Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 66 of 91
Found at i:23832219 original size:15 final size:15
Alignment explanation
Indices: 23832195--23832254 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
23832185 AAAAATTTTA
23832195 TATATATTTTT-TAT
1 TATATATTTTTATAT
*
23832209 TATACTATTTTTATTT
1 TATA-TATTTTTATAT
23832225 TATATATTTTTATAT
1 TATATATTTTTATAT
* *
23832240 T-TTTATTATTATAT
1 TATATATTTTTATAT
23832254 T
1 T
23832255 TTTTCATAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
14 16 0.40
15 18 0.45
16 6 0.15
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TATATATTTTTATAT
Found at i:23832240 original size:23 final size:23
Alignment explanation
Indices: 23832214--23832258 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
23832204 TTTATTATAC
23832214 TATTTTTATT-TTATATATTTTTA
1 TATTTTTATTATTATAT-TTTTTA
23832237 TATTTTTATTATTATATTTTTT
1 TATTTTTATTATTATATTTTTT
23832259 CATAAGCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (23 bp):
TATTTTTATTATTATATTTTTTA
Found at i:23832249 original size:17 final size:15
Alignment explanation
Indices: 23832189--23832237 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 15
23832179 GTGAACAAAA
23832189 ATTTTATATATATTTT
1 ATTTTATATAT-TTTT
23832205 -TTATTATACTATTTTT
1 ATT-TTATA-TATTTTT
23832221 ATTTTATATATTTTT
1 ATTTTATATATTTTT
23832236 AT
1 AT
23832238 ATTTTTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 11 0.37
16 14 0.47
17 5 0.17
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTATATATTTTT
Found at i:23832406 original size:17 final size:18
Alignment explanation
Indices: 23832386--23832423 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
23832376 TTAATTTTAA
23832386 ATTAGTTATTTTTT-TTT
1 ATTAGTTATTTTTTATTT
*
23832403 ATTATTTATTTTTTATTT
1 ATTAGTTATTTTTTATTT
23832421 ATT
1 ATT
23832424 TAATGTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (18 bp):
ATTAGTTATTTTTTATTT
Found at i:23832414 original size:15 final size:15
Alignment explanation
Indices: 23832391--23832425 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
23832381 TTTAAATTAG
23832391 TTATTT-TTTTTTA-
1 TTATTTATTTTTTAT
23832404 TTATTTATTTTTTAT
1 TTATTTATTTTTTAT
23832419 TTATTTA
1 TTATTTA
23832426 ATGTCATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 7 0.35
15 7 0.35
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTATTTATTTTTTAT
Found at i:23832806 original size:13 final size:13
Alignment explanation
Indices: 23832788--23832841 Score: 72
Period size: 14 Copynumber: 4.0 Consensus size: 13
23832778 TATAAAGCTA
23832788 TATTATTATTTTT
1 TATTATTATTTTT
23832801 TATTATTATTTTTT
1 TATTATTA-TTTTT
*
23832815 TATTCATTATTTAT
1 TATT-ATTATTTTT
*
23832829 TATTATAATTTTT
1 TATTATTATTTTT
23832842 ATGACTCACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 15 0.42
14 17 0.47
15 4 0.11
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTATTATTTTT
Found at i:23832830 original size:25 final size:25
Alignment explanation
Indices: 23832790--23832843 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
23832780 TAAAGCTATA
* *
23832790 TTATTATTTTTTATTATTAT-TTTT
1 TTATTATTATTTATTATTATAATTT
23832814 TTATTCATTATTTATTATTATAATTT
1 TTATT-ATTATTTATTATTATAATTT
23832840 TTAT
1 TTAT
23832844 GACTCACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 5 0.19
25 14 0.54
26 7 0.27
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (25 bp):
TTATTATTATTTATTATTATAATTT
Found at i:23832831 original size:28 final size:27
Alignment explanation
Indices: 23832788--23832841 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
23832778 TATAAAGCTA
* *
23832788 TATTATTATTTTTTATTATTATTTTTT
1 TATTATTATTTATTATTATAATTTTTT
23832815 TATTCATTATTTATTATTATAATTTTT
1 TATT-ATTATTTATTATTATAATTTTT
23832842 ATGACTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (27 bp):
TATTATTATTTATTATTATAATTTTTT
Found at i:23833979 original size:21 final size:22
Alignment explanation
Indices: 23833961--23834001 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
23833951 CCCTTTTTCT
23833961 ATTTTT-CTATTTTT-TTTTTA
1 ATTTTTACTATTTTTATTTTTA
*
23833981 ATTTTTATTATTTTTATTTTT
1 ATTTTTACTATTTTTATTTTT
23834002 TTAATTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (22 bp):
ATTTTTACTATTTTTATTTTTA
Found at i:23834012 original size:28 final size:26
Alignment explanation
Indices: 23833955--23834041 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
23833945 TCTCCACCCT
*
23833955 TTTTCTATTTTTCTATTTTTTTTTTAA
1 TTTT-TATTTTTCTATTTTTTTATTAA
* *
23833982 TTTTTATTATTTTTATTTTTTTAATTCA
1 TTTTTATT-TTTCTATTTTTTT-ATTAA
* *
23834010 TTTTT-TGTTTATGATTTTTGTTA-TAA
1 TTTTTATTTTTCT-ATTTTT-TTATTAA
23834036 TTTTTA
1 TTTTTA
23834042 GTGTCTACAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
26 15 0.31
27 24 0.49
28 10 0.20
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (26 bp):
TTTTTATTTTTCTATTTTTTTATTAA
Found at i:23834317 original size:5 final size:5
Alignment explanation
Indices: 23834307--23834332 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23834297 TAGTGTGATA
23834307 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
23834333 AGGGAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:23847911 original size:240 final size:241
Alignment explanation
Indices: 23847488--23847968 Score: 919
Period size: 240 Copynumber: 2.0 Consensus size: 241
23847478 TCAGATGTCT
*
23847488 TATTAACAGTGAAAATGCAAACAAGTATTTGTCATTATATTATGATCTAGAACTACAGAAGTGAG
1 TATTAACAATGAAAATGCAAACAAGTATTTGTCATTATATTATGATCTAGAACTACAGAAGTGAG
*
23847553 ACTAGATGAAATTGTTCAACAACATTGAACGGAACATGACGGGAAAGCATATTAGGAGACAATGT
66 ACTAGATGAAATTGTTCAACAACATTGAACGGAACATGACGGGAAAGCATATTAGGAGACAAAGT
23847618 GAATGTGGATATGACCTTTGGGCCATTTATTATTCACTTGTCGGGAAGGAATGACTTCCTGATTA
131 GAATGTGGATATGACCTTTGGGCCATTTATTATTCACTTGTCGGGAAGGAATGACTTCCTGATTA
23847683 TATAAACAAAGTCCAGCTGAAATTAAAT-AAAAAAAAAAAATCAAG
196 TATAAACAAAGTCCAGCTGAAATTAAATAAAAAAAAAAAAATCAAG
23847728 TATTAACAATGAAAATGCAAACAAGTATTTGTCATTATATTATGATCTAGAACTACAGAAGTGAG
1 TATTAACAATGAAAATGCAAACAAGTATTTGTCATTATATTATGATCTAGAACTACAGAAGTGAG
*
23847793 ACTAGATGAAATTGTTCAACAACATTGAACGGAACATGACGGGGAAGCATATTAGGAGACAAAGT
66 ACTAGATGAAATTGTTCAACAACATTGAACGGAACATGACGGGAAAGCATATTAGGAGACAAAGT
23847858 GAATGTGGATATGACCTTTGGGCCATTTATTATTCACTTGTCGGGAAGGAATGACTTCCTGATTA
131 GAATGTGGATATGACCTTTGGGCCATTTATTATTCACTTGTCGGGAAGGAATGACTTCCTGATTA
*
23847923 TATAAACAAAGTCTAGCTGAAATTAAATAAAAAAAAAAAAATCAAG
196 TATAAACAAAGTCCAGCTGAAATTAAATAAAAAAAAAAAAATCAAG
23847969 CTGTTAGCAG
Statistics
Matches: 236, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
240 219 0.93
241 17 0.07
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (241 bp):
TATTAACAATGAAAATGCAAACAAGTATTTGTCATTATATTATGATCTAGAACTACAGAAGTGAG
ACTAGATGAAATTGTTCAACAACATTGAACGGAACATGACGGGAAAGCATATTAGGAGACAAAGT
GAATGTGGATATGACCTTTGGGCCATTTATTATTCACTTGTCGGGAAGGAATGACTTCCTGATTA
TATAAACAAAGTCCAGCTGAAATTAAATAAAAAAAAAAAAATCAAG
Found at i:23858481 original size:14 final size:14
Alignment explanation
Indices: 23858462--23858497 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
23858452 TAGATAATTT
*
23858462 ATTTAAAAACTATA
1 ATTTAAAAAATATA
*
23858476 ATTTAAAAAATATT
1 ATTTAAAAAATATA
23858490 ATTTAAAA
1 ATTTAAAA
23858498 TATCAATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTTAAAAAATATA
Found at i:23861897 original size:32 final size:33
Alignment explanation
Indices: 23861816--23861894 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 33
23861806 TTTCAATGTC
*
23861816 ATATATTTTATTTTTATTATAATTTTAGATATT
1 ATATATTTTATTTTTAATATAATTTTAGATATT
**
23861849 -T-TATTTTCATTTTTAATATAATTTTTTATATT
1 ATATATTTT-ATTTTTAATATAATTTTAGATATT
*
23861881 ATATATATTATTTT
1 ATATATTTTATTTT
23861895 AATTTTTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
31 6 0.15
32 22 0.56
33 6 0.15
34 5 0.13
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (33 bp):
ATATATTTTATTTTTAATATAATTTTAGATATT
Found at i:23865623 original size:23 final size:23
Alignment explanation
Indices: 23865597--23865667 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
23865587 TACAAACATA
23865597 TTTTTATTATAATTTAATAATAT
1 TTTTTATTATAATTTAATAATAT
** *
23865620 TTTTTATT-TGAAGATAATTAA-AC
1 TTTTTATTAT-AATTTAA-TAATAT
* *
23865643 CTTTTATTATAATTAAATAATAT
1 TTTTTATTATAATTTAATAATAT
23865666 TT
1 TT
23865668 AATATTACAA
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
22 4 0.11
23 27 0.77
24 4 0.11
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (23 bp):
TTTTTATTATAATTTAATAATAT
Found at i:23865750 original size:41 final size:43
Alignment explanation
Indices: 23865695--23865786 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 43
23865685 TATATTCTTC
* * *
23865695 ATTAAATTTAAAT-AATACTAAATAATATT-TTTAT-TTCATTT
1 ATTATATTCAAATAAATACTAAATAATATTGTTTATAAT-ATTT
*
23865736 ATTATATTCAAATAAGAATATTAAATAATATTGTTTATAATATTT
1 ATTATATTCAAAT-A-AATACTAAATAATATTGTTTATAATATTT
23865781 ATTATA
1 ATTATA
23865787 GTTAAATTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
41 11 0.26
44 15 0.36
45 15 0.36
46 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (43 bp):
ATTATATTCAAATAAATACTAAATAATATTGTTTATAATATTT
Found at i:23873131 original size:82 final size:82
Alignment explanation
Indices: 23872984--23873184 Score: 217
Period size: 82 Copynumber: 2.4 Consensus size: 82
23872974 GCATAATATG
* * * * *
23872984 TTTTTGTACATGACGTGTAACAACAATATTTGGTTTTTTCAACATGACATGTAATAACTTTTTTT
1 TTTTTGTACATAACCTGTAACAATAATATTT--TTTTTTCAACATGACATGTAACAACTTCTTTT
23873049 AACAATTG-CGTGTAACATA
64 AACAA-TGACGTGTAACATA
* *
23873068 TTTTTGTACATAACCTGTAACAATAATATTTTTTTTTCAATATGGCATGTAACAACTTCTTTTAA
