Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 143 of 378
Found at i:40905934 original size:24 final size:24
Alignment explanation
Indices: 40905791--40905933 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
40905781 GCTTTATCAT
*
40905791 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
40905816 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
40905840 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
40905863 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
40905887 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
40905911 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
40905934 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 22 0.20
24 76 0.69
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:40906009 original size:20 final size:20
Alignment explanation
Indices: 40905984--40906043 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
40905974 TATGATTACC
40905984 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
40906004 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
40906024 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
40906044 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:40906117 original size:25 final size:25
Alignment explanation
Indices: 40906085--40906132 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
40906075 ATACATAAAC
* * *
40906085 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
40906110 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
40906133 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:40910474 original size:31 final size:31
Alignment explanation
Indices: 40910439--40910502 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
40910429 CCTTTTCATG
40910439 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
40910470 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
40910501 TT
1 TT
40910503 ACTGTAACGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:40910768 original size:47 final size:48
Alignment explanation
Indices: 40910693--40910834 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
40910683 GCTTTATCAT
* *
40910693 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
40910742 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
40910789 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
40910835 TGCACTTCCT
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 44 0.51
48 30 0.35
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:40910793 original size:71 final size:72
Alignment explanation
Indices: 40910693--40910834 Score: 216
Period size: 71 Copynumber: 2.0 Consensus size: 72
40910683 GCTTTATCAT
*
40910693 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
40910758 CCCTTTA
66 CCCTTTA
* * **
40910765 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAA
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
40910828 GCCCTTT
65 GCCCTTT
40910835 TGCACTTCCT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 52 0.81
72 12 0.19
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (72 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTTA
Found at i:40910836 original size:24 final size:24
Alignment explanation
Indices: 40910693--40910835 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
40910683 GCTTTATCAT
*
40910693 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
40910718 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
40910742 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
40910765 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
40910789 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
40910813 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
40910836 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 22 0.20
24 76 0.69
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:40910911 original size:20 final size:20
Alignment explanation
Indices: 40910886--40910945 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
40910876 TATGATTACC
40910886 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
40910906 TCATGTGCATATCATACATGA
1 TCATGTGCATATCATACAT-A
*
40910927 -CATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
40910946 CCATATTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 1 0.03
20 36 0.95
21 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:40911020 original size:25 final size:25
Alignment explanation
Indices: 40910988--40911035 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
40910978 ATACATAAAC
* * *
40910988 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
40911013 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
40911036 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:40913853 original size:21 final size:21
Alignment explanation
Indices: 40913827--40913866 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
40913817 TGTAGTCCAA
40913827 GGGACACACCCGTGTGACCCT
1 GGGACACACCCGTGTGACCCT
* *
40913848 GGGACACGCTCGTGTGACC
1 GGGACACACCCGTGTGACC
40913867 TTAGGACATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.35, G:0.33, T:0.15
Consensus pattern (21 bp):
GGGACACACCCGTGTGACCCT
Found at i:40913873 original size:21 final size:21
Alignment explanation
Indices: 40913828--40913874 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
40913818 GTAGTCCAAG
*
40913828 GGACACACCCGTGTGACCCTG
1 GGACACACCCGTGTGACCCTA
* * *
40913849 GGACACGCTCGTGTGACCTTA
1 GGACACACCCGTGTGACCCTA
40913870 GGACA
1 GGACA
40913875 TGCCCATGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.32, G:0.30, T:0.17
Consensus pattern (21 bp):
GGACACACCCGTGTGACCCTA
Found at i:40915573 original size:20 final size:20
Alignment explanation
Indices: 40915544--40915588 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
40915534 AGCACATGTA
* *
40915544 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
40915564 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
40915584 TTCAT
1 TTCAT
40915589 TTTAGTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:40922686 original size:40 final size:40
Alignment explanation
Indices: 40922584--40922760 Score: 193
Period size: 40 Copynumber: 4.5 Consensus size: 40
40922574 TCGTTCAAAC
* *
40922584 GCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCGTAAAT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCATAAAT
*
40922624 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCATAAAT
*
40922664 GCCTTCGGG-CTTAGCCCGGGA-TTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCC-GGATTTAGTAACTCGCATAAAT
* * * * *
40922703 GCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCATAAAT
*
40922743 GCTTTCGGGACTTAGCCC
1 GCCTTCGGGACTTAGCCC
40922761 AGACATCATT
Statistics
Matches: 119, Mismatches: 11, Indels: 14
0.83 0.08 0.10
Matches are distributed among these distances:
38 2 0.02
39 33 0.28
40 71 0.60
41 13 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCATAAAT
Found at i:40922723 original size:79 final size:80
Alignment explanation
Indices: 40922579--40922760 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 80
40922569 GCTACTCGTT
* * **
40922579 CAAACGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCGTAAATGCCTTCGGGACTTAACCCGG
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
40922644 ATTTAGTAAC-TCGCA
65 ATATAGTAACTTAGCA
* **
40922659 TAAATGCCTTCGGG-CTTAGCCCGGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAA-GCCTTCGGGACTTAGCCC-GGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
*
40922721 GGATATAGTCACTTAGCA
63 GGATATAGTAACTTAGCA
*
40922739 CAAAGCTTTCGGGACTTAGCCC
1 CAAAGCCTTCGGGACTTAGCCC
40922761 AGACATCATT
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.04
79 52 0.61
80 30 0.35
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCA
Found at i:40923987 original size:27 final size:28
Alignment explanation
Indices: 40923957--40924058 Score: 95
Period size: 27 Copynumber: 3.7 Consensus size: 28
40923947 TTTAGTTTAC
40923957 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
40923984 TAAAAAAATACTGAAATACCC-TCGATTTG
1 T--AAAATTACCGAAATACCCTTAGATTTG
* * *
40924013 TAAATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
40924040 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
40924059 CCGATTTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
26 5 0.08
27 31 0.51
28 4 0.07
29 21 0.34
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:40924012 original size:29 final size:29
Alignment explanation
Indices: 40923958--40924016 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
40923948 TTAGTTTACT
* *
40923958 AAAATTACCGAAATACCCTTAGTTTGTAA
1 AAAAATACCGAAATACCCTGAGTTTGTAA
*
40923987 AAAAATACTGAAATACCCTCGA-TTTGTAA
1 AAAAATACCGAAATACCCT-GAGTTTGTAA
40924016 A
1 A
40924017 TTTACCGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (29 bp):
AAAAATACCGAAATACCCTGAGTTTGTAA
Found at i:40924265 original size:27 final size:27
Alignment explanation
Indices: 40924054--40924264 Score: 284
Period size: 27 Copynumber: 7.8 Consensus size: 27
40924044 ATTACCAAAG
*
40924054 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
40924081 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
40924108 TACCC-CTGATTTACATG-ATTATCGTTT
1 TACCCTC-GATTTACA-GAATTACCGTTT
*
40924135 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
40924162 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
40924189 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
40924216 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
40924243 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
40924265 TAAAATACCC
Statistics
Matches: 166, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
26 2 0.01
27 163 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:40924273 original size:27 final size:27
Alignment explanation
Indices: 40924243--40924410 Score: 133
Period size: 27 Copynumber: 6.2 Consensus size: 27
40924233 ATTACTGTTT
*
40924243 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * **
40924270 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
40924297 TACCACTAG-TTTGTAAAATTACCAAAA
1 TACC-CTCGATTTACAAAATTACCAAAA
* * *** *
40924324 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
40924351 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
