Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 54
Found at i:2129450 original size:54 final size:54
Alignment explanation
Indices: 2129366--2129920 Score: 627
Period size: 54 Copynumber: 10.4 Consensus size: 54
2129356 CTATGTGTAT
*
2129366 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCG
* *
2129420 TATCGGCACTAAGTGTGCAACCAACAAAATTCATAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCG
***
2129474 TATC-AGCACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTAT--ACGACCG
1 TATCGA-CACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCG
* *
2129526 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATAAACAACCG
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCG
**
2129580 TATCGACACTAAGTGTGCAACCCACGGAATTCATAATAAG-TTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCG
* * **
2129633 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATAA-TTTATGAACTATTG
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCG
* * * * * *
2129686 TATCGACACTGAGTGTACAACCCACATAATTGATAATAAGTTTATGAATGACTG
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCG
* * * * ** * *
2129740 TATGGGCACTAAGTGTACAACCTACGGAATTCATAATAAGTTTATGAATGACTG
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCG
* * * * **
2129794 TATC-AGCATTGAGTGTGCAACCTACAAAATTCATAATAAGTTTATGAATGACTA
1 TATCGA-CACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCG
* * * ** ** * * * * *
2129848 TATAGGCACTATGTGTGCAGTCCACGTAATTAATAATGAGCTTATGAATGACAG
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCG
*
2129902 TATCGACACTACGTGTGCA
1 TATCGACACTAAGTGTGCA
2129921 CCCTAAAGAA
Statistics
Matches: 433, Mismatches: 60, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
52 47 0.11
53 95 0.22
54 291 0.67
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (54 bp):
TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCG
Found at i:2129619 original size:27 final size:27
Alignment explanation
Indices: 2129589--2129671 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
2129579 GTATCGACAC
*
2129589 TAAGTGTGCAACCCACGGAATTCATAA
1 TAAGTGTGCAACCCACAGAATTCATAA
* * * * * *
2129616 TAAGTTATG-AA-CGACCGTA-TCGACAC
1 TAAG-TGTGCAACCCACAGAATTC-ATAA
2129642 TAAGTGTGCAACCCACAGAATTCATAA
1 TAAGTGTGCAACCCACAGAATTCATAA
2129669 TAA
1 TAA
2129672 TTTATGAACT
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
25 5 0.13
26 13 0.33
27 16 0.41
28 5 0.13
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.23
Consensus pattern (27 bp):
TAAGTGTGCAACCCACAGAATTCATAA
Found at i:2129691 original size:160 final size:162
Alignment explanation
Indices: 2129366--2129920 Score: 670
Period size: 160 Copynumber: 3.5 Consensus size: 162
2129356 CTATGTGTAT
*
2129366 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
**
2129431 AGTGTGCAACCAACAAAATTCATAATAAGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACC
66 AGTGTGCAACCAACGGAATTCATAATAAGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACC
**
2129496 CATGGAATTCATAATAAGTTTAT--ACGACCG
131 CACAGAATTCATAATAAGTTTATGAACGACCG
* * *
2129526 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATAAACAACCGTATCGACACTA
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
*
2129591 AGTGTGCAACCCACGGAATTCATAATAAG-TTATGAACGACCGTATC-GACACTAAGTGTGCAAC
66 AGTGTGCAACCAACGGAATTCATAATAAGTTTATGAACGACCGTATCAG-CACTAAGTGTGCAAC
* **
2129654 CCACAGAATTCATAATAA-TTTATGAACTATTG
130 CCACAGAATTCATAATAAGTTTATGAACGACCG
* * * * * * *
2129686 TATCGACACTGAGTGTACAACCCACATAATTGATAATAAGTTTATGAATGACTGTATGGGCACTA
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
* * * * * *
2129751 AGTGTACAACCTACGGAATTCATAATAAGTTTATGAATGACTGTATCAGCATTGAGTGTGCAACC
66 AGTGTGCAACCAACGGAATTCATAATAAGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACC
* * * **
2129816 TACAAAATTCATAATAAGTTTATGAATGACTA
131 CACAGAATTCATAATAAGTTTATGAACGACCG
* * * ** ** * * * * * *
2129848 TATAGGCACTATGTGTGCAGTCCACGTAATTAATAATGAGCTTATGAATGACAGTATCGACACTA
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
*
2129913 CGTGTGCA
66 AGTGTGCA
2129921 CCCTAAAGAA
Statistics
Matches: 339, Mismatches: 50, Indels: 10
0.85 0.13 0.03
Matches are distributed among these distances:
158 6 0.02
159 48 0.14
160 173 0.51
161 44 0.13
162 68 0.20
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (162 bp):
TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
AGTGTGCAACCAACGGAATTCATAATAAGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACC
CACAGAATTCATAATAAGTTTATGAACGACCG
Found at i:2132367 original size:21 final size:21
Alignment explanation
Indices: 2132313--2132368 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
2132303 CGAATTTTCC
*
2132313 CAAGTATTGATACCACTCGAA
1 CAAGTATTGATACCCCTCGAA
*
2132334 CAA-TATTGATACCCCTTGAA
1 CAAGTATTGATACCCCTCGAA
* *
2132354 GAAGTATCGATACCC
1 CAAGTATTGATACCC
2132369 TCCTTACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (21 bp):
CAAGTATTGATACCCCTCGAA
Found at i:2133057 original size:3 final size:3
Alignment explanation
Indices: 2133044--2133077 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
2133034 TTAGTCACAA
2133044 AAG AGAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG
2133078 GGAATTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:2138963 original size:15 final size:16
Alignment explanation
Indices: 2138923--2138963 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
2138913 GGTTCGTTTG
*
2138923 TTTCACTAAAAATATT
1 TTTCAGTAAAAATATT
2138939 TTTCAG-AAAAATATT
1 TTTCAGTAAAAATATT
2138954 TTTC-GTAAAA
1 TTTCAGTAAAA
2138964 TGAATTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 17 0.74
16 5 0.22
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (16 bp):
TTTCAGTAAAAATATT
Found at i:2139129 original size:22 final size:24
Alignment explanation
Indices: 2139085--2139137 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 24
2139075 AATATAAAAA
2139085 ATAAAAAATATAATATTATTTATT
1 ATAAAAAATATAATATTATTTATT
*
2139109 ATAAAAACT-TAATATTA-TTATT
1 ATAAAAAATATAATATTATTTATT
*
2139131 TTAAAAA
1 ATAAAAA
2139138 TATTAGAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 11 0.41
23 8 0.30
24 8 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
ATAAAAAATATAATATTATTTATT
Found at i:2139305 original size:21 final size:23
Alignment explanation
Indices: 2139280--2139326 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2139270 TCTATAAAAA
*
2139280 TAAAAATATT-AT-ATTATATTT
1 TAAAAATATTAATAAATATATTT
*
2139301 TAAAATTATTAATAAATATATTT
1 TAAAAATATTAATAAATATATTT
2139324 TAA
1 TAA
2139327 GGAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAAATATTAATAAATATATTT
Found at i:2139341 original size:23 final size:22
Alignment explanation
Indices: 2139280--2139342 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
2139270 TCTATAAAAA
* *
2139280 TAAAAATA-TTATATTATATTT
1 TAAAATTATTTATAATATATTT
*
2139301 TAAAATTATTAATAAATATATTT
1 TAAAATTATTTAT-AATATATTT
2139324 TAAGGAATT-TTTATAATAT
1 TAA--AATTATTTATAATAT
2139343 TATTAGACCA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 3 0.09
23 16 0.47
24 4 0.12
25 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (22 bp):
TAAAATTATTTATAATATATTT
Found at i:2139559 original size:25 final size:25
Alignment explanation
Indices: 2139491--2139592 Score: 68
Period size: 25 Copynumber: 4.1 Consensus size: 25
2139481 AATAGTATTA
* *
2139491 TATATTATTATAATATAATTGAGTATAT
1 TATATTATTA-AAAAT-ATT-AATATAT
* * *
2139519 TAT-TGTAATAATAATATTATTATAT
1 TATAT-TATTAAAAATATTAATATAT
*
2139544 TATATTATTAAAAATATTAATA-AA
1 TATATTATTAAAAATATTAATATAT
* *
2139568 TATATT-TTAAATATGTTAATA-AT
1 TATATTATTAAAAATATTAATATAT
2139591 TA
1 TA
2139593 ATATGTTTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
23 16 0.26
24 7 0.11
25 23 0.38
26 4 0.07
27 4 0.07
28 7 0.11
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (25 bp):
TATATTATTAAAAATATTAATATAT
Found at i:2139586 original size:23 final size:24
Alignment explanation
Indices: 2139544--2139589 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
2139534 ATTATTATAT
2139544 TATATTATTAAAAATATTAATAAA
1 TATATTATTAAAAATATTAATAAA
* *
2139568 TATATT-TTAAATATGTTAATAA
1 TATATTATTAAAAATATTAATAA
2139590 TTAATATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
TATATTATTAAAAATATTAATAAA
Found at i:2141055 original size:113 final size:112
Alignment explanation
Indices: 2140840--2141056 Score: 292
Period size: 112 Copynumber: 1.9 Consensus size: 112
2140830 TTCAGTTTAT
* * * **
2140840 TTAAAATTTTAATTTGATATATTTATTTTCTACTAACCAGAGGGTGACACGTGTCACCTTTAATT
1 TTAAAATTTTAATTTGATATATTTATTTTCTACCAACCAAAGGATGACACGTGTCACCTCGAATT
* *
2140905 GTAAGAAAACAAACCAAGTAAAAAGAGGTTAGTTGGATTCGATTAAA
66 GTAAAAAAACAAACCAAGTAAAAAGAGGTTACTTGGATTCGATTAAA
* * * **
2140952 TTAAATTTTTAATTTGATATGTTTATTTT-TCACCAACCAAAGGATGACACGTGTTAGCCTCGGG
1 TTAAAATTTTAATTTGATATATTTATTTTCT-ACCAACCAAAGGATGACACGTGTCA-CCTCGAA
*
2141016 TTGTAAAAAAACAAACCAAGTAAAATGAGGTTACTTGGATT
64 TTGTAAAAAAACAAACCAAGTAAAAAGAGGTTACTTGGATT
2141057 TAATGTAAGG
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
111 1 0.01
112 48 0.53
113 41 0.46
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (112 bp):
TTAAAATTTTAATTTGATATATTTATTTTCTACCAACCAAAGGATGACACGTGTCACCTCGAATT
GTAAAAAAACAAACCAAGTAAAAAGAGGTTACTTGGATTCGATTAAA
Found at i:2143197 original size:21 final size:21
Alignment explanation
Indices: 2143172--2143212 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2143162 CCAAACTACC
*
2143172 GAAAACTACCA-AAAGACAGA
1 GAAAAATACCACAAAGACAGA
*
2143192 GAAAAATATCACAAAGACAGA
1 GAAAAATACCACAAAGACAGA
2143213 TATAAACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.61, C:0.17, G:0.15, T:0.07
Consensus pattern (21 bp):
GAAAAATACCACAAAGACAGA
Found at i:2143643 original size:19 final size:16
Alignment explanation
Indices: 2143589--2143685 Score: 81
Period size: 16 Copynumber: 5.7 Consensus size: 16
2143579 CAAAATATAT
2143589 AAATAAAAAAAGAGAA-A
1 AAAT-AAAAAAGA-AATA
2143606 AAATAAAAAAGAAAT-
1 AAATAAAAAAGAAATA
2143621 AAATAAATAAAGATAAATA
1 AAATAAA-AAAG--AAATA
** *
2143640 AAATTGAGAAGAATATTA
1 AAATAAAAAAGAA-A-TA
2143658 AAATAAAAAGAGAAATA
1 AAATAAAAA-AGAAATA
2143675 AAATAAAAAAG
1 AAATAAAAAAG
2143686 TTAAAATTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
15 9 0.14
16 16 0.24
17 16 0.24
18 16 0.24
19 9 0.14
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.15
Consensus pattern (16 bp):
AAATAAAAAAGAAATA
Found at i:2143676 original size:17 final size:17
Alignment explanation
Indices: 2143589--2143683 Score: 72
Period size: 17 Copynumber: 5.5 Consensus size: 17
2143579 CAAAATATAT
*
2143589 AAATAAAAAAAGAGAA-A
1 AAATAAAAAGAGA-AATA
2143606 AAATAAAAA-AGAAAT-
1 AAATAAAAAGAGAAATA
*
2143621 AAATAAATAAAGATAAATA
1 AAAT-AA-AAAGAGAAATA
* * *
2143640 AAATTGAGAAGA-ATATTA
1 AAA-TAAAAAGAGA-AATA
2143658 AAATAAAAAGAGAAATA
1 AAATAAAAAGAGAAATA
2143675 AAATAAAAA
1 AAATAAAAA
2143684 AGTTAAAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
15 6 0.10
16 5 0.08
17 31 0.49
18 16 0.25
19 4 0.06
20 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (17 bp):
AAATAAAAAGAGAAATA
Found at i:2143685 original size:18 final size:18
Alignment explanation
Indices: 2143589--2143685 Score: 73
Period size: 18 Copynumber: 5.6 Consensus size: 18
2143579 CAAAATATAT
2143589 AAATAAAAAA-AGAGAA-A
1 AAATAAAAAAGAGA-AATA
2143606 AAAT-AAAAA-AGAAAT-
1 AAATAAAAAAGAGAAATA
*
2143621 AAATAAATAAAGATAAATA
1 AAATAAA-AAAGAGAAATA
** * *
2143640 AAATTGAGAAGA-ATATTA
1 AAATAAAAAAGAGA-AATA