1 TTTTTGTACATAACCTGTAACAATAATATTTTTTTTTCAACATGACATGTAACAACTTCTTTTAA
** *
23873133 TTATGACGTGTAATATA
66 CAATGACGTGTAACATA
* * * * *
23873150 TATATGTATATAGCAC-GTAATAATAATATTTTTTT
1 TTTTTGTACATAAC-CTGTAACAATAATATTTTTTT
23873185 AACATGATGT
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
81 2 0.02
82 69 0.69
83 1 0.01
84 28 0.28
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (82 bp):
TTTTTGTACATAACCTGTAACAATAATATTTTTTTTTCAACATGACATGTAACAACTTCTTTTAA
CAATGACGTGTAACATA
Found at i:23876263 original size:17 final size:17
Alignment explanation
Indices: 23876241--23876290 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
23876231 AAGACAATTT
23876241 TCATTTTGTTTATAAAA
1 TCATTTTGTTTATAAAA
** *
23876258 TCATTTTCATTA-AATCA
1 TCATTTTGTTTATAA-AA
23876275 -CATTTTGTTTATAAAA
1 TCATTTTGTTTATAAAA
23876291 CAAAAAAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 5
0.69 0.17 0.14
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (17 bp):
TCATTTTGTTTATAAAA
Found at i:23877028 original size:27 final size:26
Alignment explanation
Indices: 23876973--23877029 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
23876963 TTTTTATTTT
*
23876973 ATTT-TTTAAATATTAATAATTGGTA
1 ATTTATTTAAATATTAATAATTGATA
*
23876998 ATTTATTTAAAATATTAATAATTGATG
1 ATTTATTT-AAATATTAATAATTGATA
23877025 ATTTA
1 ATTTA
23877030 AGTATTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 4 0.14
26 3 0.11
27 21 0.75
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (26 bp):
ATTTATTTAAATATTAATAATTGATA
Found at i:23884569 original size:24 final size:26
Alignment explanation
Indices: 23884522--23884570 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
23884512 GGCTTAATAA
*
23884522 AATATTATTATTTTATTTACCTTTTG
1 AATATTATTATTATATTTACCTTTTG
*
23884548 AATATT-TTATTAT-TTTATCTTTT
1 AATATTATTATTATATTTACCTTTT
23884571 TCTAGCCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 6 0.29
26 6 0.29
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (26 bp):
AATATTATTATTATATTTACCTTTTG
Found at i:23895548 original size:29 final size:29
Alignment explanation
Indices: 23895441--23895551 Score: 107
Period size: 29 Copynumber: 3.8 Consensus size: 29
23895431 AATAGAGAAG
* * *
23895441 AGCTGTACGTGAATAGGTATAA-AGGAGGA
1 AGCTGTACGTGAATAGGTACAAGA-AAAGA
* * *
23895470 AGCTGTACGTGAATAGGCAGAAGAGAAGA
1 AGCTGTACGTGAATAGGTACAAGAAAAGA
* * *
23895499 AGCTATACATGAATAGGTACAATAAAAGA
1 AGCTGTACGTGAATAGGTACAAGAAAAGA
* *
23895528 AGCTGTACGTGAACAGATACAAGA
1 AGCTGTACGTGAATAGGTACAAGA
23895552 GAATAAGGTA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
29 66 0.99
30 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.28, T:0.18
Consensus pattern (29 bp):
AGCTGTACGTGAATAGGTACAAGAAAAGA
Found at i:23895552 original size:58 final size:57
Alignment explanation
Indices: 23895434--23895554 Score: 136
Period size: 58 Copynumber: 2.1 Consensus size: 57
23895424 AAGAGTTAAT
* * * * * * * *
23895434 AGAGAAGAGCTGTACGTGAATAGGTATAAAGGAGGAAGCTGTACGTGAATAGGCAGA
1 AGAGAAGAGCTATACATGAATAGGTACAAAGAAAGAAGCTGTACGTGAACAGACACA
*
23895491 AGAGAAGAAGCTATACATGAATAGGTACAATA-AAAGAAGCTGTACGTGAACAGATACA
1 AGAGAAG-AGCTATACATGAATAGGTACAA-AGAAAGAAGCTGTACGTGAACAGACACA
23895549 AGAGAA
1 AGAGAA
23895555 TAAGGTAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
57 7 0.13
58 45 0.85
59 1 0.02
ACGTcount: A:0.45, C:0.10, G:0.29, T:0.17
Consensus pattern (57 bp):
AGAGAAGAGCTATACATGAATAGGTACAAAGAAAGAAGCTGTACGTGAACAGACACA
Found at i:23896157 original size:2 final size:2
Alignment explanation
Indices: 23896150--23896179 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23896140 TTTCTACTTA
23896150 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
23896180 GATCTCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23896265 original size:2 final size:2
Alignment explanation
Indices: 23896258--23896287 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23896248 AATANACTTA
23896258 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
23896288 GATCTCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23896300 original size:108 final size:107
Alignment explanation
Indices: 23896145--23896359 Score: 421
Period size: 108 Copynumber: 2.0 Consensus size: 107
23896135 TATAATTTCT
23896145 ACTTAATATATATATATATATATATATATATATATGATCTCATAAAAATTCAAGGATATTAGAAC
1 ACTTAATATATATATATATATATATATATATATATGATCTCATAAAAATTCAAGGATATTAGAAC
23896210 GTGGTATTTATGTACCTACTGTTGTTCATCTCGTCCAAAATA
66 GTGGTATTTATGTACCTACTGTTGTTCATCTCGTCCAAAATA
23896252 NACTTAATATATATATATATATATATATATATATATGATCTCATAAAAATTCAAGGATATTAGAA
1 -ACTTAATATATATATATATATATATATATATATATGATCTCATAAAAATTCAAGGATATTAGAA
23896317 CGTGGTATTTATGTACCTACTGTTGTTCATCTCGTCCAAAATA
65 CGTGGTATTTATGTACCTACTGTTGTTCATCTCGTCCAAAATA
23896360 CGAAGACGTA
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.39
Consensus pattern (107 bp):
ACTTAATATATATATATATATATATATATATATATGATCTCATAAAAATTCAAGGATATTAGAAC
GTGGTATTTATGTACCTACTGTTGTTCATCTCGTCCAAAATA
Found at i:23909639 original size:19 final size:19
Alignment explanation
Indices: 23909615--23909652 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23909605 CTTCCAAACC
* *
23909615 CTCAAATTATACTCGAATA
1 CTCAAATAATACTCCAATA
23909634 CTCAAATAATACTCCAATA
1 CTCAAATAATACTCCAATA
23909653 AGTTAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.29
Consensus pattern (19 bp):
CTCAAATAATACTCCAATA
Found at i:23910239 original size:11 final size:11
Alignment explanation
Indices: 23910232--23910256 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23910222 TTTTCACTTG
23910232 TATTTCACTCC
1 TATTTCACTCC
23910243 TATTTCACTCC
1 TATTTCACTCC
23910254 TAT
1 TAT
23910257 CGTTTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (11 bp):
TATTTCACTCC
Found at i:23910518 original size:32 final size:32
Alignment explanation
Indices: 23910482--23910575 Score: 109
Period size: 35 Copynumber: 2.8 Consensus size: 32
23910472 GTTCAACCTT
*
23910482 TGAAAAACCACTTTGGGTTTTGATTGAGCCTG
1 TGAAAAACCACTTTGGGTTTTGGTTGAGCCTG
* *
23910514 TGAAAAACCA-TTGTGAAAGGTTGTGGTTGAGCCTT
1 TGAAAAACCACTT-TG---GGTTTTGGTTGAGCCTG
*
23910549 TGAAAAATCACTTTGGGTTTTGGTTGA
1 TGAAAAACCACTTTGGGTTTTGGTTGA
23910576 TCCCGATAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
31 2 0.04
32 23 0.44
35 25 0.48
36 2 0.04
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (32 bp):
TGAAAAACCACTTTGGGTTTTGGTTGAGCCTG
Found at i:23910553 original size:35 final size:33
Alignment explanation
Indices: 23910464--23910575 Score: 113
Period size: 32 Copynumber: 3.4 Consensus size: 33
23910454 CCCGTGAAAT
* *
23910464 AGGTTGTGGTTCAACCTTTGAAAAACCACTTTG
1 AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
* * *
23910497 -GGTTTTGATTGAGCCTGTGAAAAACCA-TTGTG
1 AGGTTGTGGTTGAGCCTTTGAAAAACCACTT-TG
*
23910529 AAAGGTTGTGGTTGAGCCTTTGAAAAATCACTTTG
1 --AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
*
23910564 -GGTTTTGGTTGA
1 AGGTTGTGGTTGA
23910576 TCCCGATAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
31 2 0.03
32 35 0.55
35 25 0.39
36 2 0.03
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (33 bp):
AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
Found at i:23910587 original size:67 final size:67
Alignment explanation
Indices: 23910464--23910602 Score: 208
Period size: 67 Copynumber: 2.1 Consensus size: 67
23910454 CCCGTGAAAT
*
23910464 AGGTTGTGGTTCAACCTTTGAAAAACCACTTTGGGTTTTGATTGAGCCTGTGAAAAACCATTGTG
1 AGGTTGTGGTTCAACCTTTGAAAAACCACTTTGGGTTTTGATTGAGCCCGTGAAAAACCATTGTG
23910529 AA
66 AA
* * * * *
23910531 AGGTTGTGGTTGAGCCTTTGAAAAATCACTTTGGGTTTTGGTTGATCCCGAT-AAAAACCATTGT
1 AGGTTGTGGTTCAACCTTTGAAAAACCACTTTGGGTTTTGATTGAGCCCG-TGAAAAACCATTGT
23910595 GAA
65 GAA
23910598 AGGTT
1 AGGTT
23910603 TTGGCTAAGC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 64 0.98
68 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (67 bp):
AGGTTGTGGTTCAACCTTTGAAAAACCACTTTGGGTTTTGATTGAGCCCGTGAAAAACCATTGTG
AA
Found at i:23912062 original size:25 final size:23
Alignment explanation
Indices: 23912017--23912082 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 23
23912007 ATCAGAGAGT
*
23912017 TTTATTTATTTATACTTTCTTTTTA
1 TTTATTTATTTAT--TTTCTTATTA
23912042 TTTATTTATTTATTTCATCTTATTA
1 TTTATTTATTTATTT--TCTTATTA
*
23912067 TTGTTTTTA-TTATTTT
1 TT-TATTTATTTATTTT
23912083 TGTTATCAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 3 0.08
25 28 0.78
26 5 0.14
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTATTTATTTATTTTCTTATTA
Found at i:23913490 original size:19 final size:18
Alignment explanation
Indices: 23913445--23913491 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
23913435 TTACCTTTTC
23913445 TTTCTT-TTTTTTTTAAT
1 TTTCTTATTTTTTTTAAT
*
23913462 TTT-TTAATTTTTTTATTAT
1 TTTCTT-ATTTTTTT-TAAT
23913481 TTTCTTATTTT
1 TTTCTTATTTT
23913492 AGTGAGGCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 2 0.08
17 3 0.12
18 7 0.28
19 11 0.44
20 2 0.08
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTCTTATTTTTTTTAAT
Found at i:23914044 original size:34 final size:34
Alignment explanation
Indices: 23914001--23914102 Score: 195
Period size: 34 Copynumber: 3.0 Consensus size: 34
23913991 TGATGAGGTA
23914001 TATACATATATTTATACTAGATACAAGATATGTT
1 TATACATATATTTATACTAGATACAAGATATGTT
23914035 TATACATATATTTATACTAGATACAAGATATGTT
1 TATACATATATTTATACTAGATACAAGATATGTT
23914069 TATACATATATTTATACTAGATACAAGATCATGT
1 TATACATATATTTATACTAGATACAAGAT-ATGT
23914103 GATAAAACTA
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
34 63 0.94
35 4 0.06
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (34 bp):
