Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 196 of 199
Found at i:57030669 original size:100 final size:99
Alignment explanation
Indices: 57030565--57030778 Score: 234
Period size: 100 Copynumber: 2.1 Consensus size: 99
57030555 ATGTTACATG
* * * * *
57030565 ATAAGATATTCATTTAGTAAGGCCTACACC-AAGTTTGATCAACTGGCATCTTATTACATCTTAA
1 ATAAGATATT-ATTAAGTAAGGCCTACACCAAAATTT-ATCAACTGACATCTTATCACATCTCAA
* *
57030629 TAAAATTC-TCTATGATCTTACTACAAACCTTACACA
64 CAAAATTCTTC-ATGACCTTACTACAAACCTTACACA
* * * *
57030665 ATAAGATACTTATTAAGTAGGGTCTACACCAAAATTTATCAAGTGACATTTTATCACATCTCAAC
1 ATAAGATA-TTATTAAGTAAGGCCTACACCAAAATTTATCAACTGACATCTTATCACATCTCAAC
** *
57030730 CGAATTCTTCATGACCTTACTACAAACCTTACATA
65 AAAATTCTTCATGACCTTACTACAAACCTTACACA
*
57030765 ATAAAATATCTATT
1 ATAAGATAT-TATT
57030779 TTGTGGGGTT
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
99 1 0.01
100 85 0.89
101 9 0.09
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (99 bp):
ATAAGATATTATTAAGTAAGGCCTACACCAAAATTTATCAACTGACATCTTATCACATCTCAACA
AAATTCTTCATGACCTTACTACAAACCTTACACA
Found at i:57043400 original size:16 final size:18
Alignment explanation
Indices: 57043361--57043394 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57043351 TAAGTTTATA
57043361 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
57043378 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
57043395 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:57043565 original size:22 final size:22
Alignment explanation
Indices: 57043519--57043561 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
57043509 ATAAATTTAT
*
57043519 TAAATATTAAAATAATATAACA
1 TAAATATTAAAATAATATAAAA
57043541 TAAATATTTAAAA-AAT-TAAAA
1 TAAATA-TTAAAATAATATAAAA
57043562 ATAATATGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATATTAAAATAATATAAAA
Found at i:57044314 original size:2 final size:2
Alignment explanation
Indices: 57044307--57044337 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
57044297 GATGACAGTA
57044307 AT 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 AT A
57044338 CCAAATTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57045426 original size:27 final size:26
Alignment explanation
Indices: 57045395--57045448 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
57045385 AATTTTTATT
*
57045395 AAATTTAAGTACCAAATTAGACAAAAA
1 AAATTTAAATACCAAATTA-ACAAAAA
* *
57045422 AAATTTAAATACTAAATTAAGAAAAA
1 AAATTTAAATACCAAATTAACAAAAA
57045448 A
1 A
57045449 TGTCGAGTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.63, C:0.07, G:0.06, T:0.24
Consensus pattern (26 bp):
AAATTTAAATACCAAATTAACAAAAA
Found at i:57047761 original size:30 final size:30
Alignment explanation
Indices: 57047727--57047789 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
57047717 CCACCTCCCT
* *
57047727 TATGGAGGCGATGGAAATGGTCCTCATATA
1 TATGGAGGCAATGGAAATGGACCTCATATA
*
57047757 TATGGAGGCAATGGAAATGGACCTCATGTA
1 TATGGAGGCAATGGAAATGGACCTCATATA
57047787 TAT
1 TAT
57047790 ATACATATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.27
Consensus pattern (30 bp):
TATGGAGGCAATGGAAATGGACCTCATATA
Found at i:57050281 original size:13 final size:13
Alignment explanation