2143658 AAAT-AAAAAGAGAAATA
1 AAATAAAAAAGAGAAATA
2143675 AAATAAAAAAG
1 AAATAAAAAAG
2143686 TTAAAATTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
15 6 0.09
16 10 0.16
17 20 0.31
18 23 0.36
19 5 0.08
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.15
Consensus pattern (18 bp):
AAATAAAAAAGAGAAATA
Found at i:2144389 original size:18 final size:17
Alignment explanation
Indices: 2144368--2144425 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
2144358 AAAAAAGGGA
2144368 AAAATATATTAATAAAAT
1 AAAATATA-TAATAAAAT
* * *
2144386 AAAACAAATAATATTAAT
1 AAAATATATAATA-AAAT
*
2144404 ATAATATATAATAAAAAT
1 AAAATATATAAT-AAAAT
2144422 AAAA
1 AAAA
2144426 ATAATTTTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
17 5 0.17
18 24 0.80
19 1 0.03
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATATATAATAAAAT
Found at i:2144477 original size:38 final size:37
Alignment explanation
Indices: 2144422--2144653 Score: 331
Period size: 38 Copynumber: 6.1 Consensus size: 37
2144412 TAATAAAAAT
* *
2144422 AAAAATAATTTTTAAAACTATATATTATATACGATTTTA
1 AAAAAT-ATTTTCAAAACTATATATTATATAC-ATTTTC
* * *
2144461 AAAAATATTTTCAAAACCATATAATATATATATTTTC
1 AAAAATATTTTCAAAACTATATATTATATACATTTTC
2144498 AAAAATATTTTTCAAAACTATATATTATATACATTTTC
1 AAAAATA-TTTTCAAAACTATATATTATATACATTTTC
*
2144536 AAAAATATTTTCCAAAACTATATATTATATATATTTTC
1 AAAAATATTTT-CAAAACTATATATTATATACATTTTC
2144574 -AAAATATTTTTCAAAACTATATATTATATACATTTTC
1 AAAAATA-TTTTCAAAACTATATATTATATACATTTTC
* *
2144611 AAAAATATTTTCCAAAACTATATATTATATATATTTTT
1 AAAAATATTTT-CAAAACTATATATTATATACATTTTC
2144649 AAAAA
1 AAAAA
2144654 CTATATATTA
Statistics
Matches: 176, Mismatches: 12, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
37 51 0.29
38 119 0.68
39 6 0.03
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (37 bp):
AAAAATATTTTCAAAACTATATATTATATACATTTTC
Found at i:2144545 original size:75 final size:76
Alignment explanation
Indices: 2144422--2144653 Score: 389
Period size: 75 Copynumber: 3.1 Consensus size: 76
2144412 TAATAAAAAT
* * *
2144422 AAAAATAATTTTT-AAAACTATATATTATATACGATTTTAAAAAATATTTT-CAAAACCATATAA
1 AAAAAT-ATTTTTCAAAACTATATATTATATAC-ATTTTCAAAAATATTTTCCAAAACTATATAT
2144485 TATATATATTTTC
64 TATATATATTTTC
2144498 AAAAATATTTTTCAAAACTATATATTATATACATTTTCAAAAATATTTTCCAAAACTATATATTA
1 AAAAATATTTTTCAAAACTATATATTATATACATTTTCAAAAATATTTTCCAAAACTATATATTA
2144563 TATATATTTTC
66 TATATATTTTC
2144574 -AAAATATTTTTCAAAACTATATATTATATACATTTTCAAAAATATTTTCCAAAACTATATATTA
1 AAAAATATTTTTCAAAACTATATATTATATACATTTTCAAAAATATTTTCCAAAACTATATATTA
*
2144638 TATATATTTTT
66 TATATATTTTC
2144649 AAAAA
1 AAAAA
2144654 CTATATATTA
Statistics
Matches: 149, Mismatches: 4, Indels: 6
0.94 0.03 0.04
Matches are distributed among these distances:
75 96 0.64
76 53 0.36
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (76 bp):
AAAAATATTTTTCAAAACTATATATTATATACATTTTCAAAAATATTTTCCAAAACTATATATTA
TATATATTTTC
Found at i:2144588 original size:113 final size:114
Alignment explanation
Indices: 2144422--2144653 Score: 344
Period size: 113 Copynumber: 2.0 Consensus size: 114
2144412 TAATAAAAAT
*
2144422 AAAAATAATTTTTAAAACTATATATTATATACGATTTTAAAAAATATTTTCAAAACCATATAATA
1 AAAAATAATTTTCAAAACTATATATTATATACGATTTTAAAAAATATTTTCAAAACCATATAATA
* *
2144487 TATATATTTTCAAAAATATTTTTCAAAACTATATATTATATACATTTTC
66 TATACATTTTCAAAAATATTTTCCAAAACTATATATTATATACATTTTC
* * * *
2144536 AAAAAT-ATTTTCCAAAACTATATATTATATA-TATTTT-CAAAATATTTTTCAAAACTATATAT
1 AAAAATAATTTT-CAAAACTATATATTATATACGATTTTAAAAAATA-TTTTCAAAACCATATAA
* *
2144598 TATATACATTTTCAAAAATATTTTCCAAAACTATATATTATATATATTTTT
64 TATATACATTTTCAAAAATATTTTCCAAAACTATATATTATATACATTTTC
2144649 AAAAA
1 AAAAA
2144654 CTATATATTA
Statistics
Matches: 107, Mismatches: 9, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
112 6 0.06
113 77 0.72
114 24 0.22
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (114 bp):
AAAAATAATTTTCAAAACTATATATTATATACGATTTTAAAAAATATTTTCAAAACCATATAATA
TATACATTTTCAAAAATATTTTCCAAAACTATATATTATATACATTTTC
Found at i:2144644 original size:26 final size:26
Alignment explanation
Indices: 2144615--2144678 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
2144605 ATTTTCAAAA
*
2144615 ATATTTTCCAAAACTATATATTATAT
1 ATATTTTCAAAAACTATATATTATAT
*
2144641 ATATTTTTAAAAACTATATATTATAT
1 ATATTTTCAAAAACTATATATTATAT
*
2144667 ATATTTTTAAAA
1 ATATTTTCAAAA
2144679 TATTTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
ATATTTTCAAAAACTATATATTATAT
Found at i:2144714 original size:64 final size:64
Alignment explanation
Indices: 2144577--2144710 Score: 193
Period size: 64 Copynumber: 2.1 Consensus size: 64
2144567 TATTTTCAAA
* *
2144577 ATATTTTTCAAAACTATATATTATATACATTTTCAAAAATATTTTCCAAAACTATATATTATAT
1 ATATTTTTAAAAACTATATATTATATACATTTTCAAAAATATTTTCAAAAACTATATATTATAT
* * *
2144641 ATATTTTTAAAAACTATATATTATATATATTTT-TAAAATATTTTTAAAAACTATAT-TTAGT-T
1 ATATTTTTAAAAACTATATATTATATACATTTTCAAAAATATTTTCAAAAACTATATATTA-TAT
2144703 ATATTTTT
1 ATATTTTT
2144711 TTAACAATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
62 12 0.19
63 21 0.33
64 31 0.48
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.50
Consensus pattern (64 bp):
ATATTTTTAAAAACTATATATTATATACATTTTCAAAAATATTTTCAAAAACTATATATTATAT
Found at i:2144721 original size:37 final size:37
Alignment explanation
Indices: 2144641--2144710 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
2144631 TATATTATAT
2144641 ATATTTTTAAAAACTATATATTATATATATTTTTAAA
1 ATATTTTTAAAAACTATATATTATATATATTTTTAAA
2144678 ATATTTTTAAAAACTATAT-TTAGT-TATATTTTT
1 ATATTTTTAAAAACTATATATTA-TATATATTTTT
2144711 TTAACAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
36 12 0.38
37 20 0.62
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (37 bp):
ATATTTTTAAAAACTATATATTATATATATTTTTAAA
Found at i:2145378 original size:23 final size:23
Alignment explanation
Indices: 2145350--2145407 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
2145340 AAAAACATAT
*
2145350 CACAAAGACAGAGATAAACGTGC
1 CACAAAGACAAAGATAAACGTGC
* *
2145373 CGCAAAGACAAAGATAAACGTGT
1 CACAAAGACAAAGATAAACGTGC
2145396 CACAAAGACAAA
1 CACAAAGACAAA
2145408 ATTATTCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.52, C:0.21, G:0.19, T:0.09
Consensus pattern (23 bp):
CACAAAGACAAAGATAAACGTGC
Found at i:2152003 original size:14 final size:14
Alignment explanation
Indices: 2151986--2152021 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2151976 TTTTTAATTG
2151986 CTTCTTTTTCTTTT
1 CTTCTTTTTCTTTT
2152000 CTTCTTTTTCTTTT
1 CTTCTTTTTCTTTT
2152014 -TTCTTTTT
1 CTTCTTTTT
2152022 GTACTCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
CTTCTTTTTCTTTT
Found at i:2152345 original size:22 final size:21
Alignment explanation
Indices: 2152319--2152360 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
2152309 GGCTGCGAAA
2152319 TTGATGGTCTTGATGGATGAAG
1 TTGATGGTCTTGAT-GATGAAG
*
2152341 TTGATGGTGTTGATGATGAA
1 TTGATGGTCTTGATGATGAA
2152361 ATGGAGATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.24, C:0.02, G:0.36, T:0.38
Consensus pattern (21 bp):
TTGATGGTCTTGATGATGAAG
Found at i:2153595 original size:26 final size:26
Alignment explanation
Indices: 2153552--2153605 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
2153542 TGAACTATAG
2153552 TATATAATAATAACTTA-TATC-TAA
1 TATATAATAATAACTTATTATCATAA
*
2153576 TATATTAATGAATAAGTTATTATCATAA
1 TATA-TAAT-AATAACTTATTATCATAA
2153604 TA
1 TA
2153606 ACTATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 4 0.16
25 4 0.16
26 8 0.32
27 4 0.16
28 5 0.20
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (26 bp):
TATATAATAATAACTTATTATCATAA
Found at i:2155743 original size:56 final size:56
Alignment explanation
Indices: 2155657--2155764 Score: 216
Period size: 56 Copynumber: 1.9 Consensus size: 56
2155647 TCTTTTTAGT
2155657 TAAGCTGGAGCTCTTATGTATCATGTCCGAGTGGAGACAATAGTCAAAATATGTGA
1 TAAGCTGGAGCTCTTATGTATCATGTCCGAGTGGAGACAATAGTCAAAATATGTGA
2155713 TAAGCTGGAGCTCTTATGTATCATGTCCGAGTGGAGACAATAGTCAAAATAT
1 TAAGCTGGAGCTCTTATGTATCATGTCCGAGTGGAGACAATAGTCAAAATAT
2155765 TTGGTGATGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (56 bp):
TAAGCTGGAGCTCTTATGTATCATGTCCGAGTGGAGACAATAGTCAAAATATGTGA
Found at i:2159765 original size:119 final size:118
Alignment explanation
Indices: 2159549--2159776 Score: 307
Period size: 119 Copynumber: 1.9 Consensus size: 118
2159539 AGTCCTCGTA
* * * *
2159549 CATTTCATCAAAATAATAGTTGCACATTCATAATTTTGTAGAATCTCTCCAGTTATAATCTTTTG
1 CATTTCATCAAAATAATAGTTGCACATTCACAAATTTATAGAATCTCTCCACTTATAATCTTTTG
* **
2159614 TTTTAGTTTCCTCTCTCCATCATTAATTTTTTCCCTAGAGAGGGTTAGTTCATG
66 TGTTAGTTTCCTCTCTCCATCATTAAAATTTT-CCTAGAGAGGGTTAGTTCATG
* * *
2159668 CATTTCATCAAAATAATTGTTGCACATTCACAAATTTATAGAATCTCTCCACTTTTATTCTTTTG
1 CATTTCATCAAAATAATAGTTGCACATTCACAAATTTATAGAATCTCTCCACTTATAATCTTTTG
* *
2159733 TGTTA-TTTCCTCGT-TGCATCATTTAAAATTTTCCTATAGAGGGT
66 TGTTAGTTTCCTC-TCTCCATCA-TTAAAATTTTCCTAGAGAGGGT
2159777 CCGACTTTAT
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
118 24 0.25
119 71 0.75
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (118 bp):
CATTTCATCAAAATAATAGTTGCACATTCACAAATTTATAGAATCTCTCCACTTATAATCTTTTG
TGTTAGTTTCCTCTCTCCATCATTAAAATTTTCCTAGAGAGGGTTAGTTCATG
Found at i:2160748 original size:18 final size:18
Alignment explanation
Indices: 2160725--2160767 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
2160715 AGTCAATGGA
2160725 GGACTCTGTAGTGCATTC
1 GGACTCTGTAGTGCATTC
2160743 GGACTCTGTAGTGCATTC
1 GGACTCTGTAGTGCATTC
2160761 GGACTCT
1 GGACTCT
2160768 AGATCTCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (18 bp):
GGACTCTGTAGTGCATTC
Found at i:2163430 original size:12 final size:13
Alignment explanation
Indices: 2163412--2163446 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
2163402 GAAAAGATAG
2163412 AATAAAATAAAAT
1 AATAAAATAAAAT
*
2163425 AA-AAAAGAAAAT
1 AATAAAATAAAAT
2163437 AATAAAATAA
1 AATAAAATAA
2163447 TAAATAACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (13 bp):
AATAAAATAAAAT
Found at i:2164258 original size:84 final size:84
Alignment explanation
Indices: 2164157--2164312 Score: 226
Period size: 84 Copynumber: 1.9 Consensus size: 84
2164147 AGATAATTCC
* * *
2164157 TAAAATAATATCTTAAATCCTTATTAAAACACTTAAAA-CTATTT-ATCTAAAATACCTAAAATA
1 TAAAATAATATCCTAAATCCTAATTAAAACAC-TAAAACCTATTTAAACTAAAATACCTAAAA-A
2164220 AAGATAAAATAAAATAATATT
64 AAGATAAAATAAAATAATATT
* * *
2164241 TAAAATAATATCCTAAATCCTAATTGAAATACTAAAACCTATTTAAACTAAAATACTTAAAAAAA
1 TAAAATAATATCCTAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATACCTAAAAAAA
2164306 GATAAAA
66 GATAAAA
2164313 CATAATGTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
83 5 0.08
84 44 0.69
85 15 0.23
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (84 bp):
TAAAATAATATCCTAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATACCTAAAAAAA
GATAAAATAAAATAATATT
Found at i:2167412 original size:21 final size:21
Alignment explanation
Indices: 2167364--2167413 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
2167354 TCGACTTTGG
* *
2167364 AACTTTTCCTGGGATGCAACC
1 AACTTTTCCAGGGATACAACC
** *
2167385 AGTTTTTCCAGGGATATAACC
1 AACTTTTCCAGGGATACAACC
2167406 AACTTTTC
1 AACTTTTC
2167414 TTGTGTAATT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (21 bp):
AACTTTTCCAGGGATACAACC
Found at i:2168870 original size:5 final size:5
Alignment explanation
Indices: 2168860--2168940 Score: 67
Period size: 5 Copynumber: 16.0 Consensus size: 5
2168850 AAAAAGATAG
* * * * *
