Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 82 of 185
Found at i:25369800 original size:26 final size:25
Alignment explanation
Indices: 25369732--25369801 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 25
25369722 TAATAGAACT
25369732 TGTGATTAT-TATGATGATTGATATGA
1 TGTGATTATATATG-TG-TTGATATGA
* *
25369758 TGAGATT-GATAT-T-TTGATATGTA
1 TGTGATTATATATGTGTTGATATG-A
25369781 TGTGATTATATATGTGTTGAT
1 TGTGATTATATATGTGTTGAT
25369802 CTCACACTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
22 8 0.23
23 7 0.20
24 5 0.14
25 1 0.03
26 14 0.40
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (25 bp):
TGTGATTATATATGTGTTGATATGA
Found at i:25371934 original size:19 final size:19
Alignment explanation
Indices: 25371912--25371949 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
25371902 TCAATCATTC
25371912 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
25371931 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
25371950 ACTCTTGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:25379851 original size:3 final size:3
Alignment explanation
Indices: 25379843--25379868 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
25379833 ATGCTTAAAA
25379843 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
25379869 AGACAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:25381169 original size:19 final size:19
Alignment explanation
Indices: 25381147--25381184 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
25381137 TCAATCATCC
25381147 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
25381166 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
25381185 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:25383904 original size:29 final size:28
Alignment explanation
Indices: 25383868--25383945 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
25383858 TCATGAGATT
25383868 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
25383898 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
25383925 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
25383946 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:25384121 original size:29 final size:29
Alignment explanation
Indices: 25384066--25384121 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
25384056 GAACTTGAAA
* *
25384066 TGCATGGCACTAAGTGTGTGAGTTTAAAG
1 TGCATGGCACTAAGTGTGTCAGGTTAAAG
25384095 TGCATGGCACTAAGTGTG-CACGGTTAA
1 TGCATGGCACTAAGTGTGTCA-GGTTAA
25384122 TTATTAAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (29 bp):
TGCATGGCACTAAGTGTGTCAGGTTAAAG
Found at i:25384163 original size:174 final size:174
Alignment explanation
Indices: 25383898--25384225 Score: 575
Period size: 174 Copynumber: 1.9 Consensus size: 174
25383888 AAATTGTACA
** *
25383898 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTAATTATTAAGCACTATG
* * *
25383963 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACTGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
25384028 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
25384072 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCACGGTTAATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTAATTATTAAGCACTATG
*
25384137 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
25384202 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
25384226 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTAATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:25389510 original size:20 final size:21
Alignment explanation
Indices: 25389473--25389512 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
25389463 GCATTTTAGT
*
25389473 TAAGTTTTAATTACATTTAAG
1 TAAGTTTTAATTAAATTTAAG
*
25389494 TAAG-TTTAGTTAAATTTAA
1 TAAGTTTTAATTAAATTTAA
25389513 TAAAGTGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (21 bp):
TAAGTTTTAATTAAATTTAAG
Found at i:25390605 original size:14 final size:14
Alignment explanation
Indices: 25390584--25390616 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25390574 TTTCTTTTGA
25390584 TTTA-TTTCTTTAT
1 TTTATTTTCTTTAT
*
25390597 TTTATTTTCTTTCT
1 TTTATTTTCTTTAT
25390611 TTTATT
1 TTTATT
25390617 GTTATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTTCTTTAT
Found at i:25397161 original size:10 final size:11
Alignment explanation
Indices: 25397121--25397161 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
25397111 AACATAAACA
25397121 TTTTAGTTAAG
1 TTTTAGTTAAG
* *
25397132 TTTTAATTATG
1 TTTTAGTTAAG
25397143 TTTTA-TTAAG
1 TTTTAGTTAAG
25397153 -TTTAGTTAA
1 TTTTAGTTAA
25397162 ATTTAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
9 4 0.15
10 8 0.31
11 14 0.54
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (11 bp):
TTTTAGTTAAG
Found at i:25418143 original size:47 final size:46
Alignment explanation
Indices: 25418078--25418225 Score: 161
Period size: 47 Copynumber: 3.2 Consensus size: 46
25418068 AGCTATTGGC
* * * *
25418078 AGTTTATTTACAATTTTGGTGGCTTGTCCACGATATTGATTATCAGT
1 AGTTTATCTACAAGTTTGGTGGCTTATCCACGATATTGATTAT-GGT
*** * * * *
25418125 AGTTTATCTGTGAGTTTGGTTGCTTTTCCATGATATTGATTAATGGC
1 AGTTTATCTACAAGTTTGGTGGCTTATCCACGATATTGATT-ATGGT
*
25418172 AGTTTATCTACAATTTTGGTGGCTTATCCACGATATTGATTATTGGT
1 AGTTTATCTACAAGTTTGGTGGCTTATCCACGATATTGATTA-TGGT
25418219 AGTTTAT
1 AGTTTAT
25418226 TTTTGTTACT
Statistics
Matches: 81, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
46 1 0.01
47 78 0.96
48 2 0.02
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.46
Consensus pattern (46 bp):
AGTTTATCTACAAGTTTGGTGGCTTATCCACGATATTGATTATGGT
Found at i:25419652 original size:32 final size:34
Alignment explanation
Indices: 25419611--25419694 Score: 109
Period size: 32 Copynumber: 2.5 Consensus size: 34
25419601 TTGTCTAAGT
* * *
25419611 TGTGTTAAGTAAGTTGGTGTACAATATTC-AC-A
1 TGTGTTAAGTAAGTTGGCGCACAATATACGACTA
* *
25419643 TGTGTTAAGTAAGTTGGCGCACAGTATACGCCTA
1 TGTGTTAAGTAAGTTGGCGCACAATATACGACTA
25419677 TGTGTTAAGTAAGTTGGC
1 TGTGTTAAGTAAGTTGGC
25419695 ATACTAAGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
32 25 0.56
33 1 0.02
34 19 0.42
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (34 bp):
TGTGTTAAGTAAGTTGGCGCACAATATACGACTA
Found at i:25426259 original size:23 final size:24
Alignment explanation
Indices: 25426233--25426279 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
25426223 CCTAAATTAA
25426233 AAACAACTAACAC-AAAGAT-AAAG
1 AAACAA-TAACACTAAAGATGAAAG
25426256 AAACAATAACACTAAAGATGAAAG
1 AAACAATAACACTAAAGATGAAAG
25426280 CTTTAACAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 12 0.55
24 4 0.18
ACGTcount: A:0.64, C:0.15, G:0.11, T:0.11
Consensus pattern (24 bp):
AAACAATAACACTAAAGATGAAAG
Found at i:25427505 original size:16 final size:16
Alignment explanation
Indices: 25427484--25427519 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
25427474 TTTGGTTCGC
25427484 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25427500 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25427516 TGTA
1 TGTA
25427520 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:25427584 original size:44 final size:45
Alignment explanation
Indices: 25427510--25427597 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 45
25427500 TGTATTGGAT
* *
25427510 TAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAATGTAATAGAA
1 TAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATGGAATAGAA
***
25427555 TAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAATGGAATAGA
1 TAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATGGAATAGA
25427598 GGTGTAATAG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 25 0.66
45 13 0.34
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.34
Consensus pattern (45 bp):
TAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATGGAATAGAA
Found at i:25427606 original size:39 final size:40
Alignment explanation
Indices: 25427505--25427613 Score: 112
Period size: 44 Copynumber: 2.6 Consensus size: 40
25427495 AGAGGTGTAT
*
25427505 TGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGGAATAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
* ***
25427545 TGTAATAGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TG-----GAATAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
25427589 TGGAATAGAGGTGTAATAGCATAAT
1 TGGAATAGAGGTGTAATAGC-TAAT
25427614 GGAAAAAACT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
39 16 0.29
40 2 0.04
41 4 0.07
44 19 0.34
45 15 0.27
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.34
Consensus pattern (40 bp):
TGGAATAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:25427772 original size:16 final size:16
Alignment explanation
Indices: 25427735--25427789 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
25427725 TTAATCATAT
*
25427735 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
25427751 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
25427766 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
25427784 -TAAAAT
1 TTAAAAT
25427790 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:25427782 original size:18 final size:18
Alignment explanation
Indices: 25427741--25427789 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
25427731 ATATTTAAAC
25427741 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
25427759 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
25427775 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
25427790 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:25427926 original size:156 final size:156
Alignment explanation
Indices: 25427642--25428112 Score: 798
Period size: 156 Copynumber: 3.0 Consensus size: 156
25427632 TATAATACCC
*
25427642 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
25427707 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
25427772 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
* *
25427798 TTAGCAGAAAATTATTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