Indices: 57050265--57050291 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57050255 AAAAAAAATC
57050265 AAAAATTATAAAA
1 AAAAATTATAAAA
57050278 AAAAATTATAAAA
1 AAAAATTATAAAA
57050291 A
1 A
57050292 TTCAAGAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAATTATAAAA
Found at i:57050283 original size:20 final size:19
Alignment explanation
Indices: 57050241--57050281 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
57050231 ATTAACAAAT
* *
57050241 AAATTAAAATTTATAAAAA
1 AAATCAAAAATTATAAAAA
57050260 AAATCAAAAATTATAAAAA
1 AAATCAAAAATTATAAAAA
57050279 AAA
1 AAA
57050282 ATTATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
AAATCAAAAATTATAAAAA
Found at i:57058372 original size:146 final size:146
Alignment explanation
Indices: 57058108--57058406 Score: 544
Period size: 146 Copynumber: 2.0 Consensus size: 146
57058098 TACAAGTAGC
57058108 ATTTCCCTAATTGAAATGCACTTCCTAACTCCAAACCATCTCAACTAAATAAAATGCATATAAAA
1 ATTTCCCTAATTGAAATGCACTTCCTAACTCCAAACCATCTCAACTAAATAAAATGCATATAAAA
* *
57058173 TCTACCGATCATCGAATCAAGCATAAAAATTACCTACATTGCATCTACTAAAACCGAACGAATTT
66 TCTACCGATCATCGAATCAAGCATAAAAATTACCTACATTGCATCTACTAAAACCGAACAAATCT
57058238 AAGCTTAAAAACTCAA
131 AAGCTTAAAAACTCAA
*
57058254 ATTTCCCTAATTGAAATGCACTTCCTAACTCCGAACCATCTCAACTAAATAAAATGCATATAAAA
1 ATTTCCCTAATTGAAATGCACTTCCTAACTCCAAACCATCTCAACTAAATAAAATGCATATAAAA
* * *
57058319 TCTACCGATCATTGAATTAAGCATAAAAATTACTTACATTGCATCTACTAAAACCGAACAAATCT
66 TCTACCGATCATCGAATCAAGCATAAAAATTACCTACATTGCATCTACTAAAACCGAACAAATCT
57058384 AAGCTTAAAAACTCAA
131 AAGCTTAAAAACTCAA
57058400 ATTTCCC
1 ATTTCCC
57058407 AGATCAAATT
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
146 147 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (146 bp):
ATTTCCCTAATTGAAATGCACTTCCTAACTCCAAACCATCTCAACTAAATAAAATGCATATAAAA
TCTACCGATCATCGAATCAAGCATAAAAATTACCTACATTGCATCTACTAAAACCGAACAAATCT
AAGCTTAAAAACTCAA
Found at i:57065688 original size:4 final size:4
Alignment explanation
Indices: 57065681--57065715 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
57065671 ATTATATATA
57065681 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
57065716 ATTATCTGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:57065695 original size:174 final size:173
Alignment explanation
Indices: 57065356--57065691 Score: 518
Period size: 174 Copynumber: 2.0 Consensus size: 173
57065346 GATATGTGTG
* * * *
57065356 TGTGTGTTGAAAATATCTAACACACACAAAACCAACCCAGTCTAGAGTACATCGGAATATAATAA
1 TGTGTGTTGAAAATATCTAACACACACAAAACCAACCAAATCTAGAGTACATCGCAATATAACAA
* * **
57065421 AAGCCCCAATTAGTATAACTACTAATCTCATTTAAGTTCACCTTCTTTTCTCTGCTTTAGGGGCA
66 AAGCCCCAATTAATATAACTACTAAACTCATTTAAGTTCACCTTCTTTTCTCCACTTTAGGGGCA
57065486 AAGCATGCAGCATATTATATATATATGCATATGTATATTATCTC
131 AAGCATGCAGCATATTATATATATATG-ATATGTATATTATCTC
**
57065530 TGTGTGTTGAAAATATCTAACACACACAAAACCAGGCAAATCTAGAGTACATC-CAACTATAACA
1 TGTGTGTTGAAAATATCTAACACACACAAAACCAACCAAATCTAGAGTACATCGCAA-TATAACA
*
57065594 AAAGCCCCAATTAATATAACTACTAAACTCATTTAAGTTCATCTTCTTTTCTCCACTTTAGGGGC
65 AAAGCCCCAATTAATATAACTACTAAACTCATTTAAGTTCACCTTCTTTTCTCCACTTTAGGGGC
*
57065659 AAAGCGTGCAGC--ATTATATATATATG-TATGTAT
130 AAAGCATGCAGCATATTATATATATATGATATGTAT
57065692 GTATGTATGT
Statistics
Matches: 149, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