2168860 AATAA AATAA AATGAA ATTGA AA-AA GATAG AATAA AATAA AATTA AATAA
1 AATAA AATAA AAT-AA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
*
2168910 AATAA AATAA AA-AA AGAAAA TAATAA AATAA
1 AATAA AATAA AATAA A-ATAA -AATAA AATAA
2168941 TAAATAATGA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
4 5 0.08
5 45 0.75
6 9 0.15
7 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:2168875 original size:30 final size:30
Alignment explanation
Indices: 2168839--2168907 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
2168829 ATAGAATTCT
2168839 AAATGAAATTGAAAAAGATAGAATAAAATA
1 AAATGAAATTGAAAAAGATAGAATAAAATA
2168869 AAATGAAATTGAAAAAGATAGAATAAAATA
1 AAATGAAATTGAAAAAGATAGAATAAAATA
*
2168899 AAATTAAAT
1 AAATGAAAT
2168908 AAAATAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.22
Consensus pattern (30 bp):
AAATGAAATTGAAAAAGATAGAATAAAATA
Found at i:2168945 original size:15 final size:14
Alignment explanation
Indices: 2168890--2168948 Score: 61
Period size: 15 Copynumber: 4.2 Consensus size: 14
2168880 AAAAAGATAG
*
2168890 AATAAAATAAAATT
1 AATAAAATAAAAAT
2168904 AAATAAAAT-AAAAT
1 -AATAAAATAAAAAT
2168918 AA-AAAA-AGAAAAT
1 AATAAAATA-AAAAT
2168931 AATAAAATAATAAAT
1 AATAAAATAA-AAAT
2168946 AAT
1 AAT
2168949 GATTTAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
12 4 0.11
13 9 0.24
14 9 0.24
15 16 0.42
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (14 bp):
AATAAAATAAAAAT
Found at i:2169774 original size:85 final size:83
Alignment explanation
Indices: 2169628--2169812 Score: 257
Period size: 85 Copynumber: 2.2 Consensus size: 83
2169618 TTCAAATTCC
* *
2169628 TAAAATAATATCTTAAATCCTAATTAAAACGCTTAAAACTATTTAAACTAAAATACCTAAAAC-A
1 TAAAATAATATCCTAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAACAA
2169692 AAGATAAAATAAAATAATATT
66 AAGATAAAAT---ATAATATT
* * *
2169713 TAAAATAATATCCTAAATCCTAATTGAAATAC-TAAAACCTATTTAAACTAAAATACTTAAAACA
1 TAAAATAATATCCTAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAACA
*
2169777 AAAGATAAAATATAATGTT
65 AAAGATAAAATATAATATT
*
2169796 TAAAATATTATCCTAAA
1 TAAAATAATATCCTAAA
2169813 ACTTGAGTTT
Statistics
Matches: 91, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
83 23 0.25
84 5 0.05
85 52 0.57
86 11 0.12
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (83 bp):
TAAAATAATATCCTAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAACAA
AAGATAAAATATAATATT
Found at i:2181975 original size:24 final size:24
Alignment explanation
Indices: 2181904--2181976 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 24
2181894 ACCGAAGTGC
*
2181904 CACATAG-ATTTGTCCCGAAGGAC
1 CACATAGAATTTGTCCCGAAGGAT
* * *
2181927 CGCTTAGATATTAGTCCCGAAGGAT
1 CACATAGA-ATTTGTCCCGAAGGAT
*
2181952 CACATAGAATTTGTACCGAAGGAT
1 CACATAGAATTTGTCCCGAAGGAT
2181976 C
1 C
2181977 GTGTAGAACC
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
23 5 0.12
24 15 0.38
25 20 0.50
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (24 bp):
CACATAGAATTTGTCCCGAAGGAT
Found at i:2181983 original size:24 final size:23
Alignment explanation
Indices: 2181911--2181984 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 23
2181901 TGCCACATAG
*
2181911 ATTTGTCCCGAAGGACCGCTTAGA
1 ATTTGTCCCGAAGGATCG-TTAGA
* **
2181935 TATTAGTCCCGAAGGATCACATAGA
1 -ATTTGTCCCGAAGGATC-GTTAGA
*
2181960 ATTTGTACCGAAGGATCGTGTAGA
1 ATTTGTCCCGAAGGATCGT-TAGA
2181984 A
1 A
2181985 CCCTCGACTC
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
24 20 0.51
25 19 0.49
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (23 bp):
ATTTGTCCCGAAGGATCGTTAGA
Found at i:2182175 original size:22 final size:22
Alignment explanation
Indices: 2182150--2182228 Score: 124
Period size: 22 Copynumber: 3.6 Consensus size: 22
2182140 AGAGGTACCG
2182150 ATACCCCTATGAATGGGTATCA
1 ATACCCCTATGAATGGGTATCA
* *
2182172 ATACCCCCTATGAATGGGTACCG
1 ATA-CCCCTATGAATGGGTATCA
2182195 ATACCCCTATGAATGGGTATCA
1 ATACCCCTATGAATGGGTATCA
2182217 ATACCCC-ATGAA
1 ATACCCCTATGAA
2182229 GGCTCAAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
21 5 0.10
22 27 0.52
23 20 0.38
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (22 bp):
ATACCCCTATGAATGGGTATCA
Found at i:2182183 original size:23 final size:23
Alignment explanation
Indices: 2182153--2182223 Score: 117
Period size: 23 Copynumber: 3.1 Consensus size: 23
2182143 GGTACCGATA
2182153 CCCCTATGAATGGGTATCAATAC
1 CCCCTATGAATGGGTATCAATAC
* *
2182176 CCCCTATGAATGGGTACCGATA-
1 CCCCTATGAATGGGTATCAATAC
2182198 CCCCTATGAATGGGTATCAATAC
1 CCCCTATGAATGGGTATCAATAC
2182221 CCC
1 CCC
2182224 ATGAAGGCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 20 0.47
23 23 0.53
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (23 bp):
CCCCTATGAATGGGTATCAATAC
Found at i:2184985 original size:198 final size:204
Alignment explanation
Indices: 2184633--2185037 Score: 743
Period size: 198 Copynumber: 2.0 Consensus size: 204
2184623 GGTAACCTCT
2184633 AAGCTTAATGCTTTTAATTTTGGTTATTTGGTTGCTCATTTGATTTTAATCATGCATGATTTTTT
1 AAGCTTAATGCTTTTAATTTTGGTTATTTGGTTGCTCATTTGATTTTAATCATGCATGATTTTTT
2184698 CTTTTTTTAATGATTATGCATTATTGTTTTAATCTTATGTATATTAAAAAGGTTTTATGATGAAC
66 CTTTTTTTAATGATTATGCATTATTGTTTTAATCTTATG-ATATTAAAAAGGTTTTATGATGAAC
2184763 ATTTTAAAGTTTTAATGATTTTTCAGAATTTTTTGTTCATCATAATAAAA-TTTGGTCAAAATTG
130 ATTTTAAAGTTTTAATGATTTTTCAGAATTTTTTGTTCATCATAATAAAATTTTGGTCAAAATTG
2184827 GTTTTTAATGA
195 G-TTTTAATGA
2184838 AAGCTTAATGCTTTTAATTTTGGTTATTTGGTTGCTCATTTGA-TTTAATCATGCATGATTTTTT
1 AAGCTTAATGCTTTTAATTTTGGTTATTTGGTTGCTCATTTGATTTTAATCATGCATGATTTTTT
2184902 C-TTTTTTAATGATTATGCATTA-TGTTTTAAT-TTATG-TA-TAAAAAGGTTTTATGATGAACA
66 CTTTTTTTAATGATTATGCATTATTGTTTTAATCTTATGATATTAAAAAGGTTTTATGATGAACA
2184962 TTTTAAAGTTTTAATGATTTTTCAGAATTTTTTGTTCATCATAATAAAATTTTGGTCAAAATTGG
131 TTTTAAAGTTTTAATGATTTTTCAGAATTTTTTGTTCATCATAATAAAATTTTGGTCAAAATTGG
2185027 TTTTAATGA
196 TTTTAATGA
2185036 AA
1 AA
2185038 ATGACATCTC
Statistics
Matches: 199, Mismatches: 0, Indels: 9
0.96 0.00 0.04
Matches are distributed among these distances:
198 82 0.41
199 17 0.09
201 5 0.03
202 9 0.05
203 21 0.11
204 22 0.11
205 43 0.22
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (204 bp):
AAGCTTAATGCTTTTAATTTTGGTTATTTGGTTGCTCATTTGATTTTAATCATGCATGATTTTTT
CTTTTTTTAATGATTATGCATTATTGTTTTAATCTTATGATATTAAAAAGGTTTTATGATGAACA
TTTTAAAGTTTTAATGATTTTTCAGAATTTTTTGTTCATCATAATAAAATTTTGGTCAAAATTGG
TTTTAATGA
Found at i:2185609 original size:18 final size:17
Alignment explanation
Indices: 2185586--2185641 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 17
2185576 TATATTTTCC
2185586 AACAATTGGTATCATTTT
1 AACAATTGGTATC-TTTT
*
2185604 AACAATTGATATCTTTTTGT
1 AACAATTGGTATC--TTT-T
2185624 AAGCAATTGGTATCTTTT
1 AA-CAATTGGTATCTTTT
2185642 TCATTAAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 13 0.41
19 6 0.19
20 3 0.09
21 10 0.31
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.46
Consensus pattern (17 bp):
AACAATTGGTATCTTTT
Found at i:2185887 original size:23 final size:22
Alignment explanation
Indices: 2185850--2185927 Score: 88
Period size: 21 Copynumber: 3.6 Consensus size: 22
2185840 AGATGTACCG
*
2185850 ATACCCCTATTAATGGGTATCA
1 ATACCCCTATGAATGGGTATCA
* *
2185872 ATACCCTCTATGAATGGGTACCC
1 ATACCC-CTATGAATGGGTATCA
**
2185895 ATA-CCCTATGAATGAATATCA
1 ATACCCCTATGAATGGGTATCA
2185916 ATACCCC-ATGAA
1 ATACCCCTATGAA
2185928 GGCTTAAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 20 0.43
22 11 0.23
23 16 0.34
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.27
Consensus pattern (22 bp):
ATACCCCTATGAATGGGTATCA
Found at i:2187111 original size:21 final size:20
Alignment explanation
Indices: 2187047--2187114 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 20
2187037 TAACATTTTC
*
2187047 ATAT-TTTTTTCAACAATTG
1 ATATCTTTTTTAAACAATTG
*
2187066 ATATC-TTTTTAAA-ATTTG
1 ATATCTTTTTTAAACAATTG
*
2187084 GTATCTTTTTGTAAACAATTG
1 ATATCTTTTT-TAAACAATTG
2187105 ATATCTTTTT
1 ATATCTTTTT
2187115 CATTAAACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 8 0.20
19 15 0.38
20 4 0.10
21 13 0.32
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.54
Consensus pattern (20 bp):
ATATCTTTTTTAAACAATTG
Found at i:2188718 original size:21 final size:19
Alignment explanation
Indices: 2188680--2188725 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
2188670 AATTAATCCT
2188680 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
2188700 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
2188721 A-TAAT
1 ACTAAT
2188726 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:2202516 original size:24 final size:24
Alignment explanation
Indices: 2202436--2202518 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
2202426 TAAATCAAAA
* * *
2202436 CAGAATTCAGAACATAA-TCCAGAT
1 CAGAAATCAGAACAGAATTCAAG-T
*
2202460 CAGAAATCAGAACAGAATTCAGGT
1 CAGAAATCAGAACAGAATTCAAGT
***
2202484 CATTTATCAGAACAGAATTCAAGT
1 CAGAAATCAGAACAGAATTCAAGT
2202508 CAGAAATCAGA
1 CAGAAATCAGA
2202519 TAAAATATTT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
24 44 0.94
25 3 0.06
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATTCAAGT
Found at i:2204993 original size:7 final size:7
Alignment explanation
Indices: 2204981--2205019 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
2204971 TGGTCAACTC
2204981 CGGTCAA
1 CGGTCAA
2204988 CGGTCAA
1 CGGTCAA
2204995 CGGGTCAA
1 C-GGTCAA
2205003 CGGTCAA
1 CGGTCAA
2205010 CGGTCAA
1 CGGTCAA
2205017 CGG
1 CGG
2205020 GTCGGGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (7 bp):
CGGTCAA
Found at i:2205009 original size:22 final size:22
Alignment explanation
Indices: 2204981--2205022 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
2204971 TGGTCAACTC
2204981 CGGTCAACGGTCAACGGGTCAA
1 CGGTCAACGGTCAACGGGTCAA
2205003 CGGTCAACGGTCAACGGGTC
1 CGGTCAACGGTCAACGGGTC
2205023 GGGTAAACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.29, G:0.33, T:0.14
Consensus pattern (22 bp):
CGGTCAACGGTCAACGGGTCAA
Found at i:2205022 original size:15 final size:14
Alignment explanation
Indices: 2204981--2205019 Score: 69
Period size: 15 Copynumber: 2.7 Consensus size: 14
2204971 TGGTCAACTC
2204981 CGGTCAACGGTCAA
1 CGGTCAACGGTCAA
2204995 CGGGTCAACGGTCAA
1 C-GGTCAACGGTCAA
2205010 CGGTCAACGG
1 CGGTCAACGG
2205020 GTCGGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (14 bp):
CGGTCAACGGTCAA
Found at i:2205040 original size:18 final size:18
Alignment explanation
Indices: 2205017--2205062 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
2205007 CAACGGTCAA
2205017 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
*
2205035 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTAAACGGGT
2205053 CGGGTCGGGT
1 CGGGTCGGGT
2205063 TGTGACCTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.11, C:0.20, G:0.52, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:2205058 original size:13 final size:13
Alignment explanation
Indices: 2205011--2205040 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2205001 AACGGTCAAC
2205011 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
2205024 GGTAAACGGGTCG
1 GGTCAACGGGTCG
2205037 GGTC
1 GGTC
2205041 GGGTCAACGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.17, C:0.20, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:2207239 original size:24 final size:24
Alignment explanation
Indices: 2207158--2207241 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
2207148 AATGAAGATA
* *
2207158 TCAGAAATCAAAACAGAA-TCCAG
1 TCAGAAATCAGAACAGAATTCAAG
*