25427863 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
25427928 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
* *
25427954 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * * * ****
25428019 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATACATTATAATTTTGG
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
25428084 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTT-ATAA
25428111 TT
1 TT
25428113 CATATTCTTA
Statistics
Matches: 297, Mismatches: 17, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
156 291 0.98
157 6 0.02
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:25427932 original size:18 final size:17
Alignment explanation
Indices: 25427911--25427945 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25427901 TTATTATTAA
*
25427911 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25427929 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25427946 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25432150 original size:79 final size:81
Alignment explanation
Indices: 25432048--25432231 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
25432038 GCTCCTCGTT
* *
25432048 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
25432110 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
25432128 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
25432192 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
25432208 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25432232 CAGCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:25432165 original size:39 final size:41
Alignment explanation
Indices: 25432048--25432231 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
25432038 GCTCCTCGTT
* *
25432048 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
25432088 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
25432128 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
25432167 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
25432208 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25432232 CAGCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:25440103 original size:39 final size:41
Alignment explanation
Indices: 25439986--25440168 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
25439976 GCTCCTCGTT
* *
25439986 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
25440026 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
25440066 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
25440105 CAAATGCCTT--GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
25440145 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25440169 CAGCATTCAA
Statistics
Matches: 126, Mismatches: 7, Indels: 21
0.82 0.05 0.14
Matches are distributed among these distances:
37 2 0.02
38 6 0.05
39 56 0.44
40 60 0.48
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:25440146 original size:79 final size:80
Alignment explanation
Indices: 25439986--25440168 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 80
25439976 GCTCCTCGTT
* *
25439986 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTC-GGACTTAACCCG
*
25440050 GATTTAGTAACTCGCA
65 GATTTAGTAACTAGCA
**
25440066 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTT-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGA-CTTAACCC
*
25440127 GGATATT-GTCACTTAGCA
64 GGAT-TTAGTAAC-TAGCA
25440145 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25440169 CAGCATTCAA
Statistics
Matches: 91, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
77 12 0.13
78 29 0.32
79 35 0.38
80 15 0.16
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGACTTAACCCGG
ATTTAGTAACTAGCA
Found at i:25467415 original size:14 final size:14
Alignment explanation
Indices: 25467393--25467433 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
25467383 TTTTATCTTT
*
25467393 CTTTTCTTTAATTG
1 CTTTACTTTAATTG
25467407 CTTTACTTTAATTG
1 CTTTACTTTAATTG
25467421 CTTTACTTTAATT
1 CTTTACTTTAATT
25467434 TTATTTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.61
Consensus pattern (14 bp):
CTTTACTTTAATTG
Found at i:25472978 original size:45 final size:44
Alignment explanation
Indices: 25472894--25473007 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
25472884 CTATACGCTT
* * ****
25472894 AAAATGAGTAAAACCATAGCTAAAAGATGTTATTGCATCATGATA
1 AAAATGAGTAAGACCATAGCTTAAAGACACCATTGCATCAT-ATA
25472939 AAAATGAGTAAGACCATAGCTTAAAGACACCA-TGACATCATATA
1 AAAATGAGTAAGACCATAGCTTAAAGACACCATTG-CATCATATA
* * *
25472983 AAAATGTGTGAGGCCATAGCTTAAA
1 AAAATGAGTAAGACCATAGCTTAAA
25473008 TAGGACTAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 27 0.46
45 32 0.54
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.24
Consensus pattern (44 bp):
AAAATGAGTAAGACCATAGCTTAAAGACACCATTGCATCATATA
Found at i:25485634 original size:50 final size:50
Alignment explanation
Indices: 25485511--25485636 Score: 130
Period size: 50 Copynumber: 2.5 Consensus size: 50
25485501 ATATAAACGT
* * **
25485511 CACTGATTTGTAGATAAACAACCACTGATAACACTGATGTGACAAGCCAC
1 CACTAATTTGTAGATATACTGCCACTGATAACACTGATGTGACAAGCCAC
* ** * * *
25485561 CACTAATATACAGATTTATTGCCACTGATTAA-A-TTATGTGGACAAGCCAC
1 CACTAATTTGTAGATATACTGCCACTGA-TAACACTGATGT-GACAAGCCAC
25485611 CACTAATTTGTAGATATACTGCCACT
1 CACTAATTTGTAGATATACTGCCACT
25485637 ACTTCCACCT
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
49 5 0.08
50 51 0.86
51 3 0.05
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (50 bp):
CACTAATTTGTAGATATACTGCCACTGATAACACTGATGTGACAAGCCAC
Found at i:25492086 original size:40 final size:40
Alignment explanation
Indices: 25492042--25492464 Score: 566
Period size: 40 Copynumber: 10.6 Consensus size: 40
25492032 TTATACCTAA
* * *
25492042 ATTGCACATATGTGCCCCTGTTTGTACTTTGGTAACCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTAACCCTG
* * * ** *
25492082 ATTGCACATACGTACCCCTATTTGTACTTCAATACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTAACCCTG
* * *
25492122 ATTGCACAAACGTGCCCCTATTTGTACTTCGGT-ACCCTTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTAACCC-TG
*
25492162 ATTGCACATACGTGCCCCTGTTTGTACCTCGGT-ACCATTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTAACC-CTG
*
25492202 ATTGCACATATGTGCCCCTGTTTGTACCTCGGT-ACCCTTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTAACCC-TG
* * * ** *
25492242 ATTGCACATATGTGGCCCTATTTGTACCTCGACACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTAACCCTG
25492282 ATTGCACATACGTGCCCCTGTTTGTACCTCGGT-ACCCTTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTAACCC-TG
*
25492322 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTAACCCTG
* *
25492362 ATTGCACATACCTGCCCCTGTTTGTACCTCGGTACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTAACCCTG
*
25492402 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTAACCCTG
25492442 ATTGCACATACGTGCCCCTGTTT
1 ATTGCACATACGTGCCCCTGTTT
25492465 ACACTTCAGT
Statistics
Matches: 345, Mismatches: 32, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
39 6 0.02
40 333 0.97
41 6 0.02
ACGTcount: A:0.17, C:0.32, G:0.18, T:0.32
Consensus pattern (40 bp):
ATTGCACATACGTGCCCCTGTTTGTACCTCGGTAACCCTG
Found at i:25492166 original size:80 final size:80
Alignment explanation
Indices: 25492042--25492464 Score: 641
Period size: 80 Copynumber: 5.3 Consensus size: 80
25492032 TTATACCTAA
* * * * *
25492042 ATTGCACATATGTGCCCCTGTTTGTACTTTGGTAACCC-TGATTGCACATACGTACCCCTATTTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGT-ACCCTTGATTGCACATACGTGCCCCTGTTTG
* **
25492106 TACTTCAATACCCCTG
65 TACCTCGGTACCCCTG
* * *
25492122 ATTGCACAAACGTGCCCCTATTTGTACTTCGGTACCCTTGATTGCACATACGTGCCCCTGTTTGT
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCTTGATTGCACATACGTGCCCCTGTTTGT
**
25492187 ACCTCGGTACCATTG
66 ACCTCGGTACCCCTG
* * * *
25492202 ATTGCACATATGTGCCCCTGTTTGTACCTCGGTACCCTTGATTGCACATATGTGGCCCTATTTGT
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCTTGATTGCACATACGTGCCCCTGTTTGT
**
25492267 ACCTCGACACCCCTG
66 ACCTCGGTACCCCTG
25492282 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCTTGATTGCACATACGTGCCCCTGTTTGT
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCTTGATTGCACATACGTGCCCCTGTTTGT
25492347 ACCTCGGTACCCCTG
66 ACCTCGGTACCCCTG
* *
25492362 ATTGCACATACCTGCCCCTGTTTGTACCTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGT
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCTTGATTGCACATACGTGCCCCTGTTTGT
25492427 ACCTCGGTACCCCTG
66 ACCTCGGTACCCCTG
25492442 ATTGCACATACGTGCCCCTGTTT
1 ATTGCACATACGTGCCCCTGTTT
25492465 ACACTTCAGT
Statistics
Matches: 311, Mismatches: 31, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
79 4 0.01
80 307 0.99
ACGTcount: A:0.17, C:0.32, G:0.18, T:0.32
Consensus pattern (80 bp):
ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCTTGATTGCACATACGTGCCCCTGTTTGT
ACCTCGGTACCCCTG
Found at i:25492261 original size:120 final size:120
Alignment explanation
Indices: 25492042--25492464 Score: 639
Period size: 120 Copynumber: 3.5 Consensus size: 120
25492032 TTATACCTAA
* * * * * *
25492042 ATTGCACATATGTGCCCCTGTTTGTACTTTGGTAACCCTGATTGCACATACGTACCCCTATTTGT
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGT
* ** * * *
25492107 ACTTCAATACCCCTGATTGCACAAACGTGCCCCTATTTGTACTTCGGTACCCTTG
66 ACCTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACCTCGGTACCCCTG
** *
25492162 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCATTGATTGCACATATGTGCCCCTGTTTGT
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGT
* * * **
25492227 ACCTCGGTACCCTTGATTGCACATATGTGGCCCTATTTGTACCTCGACACCCCTG
66 ACCTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACCTCGGTACCCCTG
*
25492282 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCTTGATTGCACATACGTGCCCCTGTTTGT
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGT
* *
25492347 ACCTCGGTACCCCTGATTGCACATACCTGCCCCTGTTTGTACCTCGGTACCCCTG
66 ACCTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACCTCGGTACCCCTG
25492402 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTGATTGCACATACGTGCCCCTGTTT
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTGATTGCACATACGTGCCCCTGTTT
25492465 ACACTTCAGT
Statistics
Matches: 273, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
120 273 1.00
ACGTcount: A:0.17, C:0.32, G:0.18, T:0.32
Consensus pattern (120 bp):
ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGT
ACCTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACCTCGGTACCCCTG
Found at i:25496337 original size:27 final size:26
Alignment explanation
Indices: 25496307--25496373 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
25496297 CGTTCTGACC
*
25496307 CACAGCTCGTGTGACCAGGCCCATTTT
1 CACAGCTCGTGTGACCAGACCC-TTTT
* * * * *
25496334 CACAGCTCATGTAAGCATACTCTTTT
1 CACAGCTCGTGTGACCAGACCCTTTT
25496360 CACAGCTCGTGTGA
1 CACAGCTCGTGTGA
25496374 GCATATATGT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 16 0.50
27 16 0.50
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (26 bp):
CACAGCTCGTGTGACCAGACCCTTTT
Found at i:25500478 original size:25 final size:25
Alignment explanation
Indices: 25500450--25500519 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
25500440 TCCTGTACAT
*
25500450 GTATGCTCATACAAGCTGTGAATCG
1 GTATGCTCATACAAGCTGTAAATCG
*
25500475 GTATGCTC-TCACGAA-CTATAAATCG
1 GTATGCTCAT-AC-AAGCTGTAAATCG
* *
25500500 GTAAGCTCATACTAGCTGTA
1 GTATGCTCATACAAGCTGTA
25500520 GGGTTGTACA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
24 2 0.06
25 31 0.86
26 3 0.08
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (25 bp):
GTATGCTCATACAAGCTGTAAATCG
Found at i:25508663 original size:50 final size:49
Alignment explanation
Indices: 25508554--25508726 Score: 152
Period size: 50 Copynumber: 3.5 Consensus size: 49
25508544 CAAGTCCTAC
* * * ** **
25508554 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGC-ATGGCACCAACATGAGAACTCCCAT
* *
25508604 GTAAGACCATGCCTGGGACATGGCATGGCCACCAATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGG-CACCAACATGAGAACTCCCAT
* * * ** *
25508654 GTAATACCATATCTGGGATATGGCATTGGCA-GTACA-GAAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCA-TGGCACCAACATGAGAAC-TCCCAT
*
25508703 GTAAAACCATGTCTGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
25508727 TTTGGCATGT
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
48 5 0.05
49 32 0.32
50 61 0.60
51 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATGGCACCAACATGAGAACTCCCAT
Found at i:25510185 original size:40 final size:40
Alignment explanation
Indices: 25510148--25510332 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
25510138 GCTACTCGTT
*
25510148 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
25510188 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
25510228 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
25510267 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
25510308 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25510333 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:25510259 original size:79 final size:82
Alignment explanation
Indices: 25510148--25510332 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
25510138 GCTACTCGTT
* * *
25510148 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTC-GGATCTTAACCC
* *
25510211 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
25510228 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATACCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGATCTTAACCCG
* *
25510291 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
25510308 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25510333 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:25518397 original size:40 final size:40
Alignment explanation
Indices: 25518360--25518544 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
25518350 GCTACTCGTT
*
25518360 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
25518400 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
25518440 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
25518479 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
25518520 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25518545 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:25518471 original size:79 final size:82
Alignment explanation
Indices: 25518360--25518544 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
25518350 GCTACTCGTT
* * *
25518360 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTC-GGATCTTAACCC
* *
25518423 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
25518440 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATACCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGATCTTAACCCG
* *
25518503 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
25518520 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25518545 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:25533839 original size:26 final size:27
Alignment explanation
Indices: 25533775--25534134 Score: 93
Period size: 29 Copynumber: 12.7 Consensus size: 27
25533765 ATTTCTGTAT
**
25533775 AAGAAAGCCTTTGTATCTATCTCTGAA
1 AAGAAAGCCTTTGTGGCTATCTCTGAA
* *
25533802 TAG-ACGCCTTTGTGGCTATCTCT-AA
1 AAGAAAGCCTTTGTGGCTATCTCTGAA
* * * *
25533827 AAGAAAGCATTTGTGGCGATCTTTGTTAT
1 AAGAAAGCCTTTGTGGCTATCTCTG--AA
* * *
25533856 AAGGAAGCC-ATGTGGCTATCTTTGTTAA
1 AAGAAAGCCTTTGTGGCTATCTCTG--AA
* * * * **
25533884 AAGAATGTCTATATTTCTATCT-TAGTTAA
1 AAGAAAGCCTTTGTGGCTATCTCT-G--AA
* * * *
25533913 AAGAATGCCTTTGTGGCAATCTTTGTTAT
1 AAGAAAGCCTTTGTGGCTATCTCTG--AA
* * * * *
25533942 AAGGAAGCCTTTGTAGCGATCTACGTTAT
1 AAGAAAGCCTTTGTGGCTATCT-C-TGAA
* * * *
25533971 AAGAAAGCATTTGTCGCGATCTCTGTTAT
1 AAGAAAGCCTTTGTGGCTATCTCTG--AA
* *
25534000 AAGGATGCCTTTGTGGCTATCTCTGTTAA
1 AAGAAAGCCTTTGTGGCTATCTCTG--AA
* *
25534029 ATGAATA-CCTTTGTGGATATCTCTGTTAA
1 AAGAA-AGCCTTTGTGGCTATCTCTG--AA
* * *
25534058 ATGAATGCCTTTATGGCTATCTCTGTTAA
1 AAGAAAGCCTTTGTGGCTATCTCTG--AA
* * * * *
25534087 AAGGACGCTTTTGTCGCGAGTCTCTG-A
1 AAGAAAGCCTTTGTGGCTA-TCTCTGAA
*
25534114 AAGTAAAGCCTCTGTGGCTAT
1 AAG-AAAGCCTTTGTGGCTAT
25534135 TTTCGGGAAG
Statistics
Matches: 254, Mismatches: 64, Indels: 30
0.73 0.18 0.09
Matches are distributed among these distances:
25 4 0.02
26 33 0.13
27 8 0.03
28 34 0.13
29 167 0.66
30 7 0.03
31 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (27 bp):
AAGAAAGCCTTTGTGGCTATCTCTGAA
Found at i:25533934 original size:29 final size:28
Alignment explanation
Indices: 25533807--25534089 Score: 180
Period size: 29 Copynumber: 9.9 Consensus size: 28
25533797 CTGAATAGAC
* *
25533807 GCCTTTGTGGCTATC-T-CTAAAAGAAA
1 GCCTTTGTGGCTATCTTGTTAAAAGAAT
* * *
25533833 GCATTTGTGGCGATCTTTGTTATAAGGAA-
1 GCCTTTGTGGCTATC-TTGTTA-AAAGAAT
*
25533862 GCC-ATGTGGCTATCTTTGTTAAAAGAAT
1 GCCTTTGTGGCTATC-TTGTTAAAAGAAT
* * * **
25533890 GTCTATATTTCTATCTTAGTTAAAAGAAT
1 GCCTTTGTGGCTATCTT-GTTAAAAGAAT
* *
25533919 GCCTTTGTGGCAATCTTTGTTATAAGGAA-
1 GCCTTTGTGGCTATC-TTGTTA-AAAGAAT
* * * * *
25533948 GCCTTTGTAGCGATCTACGTTATAAGAAA
1 GCCTTTGTGGCTATCT-TGTTAAAAGAAT
* * * * *
25533977 GCATTTGTCGCGATCTCTGTTATAAGGAT
1 GCCTTTGTGGCTATCT-TGTTAAAAGAAT
*
25534006 GCCTTTGTGGCTATCTCTGTTAAATGAAT
1 GCCTTTGTGGCTATCT-TGTTAAAAGAAT
* * *
25534035 ACCTTTGTGGATATCTCTGTTAAATGAAT
1 GCCTTTGTGGCTATCT-TGTTAAAAGAAT
*
25534064 GCCTTTATGGCTATCTCTGTTAAAAG
1 GCCTTTGTGGCTATCT-TGTTAAAAG
25534090 GACGCTTTTG
Statistics
Matches: 204, Mismatches: 42, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
26 13 0.06
27 5 0.02
28 26 0.13
29 148 0.73
30 12 0.06
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (28 bp):
GCCTTTGTGGCTATCTTGTTAAAAGAAT
Found at i:25535860 original size:12 final size:12
Alignment explanation
Indices: 25535843--25535872 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25535833 CCTCACTCGC
25535843 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
25535855 CCGTGTGCTAGG
1 CCGTGTGCCAGG
25535867 CCGTGT
1 CCGTGT
25535873 AATAGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:25536931 original size:19 final size:19
Alignment explanation
Indices: 25536831--25536931 Score: 53
Period size: 19 Copynumber: 5.2 Consensus size: 19
25536821 AAGAGTACTG
*
25536831 AAGTACACCAGGGGCACGT
1 AAGTACAACAGGGGCACGT
* * * *
25536850 AAGTGCAATTAGGGGTA-TT
1 AAGTACAA-CAGGGGCACGT
* **
25536869 GAAGTACAACAGGAGCACAC
1 -AAGTACAACAGGGGCACGT
* * *
25536889 AAGTGCGACCAGGGGTACCG-
1 AAGTAC-AACAGGGGCA-CGT
25536909 AAGTACAACAGGGGCACGT
1 AAGTACAACAGGGGCACGT
25536928 AAGT
1 AAGT
25536932 GCGATCAGGG
Statistics
Matches: 57, Mismatches: 19, Indels: 12
0.65 0.22 0.14
Matches are distributed among these distances:
18 2 0.04
19 29 0.51
20 25 0.44
21 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.32, T:0.14
Consensus pattern (19 bp):
AAGTACAACAGGGGCACGT
Found at i:25536934 original size:39 final size:39
Alignment explanation
Indices: 25536825--25536941 Score: 153
Period size: 39 Copynumber: 3.0 Consensus size: 39
25536815 GATATCAAGA
* * *
25536825 GTACTGAAGTACACCAGGGGCACGTAAGTGCAATTAGGG
1 GTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGGG
* * ** *
25536864 GTATTGAAGTACAACAGGAGCACACAAGTGCGACCAGGG
1 GTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGGG
*
25536903 GTACCGAAGTACAACAGGGGCACGTAAGTGCGATCAGGG
1 GTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGGG
25536942 ATATAATTAT
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.32, C:0.20, G:0.33, T:0.15
Consensus pattern (39 bp):
GTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGGG
Found at i:25544442 original size:10 final size:11
Alignment explanation
Indices: 25544424--25544456 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
25544414 TCTCCTTCCT
25544424 TTCTTTCTTTC
1 TTCTTTCTTTC
25544435 TT-TTTCTTTC
1 TTCTTTCTTTC
*
25544445 TTCTTTTTTTC
1 TTCTTTCTTTC
25544456 T
1 T
25544457 ATTAATTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTTCTTTC
Found at i:25544453 original size:14 final size:14
Alignment explanation
Indices: 25544423--25544452 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
25544413 TTCTCCTTCC
25544423 TTTCTTTCTTTCTT
1 TTTCTTTCTTTCTT
25544437 TTTCTTTC-TTCTT
1 TTTCTTTCTTTCTT
25544450 TTT
1 TTT
25544453 TTCTATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTCTTTCTT
Found at i:25545464 original size:26 final size:26
Alignment explanation
Indices: 25545430--25545482 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
25545420 TGAAAAGTAG
*
25545430 TTTTAAAATT-TTTTCTCTTAGAAATA
1 TTTTAAAATTATTATCTCTTA-AAATA
*
25545456 TTTTGAAATTAATTATCTCTTAAAATA
1 TTTTAAAATT-ATTATCTCTTAAAATA
25545483 AACATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 9 0.39
27 5 0.22
28 9 0.39
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.51
Consensus pattern (26 bp):
TTTTAAAATTATTATCTCTTAAAATA
Found at i:25545835 original size:3 final size:3
Alignment explanation
Indices: 25545827--25545871 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
25545817 TAATTTACCT
*
25545827 TAA TAA TAA TAA TAA TAA TAA TAA TAA TCAA AAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
25545872 ATTCTAATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.89
4 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:25549740 original size:15 final size:17
Alignment explanation
Indices: 25549702--25549734 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25549692 TGTTTACTCG
25549702 TATTAATATATACTTTC
1 TATTAATATATACTTTC
*
25549719 TAGTAATATATACTTT
1 TATTAATATATACTTT
25549735 TTTAATGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (17 bp):
TATTAATATATACTTTC
Found at i:25562402 original size:23 final size:22
Alignment explanation
Indices: 25562376--25562448 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
25562366 ACAGGGCTTA
25562376 CAGAATATGCCACTAAGACTTTG
1 CAGAATATGCCAC-AAGACTTTG
* * *
25562399 CAG-ATCATGCCACACAGGCCTTA
1 CAGAAT-ATGCCACA-AGACTTTG
* *
25562422 TAGAATACGCCACCAAGACTTTG
1 CAGAATATGCCA-CAAGACTTTG
25562445 CAGA
1 CAGA
25562449 TCACGCCACA
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
22 3 0.08
23 30 0.81
24 4 0.11
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (22 bp):
CAGAATATGCCACAAGACTTTG
Found at i:25562411 original size:46 final size:46
Alignment explanation
Indices: 25562359--25562469 Score: 159
Period size: 46 Copynumber: 2.4 Consensus size: 46
25562349 ATCATTGAAT
* * *
25562359 ACGCCACACAGGGCTTACAGAATATGCCACTAAGACTTTGCAGATC
1 ACGCCACACAGGCCTTACAGAATACGCCACCAAGACTTTGCAGATC
* *
25562405 ATGCCACACAGGCCTTATAGAATACGCCACCAAGACTTTGCAGATC
1 ACGCCACACAGGCCTTACAGAATACGCCACCAAGACTTTGCAGATC
* *
25562451 ACGCCACATAGGCATTACA
1 ACGCCACACAGGCCTTACA
25562470 AAGAGTTACG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.19
Consensus pattern (46 bp):
ACGCCACACAGGCCTTACAGAATACGCCACCAAGACTTTGCAGATC
Found at i:25562454 original size:23 final size:23
Alignment explanation
Indices: 25562384--25562457 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
25562374 TACAGAATAT
* *
25562384 GCCACTAAGACTTTGCAGATCAT
1 GCCACCAAGACTTTGCAGATCAC
* *
25562407 GCCACACAGGCCTTAT--AGAAT-AC
1 GCCAC-CAAGACTT-TGCAG-ATCAC
25562430 GCCACCAAGACTTTGCAGATCAC
1 GCCACCAAGACTTTGCAGATCAC
25562453 GCCAC
1 GCCAC
25562458 ATAGGCATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
21 1 0.03
22 8 0.21
23 22 0.56
24 7 0.18
25 1 0.03
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.19
Consensus pattern (23 bp):
GCCACCAAGACTTTGCAGATCAC
Found at i:25567323 original size:9 final size:9
Alignment explanation
Indices: 25567245--25567330 Score: 52
Period size: 9 Copynumber: 9.4 Consensus size: 9
25567235 TTTTGGGTAC
*
25567245 AATTTTTTT
1 AATTTTTAT
*
25567254 AATTTTAAT
1 AATTTTTAT
*
25567263 -TTTTTTAT
1 AATTTTTAT
*
25567271 AATTTATAT
1 AATTTTTAT
*
25567280 ACTTTTTA-
1 AATTTTTAT
25567288 AAGTTTTTA-
1 AA-TTTTTAT
*
25567297 AGTATTTTAAAT
1 A--ATTTT-TAT
*
25567309 ATTTTTTAT
1 AATTTTTAT
25567318 AATTTTTAT
1 AATTTTTAT
25567327 AATT
1 AATT
25567331 AGGACTAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
8 7 0.12
9 40 0.69
10 8 0.14
11 2 0.03
12 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (9 bp):
AATTTTTAT
Found at i:25575971 original size:47 final size:47
Alignment explanation
Indices: 25575920--25576189 Score: 425
Period size: 47 Copynumber: 5.7 Consensus size: 47
25575910 TTAGGATTCT
* * *
25575920 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
25575967 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25576014 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25576061 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
25576108 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
25576155 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
25576190 TCCCGAAGGG
Statistics
Matches: 209, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 208 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:25576351 original size:37 final size:37
Alignment explanation
Indices: 25576308--25576386 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
25576298 CCGAGCTCTA
* * *
25576308 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
* *
25576345 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
25576382 AAGAC
1 AAGAC
25576387 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:25579177 original size:28 final size:27
Alignment explanation
Indices: 25579132--25579191 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
25579122 TTCTAAAAAG
25579132 TAAATATAAAAATATTTTAAAACTTTTT
1 TAAATATAAAAATATTTTAAAA-TTTTT
* *
25579160 TAAATAT-AATATATTTTTATAATTTTT
1 TAAATATAAAAATA-TTTTAAAATTTTT
*
25579187 AAAAT
1 TAAAT
25579192 TAGAGCTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
TAAATATAAAAATATTTTAAAATTTTT
Found at i:25579517 original size:11 final size:12
Alignment explanation
Indices: 25579501--25579531 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
25579491 CTTGCAAATC
25579501 ATATCAAA-TTA
1 ATATCAAATTTA
25579512 ATATCAAATTTA
1 ATATCAAATTTA
25579524 ATATCAAA
1 ATATCAAA
25579532 ATTATTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (12 bp):
ATATCAAATTTA
Found at i:25580663 original size:12 final size:12
Alignment explanation
Indices: 25580648--25580672 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25580638 TTGTTTTTTT
25580648 GGGGGGGTGGGG
1 GGGGGGGTGGGG
25580660 GGGGGGGTGGGG
1 GGGGGGGTGGGG
25580672 G
1 G
25580673 AGGGAGGACC
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:0.00, C:0.00, G:0.92, T:0.08
Consensus pattern (12 bp):
GGGGGGGTGGGG
Found at i:25585500 original size:13 final size:13
Alignment explanation
Indices: 25585467--25585500 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25585457 TTTAAAAAAT
*
25585467 AAAAAAATTTGTG
1 AAAAAAAATTGTG
*
25585480 AGAAAAAATTGTG
1 AAAAAAAATTGTG
25585493 AAAAAAAA
1 AAAAAAAA
25585501 AACAAAAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.21
Consensus pattern (13 bp):
AAAAAAAATTGTG
Found at i:25586402 original size:12 final size:12
Alignment explanation
Indices: 25586387--25586430 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
25586377 AATTGAGATT
25586387 GAGAAAGAAAAA
1 GAGAAAGAAAAA
*
25586399 GAGAAAGAAAAT
1 GAGAAAGAAAAA
*
25586411 GAGAGAACAAAAA
1 GAGA-AAGAAAAA
25586424 GA-AAAGA
1 GAGAAAGA
25586431 GGTTCGAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 3 0.11
12 16 0.59
13 8 0.30
ACGTcount: A:0.70, C:0.02, G:0.25, T:0.02
Consensus pattern (12 bp):
GAGAAAGAAAAA
Found at i:25593621 original size:9 final size:9
Alignment explanation
Indices: 25593603--25593636 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
25593593 GAGGAGTCTG
25593603 TGCATAAGT
1 TGCATAAGT
*
25593612 TGCATGAGT
1 TGCATAAGT
25593621 TGCATAAGT
1 TGCATAAGT
25593630 CTGCATA
1 -TGCATA
25593637 TTGAGTCTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (9 bp):
TGCATAAGT
Found at i:25593773 original size:54 final size:53
Alignment explanation
Indices: 25593712--25593898 Score: 257
Period size: 54 Copynumber: 3.5 Consensus size: 53
25593702 CCATGACAAG
* * *
25593712 TGAAGACCATATAGTGTAAGGCATAGACGTTTGATATGGCATCATATGGGGAAC
1 TGAAGACCATATAGTGTAAGGCCTAG-CGTTTGCTATGGCATCATATGGGGAAA
* *
25593766 TGAAGACCATATAGTGTAAGGCCCAGCTATTTGCTATGGCATCATATGGGGAAA
1 TGAAGACCATATAGTGTAAGGCCTAGC-GTTTGCTATGGCATCATATGGGGAAA
* *
25593820 TGAAGACCATATAGTGTAAGGCCTACCCGTTTGCTATGGCATCATATGGGAAAA
1 TGAAGACCATATAGTGTAAGGCCTA-GCGTTTGCTATGGCATCATATGGGGAAA
* * *
25593874 AGAAGACCACATAGTGTAAGACCTA
1 TGAAGACCATATAGTGTAAGGCCTA
25593899 TTTTGGGACT
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
53 1 0.01
54 117 0.98
55 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (53 bp):
TGAAGACCATATAGTGTAAGGCCTAGCGTTTGCTATGGCATCATATGGGGAAA
Found at i:25594129 original size:31 final size:29
Alignment explanation
Indices: 25594035--25594133 Score: 153
Period size: 29 Copynumber: 3.3 Consensus size: 29
25594025 AAAAGTGATA
25594035 CCTTTGTGGCTGAATCTATTATATGTGAG
1 CCTTTGTGGCTGAATCTATTATATGTGAG
* *
25594064 CCTTTGTGGCTAAATCTATTTTATGTGAG
1 CCTTTGTGGCTGAATCTATTATATGTGAG
*
25594093 CCTTTGTGGCTGAATCTGTTATATGTGGAAG
1 CCTTTGTGGCTGAATCTATTATATGT-G-AG
25594124 CCTTTGTGGC
1 CCTTTGTGGC
25594134 CGTTCTTTGT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 50 0.79
30 1 0.02
31 12 0.19
ACGTcount: A:0.18, C:0.15, G:0.25, T:0.41
Consensus pattern (29 bp):
CCTTTGTGGCTGAATCTATTATATGTGAG
Found at i:25594158 original size:30 final size:29
Alignment explanation
Indices: 25594035--25594158 Score: 106
Period size: 29 Copynumber: 4.2 Consensus size: 29
25594025 AAAAGTGATA
* * *
25594035 CCTTTGTGGCTGAATCTATTATATGTGAG
1 CCTTTGTGGCCGAATCTGTTACATGTGAG
** * **
25594064 CCTTTGTGGCTAAATCTATTTTATGTGAG
1 CCTTTGTGGCCGAATCTGTTACATGTGAG
* *
25594093 CCTTTGTGGCTGAATCTGTTATATGTGGAAG
1 CCTTTGTGGCCGAATCTGTTACATGT-G-AG
*
25594124 CCTTTGTGGCCG-TTCTTTGTTACATGTGAG