TATACATATATTTATACTAGATACAAGATATGTT
Found at i:23914048 original size:12 final size:12
Alignment explanation
Indices: 23914001--23914085 Score: 52
Period size: 12 Copynumber: 7.4 Consensus size: 12
23913991 TGATGAGGTA
23914001 TATACATATATT
1 TATACATATATT
* *
23914013 TATAC-TAGATA
1 TATACATATATT
* * *
23914024 CA-AGATATGTT
1 TATACATATATT
23914035 TATACATATATT
1 TATACATATATT
* *
23914047 TATAC-TAGATA
1 TATACATATATT
* * *
23914058 CA-AGATATGTT
1 TATACATATATT
23914069 TATACATATATT
1 TATACATATATT
23914081 TATAC
1 TATAC
23914086 TAGATACAAG
Statistics
Matches: 49, Mismatches: 20, Indels: 8
0.64 0.26 0.10
Matches are distributed among these distances:
10 2 0.04
11 18 0.37
12 29 0.59
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.42
Consensus pattern (12 bp):
TATACATATATT
Found at i:23915714 original size:43 final size:43
Alignment explanation
Indices: 23915596--23915714 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
23915586 TGACTCGACT
* * **
23915596 ATGTGCGAGTAGGGAGTGCGCATAAGTTGAG-GATGACCCGATT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCTG-GTGATGACCCAACC
* * *
23915639 ATGTGCGAGTAGGGAGTGTGCATAACCCGGTGATGACCCAACC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGATGACCCAACC
*
23915682 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGA
23915715 GGATGATGAT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.02
43 63 0.98
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGATGACCCAACC
Found at i:23918264 original size:24 final size:24
Alignment explanation
Indices: 23918232--23918286 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
23918222 GATTTGGTGA
* *
23918232 ACTGACAGTGTATAAAAGCTATAC
1 ACTGTCAGTGCATAAAAGCTATAC
*
23918256 ACTGTCAGTGCATGAAAGCTATAC
1 ACTGTCAGTGCATAAAAGCTATAC
23918280 ACTGTCA
1 ACTGTCA
23918287 ATGAATCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (24 bp):
ACTGTCAGTGCATAAAAGCTATAC
Found at i:23918489 original size:3 final size:3
Alignment explanation
Indices: 23918481--23918548 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
23918471 TTATGTAAAC
23918481 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
23918529 TGA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
23918549 TATCTAAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:23919591 original size:17 final size:17
Alignment explanation
Indices: 23919567--23919604 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
23919557 AGGCACATAT
*
23919567 AGATAT-TTTCGAT-TA
1 AGATATATTTCCATGTA
23919582 AGATATATTTCCATGTA
1 AGATATATTTCCATGTA
23919599 AGATAT
1 AGATAT
23919605 TCAATCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 6 0.30
17 8 0.40
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (17 bp):
AGATATATTTCCATGTA
Found at i:23922248 original size:42 final size:42
Alignment explanation
Indices: 23922182--23922306 Score: 162
Period size: 42 Copynumber: 3.0 Consensus size: 42
23922172 TGTTGATGTG
* * *
23922182 GACCTGACTATGTGCGAGTAGGAGTGCACATAAGTCGTTGCT
1 GACCCGACTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
* *
23922224 GACCCGACTATGTGTGAGTGGGAGTGCACATAAGCCGTTGTT
1 GACCCGACTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
* * *
23922266 GACCCGGA-TATATGCGAGTGGGAGTACGCATAAGCCGTTGC
1 GACCC-GACTATGTGCGAGTGGGAGTGCACATAAGCCGTTGC
23922307 ATATGAGATG
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 70 0.97
43 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (42 bp):
GACCCGACTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
Found at i:23931227 original size:13 final size:13
Alignment explanation
Indices: 23931209--23931239 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
23931199 AGACTTATAG
*
23931209 GTCGACCATAAGT
1 GTCGACCACAAGT
23931222 GTCGACCACAAGT
1 GTCGACCACAAGT
23931235 GTCGA
1 GTCGA
23931240 AATGAGATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (13 bp):
GTCGACCACAAGT
Found at i:23937052 original size:17 final size:17
Alignment explanation
Indices: 23937014--23937054 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
23937004 TGGATGGATT
23937014 AAATCTTAATCTTCATCC
1 AAATC-TAATCTTCATCC
23937032 -AATCTAAT-TTACATCC
1 AAATCTAATCTT-CATCC
23937048 AAATCTA
1 AAATCTA
23937055 GATATACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.10
16 9 0.43
17 10 0.48
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATCTAATCTTCATCC
Found at i:23941519 original size:28 final size:29
Alignment explanation
Indices: 23941464--23941522 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
23941454 TTTTTGAAAT
*
23941464 TTACACTTTTGCCCCATAAAAGTCAAAAA
1 TTACACTTTTGCCCCATAAAACTCAAAAA
* *
23941493 TTACATTTTTGCCCCA-AAAACTGAAAAA
1 TTACACTTTTGCCCCATAAAACTCAAAAA
23941521 TT
1 TT
23941523 GCCCATAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.31
Consensus pattern (29 bp):
TTACACTTTTGCCCCATAAAACTCAAAAA
Found at i:23942584 original size:28 final size:28
Alignment explanation
Indices: 23942544--23942608 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
23942534 TCCATTTCTA
*
23942544 GTGGATTAAAAGTATTCAT-TCACTTTTG
1 GTGGGTTAAAAGTATTCATCT-ACTTTTG
* *
23942572 GTGGGTTACAAGTGTTCATCTACTTTTG
1 GTGGGTTAAAAGTATTCATCTACTTTTG
23942600 GTGGGTTAA
1 GTGGGTTAA
23942609 TGGGTTAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.23, C:0.11, G:0.25, T:0.42
Consensus pattern (28 bp):
GTGGGTTAAAAGTATTCATCTACTTTTG
Found at i:23943364 original size:2 final size:2
Alignment explanation
Indices: 23943357--23943554 Score: 122
Period size: 2 Copynumber: 100.0 Consensus size: 2
23943347 CAAATCTAGG
*
23943357 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
23943399 TA TG TA TA TA TA TA TA TA TG TA TG TA TA TA GA GTA TA AA TG GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * * *
23943442 TA T- TCA CA AA AA TA T- TCA TA -A CA -A AA T- TA TCA -A TA T-
1 TA TA T-A TA TA TA TA TA T-A TA TA TA TA TA TA TA T-A TA TA TA
* * * *
23943478 TCC TT TA TN TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
23943521 TA TA TA TG TA TA TA TA TA TA TA TG TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23943555 GAGTATAAAT
Statistics
Matches: 152, Mismatches: 32, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
1 7 0.05
2 141 0.93
3 4 0.03
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.45
Consensus pattern (2 bp):
TA
Found at i:23943376 original size:16 final size:16
Alignment explanation
Indices: 23943357--23943554 Score: 137
Period size: 16 Copynumber: 11.5 Consensus size: 16
23943347 CAAATCTAGG
*
23943357 TATATATATATATATA
1 TATATATATATATGTA
23943373 TATATATATATATGTA
1 TATATATATATATGTA
23943389 TATATATATATATGTA
1 TATATATATATATGTA
23943405 TATATATATATATGTA
1 TATATATATATATGTA
* *
23943421 TGTATATAGAGTATAAATGGA
1 --TATAT--A-TATATATGTA
* * *
23943442 TATTCACAAAAATAT-TCA
1 TA-T-ATATATATATGT-A
* * * *
23943460 TAACAAAATTATCAATATTCCTT
1 T-A-TATA-TAT--ATA-T-GTA
* *
23943483 TATNTATATATATATA
1 TATATATATATATGTA
23943499 TATATATATATATGTA
1 TATATATATATATGTA
23943515 TATATATATATATGTA
1 TATATATATATATGTA
23943531 TATATATATATATGTA
1 TATATATATATATGTA
*
23943547 TGTATATA
1 TATATATA
23943555 GAGTATAAAT
Statistics
Matches: 145, Mismatches: 22, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
16 101 0.70
17 1 0.01
18 16 0.11
19 5 0.03
20 5 0.03
21 13 0.09
22 2 0.01
23 1 0.01
24 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.45
Consensus pattern (16 bp):
TATATATATATATGTA
Found at i:23943535 original size:126 final size:125
Alignment explanation
Indices: 23943361--23943612 Score: 495
Period size: 126 Copynumber: 2.0 Consensus size: 125
23943351 TCTAGGTATA
23943361 TATATATATATATATATATATATATGTATATATATATATATGTATATATATATATATGTATGTAT
1 TATATATATATATATATATATATATGTATATATATATATATGTATATATATATATATGTATGTAT
23943426 ATAGAGTATAAATGGATATTCACAAAAATATTCATAACAAAATTATCAATATTCCTTTAT
66 ATAGAGTATAAATGGATATTCACAAAAATATTCATAACAAAATTATCAATATTCCTTTAT
23943486 NTATATATATATATATATATATATATGTATATATATATATATGTATATATATATATATGTATGTA
1 -TATATATATATATATATATATATATGTATATATATATATATGTATATATATATATATGTATGTA
23943551 TATAGAGTATAAATGGATATTCACAAAAATATTCATAACAAAATTATCAATATTCCTTTAT
65 TATAGAGTATAAATGGATATTCACAAAAATATTCATAACAAAATTATCAATATTCCTTTAT
23943612 T
1 T
23943613 TAGGTAGATT
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
125 1 0.01
126 125 0.99
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (125 bp):
TATATATATATATATATATATATATGTATATATATATATATGTATATATATATATATGTATGTAT
ATAGAGTATAAATGGATATTCACAAAAATATTCATAACAAAATTATCAATATTCCTTTAT
Found at i:23948654 original size:30 final size:31
Alignment explanation
Indices: 23948594--23948671 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
23948584 AAGAGAAATT
23948594 AACACAAAATATTTTATCCTTTCAAAAAAAA
1 AACACAAAATATTTTATCCTTTCAAAAAAAA
23948625 AACACAAAATATTTTATCCTTTCAAAAAAAA
1 AACACAAAATATTTTATCCTTTCAAAAAAAA
**
23948656 ATGA-AAAATATTTTAT
1 AACACAAAATATTTTAT
23948672 AGAGATTCGG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 12 0.27
31 33 0.73
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (31 bp):
AACACAAAATATTTTATCCTTTCAAAAAAAA
Found at i:23948889 original size:31 final size:31
Alignment explanation
Indices: 23948818--23948923 Score: 151
Period size: 31 Copynumber: 3.4 Consensus size: 31
23948808 GTTTTCAACA
* *
23948818 GTTAAGGTATAATCAACACTACCTTTTCAATA
1 GTTAAGGTATAATAAACACTACCTTTT-AATG
* *
23948850 TTTAAGGTATAATAAACATTACCTTTTAATG
1 GTTAAGGTATAATAAACACTACCTTTTAATG
23948881 GTTAAGGTATAATCAAA-ACTACCTTTTAATG
1 GTTAAGGTATAAT-AAACACTACCTTTTAATG
23948912 GTTAAGGTATAA
1 GTTAAGGTATAA
23948924 CTTTTTCGAT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
31 40 0.60
32 27 0.40
