Consensus size: 55
43469390 TGGCCTAGGG
* * *
43469400 CACGTCCATGCCTTTAATTCGTGGGCAACACTAACTTTTAGGCACGGCCAAGACA
1 CACGTCCATGCCTTTAATTCATGGGAAACACTAACTTTTAGGCACGACCAAGACA
*
43469455 CACGTCCATGCCTTTAATTCATGGGAAACACTGACTTTTAGGCACGACCAAGACA
1 CACGTCCATGCCTTTAATTCATGGGAAACACTAACTTTTAGGCACGACCAAGACA
43469510 CACG
1 CACG
43469514 CCCGTTGGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (55 bp):
CACGTCCATGCCTTTAATTCATGGGAAACACTAACTTTTAGGCACGACCAAGACA
Found at i:43475629 original size:14 final size:15
Alignment explanation
Indices: 43475601--43475629 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43475591 CTCTTTCAAG
43475601 GACAAGAATAATCCA
1 GACAAGAATAATCCA
43475616 GACAAGAA-AATCCA
1 GACAAGAATAATCCA
43475630 TATGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.21, G:0.14, T:0.10
Consensus pattern (15 bp):
GACAAGAATAATCCA
Found at i:43476254 original size:15 final size:15
Alignment explanation
Indices: 43476236--43476279 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
43476226 GAAGCCCAGA
43476236 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
43476251 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
43476266 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
43476280 TTTACAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:43478684 original size:61 final size:61
Alignment explanation
Indices: 43478619--43478740 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
43478609 ATAAGCCAAC
43478619 ATCTTGGCCAAAATATAAAAACACATATCAATAATTAAGTCCCTATACATGCCACTAACTT
1 ATCTTGGCCAAAATATAAAAACACATATCAATAATTAAGTCCCTATACATGCCACTAACTT
43478680 ATCTTGGCCAAAATATAAAAACACATATCAATAATTAAGTCCCTATACATGCCACTAACTT
1 ATCTTGGCCAAAATATAAAAACACATATCAATAATTAAGTCCCTATACATGCCACTAACTT
43478741 GAAGAAATTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.28
Consensus pattern (61 bp):
ATCTTGGCCAAAATATAAAAACACATATCAATAATTAAGTCCCTATACATGCCACTAACTT
Found at i:43482890 original size:27 final size:27
Alignment explanation
Indices: 43482854--43482933 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
43482844 GGGCAAAACA
* *
43482854 GTCATTTTACCCTACAGGGGTATGTT-G
1 GTCATTTTACACTACAAGGGTAT-TTCG
43482881 GTCATTTTACACTACAAGGGTATTTCG
1 GTCATTTTACACTACAAGGGTATTTCG
*
43482908 GTAATTTTACACTACAAGGGTATTTC
1 GTCATTTTACACTACAAGGGTATTTC
43482934 AATAATTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
26 2 0.04
27 47 0.96
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (27 bp):
GTCATTTTACACTACAAGGGTATTTCG
Done.