170 7 0.05
172 14 0.09
173 2 0.01
174 126 0.85
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.31
Consensus pattern (173 bp):
TGTGTGTTGAAAATATCTAACACACACAAAACCAACCAAATCTAGAGTACATCGCAATATAACAA
AAGCCCCAATTAATATAACTACTAAACTCATTTAAGTTCACCTTCTTTTCTCCACTTTAGGGGCA
AAGCATGCAGCATATTATATATATATGATATGTATATTATCTC
Found at i:57066501 original size:15 final size:15
Alignment explanation
Indices: 57066481--57066509 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57066471 AAGGTAAATA
57066481 ATTGTCTAATTAATT
1 ATTGTCTAATTAATT
57066496 ATTGTCTAATTAAT
1 ATTGTCTAATTAAT
57066510 CATTTAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (15 bp):
ATTGTCTAATTAATT
Found at i:57080324 original size:55 final size:55
Alignment explanation
Indices: 57080234--57080359 Score: 186
Period size: 55 Copynumber: 2.3 Consensus size: 55
57080224 CTTTTTTTCA
*
57080234 AAGCAA-GGTTTCGGGTTCAAGTATTTGTGAGATGGTGAGGAATTTGGTACCTTT
1 AAGCAAGGGTTTCGGGTTCAAGTAATTGTGAGATGGTGAGGAATTTGGTACCTTT
* * *
57080288 AAGGC-AGGGTTTCGGGTTCAAGTAATTGTGAGATGGTTAGGAGTTTGGTACTTTT
1 AA-GCAAGGGTTTCGGGTTCAAGTAATTGTGAGATGGTGAGGAATTTGGTACCTTT
57080343 AAGCAAGGG-TTCGGGTT
1 AAGCAAGGGTTTCGGGTT
57080360 TGAGTGTTCT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
54 13 0.20
55 52 0.80
ACGTcount: A:0.23, C:0.09, G:0.34, T:0.34
Consensus pattern (55 bp):
AAGCAAGGGTTTCGGGTTCAAGTAATTGTGAGATGGTGAGGAATTTGGTACCTTT
Found at i:57086415 original size:20 final size:21
Alignment explanation
Indices: 57086375--57086416 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
57086365 AAAACTGTAA
*
57086375 TTCCACATCATCCCTATCCCT
1 TTCCACATCATCCCAATCCCT
57086396 TTCCACATCAT-CCAATCCCT
1 TTCCACATCATCCCAATCCCT
57086416 T
1 T
57086417 CTCGAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.33
Consensus pattern (21 bp):
TTCCACATCATCCCAATCCCT
Found at i:57088658 original size:13 final size:13
Alignment explanation
Indices: 57088627--57088673 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
57088617 AAAAACGATT
57088627 AAAAAATTAA-TA
1 AAAAAATTAATTA
*
57088639 ATTAAAATTAATTA
1 A-AAAAATTAATTA
*
57088653 AAAAAATCAAATTA
1 AAAAAAT-TAATTA
57088667 AAAAAAT
1 AAAAAAT
57088674 ATAAACTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 1 0.03
13 13 0.45
14 15 0.52
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAAATTAATTA
Found at i:57090420 original size:19 final size:19
Alignment explanation
Indices: 57090396--57090433 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
57090386 TGGCTAAGGT
57090396 AATAGTGATTCCTCTGTTA
1 AATAGTGATTCCTCTGTTA
57090415 AATAGTGATTCCTCTGTTA
1 AATAGTGATTCCTCTGTTA
57090434 TTTTTTAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (19 bp):
AATAGTGATTCCTCTGTTA
Found at i:57092684 original size:47 final size:47
Alignment explanation
Indices: 57092631--57092724 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
57092621 AGTTAAATTG
*
57092631 ATACAAGATGTAAATATTAGAAAGCTAAATTTTTATCATTATGTCAT
1 ATACAAGATGTAAATATTAGAAAACTAAATTTTTATCATTATGTCAT
*
57092678 ATACAAGATGTAAATATTAGAAAATTAAATTTTTATCATTATGTCAT
1 ATACAAGATGTAAATATTAGAAAACTAAATTTTTATCATTATGTCAT
57092725 TTTTAAAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (47 bp):