40924378 TACCC-CTGATTTACAAAGTTACAAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
40924405 TACCCT
1 TACCCT
40924411 TGACTTTCTA
Statistics
Matches: 118, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.03
27 111 0.94
28 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:40924290 original size:54 final size:54
Alignment explanation
Indices: 40924243--40924464 Score: 196
Period size: 54 Copynumber: 4.1 Consensus size: 54
40924233 ATTACTGTTT
* * *
40924243 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
* * *
40924297 TACCACTAG-TTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
* * * * ** * **
40924351 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
* * * * ** *
40924405 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTAT-AAAATTACCA-AAATACCCTTGGTTTGTAAAATTACCGAAA
40924461 TACC
1 TACC
40924465 TTTGGTTTGT
Statistics
Matches: 137, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
53 2 0.01
54 92 0.67
55 8 0.06
56 35 0.26
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
Found at i:40924290 original size:81 final size:81
Alignment explanation
Indices: 40924000--40924291 Score: 212
Period size: 81 Copynumber: 3.6 Consensus size: 81
40923990 AATACTGAAA
** * * * * * ***** * *
40924000 TACCCTCGATTTGTAAATTTACCGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACTGTTTTACCCTCGACT
40924065 TACAGAATTACCGTTT
66 TACAGAATTACCGTTT
* * **** * **
40924081 TACCC-CTAATTTACATAATTACCGTTTTACCC-CTGATTTACATGATTA-TCGTTTTACCCTCG
1 TACCCTC-GATTTACAAAATTACCAAAATACCCTC-GATTTATAAAATTACT-GTTTTACCCTCG
40924143 ACTTACAGAATTACCGTTT
63 ACTTACAGAATTACCGTTT
* **** * * *
40924162 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACTGTTTTACCCTCGACT
*
40924227 TACAGAATTACTGTTT
66 TACAGAATTACCGTTT
* * * *
40924243 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTAC
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTAC
40924292 CAAAATACCA
Statistics
Matches: 166, Mismatches: 39, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
80 2 0.01
81 161 0.97
82 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACTGTTTTACCCTCGACT
TACAGAATTACCGTTT
Found at i:40924328 original size:81 final size:80
Alignment explanation
Indices: 40924243--40924464 Score: 198
Period size: 81 Copynumber: 2.7 Consensus size: 80
40924233 ATTACTGTTT
* *
40924243 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCACTAGTT
1 TACCCTTGATTT-CAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCACT-GAT
*
40924308 TGTA-AAA-TTACCAAAA
64 T-TACAAAGTTACAAAAA
* ** ** *** *
40924324 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATT
1 TACCCTTGATTT-CAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCACTGATT
40924389 TACAAAGTTACAAAAA
65 TACAAAGTTACAAAAA
* ** **
40924405 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACC
1 TACCCTTGA-TTTC--AAAATTACTA-AAATACCCTTGGTTTGTAAAATTACCAAAATACC
40924465 TTTGGTTTGT
Statistics
Matches: 109, Mismatches: 26, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
79 2 0.02
80 6 0.06
81 66 0.61
82 3 0.03
83 32 0.29
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (80 bp):
TACCCTTGATTTCAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCACTGATTT
ACAAAGTTACAAAAA
Found at i:40924454 original size:27 final size:27
Alignment explanation
Indices: 40924252--40924472 Score: 86
Period size: 27 Copynumber: 8.1 Consensus size: 27
40924242 TTACCCTCGA
* *
40924252 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCATTGG
** ** * *
40924279 TTTGTAAAATTACCAAAATACCACTAG
1 TTTACAAAATTACTGAAATACCATTGG
** ** *
40924306 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCATTGG
*** * * ***
40924333 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACTGAAATACCATTGG
** ** ** *
40924360 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACTGAAATACCATTGG
* ** * *
40924387 TTTACAAAGTTACAAAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCATTG-G
40924415 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCATTGG
*
40924443 TTTACAAAATTACTGAAATACCTTTGG
1 TTTACAAAATTACTGAAATACCATTGG
40924470 TTT
1 TTT
40924473 GTTGATTTAC
Statistics
Matches: 157, Mismatches: 31, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
27 133 0.85
28 7 0.04
29 17 0.11
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCATTGG
Found at i:40924590 original size:27 final size:27
Alignment explanation
Indices: 40924526--40924590 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
40924516 ACCCCTAAAA
*
40924526 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
40924553 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
40924580 GGTAAAATGAC
1 GGTAAAATGAC
40924591 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:40925839 original size:9 final size:9
Alignment explanation
Indices: 40925827--40925883 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
40925817 TTTGATAAGC
40925827 ATGATATGT
1 ATGATATGT
40925836 ATGATATGCAT
1 ATGATATG--T
*
40925847 ATGACATGT
1 ATGATATGT
*
40925856 ATGATATGCAC
1 ATGATATG--T
40925867 ATGATATGT
1 ATGATATGT
40925876 ATGATATG
1 ATGATATG
40925884 CACATGAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.60
11 16 0.40
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (9 bp):
ATGATATGT
Found at i:40925855 original size:20 final size:20
Alignment explanation
Indices: 40925826--40925895 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
40925816 TTTTGATAAG
40925826 CATGATATGTATGATATGCA
1 CATGATATGTATGATATGCA
* *
40925846 TATGACATGTATGATATGCA
1 CATGATATGTATGATATGCA
40925866 CATGATATGTATGATATGCA
1 CATGATATGTATGATATGCA
*
40925886 CATGAGATGT
1 CATGATATGT
40925896 TCATAAATGC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
CATGATATGTATGATATGCA
Found at i:40925858 original size:15 final size:16
Alignment explanation
Indices: 40925836--40925878 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
40925826 CATGATATGT
40925836 ATGATATGCATATG-AC
1 ATGATATG-ATATGCAC
40925852 ATG-TATGATATGCAC
1 ATGATATGATATGCAC
40925867 ATGATATG-TATG
1 ATGATATGATATG
40925879 ATATGCACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.20
15 13 0.52
16 7 0.28
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGATATGATATGCAC
Found at i:40925967 original size:24 final size:24
Alignment explanation
Indices: 40925940--40926133 Score: 297
Period size: 23 Copynumber: 8.2 Consensus size: 24
40925930 GGAGGAAGTG
40925940 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
40925964 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
40925987 T-AAAGGGCTTATGCCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
40926010 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
40926034 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
40926058 T-AAAGGGCTTATGCCCCAGTGAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
40926081 CAAAAGGGCTTACGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
40926105 T-AAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
40926128 TAAAAG
1 TAAAAG
40926134 AGGCAAGGCC
Statistics
Matches: 156, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
23 86 0.55
24 70 0.45
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:40926028 original size:47 final size:47
Alignment explanation
Indices: 40925941--40926133 Score: 307
Period size: 47 Copynumber: 4.1 Consensus size: 47
40925931 GAGGAAGTGT
40925941 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* * *
40925987 TAAAGGGCTTATGCCCCAATTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
*
40926035 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* * *
40926082 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
40926129 AAAAG
1 AAAAG
40926134 AGGCAAGGCC
Statistics
Matches: 134, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
46 21 0.16
47 92 0.69
48 21 0.16
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:40926336 original size:42 final size:42
Alignment explanation
Indices: 40926273--40926364 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
40926263 TAGCCTCCCC
* **
40926273 AAATGGGTTTGCATACATTCATTGTTATT-TCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTAT-ATGTGATATTG
* *
40926315 AAATGGGCTTGCATTCTTTCATTGACATTATATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
40926357 AAATGGGC
1 AAATGGGC
40926365 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
Found at i:40926423 original size:31 final size:31
Alignment explanation
Indices: 40926388--40926451 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
40926378 CGTTTACAGT
40926388 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
40926419 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
40926450 AA
1 AA
40926452 TATGAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:40927898 original size:22 final size:22
Alignment explanation
Indices: 40927870--40927926 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
40927860 TACACGGCTC
* *
40927870 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCTGTGTGGACCAAGGG
**
40927892 ACACGCCTGTGT-GACCCTGGG
1 ACACGCCTGTGTGGACCAAGGG
40927913 ACACGCCTGTGTGG
1 ACACGCCTGTGTGG
40927927 GAGGGCGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.16, C:0.32, G:0.35, T:0.18
Consensus pattern (22 bp):
ACACGCCTGTGTGGACCAAGGG
Found at i:40928175 original size:13 final size:13
Alignment explanation
Indices: 40928159--40928183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40928149 ACCAGGCCAT
40928159 GTCTAGACACACG
1 GTCTAGACACACG
40928172 GTCTAGACACAC
1 GTCTAGACACAC
40928184 ACTTGTGTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.20, T:0.16
Consensus pattern (13 bp):
GTCTAGACACACG
Found at i:40930414 original size:79 final size:80
Alignment explanation
Indices: 40930271--40930478 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
40930261 ACCTTCGGAG
* * ** * * * *
40930271 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
40930335 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
40930350 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
40930412 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
40930429 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
40930479 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:40930423 original size:40 final size:40