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (31 bp):
GTTAAGGTATAATAAACACTACCTTTTAATG
Found at i:23949700 original size:2 final size:2
Alignment explanation
Indices: 23949693--23949721 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23949683 GGTTAAACAA
23949693 AT 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 AT A
23949722 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23956839 original size:45 final size:45
Alignment explanation
Indices: 23956774--23956866 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
23956764 TATAAATAAA
* *
23956774 GATTAGGAATGTTCTGGTAGGATTTTTTTAGCAGGGAAAC-AGTTT
1 GATTAGGAATATTCTGGTAGG-GTTTTTTAGCAGGGAAACAAGTTT
* * * *
23956819 GATTAGGAATATTTTTGTAGGGTTTTTTAGTAGGGAATCAAGTTT
1 GATTAGGAATATTCTGGTAGGGTTTTTTAGCAGGGAAACAAGTTT
23956864 GAT
1 GAT
23956867 ACAGTTACAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 15 0.37
45 26 0.63
ACGTcount: A:0.27, C:0.04, G:0.28, T:0.41
Consensus pattern (45 bp):
GATTAGGAATATTCTGGTAGGGTTTTTTAGCAGGGAAACAAGTTT
Found at i:23961187 original size:22 final size:22
Alignment explanation
Indices: 23961159--23961201 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23961149 CCGAAATAAA
23961159 AAACTAAACAA-ATGTTTTGAAG
1 AAACTAAACAATA-GTTTTGAAG
*
23961181 AAACTAAGCAATAGTTTTGAA
1 AAACTAAACAATAGTTTTGAA
23961202 AAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (22 bp):
AAACTAAACAATAGTTTTGAAG
Found at i:23961531 original size:15 final size:15
Alignment explanation
Indices: 23961511--23961541 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23961501 GAGTAATGAT
*
23961511 TAATCAAAATGTCAC
1 TAATCAAAATATCAC
23961526 TAATCAAAATATCAC
1 TAATCAAAATATCAC
23961541 T
1 T
23961542 TTTCATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.29
Consensus pattern (15 bp):
TAATCAAAATATCAC
Found at i:23962687 original size:23 final size:23
Alignment explanation
Indices: 23962657--23962701 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
23962647 GTTAATTTAT
*
23962657 TAATGATTAATATAAAGTGTTGC
1 TAATGATTAATACAAAGTGTTGC
**
23962680 TAATGATTTGTACAAAGTGTTG
1 TAATGATTAATACAAAGTGTTG
23962702 ATATGCCAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (23 bp):
TAATGATTAATACAAAGTGTTGC
Found at i:23962980 original size:28 final size:27
Alignment explanation
Indices: 23962948--23963573 Score: 183
Period size: 27 Copynumber: 23.5 Consensus size: 27
23962938 AAATGTAATA
*
23962948 TTACACGCCATGTTCTAAAATTTAGTTG
1 TTACACGCCATGTT-GAAAATTTAGTTG
* * * *
23962976 TTACAGGCTATGTTGGAAA-TGA-TTG
1 TTACACGCCATGTTGAAAATTTAGTTG
* * *
23963001 TTACACGTCATGTTGAAAATATAGTTA
1 TTACACGCCATGTTGAAAATTTAGTTG
** *
23963028 TTACACGTTATGTTTAAAATTTAGTTG
1 TTACACGCCATGTTGAAAATTTAGTTG
* ** * * *
23963055 TCACATACAATATTGAAAAATGTAGTTG
1 TTACACGCCATGTTG-AAAATTTAGTTG
* ****
23963083 TTAGATATTATGTTGAAAATTTAGTTG
1 TTACACGCCATGTTGAAAATTTAGTTG
* * * *
23963110 TTGCACTCCATATTGAAAAATGTAGTTG
1 TTACACGCCATGTTG-AAAATTTAGTTG
* * *
23963138 TTACACGCCATGTTGAAGATTTAATTA
1 TTACACGCCATGTTGAAAATTTAGTTG
* * *
23963165 TTATACGTCC-TATTGAAAATTTAATT-
1 TTACACG-CCATGTTGAAAATTTAGTTG
*** * * ** *
23963191 TTGGGCACCATACTAAAAAATGTAGTTG
1 TTACACGCCAT-GTTGAAAATTTAGTTG
* * * *
23963219 TTACATGTCAAGTTGAAGATTTAGTTG
1 TTACACGCCATGTTGAAAATTTAGTTG
* * * *
23963246 TTACATGTCATTTTGAAAATTTTGTTG
1 TTACACGCCATGTTGAAAATTTAGTTG
*** * * *
23963273 TTACGTACCATATTGAAAAATGTA-ATG
1 TTACACGCCATGTTG-AAAATTTAGTTG
* * *
23963300 TTACATGTCATGTTGAAAATTTAGTTA
1 TTACACGCCATGTTGAAAATTTAGTTG
* * * *
23963327 TTGCAAGTCACGTTGAAAAGTTT--TTG
1 TTACACGCCATGTTGAAAA-TTTAGTTG
* * * *
23963353 ---CATGCCATATTGAAAAATGTAG-TC
1 TTACACGCCATGTTG-AAAATTTAGTTG
23963377 TTACACGCCATGTTGAAAA--TAGTTG
1 TTACACGCCATGTTGAAAATTTAGTTG
** * * * *
23963402 TTACAAACTATGTTG--GATATAATTG
1 TTACACGCCATGTTGAAAATTTAGTTG
** * *
23963427 TTACACATCATGTTAAAAAATGTAGTTG
1 TTACACGCCATGTT-GAAAATTTAGTTG
* * * *
23963455 TTACACTCTATGTTGAAAAATATAATTG
1 TTACACGCCATGTTG-AAAATTTAGTTG
* * * ** * * *
23963483 TAATATGTGATATTAAAAATTTAGTTA
1 TTACACGCCATGTTGAAAATTTAGTTG
** * *
23963510 TTACACGTGATATTGAAAAATATAGTTG
1 TTACACGCCATGTTG-AAAATTTAGTTG
* *
23963538 TTACACGTCA-GATGAAAA---AGTTG
1 TTACACGCCATGTTGAAAATTTAGTTG
23963561 TTACACGCCATGT
1 TTACACGCCATGT
23963574 CATAATTTGA
Statistics
Matches: 432, Mismatches: 140, Indels: 56
0.69 0.22 0.09
Matches are distributed among these distances:
23 25 0.06
24 9 0.02
25 49 0.11
26 24 0.06
27 200 0.46
28 125 0.29
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (27 bp):
TTACACGCCATGTTGAAAATTTAGTTG
Found at i:23963040 original size:27 final size:27
Alignment explanation
Indices: 23962928--23963053 Score: 82
Period size: 27 Copynumber: 4.7 Consensus size: 27
23962918 GTGGTTAACA
23962928 TCATGTTGAAAA-AT-GTAATATTACACG
1 TCATGTTGAAAATATAGT--TATTACACG
* * * *
23962955 CCATGTTCTAAAATTTAGTTGTTACA-G
1 TCATGTT-GAAAATATAGTTATTACACG
* * * *
23962982 GCTATGTTGGAAAT-GA-TTGTTACACG
1 TC-ATGTTGAAAATATAGTTATTACACG
23963008 TCATGTTGAAAATATAGTTATTACACG
1 TCATGTTGAAAATATAGTTATTACACG
* * *
23963035 TTATGTTTAAAATTTAGTT
1 TCATGTTGAAAATATAGTT
23963054 GTCACATACA
Statistics
Matches: 77, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
25 18 0.23
26 4 0.05
27 37 0.48
28 15 0.19
29 1 0.01
30 2 0.03
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
TCATGTTGAAAATATAGTTATTACACG
Found at i:23963073 original size:27 final size:28
Alignment explanation
Indices: 23963043--23963138 Score: 81
Period size: 28 Copynumber: 3.5 Consensus size: 28
23963033 CGTTATGTTT
23963043 AAAATTTAGTTGTCACATACAATATTGA
1 AAAATTTAGTTGTCACATACAATATTGA
* * * ** *
23963071 AAAATGTAGTTGTTAGATATTATGTTG-
1 AAAATTTAGTTGTCACATACAATATTGA
*
23963098 AAAATTTAGTTGTTGCAC-T-CCATATTGA
1 AAAATTTAGTTG-T-CACATACAATATTGA
*
23963126 AAAATGTAGTTGT
1 AAAATTTAGTTGT
23963139 TACACGCCAT
Statistics
Matches: 52, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
27 17 0.33
28 34 0.65
29 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (28 bp):
AAAATTTAGTTGTCACATACAATATTGA
Found at i:23963076 original size:80 final size:80
Alignment explanation
Indices: 23962911--23963108 Score: 190
Period size: 80 Copynumber: 2.5 Consensus size: 80
23962901 ACTTTAGGTG
*
23962911 GAAAAATG-TGGTTAACATCATGTTGAAAA-AT-GTAATATTACACGCCATGTTCTAAAATTTAG
1 GAAAAATGATTGTTAACATCATGTTGAAAATATAGT--TATTACACGCCATGTTCTAAAATTTAG
* * * *
23962973 TTGTTACAGGCTATGTT
64 TTGTCACAGACAATATT
* * **
23962990 G-GAAATGATTGTTACACGTCATGTTGAAAATATAGTTATTACACGTTATGTT-TAAAATTTAGT
1 GAAAAATGATTGTTA-ACATCATGTTGAAAATATAGTTATTACACGCCATGTTCTAAAATTTAGT
*
23963053 TGTCACATACAATATT
65 TGTCACAGACAATATT
* * *
23963069 GAAAAATGTAGTTGTTAGATATTATGTTGAAAATTTAGTT
1 GAAAAATG-A-TTGTTA-ACATCATGTTGAAAATATAGTT
23963109 GTTGCACTCC
Statistics
Matches: 96, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
78 5 0.05
79 29 0.30
80 33 0.34
81 3 0.03
82 26 0.27
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (80 bp):
GAAAAATGATTGTTAACATCATGTTGAAAATATAGTTATTACACGCCATGTTCTAAAATTTAGTT
GTCACAGACAATATT
Found at i:23963151 original size:55 final size:55
Alignment explanation
Indices: 23962964--23963160 Score: 172
Period size: 55 Copynumber: 3.6 Consensus size: 55
23962954 GCCATGTTCT
* * * * * *
23962964 AAAATTTAGTTGTTACAGGCTATGTTGGAAA-TGA-TTGTTACACGT-CATGTTG-
1 AAAATGTAGTTGTTACACGCTATGTTGAAAATTTAGTTGTT-CACATCCATATTGA
* * * * *
23963016 AAAATATAGTTATTACACGTTATGTTTAAAATTTAGTTG-TCACATACAATATTGA
1 AAAATGTAGTTGTTACACGCTATGTTGAAAATTTAGTTGTTCACAT-CCATATTGA
* ***
23963071 AAAATGTAGTTGTTAGATATTATGTTGAAAATTTAGTTGTTGCAC-TCCATATTGA
1 AAAATGTAGTTGTTACACGCTATGTTGAAAATTTAGTTGTT-CACATCCATATTGA
* *
23963126 AAAATGTAGTTGTTACACGCCATGTTGAAGATTTA
1 AAAATGTAGTTGTTACACGCTATGTTGAAAATTTA
23963161 ATTATTATAC
Statistics
Matches: 115, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
52 29 0.25
53 3 0.03
54 8 0.07
55 70 0.61
56 2 0.02
57 3 0.03
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (55 bp):
AAAATGTAGTTGTTACACGCTATGTTGAAAATTTAGTTGTTCACATCCATATTGA
Found at i:23963179 original size:55 final size:55
Alignment explanation
Indices: 23963064--23963183 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
23963054 GTCACATACA
* * ** * * *
23963064 ATATTGAAAAATGTAGTTGTTAGATATTATGTTGAAAATTTAGTTGTTGCACTCC
1 ATATTGAAAAATGTAGTTGTTACACACCATGTTGAAAATTTAATTATTACACTCC
* * *
23963119 ATATTGAAAAATGTAGTTGTTACACGCCATGTTGAAGATTTAATTATTATACGTCC
1 ATATTGAAAAATGTAGTTGTTACACACCATGTTGAAAATTTAATTATTACAC-TCC
23963175 -TATTGAAAA
1 ATATTGAAAA
23963184 TTTAATTTTG
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 51 0.94
56 3 0.06
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (55 bp):
ATATTGAAAAATGTAGTTGTTACACACCATGTTGAAAATTTAATTATTACACTCC
Found at i:23963343 original size:81 final size:82
Alignment explanation
Indices: 23963094--23963396 Score: 250
Period size: 81 Copynumber: 3.8 Consensus size: 82
23963084 TAGATATTAT
*
23963094 GTTGAAAATTTAGTTGTTGCAC-T-CCATATTGAAAAATGTAGTTGTTACACGCCATGTTGAAGA
1 GTTGAAAATTTAGTTGTT--ACGTACCATATTGAAAAATGTAGTTGTTACACGCCATGTTGAAAA
* * *
23963157 TTTAATTATTATACGTC-C
64 TTTAGTTATTACAAGTCAC
* * ** * * * * * * *
23963175 TATTGAAAATTTAATT-TTGGGCACCATACTAAAAAATGTAGTTGTTACATGTCAAGTTGAAGAT
1 -GTTGAAAATTTAGTTGTTACGTACCATATTGAAAAATGTAGTTGTTACACGCCATGTTGAAAAT
* * *
23963239 TTAGTTGTTACATGTCAT
65 TTAGTTATTACAAGTCAC
* * * * *
23963257 TTTGAAAATTTTGTTGTTACGTACCATATTGAAAAATGTA-ATGTTACATGTCATGTTGAAAATT
1 GTTGAAAATTTAGTTGTTACGTACCATATTGAAAAATGTAGTTGTTACACGCCATGTTGAAAATT
*
23963321 TAGTTATTGCAAGTCAC
66 TAGTTATTACAAGTCAC
* * *
23963338 GTTGAAAAGTTT--TTG---CATGCCATATTGAAAAATGTAG-TCTTACACGCCATGTTGAAAAT