1 CCTTTGTGGCCGAATC--TGTTACATGTGAG
25594154 CCTTT
1 CCTTT
25594159 ATGGTGATAT
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
29 50 0.60
30 10 0.12
31 14 0.17
32 9 0.11
ACGTcount: A:0.17, C:0.16, G:0.24, T:0.43
Consensus pattern (29 bp):
CCTTTGTGGCCGAATCTGTTACATGTGAG
Found at i:25594200 original size:29 final size:29
Alignment explanation
Indices: 25594151--25594226 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
25594141 TGTTACATGT
* * *
25594151 GAGCCTTTATGG-TGATATTGTCA-AAGA
1 GAGCCTTTGTGGCTGATTTTGTCAGAAAA
* *
25594178 GAATCCTTTGTGGCTGATTTTGTTATGAAAA
1 G-AGCCTTTGTGGCTGATTTTGTCA-GAAAA
25594209 GAGCCTTTGTGGCTGATT
1 GAGCCTTTGTGGCTGATT
25594227 CTGTTGGAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 1 0.03
28 9 0.23
29 9 0.23
30 16 0.41
31 4 0.10
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (29 bp):
GAGCCTTTGTGGCTGATTTTGTCAGAAAA
Found at i:25596787 original size:41 final size:39
Alignment explanation
Indices: 25596742--25596859 Score: 108
Period size: 41 Copynumber: 3.1 Consensus size: 39
25596732 TGTTTTAAGC
*
25596742 TTTGGTTAAGTAAGGTTTGATGATGCGTATATATTTGGTAA
1 TTTGGTTAAGCAA-GTTTGATGATG-GTATATATTTGGTAA
*
25596783 TTTGGCT---CAAG--T-ATG-T-GTATATATTTGGTAA
1 TTTGGTTAAGCAAGTTTGATGATGGTATATATTTGGTAA
* *
25596814 TTTGGTTAAGGAAAGTTTGATGATGTGTATGTATTTGGTAA
1 TTTGGTTAA-GCAAGTTTGATGATG-GTATATATTTGGTAA
25596855 TTTGG
1 TTTGG
25596860 CTGTTTAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
31 21 0.34
33 1 0.02
34 3 0.05
35 4 0.06
37 2 0.03
38 5 0.08
39 1 0.02
41 25 0.40
ACGTcount: A:0.25, C:0.03, G:0.27, T:0.45
Consensus pattern (39 bp):
TTTGGTTAAGCAAGTTTGATGATGGTATATATTTGGTAA
Found at i:25601647 original size:12 final size:12
Alignment explanation
Indices: 25601632--25601663 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
25601622 GAAATGTGAT
25601632 TTGAAATCATTA
1 TTGAAATCATTA
25601644 TTG--ATCATTA
1 TTGAAATCATTA
25601654 TTGAAATCAT
1 TTGAAATCAT
25601664 AAAACAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.56
12 8 0.44
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (12 bp):
TTGAAATCATTA
Found at i:25619374 original size:25 final size:25
Alignment explanation
Indices: 25619313--25619362 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
25619303 GATATGTTCT
* *
25619313 TACGAGCTATA-AACGGTAAGCTCA
1 TACGAGCTAAATAACGATAAGCTCA
25619337 TACGAGCTAAATAACGATAAGCTCA
1 TACGAGCTAAATAACGATAAGCTCA
25619362 T
1 T
25619363 GTGAGCTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (25 bp):
TACGAGCTAAATAACGATAAGCTCA
Found at i:25619382 original size:25 final size:25
Alignment explanation
Indices: 25619327--25619408 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
25619317 AGCTATAAAC
* **
25619327 GGTAAGCTCATACGAGCTAAATAAC
1 GGTAAGCTCATATGAGCTAAATATT
* * *
25619352 GATAAGCTCATGTGAGCTGAATATT
1 GGTAAGCTCATATGAGCTAAATATT
*
25619377 GGTAAGCTC-TCTCGAGCTAAATATT
1 GGTAAGCTCATAT-GAGCTAAATATT
25619402 GGTAAGC
1 GGTAAGC
25619409 CCTCTCAAGC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
24 2 0.04
25 45 0.96
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (25 bp):
GGTAAGCTCATATGAGCTAAATATT
Found at i:25619413 original size:25 final size:25
Alignment explanation
Indices: 25619365--25619419 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
25619355 AAGCTCATGT
* *
25619365 GAGCTGAATATTGGTAAGCTCTCTC
1 GAGCTAAATATTGGTAAGCCCTCTC
25619390 GAGCTAAATATTGGTAAGCCCTCTC
1 GAGCTAAATATTGGTAAGCCCTCTC
*
25619415 AAGCT
1 GAGCT
25619420 GAGAATCGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
GAGCTAAATATTGGTAAGCCCTCTC
Found at i:25625971 original size:29 final size:29
Alignment explanation
Indices: 25625939--25626039 Score: 105
Period size: 29 Copynumber: 3.5 Consensus size: 29
25625929 AATTTTCGTA
*
25625939 AAAAGGATGCCTTTGTGGCTATCTCTGTT
1 AAAAGGAAGCCTTTGTGGCTATCTCTGTT
* * * *
25625968 AAAAGGAAACCTTTGTGG-TGGTTTCTATT
1 AAAAGGAAGCCTTTGTGGCT-ATCTCTGTT
* * *
25625997 AAAAGTAAGCCTTTGTGGCGATGTCTGTT
1 AAAAGGAAGCCTTTGTGGCTATCTCTGTT
*
25626026 AAAAGAAAGCCTTT
1 AAAAGGAAGCCTTT
25626040 ATAGCGAGCC
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
28 1 0.02
29 57 0.98
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.35
Consensus pattern (29 bp):
AAAAGGAAGCCTTTGTGGCTATCTCTGTT
Found at i:25632705 original size:22 final size:22
Alignment explanation
Indices: 25632670--25632722 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
25632660 GAACGGTAAT
*
25632670 GATACCATCTATGAGAAATATC
1 GATACCATCCATGAGAAATATC
*
25632692 GATACTATCCATGAGAAATATC
1 GATACCATCCATGAGAAATATC
25632714 GATACCATC
1 GATACCATC
25632723 GAATGAGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (22 bp):
GATACCATCCATGAGAAATATC
Found at i:25636495 original size:18 final size:17
Alignment explanation
Indices: 25636469--25636504 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
25636459 GGTGCTCATG
*
25636469 GGCCGGACGGCCCGGCCC
1 GGCCCGACGGCCC-GCCC
25636487 GGCCCGACGGCCCGCCC
1 GGCCCGACGGCCCGCCC
25636504 G
1 G
25636505 AAATATGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.06, C:0.53, G:0.42, T:0.00
Consensus pattern (17 bp):
GGCCCGACGGCCCGCCC
Found at i:25636797 original size:6 final size:6
Alignment explanation
Indices: 25636786--25636810 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25636776 TTGGGTCAGG
25636786 CCGGGC CCGGGC CCGGGC CCGGGC C
1 CCGGGC CCGGGC CCGGGC CCGGGC C
25636811 TAGGACGCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.52, G:0.48, T:0.00
Consensus pattern (6 bp):
CCGGGC
Found at i:25637524 original size:5 final size:5
Alignment explanation
Indices: 25637514--25637539 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25637504 TGAACATTTG
25637514 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
25637540 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:25638336 original size:30 final size:31
Alignment explanation
Indices: 25638297--25638356 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
25638287 GATGATGGGA
*
25638297 TGGGAAGGGAATAAAAGTTTTAGGGG-AAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGGCAAAAG
*
25638328 TGGG-AGGGAGTAAAAATTTTGGGGCAAAA
1 TGGGAAGGGAATAAAAATTTTGGGGCAAAA
25638357 TAAAATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 18 0.69
31 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGGCAAAAG
Found at i:25638667 original size:9 final size:9
Alignment explanation
Indices: 25638650--25638680 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
25638640 TCGAGTTGAT
25638650 TCGAATAAC
1 TCGAATAAC
*
25638659 TCGATTAAC
1 TCGAATAAC
25638668 TCGAATAAC
1 TCGAATAAC
25638677 TCGA
1 TCGA
25638681 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:25639243 original size:30 final size:30
Alignment explanation
Indices: 25639209--25639267 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
25639199 CATATTTTAT
25639209 TGTTAATTTTGTTATTATTTTAAAGACATC
1 TGTTAATTTTGTTATTATTTTAAAGACATC
*
25639239 TGTTAATTTTGTTATTATTTTAGAGACAT
1 TGTTAATTTTGTTATTATTTTAAAGACAT
25639268 TTATTTGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (30 bp):
TGTTAATTTTGTTATTATTTTAAAGACATC
Found at i:25641308 original size:18 final size:18
Alignment explanation
Indices: 25641293--25641328 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25641283 GGTTTGAATT
25641293 ATTGGAACTTCATGAAGA
1 ATTGGAACTTCATGAAGA
25641311 ATTGGAACTTCATGAAGA
1 ATTGGAACTTCATGAAGA
25641329 CTTATTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (18 bp):
ATTGGAACTTCATGAAGA
Found at i:25641312 original size:21 final size:21
Alignment explanation
Indices: 25641288--25641334 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 21
25641278 TTTTGGGTTT
25641288 GAATTATTGGAACTTCATGAA
1 GAATTATTGGAACTTCATGAA
25641309 G-A--ATTGGAACTTCATGAA
1 GAATTATTGGAACTTCATGAA
*
25641327 GACTTATT
1 GAATTATT
25641335 CTTTCAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 17 0.77
20 1 0.05
21 4 0.18
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (21 bp):
GAATTATTGGAACTTCATGAA
Found at i:25653043 original size:20 final size:21
Alignment explanation
Indices: 25653010--25653066 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
25653000 ATCTAATAAC
25653010 GAGCTC-AATGAGCTGAA-TT
1 GAGCTCGAATGAGCTGAACTT
**
25653029 GAGCTCGTGTGAGCT-AACTT
1 GAGCTCGAATGAGCTGAACTT
25653049 GAGCTCGAATGAGCTGAA
1 GAGCTCGAATGAGCTGAA
25653067 AATGAGCTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 8 0.26
20 21 0.68
21 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (21 bp):
GAGCTCGAATGAGCTGAACTT
Found at i:25654836 original size:17 final size:18
Alignment explanation
Indices: 25654800--25654839 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
25654790 TATTCTTTCG
*
25654800 TTTCTTTTTCAATATCTT
1 TTTCTTTTCCAATATCTT
*
25654818 TTTCTTTTCCAAT-TTTT
1 TTTCTTTTCCAATATCTT
25654835 TTTCT
1 TTTCT
25654840 CAATCTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTCTTTTCCAATATCTT
Found at i:25654937 original size:7 final size:6
Alignment explanation
Indices: 25654849--25654982 Score: 72
Period size: 6 Copynumber: 22.0 Consensus size: 6
25654839 TCAATCTCAA
* * * ** **
25654849 TTTCTT TTTCAAT TTTCTTT TCTTCGT TTTCTT TTTCTC TCACTT TTTCGA
1 TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* *** * *
25654900 TTTCTT GTTC-T TTTGAA TTTCTT TTTCTT TTTCAT TTTCTA TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* ** * *
25654947 TTCCAC TTTCTA TTTCTT TTTATT TTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
25654983 CATTTTCGTT
Statistics
Matches: 90, Mismatches: 35, Indels: 6
0.69 0.27 0.05
Matches are distributed among these distances:
5 3 0.03
6 75 0.83
7 9 0.10
8 3 0.03
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.70
Consensus pattern (6 bp):
TTTCTT
Found at i:25658353 original size:51 final size:51
Alignment explanation
Indices: 25658292--25658631 Score: 281
Period size: 51 Copynumber: 6.7 Consensus size: 51