2207181 ATCAGAAATCAGAACAGAATTCAGG
1 -TCAGAAATCAGAACAGAATTCAAG
***
2207206 TCATTTATCAGAACAGAATTCAAG
1 TCAGAAATCAGAACAGAATTCAAG
2207230 TCAGAAATCAGA
1 TCAGAAATCAGA
2207242 TAAAATATTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
24 46 0.94
25 3 0.06
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.19
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:2209577 original size:7 final size:7
Alignment explanation
Indices: 2209565--2209603 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
2209555 TGGTCAACTC
2209565 CGGTCAA
1 CGGTCAA
2209572 CGGTCAA
1 CGGTCAA
2209579 CGGGTCAA
1 C-GGTCAA
2209587 CGGTCAA
1 CGGTCAA
2209594 CGGTCAA
1 CGGTCAA
2209601 CGG
1 CGG
2209604 GTCGGGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (7 bp):
CGGTCAA
Found at i:2209593 original size:22 final size:22
Alignment explanation
Indices: 2209565--2209606 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
2209555 TGGTCAACTC
2209565 CGGTCAACGGTCAACGGGTCAA
1 CGGTCAACGGTCAACGGGTCAA
2209587 CGGTCAACGGTCAACGGGTC
1 CGGTCAACGGTCAACGGGTC
2209607 GGGTAAACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.29, G:0.33, T:0.14
Consensus pattern (22 bp):
CGGTCAACGGTCAACGGGTCAA
Found at i:2209606 original size:15 final size:14
Alignment explanation
Indices: 2209565--2209603 Score: 69
Period size: 15 Copynumber: 2.7 Consensus size: 14
2209555 TGGTCAACTC
2209565 CGGTCAACGGTCAA
1 CGGTCAACGGTCAA
2209579 CGGGTCAACGGTCAA
1 C-GGTCAACGGTCAA
2209594 CGGTCAACGG
1 CGGTCAACGG
2209604 GTCGGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (14 bp):
CGGTCAACGGTCAA
Found at i:2209617 original size:13 final size:13
Alignment explanation
Indices: 2209599--2209623 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2209589 GTCAACGGTC
2209599 AACGGGTCGGGTA
1 AACGGGTCGGGTA
2209612 AACGGGTCGGGT
1 AACGGGTCGGGT
2209624 CGGGTCGGGT
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:0.20, C:0.16, G:0.48, T:0.16
Consensus pattern (13 bp):
AACGGGTCGGGTA
Found at i:2211840 original size:24 final size:24
Alignment explanation
Indices: 2211759--2211842 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
2211749 AATGAAGATA
* *
2211759 TCAGAAATCAAAACAGAA-TCCAG
1 TCAGAAATCAGAACAGAATTCAAG
*
2211782 ATCAGAAATCAGAACAGAATTCAGG
1 -TCAGAAATCAGAACAGAATTCAAG
***
2211807 TCATTTATCAGAACAGAATTCAAG
1 TCAGAAATCAGAACAGAATTCAAG
2211831 TCAGAAATCAGA
1 TCAGAAATCAGA
2211843 TAAAATATTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
24 46 0.94
25 3 0.06
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.19
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:2214269 original size:7 final size:7
Alignment explanation
Indices: 2214257--2214295 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
2214247 TGGTCAACTC
2214257 CGGTCAA
1 CGGTCAA
2214264 CGGTCAA
1 CGGTCAA
2214271 CGGGTCAA
1 C-GGTCAA
2214279 CGGTCAA
1 CGGTCAA
2214286 CGGTCAA
1 CGGTCAA
2214293 CGG
1 CGG
2214296 GTCGGGTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (7 bp):
CGGTCAA
Found at i:2214285 original size:22 final size:22
Alignment explanation
Indices: 2214257--2214298 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
2214247 TGGTCAACTC
2214257 CGGTCAACGGTCAACGGGTCAA
1 CGGTCAACGGTCAACGGGTCAA
2214279 CGGTCAACGGTCAACGGGTC
1 CGGTCAACGGTCAACGGGTC
2214299 GGGTCAACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.29, G:0.33, T:0.14
Consensus pattern (22 bp):
CGGTCAACGGTCAACGGGTCAA
Found at i:2214298 original size:15 final size:14
Alignment explanation
Indices: 2214257--2214295 Score: 69
Period size: 15 Copynumber: 2.7 Consensus size: 14
2214247 TGGTCAACTC
2214257 CGGTCAACGGTCAA
1 CGGTCAACGGTCAA
2214271 CGGGTCAACGGTCAA
1 C-GGTCAACGGTCAA
2214286 CGGTCAACGG
1 CGGTCAACGG
2214296 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (14 bp):
CGGTCAACGGTCAA
Found at i:2214305 original size:13 final size:13
Alignment explanation
Indices: 2214287--2214347 Score: 68
Period size: 13 Copynumber: 4.3 Consensus size: 13
2214277 AACGGTCAAC
2214287 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2214300 GGTCAACGGGTCGGG
1 GGTCAACGGGTC--G
2214315 TCGTGTCAACGGGTCG
1 --G-GTCAACGGGTCG
*
2214331 GGTAAACGGGTCG
1 GGTCAACGGGTCG
2214344 GGTC
1 GGTC
2214348 GGTCAACGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 26 0.63
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 11 0.27
ACGTcount: A:0.15, C:0.21, G:0.46, T:0.18
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:2214316 original size:18 final size:18
Alignment explanation
Indices: 2214293--2214360 Score: 76
Period size: 18 Copynumber: 4.1 Consensus size: 18
2214283 CAACGGTCAA
2214293 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
2214311 CGGGTCGTGTCAA-----
1 CGGGTCGGGTCAACGGGT
*
2214324 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
2214342 CGGGTC-GGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
2214359 CG
1 CG
2214361 AGGGGTTGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
13 11 0.27
17 12 0.29
18 18 0.44
ACGTcount: A:0.13, C:0.22, G:0.47, T:0.18
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:2214326 original size:31 final size:30
Alignment explanation
Indices: 2214286--2214360 Score: 132
Period size: 31 Copynumber: 2.5 Consensus size: 30
2214276 CAACGGTCAA
*
2214286 CGGTCAACGGGTCGGGTCAACGGGTCGGGT
1 CGGTCAACGGGTCGGGTAAACGGGTCGGGT
2214316 CGTGTCAACGGGTCGGGTAAACGGGTCGGGT
1 CG-GTCAACGGGTCGGGTAAACGGGTCGGGT
2214347 CGGTCAACGGGTCG
1 CGGTCAACGGGTCG
2214361 AGGGGTTGTG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
30 14 0.33
31 29 0.67
ACGTcount: A:0.15, C:0.23, G:0.45, T:0.17
Consensus pattern (30 bp):
CGGTCAACGGGTCGGGTAAACGGGTCGGGT
Found at i:2219010 original size:24 final size:24
Alignment explanation
Indices: 2218969--2219046 Score: 102
Period size: 24 Copynumber: 3.2 Consensus size: 24
2218959 CACTACTGCT
* * *
2218969 CATATAATTTGCATCGAAGTGCCA
1 CATAGAATATGCACCGAAGTGCCA
*
2218993 CTTAGAATATGCACCGAAGTGCCA
1 CATAGAATATGCACCGAAGTGCCA
* *
2219017 CGTAGAATATGCACCGAAGTGACA
1 CATAGAATATGCACCGAAGTGCCA
2219041 CATAGA
1 CATAGA
2219047 TTTGTCCTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (24 bp):
CATAGAATATGCACCGAAGTGCCA
Found at i:2219081 original size:25 final size:25
Alignment explanation
Indices: 2219046--2219119 Score: 87
Period size: 24 Copynumber: 3.0 Consensus size: 25
2219036 TGACACATAG
*
2219046 ATTTGTCCTGAAGAACCGCGTAGAA
1 ATTTGTCCTGAAGGACCGCGTAGAA
* * * *
2219071 ATTTGTTCTGAAGGACCACATA-TA
1 ATTTGTCCTGAAGGACCGCGTAGAA
*
2219095 ATTTGTCCCGAAGGACCGCGTAGAA
1 ATTTGTCCTGAAGGACCGCGTAGAA
2219120 CCCTTGACTC
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 19 0.50
25 19 0.50
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (25 bp):
ATTTGTCCTGAAGGACCGCGTAGAA
Found at i:2221646 original size:21 final size:22
Alignment explanation
Indices: 2221621--2221661 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2221611 TCAGGACAGG
*
2221621 GAGTATCGGTAC-TCCTTTAAT
1 GAGTATCAGTACTTCCTTTAAT
2221642 GAGTATCAGTACTTCCTTTA
1 GAGTATCAGTACTTCCTTTA
2221662 TTATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (22 bp):
GAGTATCAGTACTTCCTTTAAT
Found at i:2227467 original size:171 final size:176
Alignment explanation
Indices: 2227257--2227604 Score: 652
Period size: 171 Copynumber: 2.0 Consensus size: 176
2227247 GAGGTGTCAC
2227257 ATTGACTATTCAAATCATTTTTTATACAAAATAACTGAAAATTCAAATTCACTTTAAAATAAACT
1 ATTGACTATTCAAATCATTTTTTATACAAAATAACTGAAAATTCAAATTCACTTTAAAATAAACT
2227322 GAATAATTTACATTAAATAC-ATCA-ATG-TTTTACAAAACCAATCAAAGCATATTTGACTCAAA
66 GAATAATTTACATTAAATACAATCATATGTTTTTACAAAACCAATCAAAGCATATTTGACTCAAA
2227384 TCTTTAATTACAAGCCAATT-CA-CATTATAACCAAATACATAATA
131 TCTTTAATTACAAGCCAATTACATCATTATAACCAAATACATAATA
2227428 ATTGACTATTCAAATCATTTTTTATACAAAATAACTGAAAATTCAAATTCACTTTAAAATAAACT
1 ATTGACTATTCAAATCATTTTTTATACAAAATAACTGAAAATTCAAATTCACTTTAAAATAAACT
2227493 GAATAATTTACATTAAATACAATCATATGTTTTTACAAAACCAATCAAAGCATATTTGACTCAAA
66 GAATAATTTACATTAAATACAATCATATGTTTTTACAAAACCAATCAAAGCATATTTGACTCAAA
2227558 TCTTTAATTACAAGCCAATTACATTCATTATAACCAAATACATAATA
131 TCTTTAATTACAAGCCAATTACA-TCATTATAACCAAATACATAATA
2227605 TTCAAATTCT
Statistics
Matches: 171, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
171 85 0.50
172 4 0.02
173 3 0.02
174 55 0.32
175 2 0.01
177 22 0.13
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (176 bp):
ATTGACTATTCAAATCATTTTTTATACAAAATAACTGAAAATTCAAATTCACTTTAAAATAAACT
GAATAATTTACATTAAATACAATCATATGTTTTTACAAAACCAATCAAAGCATATTTGACTCAAA
TCTTTAATTACAAGCCAATTACATCATTATAACCAAATACATAATA
Found at i:2228177 original size:23 final size:23
Alignment explanation
Indices: 2228134--2228208 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 23
2228124 TGTCTTGAAT
*
2228134 GACCACA-AG-AA-GTCCCAAAG
1 GACCACATAGAAATGTCCCGAAG
*
2228154 GACCACGTAGAAATGTCCCGAAG
1 GACCACATAGAAATGTCCCGAAG
* * *
2228177 GAACGCATAGAAATGTCTCGAAG
1 GACCACATAGAAATGTCCCGAAG
2228200 GACCACATA
1 GACCACATA
2228209 TATGTCTCGA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
20 6 0.14
21 2 0.05
22 2 0.05
23 34 0.77
ACGTcount: A:0.40, C:0.25, G:0.23, T:0.12
Consensus pattern (23 bp):
GACCACATAGAAATGTCCCGAAG
Found at i:2238467 original size:107 final size:107
Alignment explanation
Indices: 2238281--2238494 Score: 428
Period size: 107 Copynumber: 2.0 Consensus size: 107
2238271 CATACTATTC
2238281 ATTTGATTTTGAACTTGTTTAATCCAAATCATCGACAAAAAGAATGATCGGTTAAACTATACCCC
1 ATTTGATTTTGAACTTGTTTAATCCAAATCATCGACAAAAAGAATGATCGGTTAAACTATACCCC
2238346 ACGCATTACACAAATTAATATTGACATTATGTAATCGGTTAA
66 ACGCATTACACAAATTAATATTGACATTATGTAATCGGTTAA
2238388 ATTTGATTTTGAACTTGTTTAATCCAAATCATCGACAAAAAGAATGATCGGTTAAACTATACCCC
1 ATTTGATTTTGAACTTGTTTAATCCAAATCATCGACAAAAAGAATGATCGGTTAAACTATACCCC
2238453 ACGCATTACACAAATTAATATTGACATTATGTAATCGGTTAA
66 ACGCATTACACAAATTAATATTGACATTATGTAATCGGTTAA
2238495 TGTTTCTTCC
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (107 bp):
ATTTGATTTTGAACTTGTTTAATCCAAATCATCGACAAAAAGAATGATCGGTTAAACTATACCCC
ACGCATTACACAAATTAATATTGACATTATGTAATCGGTTAA
Found at i:2244694 original size:20 final size:19
Alignment explanation
Indices: 2244671--2244815 Score: 164
Period size: 20 Copynumber: 7.3 Consensus size: 19
2244661 AATTTCTCAT
2244671 TCATTTGTAAAACCTACGGG
1 TCATTTGTAAAACCT-CGGG
2244691 TCATTTGTAAAACCTCCGGG
1 TCATTTGTAAAACCT-CGGG
**
2244711 TCATTTGTAAAACCTTAGG
1 TCATTTGTAAAACCTCGGG
*
2244730 TAATTTGTAAAACCTCTGGG
1 TCATTTGTAAAACCTC-GGG
*
2244750 TAATTTGTAAAACCTCCGGG
1 TCATTTGTAAAACCT-CGGG
*
2244770 TCATTTGTAAAACCTCTAGG
1 TCATTTGTAAAACCTC-GGG
* * *
2244790 TAATTTGTAAATCCTTTGGG
1 TCATTTGTAAAACC-TCGGG
2244810 TCATTT
1 TCATTT
2244816 ATCAGTCTCT
Statistics
Matches: 108, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
19 17 0.16
20 89 0.82
21 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (19 bp):
TCATTTGTAAAACCTCGGG
Found at i:2244765 original size:59 final size:60
Alignment explanation
Indices: 2244673--2244815 Score: 236
Period size: 59 Copynumber: 2.4 Consensus size: 60
2244663 TTTCTCATTC
2244673 ATTTGTAAAACCTAC-GGGTCATTTGTAAAACCTCCGGGTCATTTGTAAAACCT-TAGGTA
1 ATTTGTAAAACCT-CTGGGTCATTTGTAAAACCTCCGGGTCATTTGTAAAACCTCTAGGTA
*
2244732 ATTTGTAAAACCTCTGGGTAATTTGTAAAACCTCCGGGTCATTTGTAAAACCTCTAGGTA
1 ATTTGTAAAACCTCTGGGTCATTTGTAAAACCTCCGGGTCATTTGTAAAACCTCTAGGTA
* *
2244792 ATTTGTAAATCCTTTGGGTCATTT
1 ATTTGTAAAACCTCTGGGTCATTT
2244816 ATCAGTCTCT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
58 1 0.01
59 50 0.64