ATACAAGATGTAAATATTAGAAAACTAAATTTTTATCATTATGTCAT
Found at i:57106893 original size:6 final size:6
Alignment explanation
Indices: 57106882--57106906 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57106872 CTATCCATAA
57106882 AACCCG AACCCG AACCCG AACCCG A
1 AACCCG AACCCG AACCCG AACCCG A
57106907 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
AACCCG
Found at i:57111181 original size:4 final size:4
Alignment explanation
Indices: 57111172--57111203 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
57111162 ATGGTATGTC
57111172 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
57111204 GCAATTATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:57118951 original size:23 final size:23
Alignment explanation
Indices: 57118921--57118964 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
57118911 ATTTTTTAAA
57118921 AATATTT-ATATTATGTTTAATTT
1 AATATTTAATATTAT-TTTAATTT
*
57118944 AATATTTAATTTTATTTTAAT
1 AATATTTAATATTATTTTAAT
57118965 AAAAAACTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
AATATTTAATATTATTTTAATTT
Found at i:57125309 original size:28 final size:27
Alignment explanation
Indices: 57125250--57125311 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
57125240 AAATTATCTA
*
57125250 TTTTCTTTTCTGTTTTCTTACTTGCAT
1 TTTTCTTTTCTGTTTTCTTACTCGCAT
*
57125277 TTTTCTTTTCTGTTTTTCTTGCTCG-AT
1 TTTTCTTTTCTG-TTTTCTTACTCGCAT
57125304 TGTTTCTT
1 T-TTTCTT
57125312 CTCCAAGCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 15 0.48
28 16 0.52
ACGTcount: A:0.05, C:0.18, G:0.10, T:0.68
Consensus pattern (27 bp):
TTTTCTTTTCTGTTTTCTTACTCGCAT
Found at i:57139049 original size:14 final size:15
Alignment explanation
Indices: 57139030--57139069 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
57139020 TTGATTGCCA
57139030 GTAAAAT-ATTTTTC
1 GTAAAATGATTTTTC
57139044 GTAAAATGATTTTT-
1 GTAAAATGATTTTTC
*
57139058 GGAAAATG-TTTT
1 GTAAAATGATTTT
57139070 ACTTTTCTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 14 0.58
15 6 0.25
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (15 bp):
GTAAAATGATTTTTC
Found at i:57139082 original size:34 final size:34
Alignment explanation
Indices: 57139039--57139104 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
57139029 AGTAAAATAT
* *
57139039 TTTTCGTAAAATGATTT-TTGGAAAATGTTTTAC
1 TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
57139072 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACTGGAAAATATTTT
57139105 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:57141503 original size:12 final size:12
Alignment explanation
Indices: 57141484--57141512 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
57141474 TTATACTTTT
57141484 TTTA-ATATTTG
1 TTTATATATTTG
57141495 TTTATATATTTG
1 TTTATATATTTG
57141507 TTTATA
1 TTTATA
57141513 ATACTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (12 bp):
TTTATATATTTG
Found at i:57145508 original size:20 final size:20
Alignment explanation
Indices: 57145466--57145508 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
57145456 GATCCATGGA
* *
57145466 GTGATCGACGGTGGTCAGCG
1 GTGAACGACGGTGGTCAGAG
* *
57145486 GTGAACGACGGTTGTCGGAG
1 GTGAACGACGGTGGTCAGAG
57145506 GTG
1 GTG