Alignment explanation
Indices: 40930371--40930478 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
40930361 TATCACGATT
** *
40930371 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
40930411 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
40930451 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
40930479 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:40938533 original size:79 final size:80
Alignment explanation
Indices: 40938390--40938597 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
40938380 ACCTTCGGAG
* * ** * * * *
40938390 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
40938454 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
40938469 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
40938531 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
40938548 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
40938598 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:40938542 original size:40 final size:40
Alignment explanation
Indices: 40938490--40938597 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
40938480 TATCACGATT
** *
40938490 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
40938530 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
40938570 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
40938598 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:40942964 original size:37 final size:37
Alignment explanation
Indices: 40942908--40942988 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
40942898 TTTCTATGAT
*
40942908 TGATGTTGTTGTGATTAGCCAAATG-TAT-TGGCTTATAA
1 TGAT-TTGTTGTGATTAGCC--ATGAGATGTGGCTTATAA
40942946 TGATTTGTTGT-ATGTAGCCATGAGATGTGGCTTATAA
1 TGATTTGTTGTGAT-TAGCCATGAGATGTGGCTTATAA
40942983 TGATTT
1 TGATTT
40942989 TGGCTTGTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
35 3 0.08
36 4 0.10
37 28 0.72
38 4 0.10
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (37 bp):
TGATTTGTTGTGATTAGCCATGAGATGTGGCTTATAA
Found at i:40945053 original size:15 final size:15
Alignment explanation
Indices: 40945009--40945071 Score: 81
Period size: 15 Copynumber: 4.2 Consensus size: 15
40944999 TATGATATGG
*
40945009 TATCTTGGATTTCTG
1 TATCTTGGATTTCTT
* *
40945024 TACCTTGGATATCTT
1 TATCTTGGATTTCTT
40945039 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
* *
40945054 TGTCATGGATTTCTT
1 TATCTTGGATTTCTT
40945069 TAT
1 TAT
40945072 TCTGGTTTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.54
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:40949481 original size:40 final size:40
Alignment explanation
Indices: 40949423--40949626 Score: 205
Period size: 40 Copynumber: 5.1 Consensus size: 40
40949413 TGAATGATAC
* * * * *
40949423 CCGGGCTAAGTCCTGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
*
40949463 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGATTATAT
* ** *
40949503 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* * ** *
40949543 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* ** *
40949583 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
40949623 CCGG
1 CCGG
40949627 TTGAATCCCG
Statistics
Matches: 142, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 134 0.94
41 5 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
Found at i:40949625 original size:80 final size:80
Alignment explanation
Indices: 40949423--40949626 Score: 230
Period size: 80 Copynumber: 2.5 Consensus size: 80
40949413 TGAATGATAC
* * * *
40949423 CCGGGCTAAGTCCTGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
* *** *
40949488 TGCGAGTTGTTATAT
66 TGCAAGTTACCAAAT
* * ** * *
40949503 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
40949567 GTGCAAGTTACCAAAT
65 GTGCAAGTTACCAAAT
* * *
40949583 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGG
40949627 TTGAATCCCG
Statistics
Matches: 100, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 97 0.97
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTTACCAAAT
Found at i:40957237 original size:40 final size:40
Alignment explanation
Indices: 40957182--40957281 Score: 141
Period size: 40 Copynumber: 2.5 Consensus size: 40
40957172 TGAATGATAC
* * *
40957182 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG-TTATAT
*
40957222 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTTATAT
40957262 CCGGGCTAAGA-CCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
40957282 ATTGTCAAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
39 9 0.16
40 44 0.80
41 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTTATAT
Found at i:40964950 original size:40 final size:40
Alignment explanation
Indices: 40964895--40965098 Score: 223
Period size: 40 Copynumber: 5.1 Consensus size: 40
40964885 TGAATGATAC
* * * *
40964895 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
*
40964935 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGATTATAT
* ** *
40964975 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* * * *
40965015 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* ** *
40965055 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
40965095 CCGG
1 CCGG
40965099 TTGAATGCCG
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 135 0.94
41 5 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
Found at i:40965097 original size:80 final size:80
Alignment explanation
Indices: 40964895--40965098 Score: 248
Period size: 80 Copynumber: 2.5 Consensus size: 80
40964885 TGAATGATAC
* * *
40964895 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
* ** *
40964960 TGCGAGTTGTTATAT
66 TGCAAGTTACTAAAT
* * ** * *
40964975 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
40965039 GTGCAAGTTACTAAAT
65 GTGCAAGTTACTAAAT
* * *
40965055 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGG
40965099 TTGAATGCCG
Statistics
Matches: 102, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
80 99 0.97
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTTACTAAAT
Found at i:40967851 original size:31 final size:31
Alignment explanation
Indices: 40967801--40967878 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
40967791 TTTAACGATT
40967801 ACTGGGCCGAAG-CTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
40967831 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
40967862 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
40967879 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 11 0.25
31 33 0.75
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:40967949 original size:42 final size:42
Alignment explanation
Indices: 40967902--40967993 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
40967892 TGGCCCATAG
* ** * *
40967902 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATACAA
40967944 GCCCATTTCAATATCACATGAAATACCAATGAATGTATACAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATACAA
40967986 GCCCATTT
1 GCCCATTT
40967994 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATACAA
Found at i:40968183 original size:26 final size:26
Alignment explanation
Indices: 40968138--40968235 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
40968128 CCTCTTTAAT
40968138 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
40968163 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
40968189 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
40968215 ACCTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
40968236 GCACTTCCTC
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 10 0.15
26 57 0.85
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:40969138 original size:27 final size:27
Alignment explanation
Indices: 40969038--40969121 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
40969028 GGGCATATTC
* *
40969038 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
40969065 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
40969092 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
40969119 GTC
1 GTC
40969122 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:40969213 original size:27 final size:27
Alignment explanation
Indices: 40969160--40969398 Score: 174
Period size: 27 Copynumber: 8.8 Consensus size: 27
40969150 TTTCATCCTA
* * * *
40969160 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* **
40969187 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * * *
40969214 TAATGGTATTTCTA-TAATTTTTAGAAAAT
1 CAAGGGTATTT-TAGTAA-TTTTA-CAAAC
* * ** *
40969243 CAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
40969270 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
** * *
40969297 TGAGGGTATTTCAGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
40969324 TAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
40969351 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
*
40969378 CAATGGTATTTTAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
40969399 GTAAATTGAG
Statistics
Matches: 166, Mismatches: 42, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
27 142 0.86
28 9 0.05
29 15 0.09
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:40969331 original size:54 final size:54
Alignment explanation
Indices: 40969273--40969412 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
40969263 TGTAAATCAG
*
40969273 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACTAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAA
** *
40969327 GGGTATTTTGGTAATTTTACAAATT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCAGTAATTTCACAAACCAA
* * **
40969381 TGGTATTTTAGTAATTTTGTAAATTGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
40969413 AAATAGTAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 74 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAA
Found at i:40969386 original size:81 final size:82
Alignment explanation
Indices: 40969160--40969397 Score: 246
Period size: 81 Copynumber: 2.9 Consensus size: 82
40969150 TTTCATCCTA
* * * * ** **
40969160 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACTAATGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAATGGTATTT
* *
40969225 CTA-TAATTTTTAGAAAAT
66 C-AGTAA-TTTCACAAAAT
* * ** * * *
40969243 CAAGGGTATTTTTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAATGGTATTT
*
40969308 CAGTAATTTCACAAACT
66 CAGTAATTTCACAAAAT
* * *