60 27 0.35
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (60 bp):
ATTTGTAAAACCTCTGGGTCATTTGTAAAACCTCCGGGTCATTTGTAAAACCTCTAGGTA
Found at i:2244784 original size:40 final size:39
Alignment explanation
Indices: 2244673--2244815 Score: 187
Period size: 40 Copynumber: 3.6 Consensus size: 39
2244663 TTTCTCATTC
* *
2244673 ATTTGTAAAACCTACGGGTCATTTGTAAAACCTCCGGGTC
1 ATTTGTAAAACCT-CGGGTCATTTGTAAAACCTCTGGGTA
** *
2244713 ATTTGTAAAACCTTAGGTAATTTGTAAAACCTCTGGGTA
1 ATTTGTAAAACCTCGGGTCATTTGTAAAACCTCTGGGTA
*
2244752 ATTTGTAAAACCTCCGGGTCATTTGTAAAACCTCTAGGTA
1 ATTTGTAAAACCT-CGGGTCATTTGTAAAACCTCTGGGTA
* *
2244792 ATTTGTAAATCCTTTGGGTCATTT
1 ATTTGTAAAACC-TCGGGTCATTT
2244816 ATCAGTCTCT
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 34 0.38
40 55 0.61
41 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (39 bp):
ATTTGTAAAACCTCGGGTCATTTGTAAAACCTCTGGGTA
Found at i:2244925 original size:36 final size:36
Alignment explanation
Indices: 2244880--2245080 Score: 249
Period size: 36 Copynumber: 5.6 Consensus size: 36
2244870 TGAATCTGAT
* * *
2244880 CTTCACGGAAGAGTAGTGAAGTCAATTATTTTCAAT
1 CTTCACGGAAGAGTAGTGAAGTCAATCATTCTCAAC
2244916 CTTCACGGAAGAGTAGTGAAGTCAATCATTCTCAAC
1 CTTCACGGAAGAGTAGTGAAGTCAATCATTCTCAAC
* * *
2244952 CTTCACAGAATAGTAGTGAAGTCAATCATTATCAAC
1 CTTCACGGAAGAGTAGTGAAGTCAATCATTCTCAAC
* * *
2244988 CTTCATGGAAGAGTAATGAAGTTAATCATTCTCAAC
1 CTTCACGGAAGAGTAGTGAAGTCAATCATTCTCAAC
** * * * *
2245024 CTTCACCAAAGAGTAGTGAAGTAAATCGTTCTGAGC
1 CTTCACGGAAGAGTAGTGAAGTCAATCATTCTCAAC
**
2245060 CTTCATAGAAGAGTAGTGAAG
1 CTTCACGGAAGAGTAGTGAAG
2245081 CAAGATCATA
Statistics
Matches: 142, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 142 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (36 bp):
CTTCACGGAAGAGTAGTGAAGTCAATCATTCTCAAC
Found at i:2245075 original size:108 final size:108
Alignment explanation
Indices: 2244880--2245080 Score: 276
Period size: 108 Copynumber: 1.9 Consensus size: 108
2244870 TGAATCTGAT
* * * * ** *
2244880 CTTCACGGAAGAGTAGTGAAGTCAATTATTTTCAATCTTCACGGAAGAGTAGTGAAGTCAATCAT
1 CTTCACGGAAGAGTAATGAAGTCAATCATTCTCAACCTTCACCAAAGAGTAGTGAAGTAAATCAT
*
2244945 TCTCAACCTTCACAGAATAGTAGTGAAGTCAATCATTATCAAC
66 TCTCAACCTTCACAGAAGAGTAGTGAAGTCAATCATTATCAAC
* * *
2244988 CTTCATGGAAGAGTAATGAAGTTAATCATTCTCAACCTTCACCAAAGAGTAGTGAAGTAAATCGT
1 CTTCACGGAAGAGTAATGAAGTCAATCATTCTCAACCTTCACCAAAGAGTAGTGAAGTAAATCAT
* * *
2245053 TCTGAGCCTTCATAGAAGAGTAGTGAAG
66 TCTCAACCTTCACAGAAGAGTAGTGAAG
2245081 CAAGATCATA
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
108 79 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (108 bp):
CTTCACGGAAGAGTAATGAAGTCAATCATTCTCAACCTTCACCAAAGAGTAGTGAAGTAAATCAT
TCTCAACCTTCACAGAAGAGTAGTGAAGTCAATCATTATCAAC
Found at i:2258267 original size:2 final size:2
Alignment explanation
Indices: 2258260--2258310 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
2258250 AGTTCCTTTA
2258260 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2258302 AT AT AT AT A
1 AT AT AT AT A
2258311 CTTACAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2258907 original size:19 final size:19
Alignment explanation
Indices: 2258879--2258918 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
2258869 AGTCAACCTA
2258879 TGATCCAAGAGTTTGGTTG
1 TGATCCAAGAGTTTGGTTG
*
2258898 TGATCTAAGAGTTTGGTTG
1 TGATCCAAGAGTTTGGTTG
2258917 TG
1 TG
2258919 TGCCATTGTA
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:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (19 bp):
TGATCCAAGAGTTTGGTTG
Found at i:2262549 original size:15 final size:14
Alignment explanation
Indices: 2262523--2262589 Score: 59
Period size: 15 Copynumber: 4.7 Consensus size: 14
2262513 CAAAGTGTTT
2262523 ATATAGTATATTATA
1 ATATA-TATATTATA
2262538 ATAGTATATATTAT-
1 ATA-TATATATTATA
2262552 -TATATATATTATA
1 ATATATATATTATA
*
2262565 GTAT-TATATCATATA
1 ATATATATAT--TATA
*
2262580 ATATACATAT
1 ATATATATAT
2262590 ATATTTTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
12 10 0.23
13 7 0.16
14 3 0.07
15 18 0.41
16 6 0.14
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (14 bp):
ATATATATATTATA
Found at i:2262557 original size:25 final size:23
Alignment explanation
Indices: 2262529--2262744 Score: 64
Period size: 23 Copynumber: 9.3 Consensus size: 23
2262519 GTTTATATAG
2262529 TATATTATAATAGTATATATTATTA
1 TATATTAT-ATA-TATATATTATTA
*
2262554 TATA-TAT-TATAGTAT-TATATCA
1 TATATTATATATA-TATAT-TATTA
* *
2262576 TATAATATACATATATATT-TTA
1 TATATTATATATATATATTATTA
* * *
2262598 TACAATATTACATATATATTATT-
1 TATATTA-TATATATATATTATTA
*
2262621 T-TATCTAGTATATAAATATT-TTA
1 TATAT-TA-TATATATATATTATTA
* *
2262644 TATGTTAT-TAATAGTATAGTATTA
1 TATATTATAT-ATA-TATATTATTA
* * *
2262668 TAGTGTGTGTGTATATATA-TA-T-
1 TA-TAT-TATATATATATATTATTA
*
2262690 TATATTATATCATAT-TATATAGTA
1 TATATTATAT-ATATATAT-TATTA
2262714 TATAATT-TAGTATATAATATTTATTA
1 TAT-ATTATA-TATAT-ATA-TTATTA
2262740 T-TATT
1 TATATT
2262745 TTATTAAATG
Statistics
Matches: 148, Mismatches: 17, Indels: 53
0.68 0.08 0.24
Matches are distributed among these distances:
20 5 0.03
21 10 0.07
22 32 0.22
23 41 0.28
24 30 0.20
25 16 0.11
26 12 0.08
27 2 0.01
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (23 bp):
TATATTATATATATATATTATTA
Found at i:2262639 original size:27 final size:28
Alignment explanation
Indices: 2262575--2262639 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 28
2262565 GTATTATATC
*
2262575 ATATAATATACATATATATTTTATACAAT
1 ATATAA-ATATATATATATTTTATACAAT
* *
2262604 AT-TACATATATAT-TATTTTAT-CTAGT
1 ATATAAATATATATATATTTTATAC-AAT
2262630 ATATAAATAT
1 ATATAAATAT
2262640 TTTATATGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
25 1 0.03
26 12 0.40
27 13 0.43
28 2 0.07
29 2 0.07
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.48
Consensus pattern (28 bp):
ATATAAATATATATATATTTTATACAAT
Found at i:2263445 original size:56 final size:56
Alignment explanation
Indices: 2263341--2263446 Score: 140
Period size: 56 Copynumber: 1.9 Consensus size: 56
2263331 TTCAGGGCCT
* *
2263341 CTATTTTTATACTTCTTAATGGAAACAACTGATAGATATACCCGATTTCGAGACCC
1 CTATTTTTATACTTATTAATGGAAACAACTGATAGATATACCCAATTTCGAGACCC
* * * * * *
2263397 CTATTTTTATGCTTATTAATGGCAACAATTGATATATTTACTCAATTTCG
1 CTATTTTTATACTTATTAATGGAAACAACTGATAGATATACCCAATTTCG
2263447 GGGCCCTGTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 42 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (56 bp):
CTATTTTTATACTTATTAATGGAAACAACTGATAGATATACCCAATTTCGAGACCC
Found at i:2264411 original size:21 final size:22
Alignment explanation
Indices: 2264373--2264416 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
2264363 TTTTTTTAAT
*
2264373 ATTAAAAAATAAATATTAATATA
1 ATTAAAAAAT-AAGATTAATATA
2264396 ATTAAAAAAT-AGATTAATATA
1 ATTAAAAAATAAGATTAATATA
2264417 TAATTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
23 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
ATTAAAAAATAAGATTAATATA
Found at i:2264417 original size:23 final size:23
Alignment explanation
Indices: 2264373--2264421 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
2264363 TTTTTTTAAT
*
2264373 ATTAAAAAATAAATATTAATATA
1 ATTAAAAAATAAATAATAATATA
*
2264396 ATTAAAAAATAGATTAAT-ATATA
1 ATTAAAAAATA-AATAATAATATA
2264419 ATT
1 ATT
2264422 TATAAAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
ATTAAAAAATAAATAATAATATA
Found at i:2264646 original size:3 final size:3
Alignment explanation
Indices: 2264632--2264680 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
2264622 TTATATGACA
*
2264632 AAT AAG AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2264680 A
1 A
2264681 TTGAAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2266322 original size:123 final size:121
Alignment explanation
Indices: 2266185--2267174 Score: 475
Period size: 113 Copynumber: 8.6 Consensus size: 121
2266175 AAATTAAGGC
*
2266185 AAGGTTGAACAAATTCTTCTCATTATGAACTTCCTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
2266250 GAACTCTTTTTGGAAATGTTGATGTTGATCTATCTCTTTCTGTGATAGCGTCGAGCAA
66 GAACTCTTTATGGAAATGTTGATGTTGATCTATCTC-TTCTGTGATAGAGTC-AGCAA
*
2266308 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGCTCTTCTCATTAT
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * *
2266373 AAACT-TCATATGGAAATGTTGGTGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAAA
66 GAACTCT-TTATGGAAATGTTGATGTTGATCTATCT-CTTCTGTGATAGAGTCA-GC----AA
** * * *
2266435 AAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTTAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * ** * *
2266500 GAACACTTCTCTGGAAA-----A-GTTGATCCA--TC--GAGTGAT-GAATTCAAACAA
66 GAACTCTT-TATGGAAATGTTGATGTTGATCTATCTCTTCTGTGATAG-AGTC-AGCAA
* *
2266548 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
* * * * * ** * *
2266613 TGAACT-TTCTCTGGCAATGCT-A-----ATCCA--AC--GGGTGAT-GAATTAAAGCAA
65 TGAACTCTT-TATGGAAATGTTGATGTTGATCTATCTCTTCTGTGATAG-AGT-CAGCAA
* *
2266661 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
* ** * * * *** * *
2266726 TAAACTC----T--ACCTGGTAATGTTGATCCA--TC--AAATGAT-GAATTCAAACAA
65 TGAACTCTTTATGGAAATGTTGATGTTGATCTATCTCTTCTGTGATAG-AGTC-AGCAA
* * *
2266774 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTTATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
* * * ** * *
2266839 TGAACT-TTCTCTGGCAATGTT-A-----ATCCA--TC--GGGTGAT-GAATTAAAGCAA
65 TGAACTCTT-TATGGAAATGTTGATGTTGATCTATCTCTTCTGTGATAG-AGT-CAGCAA
*
2266887 AAGGTTGAACAAGTTCTTCTCATTATGAA------C-T--TCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * * *** *
2266943 GAACTCTCTCTGG-CA-----ATGCTGATCCA--TC--GAATGAT-GAATTCAAGCGAA
66 GAACTCTTTATGGAAATGTTGATGTTGATCTATCTCTTCTGTGATAG-AGTC-AGC-AA
*
2266991 AA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
* * * ** *
2267055 TGAACTCTCTCTGGAAA-----A-GTTGATCCA--TC--GAGTGAT-GAATTCGAGCGAA
65 TGAACTCTTTATGGAAATGTTGATGTTGATCTATCTCTTCTGTGATAG-AGTC-AGC-AA
* * *
2267104 AA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTTAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC-CTCTTCAGATGAGTTCTTCTCATTA
2267168 TGAACTC
65 TGAACTC
2267175 GACCTGGCAA
Statistics
Matches: 739, Mismatches: 75, Indels: 116
0.79 0.08 0.12
Matches are distributed among these distances:
98 1 0.00
102 1 0.00
103 79 0.11
104 5 0.01
106 1 0.00
107 4 0.01
108 1 0.00
109 2 0.00
110 1 0.00
113 407 0.55
114 29 0.04
116 1 0.00
117 11 0.01
118 2 0.00
119 4 0.01
120 1 0.00
122 9 0.01
123 107 0.14
124 1 0.00
127 64 0.09
128 8 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (121 bp):
AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCTTTATGGAAATGTTGATGTTGATCTATCTCTTCTGTGATAGAGTCAGCAA
Found at i:2266495 original size:127 final size:122
Alignment explanation
Indices: 2266189--2266619 Score: 438
Period size: 123 Copynumber: 3.5 Consensus size: 122
2266179 TAAGGCAAGG
* *
2266189 TTGAACAAATTCTTCTCATTATGAACTTCCTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATAAAC
* * * * * **
2266254 TCTTTTTGGAAATGTTGATGTTGATCTATCTCTTTCTGTGATAGCGTCGAGCAAAAGG
66 T-TCTATGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCGAGCAAAAAA
*
2266312 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGCTCTTCTCATTATAAAC
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATAAAC
*
2266377 TTCATATGGAAATGTTGGTGCTGATCTATCTCCTTCTGTGATAGAGTC-ATGCAAAAAAAAAA
66 TTC-TATGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCGA-GC----AAAAAA
* * *
2266439 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTTAGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT-AA-