1 GTTGAAAA-TTTAGTTGTTACGTACCATATTGAAAAATGTAGTTGTTACACGCCATGTTGAAAAT
23963397 AGTTGTTACA
Statistics
Matches: 179, Mismatches: 36, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
77 38 0.21
80 3 0.02
81 103 0.58
82 35 0.20
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (82 bp):
GTTGAAAATTTAGTTGTTACGTACCATATTGAAAAATGTAGTTGTTACACGCCATGTTGAAAATT
TAGTTATTACAAGTCAC
Found at i:23963414 original size:25 final size:25
Alignment explanation
Indices: 23963377--23963473 Score: 79
Period size: 25 Copynumber: 3.8 Consensus size: 25
23963367 AAATGTAGTC
* *
23963377 TTACACGCCATGTTGAAAATAGTTG
1 TTACACACTATGTTGAAAATAGTTG
* * * *
23963402 TTACAAACTATGTTGGATATAATTG
1 TTACACACTATGTTGAAAATAGTTG
*
23963427 TTACACA-TCATGTTAAAAAATGTAGTTG
1 TTACACACT-ATGTT-GAAAA--TAGTTG
*
23963455 TTACACTCTATGTTGAAAA
1 TTACACACTATGTTGAAAA
23963474 ATATAATTGT
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
24 1 0.02
25 30 0.56
26 2 0.04
27 4 0.07
28 16 0.30
29 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (25 bp):
TTACACACTATGTTGAAAATAGTTG
Found at i:23971484 original size:55 final size:55
Alignment explanation
Indices: 23971422--23971570 Score: 165
Period size: 55 Copynumber: 2.7 Consensus size: 55
23971412 CACCATGTTG
* * *
23971422 AAAATGTAGTTATTACACGTTATGTTTAAACTTTAGTTGTCACA-TACAATATTGA
1 AAAATGTAGTTATTACACATTATGTTGAAAATTTAGTTGTCACACT-CAATATTGA
* * * *
23971477 AAAATGTAGTTGTTAGACATTATGTTGAAAATTTAGTTGTTACACTCCATATTGA
1 AAAATGTAGTTATTACACATTATGTTGAAAATTTAGTTGTCACACTCAATATTGA
* * * ** *
23971532 AAAATATAATTGTTACACACCATGTTGAAGATTTAGTTG
1 AAAATGTAGTTATTACACATTATGTTGAAAATTTAGTTG
23971571 CTATACGTCA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
55 79 0.99
56 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (55 bp):
AAAATGTAGTTATTACACATTATGTTGAAAATTTAGTTGTCACACTCAATATTGA
Found at i:23971515 original size:27 final size:27
Alignment explanation
Indices: 23971404--23971808 Score: 247
Period size: 27 Copynumber: 15.1 Consensus size: 27
23971394 CTAGAAATGA
* * *
23971404 TTGTTATACACCATGTTGAAAATGTAG
1 TTGTTACACATCATGTTGAAAATTTAG
* * * * *
23971431 TTATTACACGTTATGTTTAAACTTTAG
1 TTGTTACACATCATGTTGAAAATTTAG
* *
23971458 TTG-T-CACATACAATATTGAAAAATGTAG
1 TTGTTACACAT-C-ATGTTG-AAAATTTAG
* *
23971486 TTGTTAGACATTATGTTGAAAATTTAG
1 TTGTTACACATCATGTTGAAAATTTAG
* * *
23971513 TTGTTACAC-TCCATATTGAAAAATATAA
1 TTGTTACACAT-CATGTTG-AAAATTTAG
* *
23971541 TTGTTACACACCATGTTGAAGATTTAG
1 TTGTTACACATCATGTTGAAAATTTAG
* * *
23971568 TTGCTATACGTCATGTTGAAAATTTAG
1 TTGTTACACATCATGTTGAAAATTTAG
* * * *
23971595 TTGTTACACACCATATTAAAAAATGTAG
1 TTGTTACACATCATGTT-GAAAATTTAG
** * * *
23971623 TTGTTACACGCCAAGTTGAAGATTTAT
1 TTGTTACACATCATGTTGAAAATTTAG
* * *
23971650 TTGTAACACGTCATTTTGAAAATTTAG
1 TTGTTACACATCATGTTGAAAATTTAG
* * *
23971677 TTGTTACACACCATATTGAAAAATGTA-
1 TTGTTACACATCATGTTG-AAAATTTAG
* **
23971704 ATGTTACATGTCATGTTGAAAATTTAG
1 TTGTTACACATCATGTTGAAAATTTAG
* *
23971731 TTGTTACA-AGTCACGTTG-GAA---AG
1 TTGTTACACA-TCATGTTGAAAATTTAG
*** *
23971754 TTGTTACATGCCATGTTGAAAAATGTAG
1 TTGTTACACATCATGTTG-AAAATTTAG
*
23971782 -TGTTACACACCATGTTG-AAATTTAG
1 TTGTTACACATCATGTTGAAAATTTAG
23971807 TT
1 TT
23971809 TTTGTAGACT
Statistics
Matches: 283, Mismatches: 76, Indels: 39
0.71 0.19 0.10
Matches are distributed among these distances:
23 16 0.06
25 13 0.05
26 12 0.04
27 169 0.60
28 68 0.24
29 1 0.00
30 4 0.01
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (27 bp):
TTGTTACACATCATGTTGAAAATTTAG
Found at i:23971569 original size:82 final size:82
Alignment explanation
Indices: 23971483--23971808 Score: 362
Period size: 82 Copynumber: 4.1 Consensus size: 82
23971473 TTGAAAAATG
* * * *
23971483 TAGTTGTTAGACATTATGTTGAAAATTTAGTTGTTACACTCCATATTGAAAAATATAATTGTTAC
1 TAGTTGTTACACATCATGTTGAAAATTTAGTTGTTACACACCATATTGAAAAATGTAATTGTTAC
23971548 ACACCATGTTGAAGATT
66 ACACCATGTTGAAGATT
* * * * *
23971565 TAGTTGCTATACGTCATGTTGAAAATTTAGTTGTTACACACCATATTAAAAAATGTAGTTGTTAC
1 TAGTTGTTACACATCATGTTGAAAATTTAGTTGTTACACACCATATTGAAAAATGTAATTGTTAC
* *
23971630 ACGCCAAGTTGAAGATT
66 ACACCATGTTGAAGATT
* * * *
23971647 TATTTGTAACACGTCATTTTGAAAATTTAGTTGTTACACACCATATTGAAAAATGTAA-TGTTAC
1 TAGTTGTTACACATCATGTTGAAAATTTAGTTGTTACACACCATATTGAAAAATGTAATTGTTAC
*** *
23971711 ATGTCATGTTGAAAATT
66 ACACCATGTTGAAGATT
* * ** * *
23971728 TAGTTGTTACA-AGTCACGTTG-GAA---AGTTGTTACATGCCATGTTGAAAAATGT-AGTGTTA
1 TAGTTGTTACACA-TCATGTTGAAAATTTAGTTGTTACACACCATATTGAAAAATGTAATTGTTA
23971787 CACACCATGTTGAA-ATT
65 CACACCATGTTGAAGATT
23971804 TAGTT
1 TAGTT
23971809 TTTGTAGACT
Statistics
Matches: 209, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
76 9 0.04
77 41 0.20
80 2 0.01
81 34 0.16
82 123 0.59
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (82 bp):
TAGTTGTTACACATCATGTTGAAAATTTAGTTGTTACACACCATATTGAAAAATGTAATTGTTAC
ACACCATGTTGAAGATT
Found at i:23971680 original size:54 final size:54
Alignment explanation
Indices: 23971443--23971738 Score: 238
Period size: 55 Copynumber: 5.4 Consensus size: 54
23971433 ATTACACGTT
* * * ** * * * **
23971443 ATGTTTAAACTTTAGTTGTCACATACAATATTGAAAAATGTAGTTGTTAGACATT
1 ATGTTGAAAATTTAGTTGTTACACGCCATATTGAAAAATTTA-TTGTTACACACC
* *
23971498 ATGTTGAAAATTTAGTTGTTACACTCCATATTGAAAAATATAATTGTTACACACC
1 ATGTTGAAAATTTAGTTGTTACACGCCATATTGAAAAAT-TTATTGTTACACACC
* * * * *
23971553 ATGTTGAAGATTTAGTTGCTATACGTCATGTTG-AAAATTTAGTTGTTACACACC
1 ATGTTGAAAATTTAGTTGTTACACGCCATATTGAAAAATTTA-TTGTTACACACC
* * * * * **
23971607 ATATTAAAAAATGTAGTTGTTACACGCCA-AGTTG-AAGATTTATTTGTAACACGTC
1 ATGTT-GAAAATTTAGTTGTTACACGCCATA-TTGAAAAATTTA-TTGTTACACACC
* * * * ***
23971662 ATTTTGAAAATTTAGTTGTTACACACCATATTGAAAAATGTAATGTTACATGTC
1 ATGTTGAAAATTTAGTTGTTACACGCCATATTGAAAAATTTATTGTTACACACC
23971716 ATGTTGAAAATTTAGTTGTTACA
1 ATGTTGAAAATTTAGTTGTTACA
23971739 AGTCACGTTG
Statistics
Matches: 194, Mismatches: 41, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
53 2 0.01
54 75 0.39
55 116 0.60
56 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (54 bp):
ATGTTGAAAATTTAGTTGTTACACGCCATATTGAAAAATTTATTGTTACACACC
Found at i:23971867 original size:28 final size:28
Alignment explanation
Indices: 23971836--23971941 Score: 92
Period size: 28 Copynumber: 3.8 Consensus size: 28
23971826 ACATAATTGC
* *
23971836 TATACGTCATGTTGAAAAATGTAATTAT
1 TATACGTCATATTGAAAAATATAATTAT
*
23971864 TATACG-CTATATTGAAAAATATAATTGT
1 TATACGTC-ATATTGAAAAATATAATTAT
* * * *
23971892 AACACGTCATATTG-AAAATTTAGTTAT
1 TATACGTCATATTGAAAAATATAATTAT
* *
23971919 TACATG-CGATATTGAAAAATATA
1 TATACGTC-ATATTGAAAAATATA
23971942 GTTGTTACAT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.02
27 21 0.33
28 40 0.63
29 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.37
Consensus pattern (28 bp):
TATACGTCATATTGAAAAATATAATTAT
Found at i:23971935 original size:55 final size:56
Alignment explanation
Indices: 23971839--23971946 Score: 146
Period size: 55 Copynumber: 1.9 Consensus size: 56
23971829 TAATTGCTAT
* * *
23971839 ACGTCATGTTGAAAAATGTAATTATTATACGCTATATTGAAAAATATAATTGTAAC
1 ACGTCATATTGAAAAATGTAATTATTACACGCGATATTGAAAAATATAATTGTAAC
* * * *
23971895 ACGTCATATTG-AAAATTTAGTTATTACATGCGATATTGAAAAATATAGTTGT
1 ACGTCATATTGAAAAATGTAATTATTACACGCGATATTGAAAAATATAATTGT
23971947 TACATGCCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 35 0.78
56 10 0.22
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (56 bp):
ACGTCATATTGAAAAATGTAATTATTACACGCGATATTGAAAAATATAATTGTAAC
Found at i:23971944 original size:28 final size:27
Alignment explanation
Indices: 23971847--23971950 Score: 93
Period size: 28 Copynumber: 3.8 Consensus size: 27
23971837 ATACGTCATG
* *
23971847 TTGAAAAATGTAATTATTATACGCTATA
1 TTGAAAAATATAATTATTACACGC-ATA
* *
23971875 TTGAAAAATATAATTGTAACACGTCATA
1 TTGAAAAATATAATTATTACACG-CATA
* * *
23971903 TTG-AAAATTTAGTTATTACATGCGATA
1 TTGAAAAATATAATTATTACACGC-ATA
* *
23971930 TTGAAAAATATAGTTGTTACA
1 TTGAAAAATATAATTATTACA
23971951 TGCCATGATG
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.02
27 20 0.32
28 40 0.65
29 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (27 bp):
TTGAAAAATATAATTATTACACGCATA
Found at i:23971951 original size:28 final size:27
Alignment explanation
Indices: 23971872--23971953 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 27
23971862 ATTATACGCT
* * *
23971872 ATATTGAAAAATATAATTGTAACACGTC
1 ATATTGAAAAATATAGTTGTTACATG-C
* *
23971900 ATATTG-AAAATTTAGTTATTACATGC
1 ATATTGAAAAATATAGTTGTTACATGC
23971926 GATATTGAAAAATATAGTTGTTACATGC
1 -ATATTGAAAAATATAGTTGTTACATGC
23971954 CATGATGAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 1 0.02
27 20 0.44
28 24 0.53
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (27 bp):
ATATTGAAAAATATAGTTGTTACATGC
Found at i:23971962 original size:28 final size:28
Alignment explanation
Indices: 23971455--23971965 Score: 118
Period size: 27 Copynumber: 18.9 Consensus size: 28
23971445 GTTTAAACTT
* * * *
23971455 TAGTTGTCACATACAATATTGAAAAATG
1 TAGTTGTTACATGCCATATTGAAAAATA
* * *
23971483 TAGTTGTTAGACAT--TATGTTG-AAAATT
1 TAGTTGTT--ACATGCCATATTGAAAAATA
23971510 TAGTTGTTACACT-CCATATTGAAAAATA
1 TAGTTGTTACA-TGCCATATTGAAAAATA
* ** * * *
23971538 TAATTGTTACACACCATGTTG-AAGATT
1 TAGTTGTTACATGCCATATTGAAAAATA
* * * * * *
23971565 TAGTTGCTATACGTCATGTTG-AAAATT
1 TAGTTGTTACATGCCATATTGAAAAATA
** * *
23971592 TAGTTGTTACACACCATATTAAAAAATG
1 TAGTTGTTACATGCCATATTGAAAAATA
* * *
23971620 TAGTTGTTACACGCCA-AGTTG-AAGATT
1 TAGTTGTTACATGCCATA-TTGAAAAATA
* * * * * *
23971647 TATTTGTAACACGTCATTTTG-AAAATT
1 TAGTTGTTACATGCCATATTGAAAAATA
** *
23971674 TAGTTGTTACACACCATATTGAAAAATG
1 TAGTTGTTACATGCCATATTGAAAAATA
* * * *
23971702 TA-ATGTTACATGTCATGTTG-AAAATT