25658282 CGATGAACAA
* *
25658292 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGTCAC
* * * * * * *
25658343 ATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-CAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTG-GTCAC
* * * *
25658394 GTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTA-TGGTTAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATTGGTCAC
* * * * * *
25658445 ATGTGTGGTACTAAGTGAAGGCTGCTA--TGGATACTGA-AAAGCT-TTGGTAAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTAT-C-GATAAA--TATTGGTCAC
* * * *
25658496 GTATGTAGTACTATGTGAAGGCTACTACATG-AGCCG-TAAA-ACTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TCGATAAATA-TTGGTCAC
* * *
25658546 GTGTGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAA-ACTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAATATTGGTCAC
25658595 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
25658632 ATGATAAAAA
Statistics
Matches: 231, Mismatches: 42, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
49 44 0.19
50 49 0.21
51 132 0.57
52 4 0.02
53 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (51 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGTCAC
Found at i:25658473 original size:102 final size:100
Alignment explanation
Indices: 25658292--25658630 Score: 366
Period size: 102 Copynumber: 3.4 Consensus size: 100
25658282 CGATGAACAA
* *
25658292 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTACTA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTACTA
*
25658356 AGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAGCAC
65 AGTGAAGGCTACTATGTGTACTGA-AAG-TTTGAGCAC
* * * *
25658394 GTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTACTAA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTACTAA
* *
25658459 GTGAAGGCTGCTATG-GATACTGAAAAGCTTTG-GTAAC
66 GTGAAGGCTACTATGTG-TACTG-AAAG-TTTGAG-CAC
* * * * * *
25658496 GTATGTAGTACTATGTGAAGGCTACTACATG-AGCCGTAAAACT-TGATCACGTGTGTAGTACTA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGTACTA
* * * ** *
25658559 TGTGAAGGCTACTACGTGAACTGTAAA-ACTGATCAC
65 AGTGAAGGCTACTATGTGTACTG-AAAGTTTGAGCAC
25658595 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
25658631 AATGATAAAA
Statistics
Matches: 198, Mismatches: 31, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
99 33 0.17
100 2 0.01
101 42 0.21
102 119 0.60
103 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (100 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTACTAA
GTGAAGGCTACTATGTGTACTGAAAGTTTGAGCAC
Found at i:25665969 original size:51 final size:50
Alignment explanation
Indices: 25665908--25666193 Score: 240
Period size: 51 Copynumber: 5.7 Consensus size: 50
25665898 CGATGAACAA
* **
25665908 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATAATGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-ATGGTCAC
* * * * * * *
25665959 ATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-CAT
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATATG-GTCAC
* * * * *
25666010 GTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-TATGGTCAC
* * * * * *
25666061 ATGTGTGGTACTAAGTGAAGGCTGCTATG-GATACCGA-AAAGCTTTGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTG-TACCGATAAA--TATGGTCAC
* * * *
25666112 GTATGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAA-ACTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA-TGGTCAC
25666161 GTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTA
25666194 TCGAATGATA
Statistics
Matches: 181, Mismatches: 45, Indels: 20
0.74 0.18 0.08
Matches are distributed among these distances:
49 37 0.20
50 5 0.03
51 136 0.75
52 3 0.02
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (50 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATGGTCAC
Found at i:25665989 original size:26 final size:26
Alignment explanation
Indices: 25665909--25665991 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
25665899 GATGAACAAG
**
25665909 TGTGTAGTACTGTGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
* * *
25665935 CGTGTATTGA-TAAAT-AATGG-TCAC-A
1 TGTGTAGT-ACTAAGTGAA-GGCT-ACTA
25665960 TGTGTAGTACTAAGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
25665986 TGTGTA
1 TGTGTA
25665992 CCGAGAAGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.34
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGAAGGCTACTA
Found at i:25666089 original size:102 final size:102
Alignment explanation
Indices: 25665908--25666187 Score: 338
Period size: 102 Copynumber: 2.8 Consensus size: 102
25665898 CGATGAACAA
*
25665908 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATAATGGTCACATGTGTAGTACTAA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
* * *
25665973 GTGAAGGCTACTATGTG-TACCGAGAAGTTTTGAG-CAT
66 GTGAAGGCTACTATG-GATACCGAAAAGCTTTG-GTCAC
* * * *
25666010 GTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACT-ATGGTTACATGTGTGGTACTA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTACTA
*
25666074 AGTGAAGGCTGCTATGGATACCGAAAAGCTTTGGTCAC
65 AGTGAAGGCTACTATGGATACCGAAAAGCTTTGGTCAC
* * * * * *
25666112 GTATGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAA-ACTGATCACGTGTGTAGTACTA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATC-GATAAATAATGGTCACATGTGTAGTACTA
*
25666174 TGTGAAGGCTACTA
65 AGTGAAGGCTACTA
25666188 CGTGTATCGA
Statistics
Matches: 153, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
100 28 0.18
101 8 0.05
102 116 0.76
103 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (102 bp):
GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
GTGAAGGCTACTATGGATACCGAAAAGCTTTGGTCAC
Found at i:25668721 original size:20 final size:20
Alignment explanation
Indices: 25668690--25668746 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
25668680 ATCTAATAAC
25668690 GAGCTC-AATGAGCTAAATT
1 GAGCTCGAATGAGCTAAATT
** * * *
25668709 GAGCTCGTGTGAGTTGACTT
1 GAGCTCGAATGAGCTAAATT
25668729 GAGCTCGAATGAGCTAAA
1 GAGCTCGAATGAGCTAAA
25668747 CCACATGGAA
Statistics
Matches: 27, Mismatches: 10, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (20 bp):
GAGCTCGAATGAGCTAAATT
Found at i:25672521 original size:50 final size:50
Alignment explanation
Indices: 25672396--25672642 Score: 235
Period size: 50 Copynumber: 4.8 Consensus size: 50
25672386 GATAATAACA
* * * * ** * * * *
25672396 TGCCAAAGCTATGTCCCAAACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * **
25672445 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* ** * *
25672495 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* *
25672545 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GG
25672601 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
25672643 TTACCCATAT
Statistics
Matches: 160, Mismatches: 31, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
49 36 0.22
50 81 0.51
53 1 0.01
56 42 0.26
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:25691144 original size:25 final size:24
Alignment explanation
Indices: 25691087--25691162 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
25691077 ATGGGCTATA
25691087 TAACGGGAAGCT-CATAAGAGCC-T
1 TAACGGGAAGCTCCA-AAGAGCCAT
* * * *
25691110 AAATCAGGAAGTTCACAAAGAGCCTT
1 TAA-CGGGAAGCTC-CAAAGAGCCAT
*
25691136 TAACGGGAAGCTCCGAAGAGCCAT
1 TAACGGGAAGCTCCAAAGAGCCAT
25691160 TAA
1 TAA
25691163 TCAGAGTTCC
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
23 2 0.05
24 19 0.46
25 15 0.37
26 5 0.12
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (24 bp):
TAACGGGAAGCTCCAAAGAGCCAT
Found at i:25691205 original size:25 final size:25
Alignment explanation
Indices: 25691177--25691231 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
25691167 AGTTCCAGAT
*
25691177 AGCCATATATTGGGAAGTTCAAGCG
1 AGCCATATATTAGGAAGTTCAAGCG
25691202 AGCCATATATTAGGAAGTTCAAGCG
1 AGCCATATATTAGGAAGTTCAAGCG
25691227 AGCCA
1 AGCCA
25691232 AATCGAGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (25 bp):
AGCCATATATTAGGAAGTTCAAGCG
Found at i:25693924 original size:11 final size:11
Alignment explanation
Indices: 25693908--25693941 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
25693898 AGGCATAAAG
25693908 ATGTTCACACC
1 ATGTTCACACC
*
25693919 ATGTTCA-GCC
1 ATGTTCACACC
25693929 ATGTTCACACC
1 ATGTTCACACC
25693940 AT
1 AT
25693942 ATGGCTCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.29
Consensus pattern (11 bp):
ATGTTCACACC
Found at i:25696700 original size:25 final size:24
Alignment explanation
Indices: 25696672--25696718 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
25696662 GCCTAAATCA
* *
25696672 GGAAGTTCACAAAGAGCCTTTAACG
1 GGAAGCTC-CAAAGAGCCATTAACG
*
25696697 GGAAGCTCCGAAGAGCCATTAA
1 GGAAGCTCCAAAGAGCCATTAA
25696719 TCAGAAGTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (24 bp):
GGAAGCTCCAAAGAGCCATTAACG
Found at i:25696752 original size:25 final size:25
Alignment explanation
Indices: 25696722--25696791 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
25696712 CCATTAATCA
* *
25696722 GAAGTTCCAGATAGCCATATATCGG
1 GAAGTTCAAGAGAGCCATATATCGG
* *
25696747 GAAGTTCAAGCGAGCCATATATTGG
1 GAAGTTCAAGAGAGCCATATATCGG
*
25696772 GAAGTTCAAGCGAGCCATAT
1 GAAGTTCAAGAGAGCCATAT
25696792 CAAGAAGCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (25 bp):
GAAGTTCAAGAGAGCCATATATCGG
Found at i:25704597 original size:68 final size:69
Alignment explanation
Indices: 25704493--25704621 Score: 215
Period size: 68 Copynumber: 1.9 Consensus size: 69
25704483 ACGGTCCCAA
* **
25704493 AAAAAAAAGTATAAATACTCCTCTTTATATGTGTAATTTGTCTTTTTTTTTGGTATTTTGTCCGT
1 AAAAAAAAGTATAAATACTCCCCTTTATATGTGTAATTTGTCCCTTTTTTTGGTATTTTGTCCGT
25704558 CCCC
66 CCCC
*
25704562 AAAAAAAA-TATAAATACTCCCCTTTTTATGTGTAATTTGTCCCTTTTTTTGGTATTTTGT
1 AAAAAAAAGTATAAATACTCCCCTTTATATGTGTAATTTGTCCCTTTTTTTGGTATTTTGT
25704622 TCCTAATAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
68 48 0.86
69 8 0.14
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (69 bp):