* * ** * * * **
2266504 ACTTCTCTGGAAAAGTTGAT-C----C-A--T-C--GAGTGAT-GAATTCAAACAAAAGG
64 ACTTCTATGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAG-AGTCGAGCAAAAAA
* * *
2266552 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTATAAA
2266617 CTT
65 CTT
2266620 TCTCTGGCAA
Statistics
Matches: 269, Mismatches: 28, Indels: 33
0.82 0.08 0.10
Matches are distributed among these distances:
112 4 0.01
113 40 0.15
114 23 0.09
116 1 0.00
117 9 0.03
118 1 0.00
119 1 0.00
120 1 0.00
122 3 0.01
123 105 0.39
127 62 0.23
128 14 0.05
129 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (122 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATAAAC
TTCTATGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCGAGCAAAAAA
Found at i:2266623 original size:113 final size:113
Alignment explanation
Indices: 2266434--2267407 Score: 1313
Period size: 113 Copynumber: 8.7 Consensus size: 113
2266424 CATGCAAAAA
* *
2266434 AAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTTAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
2266498 ATGAACACTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAAC-
66 ATGAAC-TTTCTCTGGCAATGTTGATCCATCGAATGATGAATTCAAACG
*
2266546 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * **
2266611 TATGAACTTTCTCTGGCAATGCTAATCCAACGGGTGATGAATT-AAA-G
65 TATGAACTTTCTCTGGCAATGTTGATCCATCGAATGATGAATTCAAACG
*
2266658 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCA
1 -AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
2266723 TTATAAACTCTAC-CTGGTAATGTTGATCCATCAAATGATGAATTCAAAC-
64 TTATGAACT-TTCTCTGGCAATGTTGATCCATCGAATGATGAATTCAAACG
* *
2266772 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTTAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* **
2266837 TATGAACTTTCTCTGGCAATGTTAATCCATCGGGTGATGAATT-AAA-G
65 TATGAACTTTCTCTGGCAATGTTGATCCATCGAATGATGAATTCAAACG
2266884 CAAAAGGTTGAACAAGTTCTTCTCATTATGAA----------CTTCTTCAGATGAGTTCTTCTCA
1 -AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
2266939 TTATGAACTCTCTCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
64 TTATGAACTTTCTCTGGCAATGTTGATCCATCGAATGATGAATTCAAACG
2266989 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
2267054 ATGAACTCTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCG
66 ATGAACTTTCTCTGGCAATGTTGATCCATCGAATGATGAATTCAAACG
* *
2267102 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTTAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** *
2267167 ATGAACTCGAC-CTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACT-TTCTCTGGCAATGTTGATCCATCGAATGATGAATTCAAACG
* * *
2267215 AAAAGTTGAACAAGTTCTTCTCATTACGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** *
2267280 ATGAACTCGAC-CTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACT-TTCTCTGGCAATGTTGATCCATCGAATGATGAATTCAAACG
* *
2267328 AAAAGTTGAACAAGTTCTCCTCATTATGAACTTGTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
2267393 ATGAACTCTCTCTGG
66 ATGAACTTTCTCTGG
2267408 AAAAGTTTTA
Statistics
Matches: 776, Mismatches: 62, Indels: 47
0.88 0.07 0.05
Matches are distributed among these distances:
103 86 0.11
104 6 0.01
105 1 0.00
112 13 0.02
113 635 0.82
114 35 0.05
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGCAATGTTGATCCATCGAATGATGAATTCAAACG
Found at i:2267338 original size:442 final size:443
Alignment explanation
Indices: 2266472--2267412 Score: 1390
Period size: 442 Copynumber: 2.1 Consensus size: 443
2266462 AACTTCTTCT
* * * *
2266472 TCTTCTTTAGATGAGTTCTTCTCATTATGAACACTTCTCTGGAAAAGTTGATCCATCGAGTGATG
1 TCTTCTTCAGATGAGTTCTTCTCATTATGAACTC-TCTCTGGAAAAGCTGATCCATCGAATGATG
2266537 AATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGT
65 AATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGT
* * * *
2266602 TCTTCTCATTATGAACTTTCTCTGGCAATGCTAATCCAACGGGTGATGAATTAAAGCAAAAGGTT
130 TCTTCTCATTATGAACTCTCTCTGGAAAAGCTAATCCAACGAGTGATGAATTAAAGCAAAAGGTT
2266667 GAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATAAACT
195 GAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATAAACT
* *
2266732 CTACCTGGTAATGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCAT
260 CGACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCAT
* **
2266797 TATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTTATTATGAACTTTCTCTGGCAATGTTAA
325 TACGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTTATTATGAACTGACTCTGGCAATGTTAA
** *
2266862 TCCATCGGGTGATGAATTAAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAA
390 TCCATCGAATGATGAATTAAAGCAAAAGGTTGAACAAGTTCTCCTCATTATGAA
* *
2266916 -CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGCAATGCTGATCCATCGAATGATGA
1 TCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGCTGATCCATCGAATGATGA
* *
2266980 ATTCAAGCGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
66 ATTCAAAC-AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGT
* * * **
2267044 TCTTCTCATTATGAACTCTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCGAAAA-GT
130 TCTTCTCATTATGAACTCTCTCTGGAAAAGCTAATCCAACGAGTGATGAATTAAAGC-AAAAGGT
* * * *
2267108 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTTAGATGAGTTCTTCTCATTATGAAC
194 TGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATAAAC
* *
2267173 TCGACCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCGAAAA-GTTGAACAAGTTCTTCTC
259 TCGACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC-AAAAGGTTGAACAAGTTCTTCTC
* *
2267237 ATTACGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAC-CTGGCAATGT
323 ATTACGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTTATTATGAACT-GACTCTGGCAATGT
* *
2267301 TGATCCATCGAATGATGAATTCAAGCGAAAA-GTTGAACAAGTTCTCCTCATTATGAA
387 TAATCCATCGAATGATGAATTAAAGC-AAAAGGTTGAACAAGTTCTCCTCATTATGAA
2267358 CTTGTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAG
1 --------T-CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAG
2267413 TTTTAATAAT
Statistics
Matches: 445, Mismatches: 37, Indels: 22
0.88 0.07 0.04
Matches are distributed among these distances:
442 354 0.80
443 48 0.11
452 43 0.10
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (443 bp):
TCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGCTGATCCATCGAATGATGA
ATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTT
CTTCTCATTATGAACTCTCTCTGGAAAAGCTAATCCAACGAGTGATGAATTAAAGCAAAAGGTTG
AACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATAAACTC
GACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATT
ACGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTTATTATGAACTGACTCTGGCAATGTTAAT
CCATCGAATGATGAATTAAAGCAAAAGGTTGAACAAGTTCTCCTCATTATGAA
Found at i:2267556 original size:76 final size:76
Alignment explanation
Indices: 2267440--2267611 Score: 263
Period size: 76 Copynumber: 2.3 Consensus size: 76
2267430 AAACATTCTG
* * * *
2267440 CACTGTAGGGCTTACAGCTGACTCGAAGGTTTTGAAAACATCAAAAAGCTCCCAAAGACTTTTTG
1 CACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGACTTTTTG
*
2267505 GAAACATCATG
66 GAAACATCATA
* * * *
2267516 TACTGTAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTG
1 CACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGACTTTTTG
2267581 GAAACATCATA
66 GAAACATCATA
2267592 CACTGTAGGACTTACAGATG
1 CACTGTAGGACTTACAGATG
2267612 TGGGAAATAG
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 85 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (76 bp):
CACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGACTTTTTG
GAAACATCATA
Found at i:2268317 original size:22 final size:22
Alignment explanation
Indices: 2268289--2268343 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2268279 AATAAAGCTT
*
2268289 TCATCTTTGGAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
2268311 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
2268333 TCATCTTTGAA
1 TCATCTTTGAA
2268344 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:2270987 original size:113 final size:114
Alignment explanation
Indices: 2270825--2271047 Score: 376
Period size: 113 Copynumber: 2.0 Consensus size: 114
2270815 GATAATGCAG
* * *
2270825 TTCATCTTTCAATTCCAATGATTGGTTATGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
2270890 ACACTTCCAGAAGATGCTATTGGGTCCT-TTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCCTCTTATTTCTACTATGAGCAAA
* * *
2270938 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
2271003 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAG
66 ACACTTCCAGAAGATGCTATTGGGTCCTCTTATTTCTACTATGAG
2271048 AACATGGCAC
Statistics
Matches: 102, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
113 86 0.84
114 16 0.16
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCCTCTTATTTCTACTATGAGCAAA
Found at i:2275215 original size:20 final size:20
Alignment explanation
Indices: 2275192--2275230 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2275182 CGAACGTAAA
*
2275192 AATGCAAATATAAAAATGTG
1 AATGCAAACATAAAAATGTG
* *
2275212 AATGTAACCATAAAAATGT
1 AATGCAAACATAAAAATGT
2275231 AAATTGTGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.08, G:0.13, T:0.26
Consensus pattern (20 bp):
AATGCAAACATAAAAATGTG
Found at i:2277688 original size:3 final size:3
Alignment explanation
Indices: 2277674--2277704 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2277664 TATATGACTA
*
2277674 AAT AAG AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2277705 TTGAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2281764 original size:8 final size:8
Alignment explanation
Indices: 2281753--2281778 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2281743 TAGTTCTATT
2281753 TATATCAG
1 TATATCAG
2281761 TATATCAG
1 TATATCAG
2281769 TATATCAG
1 TATATCAG
2281777 TA
1 TA
2281779 CTAGATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (8 bp):
TATATCAG
Found at i:2283010 original size:2 final size:2
Alignment explanation
Indices: 2283003--2283029 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2282993 TTAAGGGTAA
2283003 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2283030 AGAAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2290071 original size:16 final size:16
Alignment explanation
Indices: 2290050--2290083 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
2290040 GTCCCACTTG
2290050 TTGAAAATTCAAAGCA
1 TTGAAAATTCAAAGCA
2290066 TTGAAAATTCAAAGCA
1 TTGAAAATTCAAAGCA
2290082 TT
1 TT
2290084 CTAGAATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (16 bp):
TTGAAAATTCAAAGCA
Found at i:2294639 original size:9 final size:9
Alignment explanation
Indices: 2294625--2294662 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
2294615 ATTGTTGAAA
2294625 ATTCAAAGC
1 ATTCAAAGC
2294634 ATTCAAAGC
1 ATTCAAAGC
*
2294643 ATTGAAA--
1 ATTCAAAGC
2294650 ATTCAAAGC
1 ATTCAAAGC
2294659 ATTC
1 ATTC
2294663 TAGAATAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
7 6 0.24
9 19 0.76
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (9 bp):
ATTCAAAGC
Found at i:2298113 original size:16 final size:17
Alignment explanation
Indices: 2298092--2298129 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2298082 ATCAGCTAAA
2298092 TTTAA-TAAATACA-AAT
1 TTTAATTAAATA-ATAAT
2298108 TTTAATTAAATAATAAT
1 TTTAATTAAATAATAAT
2298125 TTTAA
1 TTTAA
2298130 AAAAGAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTAATTAAATAATAAT
Found at i:2299457 original size:23 final size:23
Alignment explanation
Indices: 2299437--2299504 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
2299427 TTCAATAACA
2299437 TATTAGGTAGAGCTTATATAATG
1 TATTAGGTAGAGCTTATATAATG