40969325 -AAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAATGGTATTT
*
40969389 TAGTAATTT
66 CAGTAATTT
40969398 TGTAAATTGA
Statistics
Matches: 126, Mismatches: 28, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
81 63 0.50
82 9 0.07
83 54 0.43
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.41
Consensus pattern (82 bp):
CAAGGGTATTTTGGTAAATTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAATGGTATTT
CAGTAATTTCACAAAAT
Found at i:40969412 original size:27 final size:27
Alignment explanation
Indices: 40969161--40969439 Score: 173
Period size: 27 Copynumber: 10.3 Consensus size: 27
40969151 TTCATCCTAC
* * * * **
40969161 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTAGTAATTTTACAAATT
* ** *
40969188 AAGGGTATTTCAGTAATTTTGTAAACT
1 AAGGGTATTTTAGTAATTTTACAAATT
* * *
40969215 AATGGTATTTCTA-TAATTTTTAGAAAATC
1 AAGGGTATTT-TAGTAA-TTTTA-CAAATT
* * ** *
40969244 AAGGGTATTTTTGTAACTTTGTAAATC
1 AAGGGTATTTTAGTAATTTTACAAATT
* *
40969271 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTACAAATT
* * * *
40969298 GAGGGTATTTCAGTAATTTCACAAACT
1 AAGGGTATTTTAGTAATTTTACAAATT
*
40969325 AAGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTACAAATT
* * **
40969352 AGGGGTATTTTGGTAATTTTACAAACC
1 AAGGGTATTTTAGTAATTTTACAAATT
* **
40969379 AATGGTATTTTAGTAATTTTGTAAATT
1 AAGGGTATTTTAGTAATTTTACAAATT
* *** * * *
40969406 GAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTACAAATT
40969433 AAGGGTA
1 AAGGGTA
40969440 AAATAGTAAT
Statistics
Matches: 193, Mismatches: 55, Indels: 8
0.75 0.21 0.03
Matches are distributed among these distances:
27 169 0.88
28 9 0.05
29 15 0.08
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTACAAATT
Found at i:40969440 original size:27 final size:27
Alignment explanation
Indices: 40969390--40969655 Score: 336
Period size: 27 Copynumber: 9.9 Consensus size: 27
40969380 ATGGTATTTT
* * * *
40969390 AGTAATTTTGTAAATTGAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
40969417 AGTAATTCTATAAATCAAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
40969444 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
40969471 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
40969498 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
40969525 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * * *
40969552 GGTAATTATGA-AAATCGGGGGTAAAAT
1 AGTAATTCT-ATAAATCGAGGGTAAAAC
* * *
40969579 GGTAATTATGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
40969606 AGTAATTCTATAAATCGGGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
40969633 AGTAATTCTATAAATCGGGGGTA
1 AGTAATTCTATAAATCGAGGGTA
40969656 CTTTGGTAAT
Statistics
Matches: 214, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
27 214 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:40969682 original size:27 final size:26
Alignment explanation
Indices: 40969633--40969750 Score: 94
Period size: 27 Copynumber: 4.4 Consensus size: 26
40969623 GGGGTAAAAC
* * **
40969633 AGTAATTCTATAAATCGGGGGTACTTT
1 AGTAATTTTACAAATCGAAGGTA-TTT
* *
40969660 GGTAATTTTACAAGTCGAAGGTATTT
1 AGTAATTTTACAAATCGAAGGTATTT
*
40969686 CAGTAATTTTACAAATCGAGGGTATTTT
1 -AGTAATTTTACAAATCGAAGGTA-TTT
* *
40969714 AGTATTTTTACAAA-CTAAGGGTATTT
1 AGTAATTTTACAAATCGAA-GGTATTT
*
40969740 CGATAATTTTA
1 AG-TAATTTTA
40969751 ATAAACTAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
26 9 0.12
27 61 0.84
28 3 0.04
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
AGTAATTTTACAAATCGAAGGTATTT
Found at i:40969690 original size:81 final size:79
Alignment explanation
Indices: 40969390--40969709 Score: 309
Period size: 81 Copynumber: 3.9 Consensus size: 79
40969380 ATGGTATTTT
* * * * * * * *
40969390 AGTAATTTTGTAAATTGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTGT
1 AGTAATTCTATAAATCGGGGGTAAAATGGTAATT-T-TAAATCGAGGGTAAAACAGTAATTCTAT
*
40969455 AAATCAAGGGTAAAAC
64 AAATCGAGGGTAAAAC
* ** * *
40969471 AGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGT
1 AGTAATTCTATAAATCGGGGGTAAAATGGTAATT-T-TAAATCGAGGGTAAAACAGTAATTCTAT
*
40969536 AAGTCGAGGGTAAAAC
64 AAATCGAGGGTAAAAC
* *
40969552 GGTAATTATGA-AAATCGGGGGTAAAATGGTAATTATGTAAATCGAGGGTAAAACAGTAATTCTA
1 AGTAATTCT-ATAAATCGGGGGTAAAATGGTAATT-T-TAAATCGAGGGTAAAACAGTAATTCTA
*
40969616 TAAATCGGGGGTAAAAC
63 TAAATCGAGGGTAAAAC
*** * *** * *
40969633 AGTAATTCTATAAATCGGGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTAC
1 AGTAATTCTATAAATCGGGGGTAAAATGGTAATTTTA-AA-TCGAGGGTAAAACAGTAATTCTAT
40969698 AAATCGAGGGTA
64 AAATCGAGGGTA
40969710 TTTTAGTATT
Statistics
Matches: 203, Mismatches: 32, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.01
80 4 0.02
81 196 0.97
82 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (79 bp):
AGTAATTCTATAAATCGGGGGTAAAATGGTAATTTTAAATCGAGGGTAAAACAGTAATTCTATAA
ATCGAGGGTAAAAC
Found at i:40969737 original size:54 final size:54
Alignment explanation
Indices: 40969632--40969750 Score: 134
Period size: 54 Copynumber: 2.2 Consensus size: 54
40969622 GGGGGTAAAA
* * * * *
40969632 CAGTAATTCTATAAATCGGGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTT
1 CAGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAGACGAAGGTATTT
* * *
40969686 CAGTAATTTTACAAATCGAGGGTATTTTAGTATTTTTACAA-ACTAAGGGTATTT
1 CAGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAGACGAA-GGTATTT
40969740 C-GATAATTTTA
1 CAG-TAATTTTA
40969751 ATAAACTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 4 0.07
54 51 0.93
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (54 bp):
CAGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAGACGAAGGTATTT
Found at i:40972650 original size:21 final size:21
Alignment explanation
Indices: 40972609--40972650 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
40972599 AAGTTGTTTA
* *
40972609 TCTATCAATAATCTTTCATTT
1 TCTATCAAAAATCTTTAATTT
40972630 TCTATCATAAAAT-TTTAATTT
1 TCTATCA-AAAATCTTTAATTT
40972651 CCAGCATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.52
Consensus pattern (21 bp):
TCTATCAAAAATCTTTAATTT
Found at i:40974845 original size:40 final size:40
Alignment explanation
Indices: 40974812--40975032 Score: 406
Period size: 40 Copynumber: 5.5 Consensus size: 40
40974802 CTCGATCGAG
* *
40974812 TGCCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
40974852 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
*
40974892 TGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
40974932 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
*
40974972 TGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
40975012 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
40975033 TTATCATCCG
Statistics
Matches: 175, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 175 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
Found at i:40975002 original size:120 final size:120
Alignment explanation
Indices: 40974775--40975032 Score: 414
Period size: 120 Copynumber: 2.2 Consensus size: 120
40974765 AAGCCAGGTA
* * * *
40974775 CCTTCGGGATTTAA-CCGGATATAGCTACTCGATCGAGTGCCTTCGGGACATAGCCCGGATGTAG
1 CCTTCGGGACTTAACCCGGATATAGCTACTCGATCAAATGCCTTCGGGACATAGCCCGGATATAG
*
40974839 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 TAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
*
40974894 CCTTCGGGACTTAACCCGGATATAG-TAACTCGCA-CAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAACCCGGATATAGCT-ACTCG-ATCAAATGCCTTCGGGACATAGCCCGGATAT
40974957 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
64 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
*
40975014 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAACCCGG
40975033 TTATCATCCG
Statistics
Matches: 129, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
119 14 0.11
120 114 0.88
121 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (120 bp):
CCTTCGGGACTTAACCCGGATATAGCTACTCGATCAAATGCCTTCGGGACATAGCCCGGATATAG
TAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
Found at i:40982951 original size:40 final size:40
Alignment explanation
Indices: 40982872--40983168 Score: 440
Period size: 40 Copynumber: 7.5 Consensus size: 40
40982862 AAGCCAGGTA
* * * * *
40982872 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
40982911 CCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
40982951 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
40982991 CCTTCGGGACTTAACCC-GATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
40983030 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
40983070 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
40983110 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
40983150 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
40983169 TTATCATCCT
Statistics
Matches: 238, Mismatches: 16, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 51 0.21
40 187 0.79
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:40983088 original size:119 final size:118
Alignment explanation
Indices: 40982872--40983168 Score: 443
Period size: 119 Copynumber: 2.5 Consensus size: 118
40982862 AAGCCAGGTA
* * * * * * *
40982872 CCTTCGGGATTTAACCGGATATAGCTACTCACTCGAATGCCTTCGGGACATAGCCCGGATGTAGT
1 CCTTCGGGACTTAACCCGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
40982937 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
65 AACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
40982991 CCTTCGGGACTTAACCCGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTTAACCCGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
40983056 AACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
65 AACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* * *
40983110 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAACCC-GATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
40983169 TTATCATCCT
Statistics
Matches: 163, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
118 1 0.01
119 126 0.77
120 36 0.22
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (118 bp):
CCTTCGGGACTTAACCCGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
ACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
Found at i:40988767 original size:23 final size:23
Alignment explanation
Indices: 40988737--40988782 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
40988727 TGTTAGTGCA
40988737 CATACATACTCATTAAACTGAAC