1 TAGTTGTTACATGCCATATTGAAAAATA
* * ** *
23971728 TAGTTGTTACAAGTCACGTTG---GA-A
1 TAGTTGTTACATGCCATATTGAAAAATA
* *
23971752 -AGTTGTTACATGCCATGTTGAAAAATG
1 TAGTTGTTACATGCCATATTGAAAAATA
** * *
23971779 TAG-TGTTACACACCATGTTG--AAATT
1 TAGTTGTTACATGCCATATTGAAAAATA
* ** * * * *
23971804 TAGTTTTTGTA-GACTATGTTG-GACATA
1 TAGTTGTTACATG-CCATATTGAAAAATA
* * * * * *
23971831 -A-TTGCTATACGTCATGTTGAAAAATG
1 TAGTTGTTACATGCCATATTGAAAAATA
* * * * *
23971857 TAATTATTATACGCTATATTGAAAAATA
1 TAGTTGTTACATGCCATATTGAAAAATA
* * * * *
23971885 TAATTGTAACACGTCATATTG-AAAATT
1 TAGTTGTTACATGCCATATTGAAAAATA
* *
23971912 TAGTTATTACATGCGATATTGAAAAATA
1 TAGTTGTTACATGCCATATTGAAAAATA
23971940 TAGTTGTTACATGCCATGA-TGAAAAA
1 TAGTTGTTACATGCCAT-ATTGAAAAA
23971966 GTTGTTACAT
Statistics
Matches: 363, Mismatches: 95, Indels: 50
0.71 0.19 0.10
Matches are distributed among these distances:
23 17 0.05
25 22 0.06
26 25 0.07
27 167 0.46
28 127 0.35
29 1 0.00
30 4 0.01
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (28 bp):
TAGTTGTTACATGCCATATTGAAAAATA
Found at i:23973824 original size:73 final size:73
Alignment explanation
Indices: 23973700--23973901 Score: 262
Period size: 73 Copynumber: 2.8 Consensus size: 73
23973690 CAGACAAAAT
* * * * * * *
23973700 GCTCTTAGTTGACTAACTATGCTTCTTAGTCAATTAAGTCATCTCTGTCTCTGAACCCAGTTTCT
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCGTCTCTATCTCTAAACCCAATTTCT
* *
23973765 GGCAGTGA
66 AGCAGTAA
* **
23973773 GCTCTTAGTCGACTAACAATACTTCTTAGTCGATTAAGTCGTCTCTATCTCTAAACTTAATTTCT
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCGTCTCTATCTCTAAACCCAATTTCT
23973838 AGCAGTAA
66 AGCAGTAA
* * *
23973846 GGTCTTAGTCGACTAACAATGCTTCTTAGT-GATTAAGTTGTCTCTATTTCTAAACC
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCGTCTCTATCTCTAAACC
23973902 TGGCATTTTC
Statistics
Matches: 112, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
72 23 0.21
73 89 0.79
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (73 bp):
GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCGTCTCTATCTCTAAACCCAATTTCT
AGCAGTAA
Found at i:23991551 original size:20 final size:20
Alignment explanation
Indices: 23991512--23991551 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23991502 CTATATATAT
*
23991512 CTCATTTTTCCAGCAACTTC
1 CTCATTTTTCCAACAACTTC
*
23991532 CTCATTTTTCCAACAGCTTC
1 CTCATTTTTCCAACAACTTC
23991552 TTGTTCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.35, G:0.05, T:0.40
Consensus pattern (20 bp):
CTCATTTTTCCAACAACTTC
Found at i:23992178 original size:37 final size:37
Alignment explanation
Indices: 23992136--23992244 Score: 161
Period size: 37 Copynumber: 2.9 Consensus size: 37
23992126 TAATGTTGTG
23992136 TGATGATGTTGAAGTGTGCGAGTAGGAGGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGAGGTGCACACA
*
23992173 TGATGATGTT-AGAGTGTGTGAGTAGG-GAGTGCACACA
1 TGATGATGTTGA-AGTGTGCGAGTAGGAG-GTGCACACA
23992210 TGATGATGTTGAAGTGTGCGAGTAAGGA-GTGCACA
1 TGATGATGTTGAAGTGTGCGAGT-AGGAGGTGCACA
23992245 TGACGATGAA
Statistics
Matches: 65, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
36 2 0.03
37 59 0.91
38 4 0.06
ACGTcount: A:0.28, C:0.09, G:0.38, T:0.26
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGAGGTGCACACA
Found at i:23992588 original size:22 final size:22
Alignment explanation
Indices: 23992519--23992592 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
23992509 CCAGCCCTGT
* *
23992519 TTCTCGCTACAGCAAAAAAGAA
1 TTCTCGCTGCAGTAAAAAAGAA
* *
23992541 TTCTCGCTGCAGT---GAGGAA
1 TTCTCGCTGCAGTAAAAAAGAA
*
23992560 TT-TCGCTGCAGTAAAAATGAA
1 TTCTCGCTGCAGTAAAAAAGAA
23992581 TTCTCGCTGCAG
1 TTCTCGCTGCAG
23992593 CGAGAAACTC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 10 0.24
19 6 0.14
21 6 0.14
22 20 0.48
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (22 bp):
TTCTCGCTGCAGTAAAAAAGAA
Found at i:24004552 original size:73 final size:73
Alignment explanation
Indices: 24004475--24004619 Score: 227
Period size: 73 Copynumber: 2.0 Consensus size: 73
24004465 CTTTGAACCT
* * * *
24004475 AGTTTCTAGCAGTGAGCTTTTAGTCGACTAGCAATGCTCCTTAGTCGATAAAGTTGTCTCTGTTT
1 AGTTTCTAGCAGTAAGATCTTAGTCGACTAACAATGCTCCTTAGTCGATAAAGTTGTCTCTGTTT
24004540 CTAAACTC
66 CTAAACTC
* *
24004548 AGTTTCTAGCAGTAAGATCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTTGTCTCTGTTT
1 AGTTTCTAGCAGTAAGATCTTAGTCGACTAACAATGCTCCTTAGTCGATAAAGTTGTCTCTGTTT
*
24004613 CTGAACT
66 CTAAACT
24004620 TGCCATCTTC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (73 bp):
AGTTTCTAGCAGTAAGATCTTAGTCGACTAACAATGCTCCTTAGTCGATAAAGTTGTCTCTGTTT
CTAAACTC
Found at i:24006578 original size:23 final size:24
Alignment explanation
Indices: 24006534--24006584 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
24006524 AAGTCCAAAA
24006534 TTTTGAATTATTTTTCTGTTCCTT
1 TTTTGAATTATTTTTCTGTTCCTT
*
24006558 TTTTAGAATTA-TTTTGT-TTCCTT
1 TTTT-GAATTATTTTTCTGTTCCTT
24006581 TTTT
1 TTTT
24006585 CCTTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 10 0.40
24 9 0.36
25 6 0.24
ACGTcount: A:0.14, C:0.10, G:0.08, T:0.69
Consensus pattern (24 bp):
TTTTGAATTATTTTTCTGTTCCTT
Found at i:24007933 original size:46 final size:45
Alignment explanation
Indices: 24007875--24007971 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 45
24007865 ACCCGAAGGA
* * * *
24007875 TTTGAAATTGGTTA-CTTGAAGGCTTTAAATATTGTACCCTAGAGGT
1 TTTGAAAATGGTTATCTAG-AGGCTTTAAAAATTGTA-CCTAGAGAT
*
24007921 TTTGAAAATGGTTATCTAGAGGCTTTAAAAATTGTACTTAGAGAT
1 TTTGAAAATGGTTATCTAGAGGCTTTAAAAATTGTACCTAGAGAT
24007966 TTTGAA
1 TTTGAA
24007972 TATATTATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
45 13 0.29
46 29 0.64
47 3 0.07
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (45 bp):
TTTGAAAATGGTTATCTAGAGGCTTTAAAAATTGTACCTAGAGAT
Found at i:24007962 original size:22 final size:22
Alignment explanation
Indices: 24007894--24007963 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
24007884 GGTTACTTGA
* *
24007894 AGGCTTTAAATATTGTACCCTAG
1 AGGCTTTAAAAATTGTA-CTTAG
* * *
24007917 AGGTTTTGAAAATGGTTA-TCTAG
1 AGGCTTTAAAAATTG-TACT-TAG
24007940 AGGCTTTAAAAATTGTACTTAG
1 AGGCTTTAAAAATTGTACTTAG
24007962 AG
1 AG
24007964 ATTTTGAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
22 7 0.19
23 27 0.75
24 2 0.06
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (22 bp):
AGGCTTTAAAAATTGTACTTAG
Found at i:24011618 original size:11 final size:11
Alignment explanation
Indices: 24011602--24011644 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
24011592 CCATGCCCAC
*
24011602 TCTTTTTTTTT
1 TCTTTTTCTTT
24011613 TCTTTTTCTTT
1 TCTTTTTCTTT
24011624 TC-TTTTC-TT
1 TCTTTTTCTTT
*
24011633 TCTTTTCCTTT
1 TCTTTTTCTTT
24011644 T
1 T
24011645 TCTCTCTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 4 0.14
10 9 0.32
11 15 0.54
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TCTTTTTCTTT
Found at i:24011629 original size:16 final size:15
Alignment explanation
Indices: 24011602--24011673 Score: 67
Period size: 16 Copynumber: 4.7 Consensus size: 15
24011592 CCATGCCCAC
*
24011602 TCTTTTTTTTTTCTTTT
1 TCTTTTCTTTTTC--TT
24011619 TCTTTTC-TTTTCTT
1 TCTTTTCTTTTTCTT
*
24011633 TCTTTTCCTTTTTCTC
1 TCTTTT-CTTTTTCTT
*
24011649 TCTTTCTCTCTTTCTT
1 TCTTT-TCTTTTTCTT
24011665 TC-TTTCTTT
1 TCTTTTCTTT
24011674 CTCTCACCGT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
14 12 0.26
15 3 0.06
16 25 0.53
17 7 0.15
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTTTCTTTTTCTT
Found at i:24011636 original size:4 final size:4
Alignment explanation
Indices: 24011617--24011675 Score: 57
Period size: 4 Copynumber: 14.2 Consensus size: 4
24011607 TTTTTTTCTT
* * *
24011617 TTTC TTTTC TTTTC TTTC TTTTC CTT- TTTC TCTC TTTC TCTC TTTC TTTC
1 TTTC -TTTC -TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
24011667 TTTC TTTC T
1 TTTC TTTC T
24011676 CTCACCGTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
3 2 0.04
4 31 0.67
5 13 0.28
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:24011676 original size:20 final size:19
Alignment explanation
Indices: 24011601--24011678 Score: 81
Period size: 20 Copynumber: 4.2 Consensus size: 19
24011591 GCCATGCCCA
* *
24011601 CTCTTTTTTTTTTCTTTTT
1 CTCTTTTTTCTTTCTTTCT
*
24011620 CTTTTCTTTTCTTTCTTT-T
1 CTCTT-TTTTCTTTCTTTCT
*
24011639 C-C-TTTTTCTCTCTTTCT
1 CTCTTTTTTCTTTCTTTCT
24011656 CTCTTTCTTTCTTTCTTTCT
1 CTCTTT-TTTCTTTCTTTCT
24011676 CTC
1 CTC
24011679 ACCGTCTAGC
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
16 11 0.22
17 3 0.06
18 1 0.02
19 8 0.16
20 26 0.53
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
CTCTTTTTTCTTTCTTTCT
Found at i:24022087 original size:14 final size:14
Alignment explanation
Indices: 24022068--24022097 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24022058 TCTATGATAG
24022068 ATAGATTGTCATTA
1 ATAGATTGTCATTA
24022082 ATAGATTGTCATTA
1 ATAGATTGTCATTA
24022096 AT
1 AT
24022098 CTTAAACTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (14 bp):
ATAGATTGTCATTA
Found at i:24024862 original size:15 final size:14
Alignment explanation
Indices: 24024837--24024878 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
24024827 TTTATAATTT
24024837 TATAATAATTATAA
1 TATAATAATTATAA
*
24024851 TATAATTAATTATAT
1 TATAA-TAATTATAA
*
24024866 TA-AATATTTATAA
1 TATAATAATTATAA
24024879 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 7 0.29
14 7 0.29
15 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATAATAATTATAA
Found at i:24029822 original size:13 final size:12
Alignment explanation
Indices: 24029806--24029848 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
24029796 TGTTTTGTTA
24029806 TTTTCTTCTCTTT