2299460 TATTAGGTAGAGCTTATATAATG
1 TATTAGGTAGAGCTTATATAATG
*
2299483 TAATAGGTAGTA-CTTATATAAT
1 TATTAGGTAG-AGCTTATATAAT
2299505 AAAATTGGCA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (23 bp):
TATTAGGTAGAGCTTATATAATG
Found at i:2300009 original size:198 final size:197
Alignment explanation
Indices: 2299583--2300105 Score: 599
Period size: 198 Copynumber: 2.6 Consensus size: 197
2299573 TAGGTATCGC
* * * * * * *
2299583 TTATATTGACCTATTTTCTAACT-AAATCGGTTTATTTATATCGATAACAATGCAAATTTACCTA
1 TTATGTTGACCTATTCTCTAA-TAAAACCGGTATATTTATA-CGATTACATTGTAAATTTACCTA
* * * * *
2299647 TTACATTATAATTATCATTTTCGATGTTTTTGGGATCGATACAATTT--TAAATATATTGACACT
64 TTACATTATAATTATTAGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACT
* *
2299710 TTATGCGTGCACCTCGTTGGGCATTCATTCTAGAAAAAAGTATCGACACATATTTAAAAAGTGTC
128 TTATGCGTGCACCTCGTTGGGCATTCATTCTAGAAAAAAG-ATCGACACAAATTCAAAAAGTGTC
2299775 GATACA
192 GATACA
* *
2299781 TTATGTTGACCTATTCTCTCATAAAACCGGTATATTTATACCGATTACATTGTAAATTTACATAT
1 TTATGTTGACCTATTCTCTAATAAAACCGGTATATTTATA-CGATTACATTGTAAATTTACCTAT
* * * * *
2299846 TACATCATAATTATTGGTTTCAATATTTTTGGGATCGATACTTTTAATAAATGTATCGGCACTTT
65 TACATTATAATTATTAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
* * * * *
2299911 ATTCGTGCACCTCGTTTGGGCATTCCTTCTGGACAATAAG-TCGACACAAATTCCACAAA-TGTC
130 ATGCGTGCACCTCG-TTGGGCATTCATTCTAGA-AAAAAGATCGACACAAATT-CAAAAAGTGTC
2299974 GATACA
192 GATACA
* * * * * * *
2299980 TTATGTTTACCTGTTTTGTAAT-TAACCGGTATATTTATACAAGTTACATTGTTAATTTACCTAT
1 TTATGTTGACCTATTCTCTAATAAAACCGGTATATTTATACGA-TTACATTGTAAATTTACCTAT
* * *
2300044 TATATTATAATTATTAGTTTCGATGTTTTTGGGGTCGATACTTTTAAAAAATGTATCGACAC
65 TACATTATAATTATTAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACAC
2300106 ATCTTTTTTA
Statistics
Matches: 274, Mismatches: 44, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
197 6 0.02
198 177 0.65
199 66 0.24
200 20 0.07
201 5 0.02
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (197 bp):
TTATGTTGACCTATTCTCTAATAAAACCGGTATATTTATACGATTACATTGTAAATTTACCTATT
ACATTATAATTATTAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTA
TGCGTGCACCTCGTTGGGCATTCATTCTAGAAAAAAGATCGACACAAATTCAAAAAGTGTCGATA
CA
Found at i:2302863 original size:19 final size:19
Alignment explanation
Indices: 2302815--2302863 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
2302805 TTACATTCAC
* *
2302815 ATACAAAATTATAAATTGT
1 ATACAAAATTTTAAATCGT
*
2302834 ATACAAAATTTTTAATCGT
1 ATACAAAATTTTAAATCGT
2302853 ATACAAAATTT
1 ATACAAAATTT
2302864 CCCTACATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (19 bp):
ATACAAAATTTTAAATCGT
Found at i:2305317 original size:20 final size:20
Alignment explanation
Indices: 2305294--2305338 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2305284 AATTAACCGG
*
2305294 TATATATCTACC-AGTTACAT
1 TATAAATCTACCTA-TTACAT
*
2305314 TATAAATTTACCTATTACAT
1 TATAAATCTACCTATTACAT
2305334 TATAA
1 TATAA
2305339 TTATCTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (20 bp):
TATAAATCTACCTATTACAT
Found at i:2305329 original size:199 final size:199
Alignment explanation
Indices: 2304434--2305824 Score: 1897
Period size: 199 Copynumber: 7.0 Consensus size: 199
2304424 GGTAATTTAA
* *
2304434 AAAAAGTATCGACACAACTTTAAATAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
2304499 ATATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATATTTATCGGTTTCGATGTTTA
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * * * * *
2304564 TGGGATCAATACTTTTTATAAATGTATTGACACTTTATTCGTACACCACTTTAGGCATTCTTTCT
131 TGGGATCGATACTTTTTATAAATGTATAGACACTTTATTCGTGCACCTCGTTGGGCATTCATTCT
*
2304629 GGTC
196 GGAC
*
2304633 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * ** *
2304698 GTATATTTATACCGATTACATTGTAAAGTTATGTATTACATTATAATTATCGGTTTTGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* ** * * * *
2304763 TGGAATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCA-CTCTTTTAGGCATTCATTC
131 TGGGATCGATACTTTTTATAAATGTATAGACACTTTATTCGTGCACCTC-GTTGGGCATTCATTC
2304826 TGGAC
195 TGGAC
* ** * *
2304831 AAAAAGTATCAACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* *
2304896 GTATATTTCTACCAGTTACATTGTAAAGTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
** * * *
2304961 TGGGATCGATACAATTT-TAAATGTATTGACACTTTATTCGTACA-CTCCGTTGGGCATTCTTTC
131 TGGGATCGATACTTTTTATAAATGTATAGACACTTTATTCGTGCACCT-CGTTGGGCATTCATTC
*
2305024 TGGTC
195 TGGAC
* *
2305029 AAAACGTATCGACGCAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* *
2305094 GTATATTTCTACCGGTTTCATTGTAAATTGACCTATTACATTATAATTATCGGTTTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * *
2305159 TGGGATTGATATTTTTTATAAATGTATAGACACTTTATTCGTGCACCTCGGTTGGTCATTCATTA
131 TGGGATCGATACTTTTTATAAATGTATAGACACTTTATTCGTGCACCTC-GTTGGGCATTCATTC
*
2305224 TGAAC
195 TGGAC
* *
2305229 AAAAAGTATCGACAC-AATTTAAAAAGTGTCGATATATTATGTAGACATATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
2305293 GTATATATCTACCAGTTACATTATAAATTTACCTATTACATTATAATTATC-TTATTCGATGTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGT-TTCGATGTTT
* * *
2305357 TTGGGATCGATAATTTTAATAAATGTATCA-ACACTTTATTCGTGCATCTCGTTGGGCATTCATT
130 TTGGGATCGATACTTTTTATAAATGTAT-AGACACTTTATTCGTGCACCTCGTTGGGCATTCATT
*
2305421 CTGGTC
194 CTGGAC
* *
2305427 AAAACA-TATCAACACAAATTTACAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACC
1 AAAA-AGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACC
* * * * *
2305491 AGTATATTTCTACCGGTTACATTGGAAGTTGACCTATTACATTATAATTATC-TTATTCGATGTT
65 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGT-TTCGATGTT
* *
2305555 TTTGGGATCGAAACTTTTTTATAAATGTATAGACACTTTATTCGTGCACCTCGGTTGGTCATTCA
129 TTTGGGATCGATAC-TTTTTATAAATGTATAGACACTTTATTCGTGCACCTC-GTTGGGCATTCA
*
2305620 TTCTGGAA
192 TTCTGGAC
* *
2305628 AAAAAGTATCCACAC-AATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
2305692 GTATATATCTACTGCTTACATTGTAAATTTACCTATTACATTATAATTATC-TTATTCGATGTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGT-TTCGATGTTT
* *
2305756 TTGGGATCGATAATTTTAATAAATGTATCA-ACACTTTATTCGTGCACCTCGTTGGGCATTCATT
130 TTGGGATCGATACTTTTTATAAATGTAT-AGACACTTTATTCGTGCACCTCGTTGGGCATTCATT
2305820 CTGGA
194 CTGGA
2305825 GATTACTGAA
Statistics
Matches: 1063, Mismatches: 115, Indels: 29
0.88 0.10 0.02
Matches are distributed among these distances:
197 2 0.00
198 397 0.37
199 454 0.43
200 181 0.17
201 29 0.03
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (199 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
TGGGATCGATACTTTTTATAAATGTATAGACACTTTATTCGTGCACCTCGTTGGGCATTCATTCT
GGAC
Found at i:2307103 original size:12 final size:12
Alignment explanation
Indices: 2307088--2307152 Score: 69
Period size: 12 Copynumber: 5.4 Consensus size: 12
2307078 ATTTATATTG
2307088 AAATTCAAACTC
1 AAATTCAAACTC
*
2307100 AAATTGAAA-TC
1 AAATTCAAACTC
2307111 TAAATTCAAACTC
1 -AAATTCAAACTC
* * *
2307124 AAATTGAAATTT
1 AAATTCAAACTC
2307136 AAATTCAAACTC
1 AAATTCAAACTC
*
2307148 CAATT
1 AAATT
2307153 ACATATGAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
11 2 0.05
12 38 0.90
13 2 0.05
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (12 bp):
AAATTCAAACTC
Found at i:2307109 original size:6 final size:6
Alignment explanation
Indices: 2307088--2307144 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
2307078 ATTTATATTG
* * * * *
2307088 AAATTC AAACTC AAATTG AAA-TC TAAATTC AAACTC AAATTG AAATTT
1 AAATTC AAATTC AAATTC AAATTC -AAATTC AAATTC AAATTC AAATTC
2307136 AAATTC AAA
1 AAATTC AAA
2307145 CTCCAATTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
5 1 0.03
6 37 0.93
7 2 0.05
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:2307163 original size:24 final size:24
Alignment explanation
Indices: 2307084--2307152 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
2307074 CGAAATTTAT
2307084 ATTGAAATTCAAACTCAAATTGAA
1 ATTGAAATTCAAACTCAAATTGAA
2307108 ATCT-AAATTCAAACTCAAATTGAA
1 AT-TGAAATTCAAACTCAAATTGAA
* *
2307132 ATTTAAATTCAAACTCCAATT
1 ATTGAAATTCAAACTCAAATT
2307153 ACATATGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 1 0.02
24 40 0.95
25 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (24 bp):
ATTGAAATTCAAACTCAAATTGAA
Found at i:2308506 original size:6 final size:6
Alignment explanation
Indices: 2308499--2308532 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
2308489 GTTTGGATCA
* *
2308499 TCATCA TCATCT TCATCT TCATCG TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCAT
2308533 TGACCGCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44
Consensus pattern (6 bp):
TCATCT
Found at i:2310632 original size:200 final size:201
Alignment explanation
Indices: 2310059--2311225 Score: 1786
Period size: 201 Copynumber: 5.8 Consensus size: 201
2310049 ACAAAATTTT
* *
2310059 AAAAAGTATCGACACAAACA-TAAAAAGTGTTGATACATTATGTAGACCTATCCTCTCTTAAAAC
1 AAAAAGTATCGACACAAA-ATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTAAAAC
** * *
2310123 TAGTATATTTATACTGGTTACATTGAAAAATTACCTATTACATTATAATTATGAATTTCGATGTT
65 CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCGATGTT
*
2310188 TTTGGGATCGATACTTTTCATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
130 TTTGGGATCGATACTTTTCATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
*
2310253 TTTGGAC
195 TATGGAC
* *
2310260 AAAAAGTATCGACACAAAATTAAAAAATATCGATACATTATGTAGACCTATTCTCTCTTAAAACC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTAAAACC
* *
2310325 AGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTTGATGTTT
66 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTT
* * * *
2310390 TTGGGATTGATACTTTTCATAAATGTATTGACACTTTATGCGTGCATCTAGTTTGGGCATTCATT
131 TTGGGATCGATACTTTTCATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATT
**
2310455 ATAAAC
196 ATGGAC
* * *
2310461 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTACTCTATCTTAAAA-T
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTAAAACC
*
2310525 GGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTT
66 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTT
*
2310590 TTGGGATCGATACTTTTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATT
131 TTGGGATCGATACTTTTCATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATT
* *
2310655 CTAGAC
196 ATGGAC
* * * * * *
2310661 AAAAAGTATAGACACAAACTTAAAAAGTATCGATACATTATTTAGA-CTATTATCTCATAAAACC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTAAAACC
* * * *
2310725 GATATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATATTT
66 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTT
* *
2310790 TTGGGATCGATACTTTTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGAATTCATT
131 TTGGGATCGATACTTTTCATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATT
*
2310855 CTGGAC
196 ATGGAC
* * * * *
2310861 GAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTAAT-TAGACCTATTTTCTCATAAAAT
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATT-ATGTAGACCTATTCTCTCTTAAAAC
* * *
2310925 CGGTATATTTATACCGGTTACATTGAAAAATTACTTATTACATTATAATTATGGGTTTCGATATT
65 CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCGATGTT
*
2310990 TTTGGGATCGATACTTTTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
130 TTTGGGATCGATACTTTTCATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
2311055 TATGGAC
195 TATGGAC
2311062 AAAAAGTATCGACACAAACA-TAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTAAAAC
1 AAAAAGTATCGACACAAA-ATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTAAAAC
* ** * * *
2311126 CGGTATATTTATTCTAGTTACATTGAAAACTTATCTATTACATTATAATTATGCGTTTCGATGTT