1 CATACATACTCATTAAACTGAAC
40988760 CATACATACTCATTAAACTGAAC
1 CATACATACTCATTAAACTGAAC
40988783 TAATCTCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.26, G:0.04, T:0.26
Consensus pattern (23 bp):
CATACATACTCATTAAACTGAAC
Found at i:40993524 original size:17 final size:18
Alignment explanation
Indices: 40993497--40993530 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
40993487 AATTAAATAT
40993497 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
40993515 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
40993531 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:40993687 original size:127 final size:123
Alignment explanation
Indices: 40993550--40993777 Score: 327
Period size: 127 Copynumber: 1.8 Consensus size: 123
40993540 ATGAGATATG
*
40993550 ATTAAAACTAATCCTAATTCTATACTAAA-TTGATAAAAATTAATATATAAATTATAATAGATAT
1 ATTAAAACTAATCCTAACTCTATA-TAAATTTGATAAAAATTAATATAT--ATTA-AATAGATAT
40993614 AATTATATATTAA-AGATTATCATCTTATTATT-ATTAAAAACTTATCAAATAAAATATGATGAA
62 AATTA-ATATTAATA-ATTATCATCTT-TTATTAATTAAAAACTTATCAAATAAAATATGATGAA
* * *
40993677 ATTAACACTAATCCTAACTCTATATAAATTTGATAATAATTAATATATATTAAATGGATATAATT
1 ATTAAAACTAATCCTAACTCTATATAAATTTGATAAAAATTAATATATATTAAATAGATATAATT
*
40993742 AATATTAATAATTATCATCTTTTTTTAATTAAAAAC
66 AATATTAATAATTATCATCTTTTATTAATTAAAAAC
40993778 ATTTATTCTA
Statistics
Matches: 93, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
122 4 0.04
123 27 0.29
124 14 0.15
125 4 0.04
126 4 0.04
127 40 0.43
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (123 bp):
ATTAAAACTAATCCTAACTCTATATAAATTTGATAAAAATTAATATATATTAAATAGATATAATT
AATATTAATAATTATCATCTTTTATTAATTAAAAACTTATCAAATAAAATATGATGAA
Found at i:40996961 original size:50 final size:50
Alignment explanation
Indices: 40996886--40996982 Score: 176
Period size: 50 Copynumber: 1.9 Consensus size: 50
40996876 GTTAATGCTA
* *
40996886 TTATTTAGAGGAGGAAGAGACCCTGTCTAAGAGGACATTTGTCATAACTC
1 TTATTTAGAGGAGGAAGAGACCCTGTCTAAGAGCAAATTTGTCATAACTC
40996936 TTATTTAGAGGAGGAAGAGACCCTGTCTAAGAGCAAATTTGTCATAA
1 TTATTTAGAGGAGGAAGAGACCCTGTCTAAGAGCAAATTTGTCATAA
40996983 TTAAGCGGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (50 bp):
TTATTTAGAGGAGGAAGAGACCCTGTCTAAGAGCAAATTTGTCATAACTC
Found at i:41004653 original size:13 final size:13
Alignment explanation
Indices: 41004635--41004668 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
41004625 CTGGAGTTCC
41004635 TCACACGGGCGTG
1 TCACACGGGCGTG
41004648 TCACACGGGCGTG
1 TCACACGGGCGTG
41004661 TCACACGG
1 TCACACGG
41004669 CCATGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.35, T:0.15
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:41032767 original size:43 final size:43
Alignment explanation
Indices: 41032706--41032851 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 43
41032696 ATCAAGATGT
41032706 GATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTGA
* * *
41032749 GATTACATGTAAGACCATGTCT-GGACATTGGCATCAT-TAATCA
1 GATTACATGTAAGACCATGTTTGGGACATTGGCAT--TGTATTGA
* * * * * *
41032792 -ATTACGTGTAAGACCCTGTTCGGGACAATGACATTG-ATATGT
1 GATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT-TGA
*
41032834 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
41032852 ATCTGAGATA
Statistics
Matches: 82, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
41 2 0.02
42 30 0.37
43 49 0.60
44 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTGA
Found at i:41032796 original size:42 final size:43
Alignment explanation
Indices: 41032706--41032871 Score: 137
Period size: 43 Copynumber: 3.9 Consensus size: 43
41032696 ATCAAGATGT
* * *
41032706 GATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAATCA
41032749 GATTACATGTAAGACCATGTCT-GGACATTGGCATCAT-TAATCA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAATCA
* * * * **
41032792 -ATTACGTGTAAGACCCTGT-TCGGGACAATGACATTG-ATATGT
1 GATTACATGTAAGACCATGTCT-GGGACATTGGCATTGTA-ATCA
* * * *
41032834 GATAACATGTAAGACCATATCTGAGATA-TGGCATTGTA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
41032872 CGAACTTATG
Statistics
Matches: 98, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
41 3 0.03
42 38 0.39
43 55 0.56
44 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAATCA
Found at i:41034997 original size:46 final size:48
Alignment explanation
Indices: 41034875--41035004 Score: 171
Period size: 46 Copynumber: 2.8 Consensus size: 48
41034865 TGTAACCCGC
*
41034875 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-T-CAT
* * *
41034925 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
41034968 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41035005 TGCCCAAATA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 32 0.45
47 30 0.42
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
Found at i:41035023 original size:46 final size:45
Alignment explanation
Indices: 41034880--41035023 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
41034870 CCCGCCCATA
* *
41034880 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
41034928 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
41034973 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
41035019 AGTGA
1 AGTGA
41035024 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:41037443 original size:13 final size:13
Alignment explanation
Indices: 41037421--41037453 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
41037411 AAGGGTTTGT
41037421 TTAT-TAAACTAA
1 TTATCTAAACTAA
41037433 TTATCTAAACTAA
1 TTATCTAAACTAA
*
41037446 TTAACTAA
1 TTATCTAA
41037454 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:41039201 original size:26 final size:26
Alignment explanation
Indices: 41039157--41039227 Score: 126
Period size: 26 Copynumber: 2.8 Consensus size: 26
41039147 TCTTATAATT
41039157 ACTGGGGC-AAAGCCCTTTTCAGTAA
1 ACTGGGGCAAAAGCCCTTTTCAGTAA
*
41039182 ACTGGGGCAAAAGCCCTTTTCGGTAA
1 ACTGGGGCAAAAGCCCTTTTCAGTAA
41039208 ACTGGGGCAAAAGCCCTTTT
1 ACTGGGGCAAAAGCCCTTTT
41039228 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 8 0.18
26 36 0.82
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (26 bp):
ACTGGGGCAAAAGCCCTTTTCAGTAA
Found at i:41039306 original size:11 final size:11
Alignment explanation
Indices: 41039275--41039322 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
41039265 AAATGAATAC
41039275 ATCATGTGCAT
1 ATCATGTGCAT
*
41039286 ATCA--TACAT
1 ATCATGTGCAT
41039295 ATCATGTGCAT
1 ATCATGTGCAT
*
41039306 ATCATGT-CAA
1 ATCATGTGCAT
41039316 ATCATGT
1 ATCATGT
41039323 ATATCAAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:41041593 original size:3 final size:3
Alignment explanation
Indices: 41041585--41041624 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
41041575 ATTTAATTAC
41041585 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
41041625 TTCATAAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:41041693 original size:12 final size:12
Alignment explanation
Indices: 41041678--41041702 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41041668 ACAGCAAATA
41041678 ATAAAAATTTTC
1 ATAAAAATTTTC
41041690 ATAAAAATTTTC
1 ATAAAAATTTTC
41041702 A
1 A
41041703 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:41044007 original size:26 final size:26
Alignment explanation
Indices: 41043963--41044033 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 26
41043953 TCTTTTAATT
41043963 ACTGGGGC-AAAGCCCTTTTCAGTAA
1 ACTGGGGCAAAAGCCCTTTTCAGTAA
*
41043988 ACTGGGGCAAAAGCCCTTTTCGGTAA
1 ACTGGGGCAAAAGCCCTTTTCAGTAA
*
41044014 ACTGGGGCAAGAGCCCTTTT
1 ACTGGGGCAAAAGCCCTTTT
41044034 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 8 0.19
26 35 0.81
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (26 bp):
ACTGGGGCAAAAGCCCTTTTCAGTAA
Found at i:41044112 original size:11 final size:11
Alignment explanation
Indices: 41044081--41044128 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
41044071 AAATGAATAA
41044081 ATCATGTGCAT
1 ATCATGTGCAT
*
41044092 ATCA--TACAT
1 ATCATGTGCAT
41044101 ATCATGTGCAT
1 ATCATGTGCAT
*
41044112 ATCATGT-CAA
1 ATCATGTGCAT
41044122 ATCATGT
1 ATCATGT
41044129 ATATCAAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:41046406 original size:3 final size:3
Alignment explanation
Indices: 41046398--41046425 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
41046388 ATTTAATTAC
41046398 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
41046426 TTCGTAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:41055191 original size:39 final size:40
Alignment explanation
Indices: 41055136--41055304 Score: 215
Period size: 39 Copynumber: 4.3 Consensus size: 40
41055126 GGACTAAGAT
* *
41055136 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
41055175 CCGAAGGCATTTGTGCGAGTTAATAAAT-CGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* *
41055213 CCGAAGGCATTTGTGC-AGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
41055252 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
41055292 CCGAAGGCATTTG
1 CCGAAGGCATTTG
41055305 AGCTAGTCGT
Statistics
Matches: 118, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
37 9 0.08
38 35 0.30
39 42 0.36
40 25 0.21
41 7 0.06
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:41055257 original size:77 final size:79
Alignment explanation
Indices: 41055136--41055304 Score: 220
Period size: 77 Copynumber: 2.2 Consensus size: 79
41055126 GGACTAAGAT
* * * *
41055136 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTAATA-
1 CCGAAGGCATTTGTGCGAGTTAATAAACCCGGGTTAAGCCCGAAGGCATTCGTGCGAGTTAATAT
*
41055200 AATC-GGGTTAAG-C
66 AACCGGGGTT-AGTC
* *
41055213 CCGAAGGCATTTGTGC-AGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTAATAAACCCGGGTTAAG-CCCGAAGGCATTCGTGCGAGTTAATA
*
41055277 TAACCGGGGTTTGTC
65 TAACCGGGGTTAGTC
41055292 CCGAAGGCATTTG
1 CCGAAGGCATTTG
41055305 AGCTAGTCGT
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
76 19 0.24
77 38 0.47
78 4 0.05
79 19 0.24
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTAATAAACCCGGGTTAAGCCCGAAGGCATTCGTGCGAGTTAATAT
AACCGGGGTTAGTC
Found at i:41062299 original size:39 final size:40
Alignment explanation
Indices: 41062244--41062413 Score: 231
Period size: 39 Copynumber: 4.3 Consensus size: 40
41062234 GGACTAAGAT
* *