AAAAAAAAGTATAAATACTCCCCTTTATATGTGTAATTTGTCCCTTTTTTTGGTATTTTGTCCGT
CCCC
Found at i:25707653 original size:22 final size:22
Alignment explanation
Indices: 25707625--25707667 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
25707615 CATCTTTTCC
**
25707625 TTTTATTTTTCAAGATATTTAA
1 TTTTATTTCCCAAGATATTTAA
25707647 TTTTATTTCCCAAGATATTTA
1 TTTTATTTCCCAAGATATTTA
25707668 GACAAAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTTATTTCCCAAGATATTTAA
Found at i:25712735 original size:37 final size:37
Alignment explanation
Indices: 25712680--25712761 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
25712670 ACACATAATT
25712680 CTATACTTAGCTAAGACAACACTTTACTTAATCATAC
1 CTATACTTAGCTAAGACAACACTTTACTTAATCATAC
* * *
25712717 CTATACTTAGCTATGACAACACTTTACTTACTCATAT
1 CTATACTTAGCTAAGACAACACTTTACTTAATCATAC
25712754 CTATACTT
1 CTATACTT
25712762 TGCCAAATGG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (37 bp):
CTATACTTAGCTAAGACAACACTTTACTTAATCATAC
Found at i:25712744 original size:21 final size:21
Alignment explanation
Indices: 25712683--25712746 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
25712673 CATAATTCTA
*
25712683 TACTTAGCTAAGACAACACTT
1 TACTTAGCTATGACAACACTT
*
25712704 TACTTA---AT--CATAC-CTA
1 TACTTAGCTATGACA-ACACTT
25712720 TACTTAGCTATGACAACACTT
1 TACTTAGCTATGACAACACTT
25712741 TACTTA
1 TACTTA
25712747 CTCATATCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 14
0.66 0.06 0.28
Matches are distributed among these distances:
16 10 0.30
17 2 0.06
18 1 0.03
19 2 0.06
20 2 0.06
21 16 0.48
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.34
Consensus pattern (21 bp):
TACTTAGCTATGACAACACTT
Found at i:25722054 original size:57 final size:57
Alignment explanation
Indices: 25721966--25722082 Score: 198
Period size: 57 Copynumber: 2.1 Consensus size: 57
25721956 CACACGCTCA
* ***
25721966 TGTGCTTAAACCGTGTACAAATCGAAAATAGGGTCACATGGTCGTGTCCCTAGGCCG
1 TGTGCTGAAACCGTGTACAAATCGAAAATAGGGTCACATAACCGTGTCCCTAGGCCG
25722023 TGTGCTGAAACCGTGTACAAATCGAAAATAGGGTCACATAACCGTGTCCCTAGGCCG
1 TGTGCTGAAACCGTGTACAAATCGAAAATAGGGTCACATAACCGTGTCCCTAGGCCG
25722080 TGT
1 TGT
25722083 AACTAACTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (57 bp):
TGTGCTGAAACCGTGTACAAATCGAAAATAGGGTCACATAACCGTGTCCCTAGGCCG
Found at i:25723127 original size:13 final size:13
Alignment explanation
Indices: 25723104--25723173 Score: 86
Period size: 13 Copynumber: 5.3 Consensus size: 13
25723094 TCATACATCT
25723104 ATTTCCATATAACC
1 ATTT-CATATAACC
*
25723118 AATTCATATAACC
1 ATTTCATATAACC
** *
25723131 ATTTCATGCAATC
1 ATTTCATATAACC
25723144 ATTTCATATAACC
1 ATTTCATATAACC
*
25723157 ATTTCGTATAACC
1 ATTTCATATAACC
25723170 ATTT
1 ATTT
25723174 GATTTAAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
13 44 0.94
14 3 0.06
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.39
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:25723187 original size:39 final size:38
Alignment explanation
Indices: 25723103--25723199 Score: 104
Period size: 39 Copynumber: 2.5 Consensus size: 38
25723093 TTCATACATC
*
25723103 TATTTCCATATAACCAATTCATATAACCATTTCATGCAA
1 TATTT-CATATAACCAATTCATATAACCATTTCATGAAA
* * * *
25723142 TCATTTCATATAACCATTTCGTATAACCATTTGATTTAAA
1 T-ATTTCATATAACCAATTCATATAACCATTTCA-TGAAA
* *
25723182 TATTTCATTTAAACAATT
1 TATTTCATATAACCAATT
25723200 AACACATAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 40 0.83
40 8 0.17
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.41
Consensus pattern (38 bp):
TATTTCATATAACCAATTCATATAACCATTTCATGAAA
Found at i:25723962 original size:13 final size:13
Alignment explanation
Indices: 25723944--25723968 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25723934 TTTTGGTTCT
25723944 AAAGATGAAAAAG
1 AAAGATGAAAAAG
25723957 AAAGATGAAAAA
1 AAAGATGAAAAA
25723969 ATGATGGTGG
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:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (13 bp):
AAAGATGAAAAAG
Found at i:25724011 original size:18 final size:18
Alignment explanation
Indices: 25723988--25724026 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25723978 GCTTCCTTAA
*
25723988 ATTTTT-AATGTTTTATTC
1 ATTTTTAAAT-TTTAATTC
25724006 ATTTTTAAATTTTAATTC
1 ATTTTTAAATTTTAATTC
25724024 ATT
1 ATT
25724027 AATAATAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (18 bp):
ATTTTTAAATTTTAATTC
Found at i:25724361 original size:14 final size:14
Alignment explanation
Indices: 25724342--25724379 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
25724332 TTTAGGGACA
25724342 AACCATTTGTACCT
1 AACCATTTGTACCT
25724356 AACCATTTGTACCT
1 AACCATTTGTACCT
*
25724370 AACTATTTGT
1 AACCATTTGT
25724380 TCACTTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (14 bp):
AACCATTTGTACCT
Found at i:25725456 original size:28 final size:28
Alignment explanation
Indices: 25725412--25725483 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
25725402 AATAGTACAG
*
25725412 TATGGGCCTTAGACCAAAACAATAACAA
1 TATGGGCCTTAGCCCAAAACAATAACAA
* * * * *
25725440 TGTGGGCCTTAGCCCAATACAGTAATAG
1 TATGGGCCTTAGCCCAAAACAATAACAA
25725468 TATGGGCCTTAGCCCA
1 TATGGGCCTTAGCCCA
25725484 GTATAGTACA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (28 bp):
TATGGGCCTTAGCCCAAAACAATAACAA
Found at i:25725884 original size:27 final size:27
Alignment explanation
Indices: 25725823--25726056 Score: 215
Period size: 27 Copynumber: 8.7 Consensus size: 27
25725813 TCATCTCCTA
** * *
25725823 GGGGTATAACAGTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTTTACCCTCTG
* *
25725850 GGGGTATTTCAGTCATTTTACCTTTTG
1 GGGGTATTTCAGTCATTTTACCCTCTG
* *
25725877 GGGGTATTTC-GATCATTTTACCCTTTT
1 GGGGTATTTCAG-TCATTTTACCCTCTG
* * * * *
25725904 AGGGCATTTCGGTCATTTTACCATCCG
1 GGGGTATTTCAGTCATTTTACCCTCTG
* *
25725931 GGGGTATTTCAATTATTTTACCCTAC-G
1 GGGGTATTTCAGTCATTTTACCCT-CTG
* *
25725958 GGGGTATTTCAGTCATTTGACCCTCTA
1 GGGGTATTTCAGTCATTTTACCCTCTG
* *
25725985 GGGGTATTTCAATCATTTTACCCTCTA
1 GGGGTATTTCAGTCATTTTACCCTCTG
*
25726012 GGGGTATTTC-GATCATTTTACCCTCTC
1 GGGGTATTTCAG-TCATTTTACCCTCTG
* *
25726039 AGGGTATTTCGGTC-TTTT
1 GGGGTATTTCAGTCATTTT
25726057 GCCCACAAAT
Statistics
Matches: 175, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.03
27 166 0.95
28 3 0.02
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTCTG
Found at i:25728771 original size:43 final size:42
Alignment explanation
Indices: 25728725--25729021 Score: 360
Period size: 43 Copynumber: 6.9 Consensus size: 42
25728715 AGCTAAAAGT
* * *
25728725 CATGACCTTTAGCGGTGCTTCTCCCACAAACGCCGCTATAGAT
1 CATGACCTTTAGCGGCGCTT-TCCCACAAACGCCGCTAAAGAA
* * *
25728768 CATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAT
1 CATGACCTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGAA
* * *
25728811 CATGACTTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAGAA
1 CATGACCTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGAA
* *
25728854 CATGAGCTTTAGCGGCGCTTTACCACAAACGCCGCTAAAGAA
1 CATGACCTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGAA
* *
25728896 CATGACCTTTAGCGTCGCTTTACCAACAAACGCCGCTAAAGAA
1 CATGACCTTTAGCGGCGCTTT-CCCACAAACGCCGCTAAAGAA
* * *
25728939 CATGATCTTTAGCGGCACTTTACCCACAAATGCCGCTAAAGAA
1 CATGACCTTTAGCGGCGCTTT-CCCACAAACGCCGCTAAAGAA
* * **
25728982 CATGATCTTTAGCGGCACTTTTATCACAAACGCCGCTAAA
1 CATGACCTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAA
25729022 AGTATGGTTC
Statistics
Matches: 230, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
42 41 0.18
43 184 0.80
44 5 0.02
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (42 bp):
CATGACCTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGAA
Found at i:25728900 original size:128 final size:128
Alignment explanation
Indices: 25728725--25729021 Score: 389
Period size: 128 Copynumber: 2.3 Consensus size: 128
25728715 AGCTAAAAGT
* * * * * *
25728725 CATGACCTTTAGCGGTGCTTCTCCCACAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
1 CATGACCTTTAGCGGCGCTT-TACCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTA
* * * ** * *
25728790 CCCACAAACGCCGCTATAGATCATGA-CTTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAGAA
65 CCAACAAACGCCGCTAAAGAACATGATC-TTTAGCGGCACTTTACCCACAAACGCCGCTAAAGAA
* *
25728854 CATGAGCTTTAGCGGCGCTTTACCACAAACGCCGCTAAAGAACATGACCTTTAGCGTCGCTTTAC
1 CATGACCTTTAGCGGCGCTTTACCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTAC
*
25728919 CAACAAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTACCCACAAATGCCGCTAAAGAA
66 CAACAAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTACCCACAAACGCCGCTAAAGAA
* * *
25728982 CATGATCTTTAGCGGCACTTTTATCACAAACGCCGCTAAA
1 CATGACCTTTAGCGGCGC-TTTACCACAAACGCCGCTAAA
25729022 AGTATGGTTC
Statistics
Matches: 147, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
128 108 0.73
129 39 0.27
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (128 bp):
CATGACCTTTAGCGGCGCTTTACCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTAC
CAACAAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTACCCACAAACGCCGCTAAAGAA
Found at i:25731159 original size:87 final size:86
Alignment explanation
Indices: 25731052--25731272 Score: 241
Period size: 86 Copynumber: 2.6 Consensus size: 86
25731042 TCAATCTTAC
* * * ***
25731052 AACAGTTTATGTGAAACAAATTAGCAAAAATCAACT-ATTCATAGTTCATATATTTACCGGCAA-
1 AACAATTTATATGCAACAAATTAGCAAAAATCAA-TGATTCA-AGTTCATATATTTACCAAAAAT
* *
25731115 TAGGGCTAAATCTTT-AATTTTTAT
64 TA-GACT-AATCTTTCAATATTTAT
* * * *
25731139 AACGATTTATATGCAACAAATTAACAAAAATCAATGGTTCAAGTTCATGTATTTACCAAAAATTA
1 AACAATTTATATGCAACAAATTAGCAAAAATCAATGATTCAAGTTCATATATTTACCAAAAATTA
*
25731204 GACTAATTTTTCAATATTTAT
66 GACTAATCTTTCAATATTTAT
* * *
25731225 AACAACTTATATGCAACAAATTAGCAAAAATAAATGGTTCAAGTTCAT
1 AACAATTTATATGCAACAAATTAGCAAAAATCAATGATTCAAGTTCAT
25731273 GCGTTTACCA
Statistics
Matches: 114, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
85 6 0.05
86 73 0.64
87 35 0.31