65 CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCGATGTT
*
2311191 TTTGGGATCGATACTTTTCATAAATGTATCGACAC
130 TTTGGGATCGATACTTTTCATAAATATATCGACAC
2311226 ATCTGTTTAC
Statistics
Matches: 890, Mismatches: 70, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
199 12 0.01
200 340 0.38
201 538 0.60
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (201 bp):
AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTAAAACC
GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTT
TTGGGATCGATACTTTTCATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATT
ATGGAC
Found at i:2311694 original size:19 final size:19
Alignment explanation
Indices: 2311670--2311718 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2311660 TTACATTAAC
2311670 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
2311689 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2311708 ATACAAAATTA
1 ATACAAAATTA
2311719 ACCCTAGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2313992 original size:22 final size:24
Alignment explanation
Indices: 2313964--2314018 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
2313954 AACCTGCATT
2313964 TATAATAAAAT-T-TATCATTTTA
1 TATAATAAAATGTATATCATTTTA
*
2313986 TATAAT-AACTGTACTATCATTTTA
1 TATAATAAAATGTA-TATCATTTTA
2314010 TATAA-AAAA
1 TATAATAAAA
2314019 CAAAAACGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.11
22 7 0.26
24 17 0.63
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (24 bp):
TATAATAAAATGTATATCATTTTA
Found at i:2316291 original size:182 final size:181
Alignment explanation
Indices: 2315963--2316627 Score: 980
Period size: 182 Copynumber: 3.7 Consensus size: 181
2315953 TTATTACGCG
*
2315963 TACTTAT-TAAAGTAACGA-AACTTTCAATATAT-CAGGTAGCGCTTTACCGGTTTTGTCATTTC
1 TACTTATATAAAGTATCGACAA-TTTCAATATATCCA-GTAGCGCTTTACCGGTTTTGTCATTTC
* *
2316025 GAGACCGGTTTTGTCATATTTGTACATGTTATATCGTTATGGATCGATACATTTTTATAAAGTAT
64 GAGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTAT
* *
2316090 CGACACTTTATAGGCGCTATTAGTGCTTCTCTTTTAAATTCCCAAAGTGTCGA
129 CGACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTATCGA
*
2316143 TACTTATATGAAAGTATCGACAATTTCAATATATTCAGTAGCGCTTTACCGGTTTTGTCATTTCG
1 TACTTATAT-AAAGTATCGACAATTTCAATATATCCAGTAGCGCTTTACCGGTTTTGTCATTTCG
*
2316208 AGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACTTTTTTATAAAGTATC
65 AGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATC
* * *
2316273 GACACTTTATTGGCGCTATTACTGGTTCTCTTTGAAATTCCCAAAGTATCGA
130 GACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTATCGA
* *
2316325 TACTTATATTAAAGTATCGACACTTTCAATATATCCAATAGCGCTTTACCGGTTTTGTCATTTCG
1 TACTTATA-TAAAGTATCGACAATTTCAATATATCCAGTAGCGCTTTACCGGTTTTGTCATTTCG
* * *
2316390 AGACCGGTTTTATCATATTTTTACCTGTTATATCATTATGGATCAATACATTTTTATAAAGTATC
65 AGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATC
*
2316455 GACACTTTATAGGCGCTATTACTACTTCTCTTTTAAATTCCCAAAGTATCGA
130 GACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTATCGA
* ** * * * * *
2316507 TACTTATTTCAATCTAATCGATACTTTCAACATATCCGGTAGCGCTTTACCGATTTTGTCATAAT
1 TACTTATAT-AAAGT-ATCGACAATTTCAATATATCCAGTAGCGCTTTACCGGTTTTGTCAT--T
* * *
2316572 T--AAACCGGTTTTGTCATATTTTTACCTGTTATATTGATATGGATCGATACATTTTT
62 TCGAGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTT
2316628 TATTTGGATC
Statistics
Matches: 442, Mismatches: 34, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
180 7 0.02
181 2 0.00
182 336 0.76
183 95 0.21
185 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (181 bp):
TACTTATATAAAGTATCGACAATTTCAATATATCCAGTAGCGCTTTACCGGTTTTGTCATTTCGA
GACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCG
ACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTATCGA
Found at i:2318223 original size:19 final size:18
Alignment explanation
Indices: 2318172--2318223 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
2318162 TTGGAAGAGT
*
2318172 GTTTTGGGAT-ATATGGG
1 GTTTTGGGATCATATCGG
*
2318189 GTTTTGGTATCTATATCGG
1 GTTTTGGGATC-ATATCGG
2318208 GTTTTGGGATACATAT
1 GTTTTGGGAT-CATAT
2318224 GATATCATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 9 0.31
19 19 0.66
20 1 0.03
ACGTcount: A:0.19, C:0.06, G:0.31, T:0.44
Consensus pattern (18 bp):
GTTTTGGGATCATATCGG
Found at i:2325083 original size:21 final size:23
Alignment explanation
Indices: 2325059--2325105 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2325049 TGATTTTTGC
2325059 ATATGA-TGTTATCATGAAT-AT
1 ATATGATTGTTATCATGAATGAT
*
2325080 ATATGATTTTTTATCATGAATGAT
1 ATATGA-TTGTTATCATGAATGAT
2325104 AT
1 AT
2325106 TATGGGTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
23 12 0.55
24 4 0.18
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (23 bp):
ATATGATTGTTATCATGAATGAT
Found at i:2325582 original size:45 final size:45
Alignment explanation
Indices: 2325493--2325617 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 45
2325483 GTAAGCATAC
* * *
2325493 AAATAAGCTTACAAGCTTATGG-AATAATGGTGAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGTAAAAATGGTAAGTATATGGGTA
* * *
2325537 AAATAAGCTTATGAGCTTATGGTAAAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGTAAAAATGGTAAGTATATGGGTA
*
2325582 AAATAATCTTACGAGCTTATGGTTAATAAATGGTAA
1 AAATAAGCTTACGAGCTTATGG-TAA-AAATGGTAA
2325618 AATATTGGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
44 20 0.29
45 38 0.54
46 3 0.04
47 9 0.13
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGTAAAAATGGTAAGTATATGGGTA
Found at i:2328113 original size:30 final size:30
Alignment explanation
Indices: 2328077--2328139 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
2328067 CTCGTGATTA
2328077 TTCAGCTATCATGAGGCATAAGCCAAAACT
1 TTCAGCTATCATGAGGCATAAGCCAAAACT
*
2328107 TTCAGCTATCTTGAGGCATAAGCCAAAACT
1 TTCAGCTATCATGAGGCATAAGCCAAAACT
2328137 TTC
1 TTC
2328140 CCATCTTGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (30 bp):
TTCAGCTATCATGAGGCATAAGCCAAAACT
Found at i:2334839 original size:13 final size:13
Alignment explanation
Indices: 2334823--2334875 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
2334813 TCAATGAGTT
2334823 TCATAAATGCGCG
1 TCATAAATGCGCG
* *
2334836 TCATAAATGTGAG
1 TCATAAATGCGCG
* *
2334849 TCAGAAATGCGTG
1 TCATAAATGCGCG
2334862 TCATAAATGCGCG
1 TCATAAATGCGCG
2334875 T
1 T
2334876 AATAGATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (13 bp):
TCATAAATGCGCG
Found at i:2336935 original size:138 final size:138
Alignment explanation
Indices: 2336687--2336943 Score: 390
Period size: 138 Copynumber: 1.9 Consensus size: 138
2336677 CATCAAAGTG
* * * *
2336687 TCGAAATGGAAATTCAGAAACTCATTATGAATTCCATGGATGCACACATAGTGCCGAAAGTACAC
1 TCGAAATGGAAATTCACAAACGCATTATGAATACCATAGATGCACACATAGTGCCGAAAGTACAC
* * *
2336752 ATAGTATTGATACAAAAATGCATCATTATGCATTAAACAAAATCGATCGATAACTTTTATACATA
66 ATAGTACTGATACAAAAATGCACCATTATACATTAAACAAAATCGATCGATAACTTTTATACATA
2336817 ATTTTATA
131 ATTTTATA
* * * *
2336825 TCGAAATGGTAATTCACAATCGCATTATGAATACCATAGTTGCACATC-TAGTGTCGAAAGTACA
1 TCGAAATGGAAATTCACAAACGCATTATGAATACCATAGATGCACA-CATAGTGCCGAAAGTACA
*
2336889 CATAGTACTGATACAAAAATGCACCGTTATACATTAAACAAAATCGATCGATAAC
65 CATAGTACTGATACAAAAATGCACCATTATACATTAAACAAAATCGATCGATAAC
2336944 CATTTCATAC
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
138 105 0.99
139 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.28
Consensus pattern (138 bp):
TCGAAATGGAAATTCACAAACGCATTATGAATACCATAGATGCACACATAGTGCCGAAAGTACAC
ATAGTACTGATACAAAAATGCACCATTATACATTAAACAAAATCGATCGATAACTTTTATACATA
ATTTTATA
Found at i:2343687 original size:49 final size:49
Alignment explanation
Indices: 2343630--2343727 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
2343620 GACAATCTTG
*
2343630 AAGCGGATAAAGTTCTACAAGAGAACAAGAATGAAAGGAACCTCTCAAA
1 AAGCGGATAAAGTTCTACAAGAGAACAAGAATAAAAGGAACCTCTCAAA
2343679 AAGCGGATAAAGTTCTACAAGAGAACAAGAATAAAAGGAACCTCTCAAA
1 AAGCGGATAAAGTTCTACAAGAGAACAAGAATAAAAGGAACCTCTCAAA
2343728 GATATTTTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.50, C:0.16, G:0.19, T:0.14
Consensus pattern (49 bp):
AAGCGGATAAAGTTCTACAAGAGAACAAGAATAAAAGGAACCTCTCAAA
Found at i:2349838 original size:18 final size:18
Alignment explanation
Indices: 2349815--2349853 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
2349805 CTTTGAATGA
2349815 TTCCTATGAATTTTATGC
1 TTCCTATGAATTTTATGC
2349833 TTCCTATGAATTTTATGC
1 TTCCTATGAATTTTATGC
2349851 TTC
1 TTC
2349854 GTGATCGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.18, G:0.10, T:0.51
Consensus pattern (18 bp):
TTCCTATGAATTTTATGC
Found at i:2353993 original size:56 final size:56
Alignment explanation
Indices: 2353829--2354748 Score: 503
Period size: 56 Copynumber: 16.8 Consensus size: 56
2353819 CTTTAATCAT
** * * * *
2353829 AACTTGGATAAGTTAATACATTACAACTTTATTTAAACCTCCAT-TTTTAATGTGAC
1 AACTTGGATAAGTTAA-ACATTACAAAGTTATTCAAACTTCCATCTTTGAATGTAAC
* * * ** * * *
2353885 AATTTGGATAACTT----ATTACAACGAAATTGAAATTTCCGT-TCTTGAATGTAAC
1 AACTTGGATAAGTTAAACATTACAAAGTTATTCAAACTTCCATCT-TTGAATGTAAC
* * * * *
2353937 AACTTTGATATGTTAAATATTAAAAAGTTATTCAAACTTTCATCTTTGAATGTAAC
1 AACTTGGATAAGTTAAACATTACAAAGTTATTCAAACTTCCATCTTTGAATGTAAC
* * * * * * *
2353993 AACTTGGACAAGATAAGACATTACAACGCTA--CATAATCTTCCATATTTTAATTTAAC
1 AACTTGGATAAGTTAA-ACATTACAAAGTTATTCA-AA-CTTCCATCTTTGAATGTAAC
* * * * * * *
2354050 AACTTAGATAAGTTAAAC-TCTACAAAGCTCTTTAATCTTCCATCTTTAAATATAAC
1 AACTTGGATAAGTTAAACAT-TACAAAGTTATTCAAACTTCCATCTTTGAATGTAAC
* ** * ** * *
2354106 AACCTACATAAGTTAAATATTTGAATGTTATTCAAACTTCCATCTTTGACTGTAAC
1 AACTTGGATAAGTTAAACATTACAAAGTTATTCAAACTTCCATCTTTGAATGTAAC
* * * *
2354162 AACTTGGATAAGTTAAACATTAGAATGTTATTTAAACTTCTATCTTTGAATGTAAC
1 AACTTGGATAAGTTAAACATTACAAAGTTATTCAAACTTCCATCTTTGAATGTAAC
* * *
2354218 AACTTGGATAAGTTAAACATTACTATA-TTATTCAAACTTCCATCCTTGAAT-AAAGC
1 AACTTGGATAAGTTAAACATTAC-AAAGTTATTCAAACTTCCATCTTTGAATGTAA-C
** * * *
2354274 AACAAGGATAAGTTAAGCATTAC-AA---A--C---C-TCTATCTTTAAATGTAAC
1 AACTTGGATAAGTTAAACATTACAAAGTTATTCAAACTTCCATCTTTGAATGTAAC
** * ** * *
2354320 AGTTTGGATAAGTTAAAC-TCTACAACGCCATTCAAACTTCCATATTTGAATGTAGC
1 AACTTGGATAAGTTAAACAT-TACAAAGTTATTCAAACTTCCATCTTTGAATGTAAC
* * * * * *
2354376 AACTTAGATAAGTTAAAC-TCTACAACGCTATTCAAACTTTCATATATGAATGTAAC
1 AACTTGGATAAGTTAAACAT-TACAAAGTTATTCAAACTTCCATCTTTGAATGTAAC
* * * * * * *
2354432 GACTTGGATAAGTTAAATATTA-AAATGTTATTCAACCTTCCATCATTCAGTGTAAT
1 AACTTGGATAAGTTAAACATTACAAA-GTTATTCAAACTTCCATCTTTGAATGTAAC
* * * * * * * * *
2354488 AATTTGGACAAGATAAGACATTACAATGCTATACAAATTTCCATCTTTTAATATAAC
1 AACTTGGATAAGTTAA-ACATTACAAAGTTATTCAAACTTCCATCTTTGAATGTAAC
* * * * *
2354545 GACTTAGATAAGTTAAAC-TCTACAACA-CTATTCAATCTTCCATCTTTGAATATAAC
1 AACTTGGATAAGTTAAACAT-TACAA-AGTTATTCAAACTTCCATCTTTGAATGTAAC
* * ** * * * *
2354601 AACCAT--ATAAGTTAAATATTACAACTTTAGTCAAAATTCCATCTTTAAATCTAAC
1 AA-CTTGGATAAGTTAAACATTACAAAGTTATTCAAACTTCCATCTTTGAATGTAAC
* * *
2354656 AAATTGGAGAAGTT--A-A--AC-AA--TATTCAAACTTCTATCTTTGAATGTAAC
1 AACTTGGATAAGTTAAACATTACAAAGTTATTCAAACTTCCATCTTTGAATGTAAC
* * * *
2354704 AATTTGGATAAG-TAGAAC-TCTACAATGCTATTCAAATTTCCATCT
1 AACTTGGATAAGTTA-AACAT-TACAAAGTTATTCAAACTTCCATCT
2354749 ATATTAAAAC
Statistics
Matches: 656, Mismatches: 160, Indels: 96
0.72 0.18 0.11
Matches are distributed among these distances:
45 1 0.00
46 27 0.04
47 5 0.01
48 33 0.05
50 4 0.01
51 21 0.03
52 21 0.03
53 3 0.00
54 4 0.01
55 49 0.07
56 402 0.61
57 83 0.13
58 3 0.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.35
Consensus pattern (56 bp):
AACTTGGATAAGTTAAACATTACAAAGTTATTCAAACTTCCATCTTTGAATGTAAC
Done.