1 TTTTCTTCT-TTT
*
24029819 TTTTCTTATTTT
1 TTTTCTTCTTTT
24029831 TTTTCATTCTTATT
1 TTTTC-TTCTT-TT
24029845 TTTT
1 TTTT
24029849 TCCTTTCCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 8 0.31
13 12 0.46
14 6 0.23
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTTCTTTT
Found at i:24030015 original size:22 final size:22
Alignment explanation
Indices: 24029990--24030043 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
24029980 GTTTTGGAAA
*
24029990 AAAAAGGAAAAAA-ATAAAAAAT
1 AAAAA-GAAAAAAGAAAAAAAAT
24030012 AAAAAGAAAAAAGAAAAAAAAT
1 AAAAAGAAAAAAGAAAAAAAAT
*
24030034 -GAAAGAAAAA
1 AAAAAGAAAAA
24030044 TATAATTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (22 bp):
AAAAAGAAAAAAGAAAAAAAAT
Found at i:24030335 original size:71 final size:71
Alignment explanation
Indices: 24030195--24030341 Score: 276
Period size: 71 Copynumber: 2.1 Consensus size: 71
24030185 ATGTGGCAAA
*
24030195 ACCACGTCAACATGTCAGGGGACATGACAATGCCATGTCAACACCTCAAACGTAGAGTGTGAAAT
1 ACCACGTCAACATGTCAGGAGACATGACAATGCCATGTCAACACCTCAAACGTAGAGTGTGAAAT
24030260 GGCACT
66 GGCACT
*
24030266 ACCACGTCAGCATGTCAGGAGACATGACAATGCCATGTCAACACCTCAAACGTAGAGTGTGAAAT
1 ACCACGTCAACATGTCAGGAGACATGACAATGCCATGTCAACACCTCAAACGTAGAGTGTGAAAT
24030331 GGCACT
66 GGCACT
24030337 ACCAC
1 ACCAC
24030342 ATCACCTTGA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.34, C:0.27, G:0.22, T:0.18
Consensus pattern (71 bp):
ACCACGTCAACATGTCAGGAGACATGACAATGCCATGTCAACACCTCAAACGTAGAGTGTGAAAT
GGCACT
Found at i:24036936 original size:38 final size:38
Alignment explanation
Indices: 24036885--24036960 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
24036875 TGAAGAGAAA
24036885 AACTATTATTACTTTCATTACTATGACAAACAACATTT
1 AACTATTATTACTTTCATTACTATGACAAACAACATTT
*
24036923 AACTATTATTACTTTCATTATTATGACAAACAACATTT
1 AACTATTATTACTTTCATTACTATGACAAACAACATTT
24036961 GATACATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.41
Consensus pattern (38 bp):
AACTATTATTACTTTCATTACTATGACAAACAACATTT
Found at i:24043377 original size:97 final size:97
Alignment explanation
Indices: 24043205--24043384 Score: 270
Period size: 97 Copynumber: 1.9 Consensus size: 97
24043195 TATATATGTC
* *
24043205 ATGTTTAAGGTATTTAACTTCAAGAGTTTATATCCTAGTGAAATACAAAGATAGAGATCAAGTTA
1 ATGTTTAAGATATTTAACTTCAAGAGTTTATATCCTAGTGAAATACAAAAATAGAGATCAAGTTA
*
24043270 CAAGTTATATTGAAAAAAAAATATTATAAGCT
66 CAAGTCATATTGAAAAAAAAATATTATAAGCT
* * ** *
24043302 ATGTTTAAGATCTTTAACTTTAAGAGTTTATATTTTAGTGAAATATAAAAATAGAGATCAAGTTA
1 ATGTTTAAGATATTTAACTTCAAGAGTTTATATCCTAGTGAAATACAAAAATAGAGATCAAGTTA
* *
24043367 CACGTCATATTTAAAAAA
66 CAAGTCATATTGAAAAAA
24043385 TATTATTGTT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
97 73 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (97 bp):
ATGTTTAAGATATTTAACTTCAAGAGTTTATATCCTAGTGAAATACAAAAATAGAGATCAAGTTA
CAAGTCATATTGAAAAAAAAATATTATAAGCT
Found at i:24043423 original size:27 final size:28
Alignment explanation
Indices: 24043393--24043447 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
24043383 AATATTATTG
24043393 TTACAAGTCATGCT-AAAAAAAAAGTTA
1 TTACAAGTCATGCTGAAAAAAAAAGTTA
** *
24043420 TTACATTTCATGTTGAAAAAAAAAGTTA
1 TTACAAGTCATGCTGAAAAAAAAAGTTA
24043448 AAAGTTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (28 bp):
TTACAAGTCATGCTGAAAAAAAAAGTTA
Found at i:24044700 original size:4 final size:4
Alignment explanation
Indices: 24044691--24044716 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
24044681 GGTAAATATC
24044691 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
24044717 TTGGTCCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:24066807 original size:34 final size:34
Alignment explanation
Indices: 24066688--24066799 Score: 161
Period size: 34 Copynumber: 3.3 Consensus size: 34
24066678 GTTTATTCCT
* *
24066688 TTTTAAGTTACGTAACCTCATTCAAGATGAAGAG
1 TTTTAAGTTACATAACCTCATTCAAGATGAGGAG
* * *
24066722 TTTTAAGTCACAAAACCTCGTTCAAGATGAGGAG
1 TTTTAAGTTACATAACCTCATTCAAGATGAGGAG
* *
24066756 TTTTAAGTTACATAGCCTCATTCAAGGTGAGGAG
1 TTTTAAGTTACATAACCTCATTCAAGATGAGGAG
24066790 TTTTAAGTTA
1 TTTTAAGTTA
24066800 TGTAGCCTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 68 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (34 bp):
TTTTAAGTTACATAACCTCATTCAAGATGAGGAG
Found at i:24066821 original size:34 final size:34
Alignment explanation
Indices: 24066688--24066828 Score: 156
Period size: 34 Copynumber: 4.1 Consensus size: 34
24066678 GTTTATTCCT
* * *
24066688 TTTTAAGTTACGTAACCTCATTCAAGATGAAGAG
1 TTTTAAGTTACATAGCCTCATTCAAGATGAGGAG
* * * *
24066722 TTTTAAGTCACAAAACCTCGTTCAAGATGAGGAG
1 TTTTAAGTTACATAGCCTCATTCAAGATGAGGAG
*
24066756 TTTTAAGTTACATAGCCTCATTCAAGGTGAGGAG
1 TTTTAAGTTACATAGCCTCATTCAAGATGAGGAG
** * * *
24066790 TTTTAAGTTATGTAGCCTTATTCTATATGAGGAG
1 TTTTAAGTTACATAGCCTCATTCAAGATGAGGAG
24066824 CTTTT
1 -TTTT
24066829 TCTTTTTATA
Statistics
Matches: 90, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
34 86 0.96
35 4 0.04
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.35
Consensus pattern (34 bp):
TTTTAAGTTACATAGCCTCATTCAAGATGAGGAG
Found at i:24071528 original size:10 final size:10
Alignment explanation
Indices: 24071513--24071543 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
24071503 TAAGGATTTC
24071513 TTTAATTTTT
1 TTTAATTTTT
24071523 TTTAATTTTT
1 TTTAATTTTT
*
24071533 TTAAATTTTT
1 TTTAATTTTT
24071543 T
1 T
24071544 GATAAGCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTAATTTTT
Found at i:24076805 original size:15 final size:15
Alignment explanation
Indices: 24076759--24076807 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
24076749 CTTAAAACAA
*
24076759 CTTTAAAACCAAAAAT
1 CTTTAAAATC-AAAAT
* *
24076775 -TTTAAAATCCATAT
1 CTTTAAAATCAAAAT
24076789 CTTTAAAATCAAAAT
1 CTTTAAAATCAAAAT
24076804 CTTT
1 CTTT
24076808 GATCTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 3 0.11
15 24 0.89
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (15 bp):
CTTTAAAATCAAAAT
Found at i:24077978 original size:13 final size:13
Alignment explanation
Indices: 24077960--24077984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24077950 ATTTTCAAAA
24077960 ATTTTATAAAATT
1 ATTTTATAAAATT
24077973 ATTTTATAAAAT
1 ATTTTATAAAAT
24077985 CCCATTTTCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:24079200 original size:28 final size:30
Alignment explanation
Indices: 24079137--24079200 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
24079127 GCAAATTTTT
* *
24079137 AAAAATTACACTTTTACCCCCGTAAAAGTG
1 AAAAATTACACTTTTACCCCCGAAAAACTG
**
24079167 AAAAATTACGTTTTTA-CCCC-AAAAACTG
1 AAAAATTACACTTTTACCCCCGAAAAACTG
24079195 AAAAAT
1 AAAAAT
24079201 CGCCCATAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 12 0.40
29 4 0.13
30 14 0.47
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (30 bp):
AAAAATTACACTTTTACCCCCGAAAAACTG
Found at i:24080254 original size:22 final size:22
Alignment explanation
Indices: 24080229--24080270 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
24080219 TATTTGAGCT
24080229 TAATT-TTGATAGTAATTTAACA
1 TAATTCTTG-TAGTAATTTAACA
24080251 TAATTCTTGTAGTAATTTAA
1 TAATTCTTGTAGTAATTTAA
24080271 AAAAAATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (22 bp):
TAATTCTTGTAGTAATTTAACA
Found at i:24083469 original size:5 final size:6
Alignment explanation
Indices: 24083439--24083466 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
24083429 ACCACACAAA
24083439 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
24083467 GAAGCGGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:24093585 original size:20 final size:21
Alignment explanation
Indices: 24093537--24093585 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
24093527 ATATAGCTAT
*
24093537 TTTA-AAATGATTATCTTTAA
1 TTTATAAATTATTATCTTTAA
*
24093557 TTTAT-AATTATTA-CTTTTA
1 TTTATAAATTATTATCTTTAA
24093576 TTTATAAATT
1 TTTATAAATT
24093586 TTCAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTATAAATTATTATCTTTAA
Found at i:24096385 original size:21 final size:21
Alignment explanation
Indices: 24096347--24096386 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24096337 CATAATCGAT
* **
24096347 TTTTAGGCATTATGTGACTAG
1 TTTTAGACATTACATGACTAG
24096368 TTTTAGACATTACATGACT
1 TTTTAGACATTACATGACT
24096387 GACTTTGGGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (21 bp):
TTTTAGACATTACATGACTAG
Found at i:24096425 original size:22 final size:22
Alignment explanation
Indices: 24096397--24096445 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
24096387 GACTTTGGGT
*
24096397 ATTGCATGACTAGTTTTTAAGC
1 ATTGCATGACTAATTTTTAAGC
* *
24096419 ATTGCATTACTAATTTTTAAGT
1 ATTGCATGACTAATTTTTAAGC
24096441 ATTGC
1 ATTGC
24096446 GTCACTGACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (22 bp):
ATTGCATGACTAATTTTTAAGC
Found at i:24096547 original size:45 final size:45
Alignment explanation
Indices: 24096498--24096601 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 45
24096488 TGTAACTGAC
*
24096498 TGATATGGTATTGCATGACTAGTT-G-ATAGGCATTGCGTGACTAGT
1 TGATA-GGCATTGCATGACTAGTTAGTA-AGGCATTGCGTGACTAGT
* * * *
24096543 TGATAGGCATTGCGTGATTAGTTAGTAAGGTATTGTGTGACTAGT
1 TGATAGGCATTGCATGACTAGTTAGTAAGGCATTGCGTGACTAGT
*
24096588 TAGAAAGGCATTGC
1 T-GATAGGCATTGC
24096602 TTAAAAATCA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
44 15 0.30
45 23 0.46
46 12 0.24
ACGTcount: A:0.26, C:0.10, G:0.30, T:0.35
Consensus pattern (45 bp):
TGATAGGCATTGCATGACTAGTTAGTAAGGCATTGCGTGACTAGT
Found at i:24096589 original size:23 final size:22
Alignment explanation
Indices: 24096498--24096601 Score: 111