41062244 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
41062283 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* *
41062322 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * * *
41062362 CCGAAGGCATTCGTGCGAGTTACTATAA-CGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCCGGGTTAAGTC
41062401 CCGAAGGCATTTG
1 CCGAAGGCATTTG
41062414 AGCTAGTCGT
Statistics
Matches: 121, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 88 0.73
40 31 0.26
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:41062383 original size:79 final size:78
Alignment explanation
Indices: 41062244--41062413 Score: 227
Period size: 79 Copynumber: 2.2 Consensus size: 78
41062234 GGACTAAGAT
* * * *
41062244 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTAATA-
1 CCGAAGGCATTTGTGCGAGTTAATAAACCCGGGTTAAGCCCGAAGGCATTCGTGCGAGTTAATAT
41062308 AATCCGGGTTAAG-C
66 AA-CCGGGTT-AGTC
* *
41062322 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTAATAAACCCGGGTTAAG-CCCGAAGGCATTCGTGCGAGTTAATA
* *
41062387 TAACGGGGTTTGTC
65 TAACCGGGTTAGTC
41062401 CCGAAGGCATTTG
1 CCGAAGGCATTTG
41062414 AGCTAGTCGT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 35 0.43
79 44 0.54
80 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTAATAAACCCGGGTTAAGCCCGAAGGCATTCGTGCGAGTTAATAT
AACCGGGTTAGTC
Found at i:41069268 original size:27 final size:26
Alignment explanation
Indices: 41069226--41069309 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 26
41069216 AGGGAGTATA
*
41069226 CTGGTGGCTCTA-CCACAAATATCTATT
1 CTGGTGGCTC-AGCCAC-AATATCTGTT
41069253 CTGGTGGCTCAGCCACAATATCTGTAT
1 CTGGTGGCTCAGCCACAATATCTGT-T
* * *
41069280 CTGGTGACTCTGTCACAATATCTGTT
1 CTGGTGGCTCAGCCACAATATCTGTT
41069306 CTGG
1 CTGG
41069310 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
26 14 0.27
27 37 0.73
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.33
Consensus pattern (26 bp):
CTGGTGGCTCAGCCACAATATCTGTT
Found at i:41070961 original size:18 final size:18
Alignment explanation
Indices: 41070934--41070969 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
41070924 TCATGAATGT
*
41070934 TTGAATTTTTTTCTCAAA
1 TTGAAATTTTTTCTCAAA
41070952 TTGAAATTTTTTCTCAAA
1 TTGAAATTTTTTCTCAAA
41070970 ACAGGGGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.53
Consensus pattern (18 bp):
TTGAAATTTTTTCTCAAA
Found at i:41073053 original size:20 final size:19
Alignment explanation
Indices: 41073005--41073053 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
41072995 TCACTTAACT
41073005 AAACTTGCATATCTATCAAC
1 AAACTT-CATATCTATCAAC
* *
41073025 AAGCATTCATAATCTATCAAG
1 AAAC-TTCAT-ATCTATCAAC
41073046 AAACTTCA
1 AAACTTCA
41073054 AAATACACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (19 bp):
AAACTTCATATCTATCAAC
Found at i:41078321 original size:43 final size:42
Alignment explanation
Indices: 41078263--41078427 Score: 149
Period size: 43 Copynumber: 3.9 Consensus size: 42
41078253 CAATGCCAAC
*
41078263 GTCCCAGAC-GTGGTCTTACACGTAATCAAATATCGATGCCATT
1 GTCCCAGACAG-GGTCTTACACGAAATCAAATATCGATGCCA-T
* **
41078306 GTCCTAGACAGGGTCTTACACGAAATCAAATA-CGATGTTGAT
1 GTCCCAGACAGGGTCTTACACGAAATCAAATATCGATG-CCAT
* * *
41078348 GTCCCATACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAT
1 GTCCCAGACAGGGTCTTACACG-AAATCA-AATATCGATGCC-AT
* * *
41078392 GTCCCAGA-TGTGGTCTTACACGAAAACACATATCGA
1 GTCCCAGACAG-GGTCTTACACGAAATCAAATATCGA
41078428 ATCCAATGTC
Statistics
Matches: 98, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
42 26 0.27
43 44 0.45
44 28 0.29
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACACGAAATCAAATATCGATGCCAT
Found at i:41080005 original size:129 final size:129
Alignment explanation
Indices: 41079763--41080015 Score: 339
Period size: 129 Copynumber: 2.0 Consensus size: 129
41079753 ATTTCCGTTA
* **
41079763 TGTGATTACGTGTAAGACCCTGTCTAGGACAGTGGCATCGATATGTGATTACGTGTAGGACCACG
1 TGTGATTACGTGTAAGACCCTGTCTAGGACAGTGGCATCGATATGTGATTACATGTAAAACCACG
* **
41079828 TCTAAGACATTCGCATCGATATGTGATTACATGTAAGACCATACCTAGGATGTTGGCATCGATG
66 TCTAAGACATTCGCATCGATATGTGATTACATGTAAGACCACACCTAGGACATTGGCATCGATG
* *
41079892 TGTGATTACGTGTAAGACCCTGTCTGGGACAGTTGCATCGATATGTGATTACATGTAAAACCACG
1 TGTGATTACGTGTAAGACCCTGTCTAGGACAGTGGCATCGATATGTGATTACATGTAAAACCACG
* * * * * **
41079957 TCT-GGGC-TGTGGGCATTGATATGTGATTGCATGTAAGACCACGTCTAGGACATTGGCAT
66 TCTAAGACAT-T-CGCATCGATATGTGATTACATGTAAGACCACACCTAGGACATTGGCAT
41080016 TGTACGATAT
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
127 1 0.01
128 3 0.03
129 103 0.96
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (129 bp):
TGTGATTACGTGTAAGACCCTGTCTAGGACAGTGGCATCGATATGTGATTACATGTAAAACCACG
TCTAAGACATTCGCATCGATATGTGATTACATGTAAGACCACACCTAGGACATTGGCATCGATG
Found at i:41080017 original size:43 final size:43
Alignment explanation
Indices: 41079761--41080015 Score: 268
Period size: 43 Copynumber: 5.9 Consensus size: 43
41079751 GGATTTCCGT
* *
41079761 TATGTGATTACGTGTAAGACC-CTGTCTAGGACAGTGGCATCGA
1 TATGTGATTACATGTAAGACCAC-GTCTAGGACATTGGCATCGA
* * * *
41079804 TATGTGATTACGTGTAGGACCACGTCTAAGACATTCGCATCGA
1 TATGTGATTACATGTAAGACCACGTCTAGGACATTGGCATCGA
*** **
41079847 TATGTGATTACATGTAAGACCATACCTAGGATGTTGGCATCGA
1 TATGTGATTACATGTAAGACCACGTCTAGGACATTGGCATCGA
* * *
41079890 TGTGTGATTACGTGTAAGACC-CTGTCTGGGACAGTT-GCATCGA
1 TATGTGATTACATGTAAGACCAC-GTCTAGGACA-TTGGCATCGA
* * *
41079933 TATGTGATTACATGTAAAACCACGTCT-GGGC-TGTGGGCATTGA
1 TATGTGATTACATGTAAGACCACGTCTAGGACAT-T-GGCATCGA
*
41079976 TATGTGATTGCATGTAAGACCACGTCTAGGACATTGGCAT
1 TATGTGATTACATGTAAGACCACGTCTAGGACATTGGCAT
41080016 TGTACGATAT
Statistics
Matches: 174, Mismatches: 29, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 3 0.02
43 160 0.92
44 8 0.05
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
TATGTGATTACATGTAAGACCACGTCTAGGACATTGGCATCGA
Found at i:41083578 original size:40 final size:40
Alignment explanation
Indices: 41083519--41083660 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
41083509 AAATTGAATG
* * *
41083519 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
41083559 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
41083599 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
41083639 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
41083661 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:41083661 original size:40 final size:39
Alignment explanation
Indices: 41083558--41083686 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
41083548 TGCTGGAAAT
* * *
41083558 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
41083598 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
41083638 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
41083678 TATATCCGG
1 TATATCCGG
41083687 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:41093008 original size:78 final size:81
Alignment explanation
Indices: 41092874--41093023 Score: 207
Period size: 78 Copynumber: 1.9 Consensus size: 81
41092864 CGAAATGTGT
* * * *
41092874 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTT
41092939 GTGCGAGTTACCAAAA
66 GTGCGAGTTACCAAAA
* * * *
41092955 CCGGGTTAAG-CCC-AAGGCATTTGTGC-GAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTT
41093017 GTGCGAG
66 GTGCGAG
41093024 CTAAAGCCAA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 37 0.61
79 12 0.20
80 3 0.05
81 9 0.15
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTT
GTGCGAGTTACCAAAA
Found at i:41093023 original size:40 final size:40
Alignment explanation
Indices: 41092874--41093023 Score: 205
Period size: 38 Copynumber: 3.8 Consensus size: 40
41092864 CGAAATGTGT
* * * * * *
41092874 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
41092915 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
41092955 CCGGGTTAAG-CCC-AAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
41092993 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
41093024 CTAAAGCCAA
Statistics
Matches: 97, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
38 35 0.36
39 6 0.06
40 32 0.33
41 24 0.25
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:41097637 original size:40 final size:40
Alignment explanation
Indices: 41097541--41097758 Score: 269
Period size: 40 Copynumber: 5.5 Consensus size: 40
41097531 CGAATGATGT
* * * *
41097541 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
41097582 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
41097622 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
41097662 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
41097702 CCGGGCTAATTCCCGAAGGCAATTGTGCGA-ATACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
41097741 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
41097759 ACAATCGAGC
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
39 22 0.14
40 111 0.70
41 25 0.16
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:41105797 original size:40 final size:40
Alignment explanation
Indices: 41105656--41105867 Score: 264
Period size: 40 Copynumber: 5.3 Consensus size: 40
41105646 ATGTCCAGGC
* * * *
41105656 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAACCGGGT
* * *
41105697 CAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
*
41105737 TAAGT-CCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
* *
41105776 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
* * * * *
41105816 TAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
*
41105856 TATGTCCCGAAG
1 TAAGTCCCGAAG
41105868 ACAATCGAGC
Statistics
Matches: 151, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 39 0.26
40 93 0.62
41 19 0.13
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
Found at i:41105892 original size:80 final size:80
Alignment explanation
Indices: 41105742--41105893 Score: 178
Period size: 80 Copynumber: 1.9 Consensus size: 80
41105732 CGGGTTAAGT
* * * * * * * *
41105742 CCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACTA
41105807 AATCCGGGCTAATTC
66 AATCCGGGCTAATTC
* * * * *
41105822 CCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGACAATCGAGCTAGTCGCTA
1 CCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACTA
*
41105887 CATCCGG
66 AATCCGG
41105894 TTAAATTCCG
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 58 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACTA
AATCCGGGCTAATTC
Found at i:41105897 original size:119 final size:120
Alignment explanation
Indices: 41105656--41105882 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 120
41105646 ATGTCCAGGC
* *
41105656 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGA
* * * * * * *
41105721 GTTACCAAAACCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
66 ATTACCAAAACCGGGCTAAGTCCGAAGACAATCGAGCGAGTCACCAAAACCGGGT
* *
41105776 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCG
1 TAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCG
* * * *
41105839 AATTACTATAACCGGGCTATGTCCCGAAGACAATCGAGCTAGTC
65 AATTACCAAAACCGGGCTAAGT-CCGAAGACAATCGAGCGAGTC
41105883 GCTACATCCG
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
118 1 0.01
119 53 0.59
120 36 0.40
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (120 bp):
TAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGA
ATTACCAAAACCGGGCTAAGTCCGAAGACAATCGAGCGAGTCACCAAAACCGGGT
Found at i:41110734 original size:28 final size:28
Alignment explanation
Indices: 41110669--41110767 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
41110659 TCATGAATTG
* * *
41110669 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
41110698 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
41110726 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
41110754 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
41110768 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:41117544 original size:43 final size:42
Alignment explanation
Indices: 41117407--41117574 Score: 119
Period size: 43 Copynumber: 3.9 Consensus size: 42
41117397 CGTACAATTC
* *
41117407 CAACGTCCCAGACATGGTCTTACAT-GTAATCACATGTCGATG
1 CAACGTCCCAGACATGGTCTTAC-TCGAAATCACATATCGATG
* * * *
41117449 CCACTGTCCTAGACA-GCGTCTTACACG-AATCACA-ATTACGATAC
1 CAAC-GTCCCAGACATG-GTCTTACTCGAAATCACATA-T-CGAT-G
* * *
41117493 CGATGTCCCAGACATGTTCTTACTCGAAATCACATATCGATGG
1 CAACGTCCCAGACATGGTCTTACTCGAAATCACATATCGAT-G
** * * *
41117536 CAACGTCCCAGATGTGGTCTTACGCGAGAGCACATATCG
1 CAACGTCCCAGACATGGTCTTACTCGAAATCACATATCG
41117575 GAAATCCTAT
Statistics
Matches: 97, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
42 12 0.12
43 73 0.75
44 11 0.11
45 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (42 bp):
CAACGTCCCAGACATGGTCTTACTCGAAATCACATATCGATG
Found at i:41119479 original size:27 final size:26
Alignment explanation
Indices: 41119431--41119490 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
41119421 GCGAGGCTGG
*
41119431 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
41119458 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
41119484 CAGATAT
1 CAGATAT
41119491 ATATATATAT
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:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:41124839 original size:125 final size:125
Alignment explanation
Indices: 41124617--41124861 Score: 418
Period size: 125 Copynumber: 2.0 Consensus size: 125
41124607 CTTCAAGCAT
* * *
41124617 TTAATAATATTTCAGATCAATTTATCATTTTCAATGATAAGAATAATCCCGATTCAAAGTTCATC
1 TTAATAATAATTCAGATCAATCTATCATTTTCAATGATAAGAATAATCACGATTCAAAGTTCATC
* *
41124682 AAAATTCTATTTCATTCCTACTCAGATATCAACACATGCTGAACCAGTCCCGAACTTTTG
66 AAAATTCTATTTCATTACTACTCAGATATCAACACATGCTGAAACAGTCCCGAACTTTTG
* *
41124742 TTAATAATAATTCAGATTAGTCTATCATTTTCAATGATAAGAATAATCACGATTCAAAGTTCATC
1 TTAATAATAATTCAGATCAATCTATCATTTTCAATGATAAGAATAATCACGATTCAAAGTTCATC
*
41124807 AAAATTCTATTTCATTACTACTCAGATATCAACTCATGCTGAAACAGTCCCGAAC
66 AAAATTCTATTTCATTACTACTCAGATATCAACACATGCTGAAACAGTCCCGAAC
41124862 AATGATGACT
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 112 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (125 bp):
TTAATAATAATTCAGATCAATCTATCATTTTCAATGATAAGAATAATCACGATTCAAAGTTCATC
AAAATTCTATTTCATTACTACTCAGATATCAACACATGCTGAAACAGTCCCGAACTTTTG
Found at i:41125438 original size:23 final size:23
Alignment explanation
Indices: 41125412--41125475 Score: 119
Period size: 23 Copynumber: 2.8 Consensus size: 23
41125402 TATACATGCC
*
41125412 ATTATACCAAAATGAGATTTCTA
1 ATTATACAAAAATGAGATTTCTA
41125435 ATTATACAAAAATGAGATTTCTA
1 ATTATACAAAAATGAGATTTCTA
41125458 ATTATACAAAAATGAGAT
1 ATTATACAAAAATGAGAT
41125476 AGTGGATAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATACAAAAATGAGATTTCTA
Found at i:41127168 original size:5 final size:5
Alignment explanation
Indices: 41127161--41127190 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
41127151 GTCATCCATA
*
41127161 AAATA AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT
41127191 TTAAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:41135011 original size:19 final size:19
Alignment explanation
Indices: 41134987--41135026 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
41134977 GACTAAAAAC
*
41134987 GGGCTATTATAGGAAATTT
1 GGGCTATTACAGGAAATTT
41135006 GGGCTATTACAGGAAATTT
1 GGGCTATTACAGGAAATTT
41135025 GG
1 GG
41135027 TCATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (19 bp):
GGGCTATTACAGGAAATTT
Found at i:41136498 original size:13 final size:13
Alignment explanation
Indices: 41136480--41136522 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
41136470 AATTTTGTAT
41136480 TATTTAGTAATAA
1 TATTTAGTAATAA
41136493 TATTTAG-AAT--
1 TATTTAGTAATAA
*
41136503 TATTTAGTGATAA
1 TATTTAGTAATAA
41136516 TATTTAG
1 TATTTAG
41136523 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 3 0.12
13 14 0.54
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (13 bp):
TATTTAGTAATAA
Found at i:41136504 original size:23 final size:23
Alignment explanation
Indices: 41136478--41136522 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
41136468 TAAATTTTGT
41136478 ATTATTTAGTAATAATATTTAGA
1 ATTATTTAGTAATAATATTTAGA
*
41136501 ATTATTTAGTGATAATATTTAG
1 ATTATTTAGTAATAATATTTAG
41136523 GAAAAATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (23 bp):
ATTATTTAGTAATAATATTTAGA
Found at i:41138962 original size:2 final size:2
Alignment explanation
Indices: 41138917--41138948 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
41138907 ATAATTTCAA
41138917 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
41138949 GAACTGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41142011 original size:46 final size:46
Alignment explanation
Indices: 41141956--41142136 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
41141946 TAGGATGGTT
41141956 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
41142002 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
41142048 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
41142095 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41142137 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:41142117 original size:93 final size:93
Alignment explanation
Indices: 41141958--41142128 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
41141948 GGATGGTTGA
* *
41141958 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41142023 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
41142051 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41142116 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
41142129 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41144730 original size:292 final size:292
Alignment explanation
Indices: 41144202--41144794 Score: 1060
Period size: 292 Copynumber: 2.0 Consensus size: 292
41144192 GTTGCAACAT
41144202 TCATGGCAGTTTTGACCCAGGTGTTTGTTCTTGCATCGGTCTTCAATGTTGAAACTTTCATGGCT
1 TCATGGCAGTTTTGACCCAGGTGTTTGTTCTTGCATCGGTCTTCAATGTTGAAACTTTCATGGCT
*
41144267 TAATCTTGTGACATCGACAATAGTTTCATCCAAAAGTTGCATCTTTAGCTCCCGATCCATCCCAC
66 TAATCTTGTGACATCGACAACAGTTTCATCCAAAAGTTGCATCTTTAGCTCCCGATCCATCCCAC
41144332 ATAACCACATAACCTTATTTAGATATAAAATACCATTAAACTACTAAAAAGTATACTTTGATAAT
131 ATAACCACATAACCTTATTTAGATATAAAATACCATTAAACTACTAAAAAGTATACTTTGATAAT
* * *
41144397 TTAGAATGTAATAAACTTAACTTATTACTAAATTACTTGATTTTACTATTAAAGAAGCTAAAATT
196 TTAGAATGTAAAAAACATAACTTATTACTAAATTACTTGATTTTACAATTAAAGAAGCTAAAATT
41144462 ATGTGAAAAGGGATAAAAGATAACATGATATC
261 ATGTGAAAAGGGATAAAAGATAACATGATATC
* * * * *
41144494 TCATGGCAGTTTTGACCCAGGTGTTTGTTCTTGCATCTGTCTTTAATGTTGCAACTTTCTTTGCT
1 TCATGGCAGTTTTGACCCAGGTGTTTGTTCTTGCATCGGTCTTCAATGTTGAAACTTTCATGGCT
* *
41144559 TAATGTTGTGACATCGGCAACAGTTTCATCCAAAAGTTGCATCTTTAGCTCCCGATCCATCCCAC
66 TAATCTTGTGACATCGACAACAGTTTCATCCAAAAGTTGCATCTTTAGCTCCCGATCCATCCCAC
41144624 ATAACCACATAACCTTATTTAGATATAAAATACCATTAAACTACTAAAAAGTATACTTTGATAAT
131 ATAACCACATAACCTTATTTAGATATAAAATACCATTAAACTACTAAAAAGTATACTTTGATAAT
*
41144689 TTAGAATGTAAAAAACATAACTTATTACTAAATTGCTTGATTTTACAATTAAAGAAGCTAAAATT
196 TTAGAATGTAAAAAACATAACTTATTACTAAATTACTTGATTTTACAATTAAAGAAGCTAAAATT
*
41144754 ATGTGAAAAGGGATAAAATATAACATGATATC
261 ATGTGAAAAGGGATAAAAGATAACATGATATC
*
41144786 TCATAGCAG
1 TCATGGCAG
41144795 ATCTGATTGC
Statistics
Matches: 287, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
292 287 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (292 bp):
TCATGGCAGTTTTGACCCAGGTGTTTGTTCTTGCATCGGTCTTCAATGTTGAAACTTTCATGGCT
TAATCTTGTGACATCGACAACAGTTTCATCCAAAAGTTGCATCTTTAGCTCCCGATCCATCCCAC
ATAACCACATAACCTTATTTAGATATAAAATACCATTAAACTACTAAAAAGTATACTTTGATAAT
TTAGAATGTAAAAAACATAACTTATTACTAAATTACTTGATTTTACAATTAAAGAAGCTAAAATT
ATGTGAAAAGGGATAAAAGATAACATGATATC
Found at i:41146189 original size:36 final size:36
Alignment explanation
Indices: 41146147--41146218 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
41146137 TTGGATTTTG
41146147 GAGGTTGATAATTTTCAAACATCTTCAAATGATCTA
1 GAGGTTGATAATTTTCAAACATCTTCAAATGATCTA
41146183 GAGGTTGATAATTTTCAAACATCTTCAAATGATCTA
1 GAGGTTGATAATTTTCAAACATCTTCAAATGATCTA
41146219 TCCTTTGAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (36 bp):
GAGGTTGATAATTTTCAAACATCTTCAAATGATCTA
Found at i:41148411 original size:48 final size:48
Alignment explanation
Indices: 41148284--41148713 Score: 379
Period size: 48 Copynumber: 8.9 Consensus size: 48
41148274 AGGGTAAGAT
* * * * *
41148284 GCTGATGCCATGTCCCAGACATAGTCTCACACTGGCTCTCATATATC-AG
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAG--CTCACATATCGAG
* * *
41148333 TG-TCGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAG
1 -GCT-GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * * * * *