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.34
Consensus pattern (86 bp):
AACAATTTATATGCAACAAATTAGCAAAAATCAATGATTCAAGTTCATATATTTACCAAAAATTA
GACTAATCTTTCAATATTTAT
Found at i:25731235 original size:86 final size:86
Alignment explanation
Indices: 25731120--25731304 Score: 255
Period size: 86 Copynumber: 2.2 Consensus size: 86
25731110 GGCAATAGGG
* * * *
25731120 CTAAATCTTT-AATTTTTATAACGATTTATATGCAACAAATTAACAAAAATCAATGGTTCAAGTT
1 CTAAAT-TTTCAATATTTATAACAACTTATATGCAACAAATTAACAAAAATAAATGGTTCAAGTT
* **
25731184 CATGTATTTACCAAAAATTAGA
65 CATGCATTTACCAAAAACCAGA
* *
25731206 CTAATTTTTCAATATTTATAACAACTTATATGCAACAAATTAGCAAAAATAAATGGTTCAAGTTC
1 CTAAATTTTCAATATTTATAACAACTTATATGCAACAAATTAACAAAAATAAATGGTTCAAGTTC
* *
25731271 ATGCGTTTACCAACAACCAGA
66 ATGCATTTACCAAAAACCAGA
25731292 CTAAATTTTCAAT
1 CTAAATTTTCAAT
25731305 TTTCAATTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 3 0.03
86 83 0.97
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (86 bp):
CTAAATTTTCAATATTTATAACAACTTATATGCAACAAATTAACAAAAATAAATGGTTCAAGTTC
ATGCATTTACCAAAAACCAGA
Found at i:25731417 original size:30 final size:30
Alignment explanation
Indices: 25731381--25731447 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
25731371 TAAGGAGATA
*
25731381 AAAAAATCATCATTTCAACAATTTACATAT
1 AAAAAATCATCATTTCAACAATTTACATAC
*
25731411 AAAAAATCATCATTTCAACAATTTACATGC
1 AAAAAATCATCATTTCAACAATTTACATAC
25731441 AAAAAAT
1 AAAAAAT
25731448 TAGCAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.30
Consensus pattern (30 bp):
AAAAAATCATCATTTCAACAATTTACATAC
Found at i:25731812 original size:168 final size:168
Alignment explanation
Indices: 25731534--25731855 Score: 450
Period size: 168 Copynumber: 1.9 Consensus size: 168
25731524 TTTTAAATGC
* ** * * *
25731534 AACAAATTAGCACAAATTAACAATTCAAGTTCATATATTCACCAAAAACCAGACTAAATTTTCAA
1 AACAAATTAGCAAAAACCAACAATTCAAGTGCATATATGCACCAAAAACCAGACTAAATTTCCAA
* ** * *
25731599 TTTTTATAAAATAAGAGGATGGAAGTCTAACAAATTAAAGTTTCCAATGAAACTCAGACTTACAC
66 TTTTTACAAAATAAGAGGATCAAAGTCTAACAAATTAAAGTTTCCAATGAAACTCAAAATTACAC
25731664 CATTAAGTAAATAAGAGTTTTAAACTATTGAAGATCAA
131 CATTAAGTAAATAAGAGTTTTAAACTATTGAAGATCAA
** *
25731702 AACAAATTAGCAAAAACCAACCGTTCAAGTGCATGTATGCACCAAAAA-CAGGA-TCAAATTTCC
1 AACAAATTAGCAAAAACCAACAATTCAAGTGCATATATGCACCAAAAACCA-GACT-AAATTTCC
* * * *
25731765 AATTTTTGCAAATTAAGAGGATCAAATTCTAACAAATTAAAGTTTCCAATGAAATTCAAAATTAC
64 AATTTTTACAAAATAAGAGGATCAAAGTCTAACAAATTAAAGTTTCCAATGAAACTCAAAATTAC
25731830 ACCATTAAGTAAATAAGAGTTTTAAA
129 ACCATTAAGTAAATAAGAGTTTTAAA
25731856 TTACCTGAGA
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
167 3 0.02
168 131 0.98
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.28
Consensus pattern (168 bp):
AACAAATTAGCAAAAACCAACAATTCAAGTGCATATATGCACCAAAAACCAGACTAAATTTCCAA
TTTTTACAAAATAAGAGGATCAAAGTCTAACAAATTAAAGTTTCCAATGAAACTCAAAATTACAC
CATTAAGTAAATAAGAGTTTTAAACTATTGAAGATCAA
Found at i:25734081 original size:28 final size:28
Alignment explanation
Indices: 25734032--25734088 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
25734022 CTAATTAATT
* *
25734032 TAAACCCTAAACCCTTAACCCCTATCCC
1 TAAACCCTAAACCCATAACCCCTAACCC
*
25734060 TAAACCCTAAA-TCATAAGCCCCTAACCC
1 TAAACCCTAAACCCATAA-CCCCTAACCC
25734088 T
1 T
25734089 TAAGTACCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.35, C:0.42, G:0.02, T:0.21
Consensus pattern (28 bp):
TAAACCCTAAACCCATAACCCCTAACCC
Found at i:25734092 original size:15 final size:14
Alignment explanation
Indices: 25734031--25734108 Score: 50
Period size: 15 Copynumber: 5.3 Consensus size: 14
25734021 ACTAATTAAT
*
25734031 TTAAACCCTAAACCC
1 TTAACCCCT-AACCC
*
25734046 TTAACCCCTATCCC
1 TTAACCCCTAACCC
* **
25734060 -TAAACCCTAAATC
1 TTAACCCCTAACCC
*
25734073 ATAAGCCCCTAACCC
1 TTAA-CCCCTAACCC
25734088 TTAAGTACCCCTAACCC
1 TT-A--ACCCCTAACCC
25734105 TTAA
1 TTAA
25734109 ACTTTAAACC
Statistics
Matches: 48, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
13 9 0.19
14 8 0.17
15 16 0.33
16 2 0.04
17 12 0.25
18 1 0.02
ACGTcount: A:0.35, C:0.40, G:0.03, T:0.23
Consensus pattern (14 bp):
TTAACCCCTAACCC
Found at i:25734137 original size:21 final size:22
Alignment explanation
Indices: 25734094--25734139 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
25734084 ACCCTTAAGT
**
25734094 ACCCCTAACCCTTAAACTTTAA
1 ACCCCTAACCCTTAAACCATAA
25734116 ACCCC-AACCCTTAAACCATAA
1 ACCCCTAACCCTTAAACCATAA
25734137 ACC
1 ACC
25734140 ATAATCCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (22 bp):
ACCCCTAACCCTTAAACCATAA
Found at i:25734156 original size:15 final size:15
Alignment explanation
Indices: 25734121--25734168 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
25734111 TTTAAACCCC
* *
25734121 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
25734136 AA-CCATAATCCCTA
1 AACCCATAATCCATA
25734150 AACCCATAATCCATA
1 AACCCATAATCCATA
25734165 AACC
1 AACC
25734169 TTAAGATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:25734411 original size:15 final size:15
Alignment explanation
Indices: 25734376--25734423 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
25734366 CTTAAATCCC
* *
25734376 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
25734391 AA-CCATAATCCCTA
1 AACCCATAATCCATA
*
25734405 AACCCATGATCCATA
1 AACCCATAATCCATA
25734420 AACC
1 AACC
25734424 TTAAGATAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:25734823 original size:41 final size:41
Alignment explanation
Indices: 25734777--25735044 Score: 155
Period size: 41 Copynumber: 6.5 Consensus size: 41
25734767 GAGCTTTTTT
* *
25734777 AAAAACGCCGATAAAGCCCCGAGAATTACC-AGCACTTCTTC
1 AAAAACGCCGCTAAAGCACCGAGAATTACCGA-CACTTCTTC
* * * * *
25734818 AAAAACGTCGCTAAAGCACTGAGCATTACCGACGCTTTTTC
1 AAAAACGCCGCTAAAGCACCGAGAATTACCGACACTTCTTC
* * * *
25734859 AAAAAAGCCGCTAAAGCACCGAGCATT-CGCGGCGCTTCTTC
1 AAAAACGCCGCTAAAGCACCGAGAATTAC-CGACACTTCTTC
* ** * * * * *
25734900 GAAAATACCGCTAAAGCATCGAGCATTAGCGGCGCTTCTTC
1 AAAAACGCCGCTAAAGCACCGAGAATTACCGACACTTCTTC
** * * * * *
25734941 AAAAACGTTGCTAAAGTACCGAGCATTAGCGGCGCTT-TTCC
1 AAAAACGCCGCTAAAGCACCGAGAATTACCGACACTTCTT-C
* * * * ** ** *
25734982 AAAAATGCCCCTAAAGTACCGAGCATTAGTGGTACTTTTTC
1 AAAAACGCCGCTAAAGCACCGAGAATTACCGACACTTCTTC
* *
25735023 AAAAATGCCGCTAAAGCCCCGA
1 AAAAACGCCGCTAAAGCACCGA
25735045 AAGGTAAGAA
Statistics
Matches: 188, Mismatches: 34, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.02
41 182 0.97
42 3 0.02
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGCACCGAGAATTACCGACACTTCTTC
Found at i:25734912 original size:82 final size:81
Alignment explanation
Indices: 25734764--25735044 Score: 255
Period size: 82 Copynumber: 3.4 Consensus size: 81
25734754 AATGTTTTTT
* * * * * * *
25734764 GCGGAGCTTTTTTAAAAACGCCGATAAAGCCCCGAGAATTAC-CAGCACTTCTTCAAAA-ACGTC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATT-CGCGGCGCTTCTTCAAAATAC--C
25734827 GCTAAAGCACTGAGCATTA
63 GCTAAAGCACTGAGCATTA
* * *
25734846 CCGACGCTTTTTCAAAAAAGCCGCTAAAGCACCGAGCATTCGCGGCGCTTCTTCGAAAATACCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATTCGCGGCGCTTCTTC-AAAATACCGC
25734911 TAAAGCA-TCGAGCATTA
65 TAAAGCACT-GAGCATTA
* ** * * * *
25734928 GCGGCGCTTCTTCAAAAACGTTGCTAAAGTACCGAGCATTAGCGGCGCTT-TTCCAAAAATGCCC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATTCGCGGCGCTTCTT-C-AAAATACCG
* *
25734992 CTAAAGTACCGAGCATTA
64 CTAAAGCACTGAGCATTA
* ** * *
25735010 GTGGTACTTTTTCAAAAATGCCGCTAAAGCCCCGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGA
25735045 AAGGTAAGAA
Statistics
Matches: 161, Mismatches: 32, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
81 4 0.02
82 151 0.94
83 4 0.02
84 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (81 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATTCGCGGCGCTTCTTCAAAATACCGCT
AAAGCACTGAGCATTA
Found at i:25735028 original size:123 final size:123
Alignment explanation
Indices: 25734811--25735039 Score: 314
Period size: 123 Copynumber: 1.9 Consensus size: 123
25734801 ATTACCAGCA
* * *
25734811 CTTCTTCAAAAACGTCGCTAAAGCACTGAGCATTACCGACGCTTTTTCAAAAAAGCCGCTAAAGC
1 CTTCTTCAAAAACGTCGCTAAAGCACCGAGCATTACCGACGCTTTTCCAAAAAAGCCCCTAAAGC
* * *
25734876 ACCGAGCATTCGCGGCGCTTCTTCGAAAATACCGCTAAAGCATCGAGCATTAGCGGCG
66 ACCGAGCATTAGCGGCACTTCTTCAAAAATACCGCTAAAGCATCGAGCATTAGCGGCG
* * * * * *
25734934 CTTCTTCAAAAACGTTGCTAAAGTACCGAGCATTAGCGGCGCTTTTCCAAAAATGCCCCTAAAGT
1 CTTCTTCAAAAACGTCGCTAAAGCACCGAGCATTACCGACGCTTTTCCAAAAAAGCCCCTAAAGC
* * * *
25734999 ACCGAGCATTAGTGGTACTTTTTCAAAAATGCCGCTAAAGC
66 ACCGAGCATTAGCGGCACTTCTTCAAAAATACCGCTAAAGC
25735040 CCCGAAAGGT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
123 90 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (123 bp):
CTTCTTCAAAAACGTCGCTAAAGCACCGAGCATTACCGACGCTTTTCCAAAAAAGCCCCTAAAGC
ACCGAGCATTAGCGGCACTTCTTCAAAAATACCGCTAAAGCATCGAGCATTAGCGGCG
Found at i:25744745 original size:40 final size:40
Alignment explanation
Indices: 25744688--25745080 Score: 642
Period size: 40 Copynumber: 9.8 Consensus size: 40
25744678 GAACATTGGA
* *
25744688 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
25744728 ACATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
25744768 ACATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
25744808 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
25744848 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
25744888 ATATATCCGGGTTATGACCCGAAGGCAATTATGTGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
25744928 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
25744968 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
25745008 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTC
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
25745048 ATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATG
25745081 TTTGCGGCTG
Statistics
Matches: 333, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 333 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Done.