Period size: 22 Copynumber: 4.6 Consensus size: 22
24096488 TGTAACTGAC
* *
24096498 TGATATGGTATTGCATGACTAGT
1 TGATA-GGCATTGCGTGACTAGT
24096521 TGATAGGCATTGCGTGACTAGT
1 TGATAGGCATTGCGTGACTAGT
*
24096543 TGATAGGCATTGCGTGATTAGT
1 TGATAGGCATTGCGTGACTAGT
* *
24096565 T-AGTAAGGTATTGTGTGACTAGT
1 TGA-T-AGGCATTGCGTGACTAGT
*
24096588 TAGAAAGGCATTGC
1 T-GATAGGCATTGC
24096602 TTAAAAATCA
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.01
22 38 0.56
23 28 0.41
25 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.30, T:0.35
Consensus pattern (22 bp):
TGATAGGCATTGCGTGACTAGT
Found at i:24096650 original size:22 final size:22
Alignment explanation
Indices: 24096601--24096651 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
24096591 AAAGGCATTG
24096601 CTTAAAAATCAATCACGCAATA
1 CTTAAAAATCAATCACGCAATA
* *
24096623 CCTAAAAATCAGTCACGCAATA
1 CTTAAAAATCAATCACGCAATA
*
24096645 TTTAAAA
1 CTTAAAA
24096652 CCAGTCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.49, C:0.22, G:0.06, T:0.24
Consensus pattern (22 bp):
CTTAAAAATCAATCACGCAATA
Found at i:24096656 original size:21 final size:22
Alignment explanation
Indices: 24096603--24096673 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
24096593 AGGCATTGCT
* *
24096603 TAAAAATCAATCACGCAATACC
1 TAAAAACCAGTCACGCAATACC
* *
24096625 TAAAAATCAGTCACGCAATA-T
1 TAAAAACCAGTCACGCAATACC
* * * *
24096646 TTAAAACCAGTCATGTAATGCC
1 TAAAAACCAGTCACGCAATACC
24096668 TAAAAA
1 TAAAAA
24096674 TCACTTACGC
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 15 0.38
22 24 0.62
ACGTcount: A:0.48, C:0.21, G:0.08, T:0.23
Consensus pattern (22 bp):
TAAAAACCAGTCACGCAATACC
Found at i:24102834 original size:2 final size:2
Alignment explanation
Indices: 24102827--24102865 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
24102817 GAACTATAGN
24102827 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24102866 TTCAATGACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24106361 original size:22 final size:23
Alignment explanation
Indices: 24106311--24106364 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
24106301 AAACCAAGAA
24106311 AAATTA-TAAAATTAAAATTCTC
1 AAATTAGTAAAATTAAAATTCTC
* *
24106333 AATTTAGTAAATTTAATAATT-T-
1 AAATTAGTAAAATTAA-AATTCTC
24106355 AAATTAGTAA
1 AAATTAGTAA
24106365 TTATTTTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 14 0.52
23 9 0.33
24 4 0.15
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (23 bp):
AAATTAGTAAAATTAAAATTCTC
Found at i:24107613 original size:29 final size:28
Alignment explanation
Indices: 24107568--24107624 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
24107558 TAAAAAACAG
*
24107568 TGAGAAATGAACCAGAAGTTCTTCTCTCA
1 TGAGAAATAAACCAGAAGTT-TTCTCTCA
* *
24107597 TGAGAAATAAACTAGAAGTTTTTTCTCA
1 TGAGAAATAAACCAGAAGTTTTCTCTCA
24107625 ATTCTCCTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (28 bp):
TGAGAAATAAACCAGAAGTTTTCTCTCA
Found at i:24107670 original size:14 final size:12
Alignment explanation
Indices: 24107620--24107663 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
24107610 AGAAGTTTTT
*
24107620 TCTCAATTCTCC
1 TCTCAATTCTTC
**
24107632 TCGAAATTCTTC
1 TCTCAATTCTTC
24107644 TCTCAATTCTTC
1 TCTCAATTCTTC
24107656 TCTCAATT
1 TCTCAATT
24107664 ATTTTCTTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.20, C:0.32, G:0.02, T:0.45
Consensus pattern (12 bp):
TCTCAATTCTTC
Found at i:24107858 original size:24 final size:24
Alignment explanation
Indices: 24107813--24107858 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
24107803 GATTATATCT
* *
24107813 CTGTCCCCTTGAAGTGGCGATAAA
1 CTGTCCCCCTGAAGCGGCGATAAA
*
24107837 CTGTCCCCCTGAAGCGGTGATA
1 CTGTCCCCCTGAAGCGGCGATA
24107859 GACCTTTGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (24 bp):
CTGTCCCCCTGAAGCGGCGATAAA
Found at i:24110239 original size:74 final size:73
Alignment explanation
Indices: 24110119--24110313 Score: 194
Period size: 74 Copynumber: 2.7 Consensus size: 73
24110109 AAATGCTTTA
* * * * * * *
24110119 AGTTGACTAGCATACTTCTTAGTCGATTAAGTCGTTTTTGTTTTCTGATCCTAGTTTTTGACGGT
1 AGTTGACTAACATGCTTCTTAGTCGATTAAGTCGTCTCTGTCTTCTGATCCCAGTTTTTGACAGT
*
24110184 GAGCTCTT
66 GAACTCTT
* * *
24110192 AGTTGACTAACAATGCTTCTTAGTTGATTAAGTTGTCTCTGTCTTCTGATCCCAGTTTTTGGCAG
1 AGTTGACTAAC-ATGCTTCTTAGTCGATTAAGTCGTCTCTGTCTTCTGATCCCAGTTTTTGACAG
*
24110257 TGAACTTTT
65 TGAACTCTT
* * * * * * *
24110266 AGTCGACTAACCATGTTTCTTGGTCAACTAAGTCTTCTCTAT-TTCTGA
1 AGTTGACTAA-CATGCTTCTTAGTCGATTAAGTCGTCTCTGTCTTCTGA
24110314 ACTAGTCATC
Statistics
Matches: 99, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
73 16 0.16
74 82 0.83
75 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (73 bp):
AGTTGACTAACATGCTTCTTAGTCGATTAAGTCGTCTCTGTCTTCTGATCCCAGTTTTTGACAGT
GAACTCTT
Found at i:24119123 original size:74 final size:74
Alignment explanation
Indices: 24119003--24119176 Score: 260
Period size: 74 Copynumber: 2.4 Consensus size: 74
24118993 CAGACATAAT
* * *
24119003 GCTCTTAGTTGACTAA-TATACTTCTTAGTCAATTAAGTCATCTCTGTCTTGTGATCCCAATTTC
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCAATTAAGTCATCTCTGTCTTGTGATCCCAATTTC
24119067 TAGAAGTGA
66 TAGAAGTGA
* * * *
24119076 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCGTCTCTGTCTTGTGATCCTAGTTTC
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCAATTAAGTCATCTCTGTCTTGTGATCCCAATTTC
*
24119141 TAGCAGTGA
66 TAGAAGTGA
*
24119150 GCTCTTAGTCGACTAACCATGCTTCTT
1 GCTCTTAGTCGACTAACAATGCTTCTT
24119177 GGTTGACTAA
Statistics
Matches: 91, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
73 15 0.16
74 76 0.84
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (74 bp):
GCTCTTAGTCGACTAACAATGCTTCTTAGTCAATTAAGTCATCTCTGTCTTGTGATCCCAATTTC
TAGAAGTGA
Found at i:24120945 original size:21 final size:21
Alignment explanation
Indices: 24120873--24120947 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
24120863 AAAATAGCCC
*
24120873 ATTGCCCCTAAAAAGGCACGA
1 ATTGCCCCAAAAAAGGCACGA
* * * *
24120894 ATTGCTCCAGAAGA-G-AC-C
1 ATTGCCCCAAAAAAGGCACGA
*
24120912 ATTGCCCCTAAAAAGGCACGA
1 ATTGCCCCAAAAAAGGCACGA
*
24120933 ATTGCTCCAAAAAAG
1 ATTGCCCCAAAAAAG
24120948 CTTTTTGCCC
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
18 10 0.26
19 3 0.08
20 3 0.08
21 23 0.59
ACGTcount: A:0.39, C:0.27, G:0.19, T:0.16
Consensus pattern (21 bp):
ATTGCCCCAAAAAAGGCACGA
Found at i:24120959 original size:39 final size:39
Alignment explanation
Indices: 24120857--24120947 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 39
24120847 ATCACAAATC
* * *
24120857 TGCTCTAAAATAGCCCATTGCCCCTAAAAAGGCACGAAT
1 TGCTCCAAAAAAGACCATTGCCCCTAAAAAGGCACGAAT
* *
24120896 TGCTCCAGAAGAGACCATTGCCCCTAAAAAGGCACGAAT
1 TGCTCCAAAAAAGACCATTGCCCCTAAAAAGGCACGAAT
24120935 TGCTCCAAAAAAG
1 TGCTCCAAAAAAG
24120948 CTTTTTGCCC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (39 bp):
TGCTCCAAAAAAGACCATTGCCCCTAAAAAGGCACGAAT
Found at i:24123314 original size:2 final size:2
Alignment explanation
Indices: 24123303--24123332 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
24123293 ACATTTTACG
24123303 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24123333 TTCAAATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24123839 original size:31 final size:33
Alignment explanation
Indices: 24123787--24123852 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 33
24123777 CTTATCCATT
*
24123787 TTTCCTATTTAGGCTAAGCCCATTTATTTT-TA
1 TTTCCTATTTAGGCTAAGCCCACTTATTTTCTA
*
24123819 TTTCCTA-TTAGGCCT-TGCCCACTTATTTTCTA
1 TTTCCTATTTAGG-CTAAGCCCACTTATTTTCTA
24123851 TT
1 TT
24123853 GGGTCATGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 17 0.57
32 13 0.43
ACGTcount: A:0.18, C:0.23, G:0.09, T:0.50
Consensus pattern (33 bp):
TTTCCTATTTAGGCTAAGCCCACTTATTTTCTA
Found at i:24123887 original size:26 final size:25
Alignment explanation
Indices: 24123815--24123903 Score: 106
Period size: 25 Copynumber: 3.4 Consensus size: 25
24123805 CCCATTTATT
* * *
24123815 TTTATTTCCTATTAGGCCTTGCCCA
1 TTTATTTTCTATTGGGCCATGCCCA
* *
24123840 CTTATTTTCTATTGGGTCATGCCCA
1 TTTATTTTCTATTGGGCCATGCCCA
24123865 TTTATTTTCTATTTGGGCCATGCCCA
1 TTTATTTTCTA-TTGGGCCATGCCCA
24123891 TTTTTATTTTCTA
1 --TTTATTTTCTA
24123904 CTTCTTTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
25 30 0.56
26 13 0.24
28 11 0.20
ACGTcount: A:0.16, C:0.22, G:0.12, T:0.49
Consensus pattern (25 bp):
TTTATTTTCTATTGGGCCATGCCCA
Found at i:24123972 original size:22 final size:22
Alignment explanation
Indices: 24123947--24123994 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
24123937 CTGTCACTCC
*
24123947 CTTCACCACCATGTCTTCCTCT
1 CTTCACCACCATGGCTTCCTCT
*
24123969 CTTCACCACCGTGGCTTCCTCT
1 CTTCACCACCATGGCTTCCTCT
24123991 CTTC
1 CTTC
24123995 CTTGGCTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.10, C:0.46, G:0.08, T:0.35
Consensus pattern (22 bp):
CTTCACCACCATGGCTTCCTCT
Found at i:24124147 original size:34 final size:34
Alignment explanation
Indices: 24124104--24124193 Score: 92
Period size: 24 Copynumber: 2.9 Consensus size: 34
24124094 CACGATGCTG
24124104 TCCAATTTTTTTGCACAAATTGGCAGCAAACAGC
1 TCCAATTTTTTTGCACAAATTGGCAGCAAACAGC
24124138 TCCAA--TTTTT---C----T-GCAGCAAACAGC
1 TCCAATTTTTTTGCACAAATTGGCAGCAAACAGC
* *
24124162 TCTAATTTTTCTGCACAAATTGGCAGCAAACA
1 TCCAATTTTTTTGCACAAATTGGCAGCAAACA
24124194 ATTCAAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 20
0.67 0.03 0.30
Matches are distributed among these distances:
24 16 0.36
25 1 0.02
26 4 0.09
29 2 0.05
32 5 0.11
33 1 0.02
34 15 0.34
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.30
Consensus pattern (34 bp):
TCCAATTTTTTTGCACAAATTGGCAGCAAACAGC
Done.