41148382 GCTGATGCCATGTCCCAGACATCGCCTTACACTAGCTCTCCTATCAAT
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* *
41148430 GCCGATGCCATG-CTCCAAACATGGTCTTACACTAGCTCATATATCGAG
1 GCTGATGCCATGTC-CCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * * * * * *
41148478 GCCGATACCATGTCCCAAATAGGGTCTTATACTAGCTCTCATATCAAT
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
*
41148526 GCTGATGCCATG-CTCCAAACATGGTCTTACACTGGCTCACATATCGAG
1 GCTGATGCCATGTC-CCAAACATGGTCTTACACTAGCTCACATATCGAG
** * * *
41148574 G-TCGATGCCATGTCCCAGTCATGG-CTATACACTAGCTCTCATATCAAT
1 GCT-GATGCCATGTCCCAAACATGGTCT-TACACTAGCTCACATATCGAG
* * * *
41148622 GCCGATGCCATGTTCCAAACATGGTCTTA-GCTGGCTCACATATCGAG
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * * *
41148669 GCTGATGCCATGTTCCAGACATAGTCTTACATTGGCTCACATATC
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATC
41148714 CCTAGTATCA
Statistics
Matches: 304, Mismatches: 64, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
47 44 0.14
48 224 0.74
49 8 0.03
50 28 0.09
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
Found at i:41148460 original size:96 final size:96
Alignment explanation
Indices: 41148284--41148713 Score: 546
Period size: 96 Copynumber: 4.5 Consensus size: 96
41148274 AGGGTAAGAT
* * * * *
41148284 GCTGATGCCATGTCCCAGACATAGTCTCACACTGGCTCTCATATATCAGTGTCGATGCCATGTTC
1 GCTGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTC--ATATCAATGCCGATGCCATGCTC
* *
41148349 CAAACATGGTCTTACACTAGCCCACATGTCGAG
64 CAAACATGGTCTTACACTAGCTCACATATCGAG
* * *
41148382 GCTGATGCCATGTCCCAGACATCGCCTTACACTAGCTCTCCTATCAATGCCGATGCCATGCTCCA
1 GCTGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGCTCCA
*
41148447 AACATGGTCTTACACTAGCTCATATATCGAG
66 AACATGGTCTTACACTAGCTCACATATCGAG
* * * *
41148478 GCCGATACCATGTCCCA-A-ATAGGGTCTTATACTAGCTCTCATATCAATGCTGATGCCATGCTC
1 GCTGATGCCATGTCCCAGACATA--GTCTTACACTAGCTCTCATATCAATGCCGATGCCATGCTC
*
41148541 CAAACATGGTCTTACACTGGCTCACATATCGAG
64 CAAACATGGTCTTACACTAGCTCACATATCGAG
* * *
41148574 G-TCGATGCCATGTCCCAGTCAT-GGCTATACACTAGCTCTCATATCAATGCCGATGCCATGTTC
1 GCT-GATGCCATGTCCCAGACATAGTCT-TACACTAGCTCTCATATCAATGCCGATGCCATGCTC
* *
41148637 CAAACATGGTCTTA-GCTGGCTCACATATCGAG
64 CAAACATGGTCTTACACTAGCTCACATATCGAG
* * * *
41148669 GCTGATGCCATGTTCCAGACATAGTCTTACATTGGCTCACATATC
1 GCTGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATC
41148714 CCTAGTATCA
Statistics
Matches: 290, Mismatches: 34, Indels: 19
0.85 0.10 0.06
Matches are distributed among these distances:
94 2 0.01
95 54 0.19
96 196 0.68
98 38 0.13
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (96 bp):
GCTGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGCTCCA
AACATGGTCTTACACTAGCTCACATATCGAG
Found at i:41148581 original size:144 final size:141
Alignment explanation
Indices: 41148321--41148713 Score: 432
Period size: 144 Copynumber: 2.7 Consensus size: 141
41148311 CACACTGGCT
* * *
41148321 CTCATATATCAGTGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCTG
1 CTCATATATCAG-GCCGATGCCATGTTCCAAACATGGTCTTA-ACTAGCTCACATATCGAGGCTG
* * * * * *
41148386 ATGCCATGTCCCAGACATCGCCTTACACTAGCTCTCCTATCAATGCCGATGCCATG-CTCCAAAC
64 ATGCCATGT-CCAGACATAGTCTTACACTGGCTCACATATCAAGGCCGATGCCATGTC-CCAAAC
41148450 ATGGTCT-TACACTAG
127 ATGG-CTATACACTAG
* * * * * * *
41148465 CTCATATATCGAGGCCGATACCATGTCCCAAATAGGGTCTTATACTAGCTCTCATATCAATGCTG
1 CTCATATATC-AGGCCGATGCCATGTTCCAAACATGGTCTTA-ACTAGCTCACATATCGAGGCTG
* * * * **
41148530 ATGCCATGCTCCAAACATGGTCTTACACTGGCTCACATATCGAGGTCGATGCCATGTCCCAGTCA
64 ATGCCATG-TCCAGACATAGTCTTACACTGGCTCACATATCAAGGCCGATGCCATGTCCCAAACA
41148595 TGGCTATACACTAG
128 TGGCTATACACTAG
* * *
41148609 CTC-TCATATCAATGCCGATGCCATGTTCCAAACATGGTCTTAGCTGGCTCACATATCGAGGCTG
1 CTCAT-ATATC-AGGCCGATGCCATGTTCCAAACATGGTCTTAACTAGCTCACATATCGAGGCTG
*
41148673 ATGCCATGTTCCAGACATAGTCTTACATTGGCTCACATATC
64 ATGCCATG-TCCAGACATAGTCTTACACTGGCTCACATATC
41148714 CCTAGTATCA
Statistics
Matches: 207, Mismatches: 37, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
143 57 0.28
144 146 0.71
145 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (141 bp):
CTCATATATCAGGCCGATGCCATGTTCCAAACATGGTCTTAACTAGCTCACATATCGAGGCTGAT
GCCATGTCCAGACATAGTCTTACACTGGCTCACATATCAAGGCCGATGCCATGTCCCAAACATGG
CTATACACTAG
Found at i:41153686 original size:40 final size:40
Alignment explanation
Indices: 41153641--41153793 Score: 243
Period size: 40 Copynumber: 3.8 Consensus size: 40
41153631 ATAACCACAA
* *
41153641 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
41153681 GCACAAATGCCTTCGGGTCTTAGCCCGAATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
41153721 GCACAAATGCCTTCGGGTCTGAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
41153761 ACACAAATGCCTTCGGGTCTTAACCCGGATATA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATA
41153794 ATCACTAGCA
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:41153746 original size:80 final size:80
Alignment explanation
Indices: 41153629--41153813 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
41153619 ATTTAGCCGG
* * * * * *
41153629 ATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTT
1 ATATAATCACTAGCACAAATGCCTTCGGGTCTGAACCCGGATATAGCAACTCACACAAATGCCTT
*
41153694 CGGGTCTTAGCCCGA
66 CGGGTCTTAACCCGA
*
41153709 ATATAA-CAACTCGCACAAATGCCTTCGGGTCTGAACCCGGATATAGCAACTCACACAAATGCCT
1 ATATAATC-ACTAGCACAAATGCCTTCGGGTCTGAACCCGGATATAGCAACTCACACAAATGCCT
*
41153773 TCGGGTCTTAACCCGG
65 TCGGGTCTTAACCCGA
*
41153789 ATATAATCACTAGCATAAATGCCTT
1 ATATAATCACTAGCACAAATGCCTT
41153814 GGGGGCTTAG
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 1 0.01
80 91 0.98
81 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (80 bp):
ATATAATCACTAGCACAAATGCCTTCGGGTCTGAACCCGGATATAGCAACTCACACAAATGCCTT
CGGGTCTTAACCCGA
Found at i:41153809 original size:40 final size:41
Alignment explanation
Indices: 41153625--41153822 Score: 228
Period size: 40 Copynumber: 5.0 Consensus size: 41
41153615 CGGAATTTAG
* * *
41153625 CCGGATATAA-CCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
41153665 CCGGGTAT-AGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
41153705 CCGAATATAA-CAACTCGCACAAATGCCTTCGGGTCTGAAC
1 CCGGATATAAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
41153745 CCGGATAT-AGCAACTCA-CACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAAGCAACT-AGCACAAATGCCTTCGGGTCTTAAC
* * * *
41153785 CCGGATATAATC-ACTAGCATAAATGCCTTGGGGGCTTA
1 CCGGATATAAGCAACTAGCACAAATGCCTTCGGGTCTTA
41153823 GCCCAGGTAT
Statistics
Matches: 135, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
39 3 0.02
40 129 0.96
41 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (41 bp):
CCGGATATAAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:41154587 original size:2 final size:2
Alignment explanation
Indices: 41154580--41154607 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
41154570 ATGTGCAAAC
41154580 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
41154608 GCTAGAGCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41157182 original size:156 final size:156
Alignment explanation
Indices: 41156965--41157277 Score: 617
Period size: 156 Copynumber: 2.0 Consensus size: 156
41156955 TGAAACTCTG
41156965 ATTCCACATTCGGAACACATTCAGCCCGTTTTGCAACCAACTCATCGTCGACTTTCTGAGCTTCA
1 ATTCCACATTCGGAACACATTCAGCCCGTTTTGCAACCAACTCATCGTCGACTTTCTGAGCTTCA
*
41157030 CGAATTTGATGAATCAATAATGGTTTGGCCTTTAGTTTGGCTACTAACACATTGTCGGGTAGAAT
66 CGAATTTGATGAATCAATAATGGTTTGGCCTTTAGTTCGGCTACTAACACATTGTCGGGTAGAAT
41157095 AGACAAGTGTACATTCATCACTCGTA
131 AGACAAGTGTACATTCATCACTCGTA
41157121 ATTCCACATTCGGAACACATTCAGCCCGTTTTGCAACCAACTCATCGTCGACTTTCTGAGCTTCA
1 ATTCCACATTCGGAACACATTCAGCCCGTTTTGCAACCAACTCATCGTCGACTTTCTGAGCTTCA
41157186 CGAATTTGATGAATCAATAATGGTTTGGCCTTTAGTTCGGCTACTAACACATTGTCGGGTAGAAT
66 CGAATTTGATGAATCAATAATGGTTTGGCCTTTAGTTCGGCTACTAACACATTGTCGGGTAGAAT
41157251 AGACAAGTGTACATTCATCACTCGTA
131 AGACAAGTGTACATTCATCACTCGTA
41157277 A
1 A
41157278 AGCAAACAGT
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 156 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (156 bp):
ATTCCACATTCGGAACACATTCAGCCCGTTTTGCAACCAACTCATCGTCGACTTTCTGAGCTTCA
CGAATTTGATGAATCAATAATGGTTTGGCCTTTAGTTCGGCTACTAACACATTGTCGGGTAGAAT
AGACAAGTGTACATTCATCACTCGTA
Found at i:41162008 original size:79 final size:80
Alignment explanation
Indices: 41161915--41162119 Score: 301
Period size: 79 Copynumber: 2.6 Consensus size: 80
41161905 TCTTCGGAAT
* *
41161915 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGG-TATAGCAACTCGCAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
41161978 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
41161993 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC-TAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
41162057 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * * *
41162072 TTAACCCGGATATAATCACTAGCATAAATGCCTT-GGGGCTTAGCCCGG
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGG
41162120 GTATCATTCA
Statistics
Matches: 113, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
78 16 0.14
79 97 0.86
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:41162023 original size:40 final size:40
Alignment explanation
Indices: 41161919--41162119 Score: 266
Period size: 39 Copynumber: 5.1 Consensus size: 40
41161909 CGGAATTTAG
* ** *
41161919 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* *
41161959 CCGG-TATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
41161998 CCGGATATAACAACTCGCACAAATGCCTTCGGGTC-TAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
*
41162037 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* * * *
41162077 CCGGATATAATC-ACTAGCATAAATGCCTT-GGGGCTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAAC
41162116 CCGG
1 CCGG
41162120 GTATCATTCA
Statistics
Matches: 144, Mismatches: 14, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
39 82 0.57
40 61 0.42
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
Found at i:41162877 original size:2 final size:2
Alignment explanation
Indices: 41162870--41162901 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
41162860 ATGTGCAAAC
41162870 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
41162902 GCTAGAGCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.