57145509 TTTGGAGGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.47, T:0.21
Consensus pattern (20 bp):
GTGAACGACGGTGGTCAGAG
Found at i:57145796 original size:6 final size:5
Alignment explanation
Indices: 57145772--57145834 Score: 81
Period size: 5 Copynumber: 11.6 Consensus size: 5
57145762 AACCTTTTTT
57145772 TTTCA TTTCA TTTCA TTTCCA TTTCTA TTTCCA TTTCA TTTCA TTTCCA
1 TTTCA TTTCA TTTCA TTT-CA TTTC-A TTT-CA TTTCA TTTCA TTT-CA
57145821 TTTCCA TTTCA TTT
1 TTT-CA TTTCA TTT
57145835 AAATTATTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
5 29 0.54
6 24 0.44
7 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (5 bp):
TTTCA
Found at i:57145806 original size:28 final size:27
Alignment explanation
Indices: 57145772--57145834 Score: 108
Period size: 28 Copynumber: 2.3 Consensus size: 27
57145762 AACCTTTTTT
*
57145772 TTTCATTTCATTTCATTTCCATTTCTA
1 TTTCATTTCATTTCATTTCCATTTCCA
57145799 TTTCCATTTCATTTCATTTCCATTTCCA
1 TTT-CATTTCATTTCATTTCCATTTCCA
57145827 TTTCATTT
1 TTTCATTT
57145835 AAATTATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 8 0.24
28 26 0.76
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTCATTTCATTTCATTTCCATTTCCA
Found at i:57145853 original size:20 final size:21
Alignment explanation
Indices: 57145829--57145890 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 21
57145819 CATTTCCATT
57145829 TCATTTAAATTATTTTTTTTC
1 TCATTTAAATTATTTTTTTTC
*
57145850 -CATTTAAATTTAATTTTTTTC
1 TCATTTAAA-TTATTTTTTTTC
*
57145871 TCATTTCAAAATATTTTTTT
1 TCATTT-AAATTATTTTTTT
57145891 CATTTCAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 8 0.23
21 11 0.31
22 13 0.37
23 3 0.09
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (21 bp):
TCATTTAAATTATTTTTTTTC
Found at i:57145864 original size:25 final size:24
Alignment explanation
Indices: 57145821--57145869 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
57145811 TTCATTTCCA
*
57145821 TTTCCATTTCATTTAAATTATTTTT
1 TTTCCATTTAATTTAAATT-TTTTT
57145846 TTTCCATTTAAATTT-AATTTTTTT
1 TTTCCATTT-AATTTAAATTTTTTT
57145870 CTCATTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 13 0.59
26 4 0.18
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTCCATTTAATTTAAATTTTTTT
Found at i:57145868 original size:21 final size:21
Alignment explanation
Indices: 57145829--57145891 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
57145819 CATTTCCATT
*
57145829 TCATTTAAATTATTTTTTTTC
1 TCATTTAAATTAATTTTTTTC
57145850 -CATTTAAATTTAATTTTTTTC
1 TCATTTAAA-TTAATTTTTTTC
*
57145871 TCATTTCAAAAT-ATTTTTTTC
1 TCATTT-AAATTAATTTTTTTC
57145892 ATTTCAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 8 0.22
21 20 0.54
22 6 0.16
23 3 0.08
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (21 bp):
TCATTTAAATTAATTTTTTTC
Found at i:57145960 original size:12 final size:11
Alignment explanation
Indices: 57145949--57146040 Score: 54
Period size: 11 Copynumber: 8.7 Consensus size: 11
57145939 ACTTTCATTC
57145949 CATTTCATATT
1 CATTTCATATT
57145960 CATTT-A-A--
1 CATTTCATATT
57145967 CATTTCAT-TT
1 CATTTCATATT
*
57145977 CATTTCATATC
1 CATTTCATATT
* *
57145988 CATTACAAATT
1 CATTTCATATT
* *
57145999 ACATTACAT-TA
1 -CATTTCATATT
57146010 CATTTCATATT
1 CATTTCATATT
*
57146021 TATTTAACAT-TT
1 CATTT--CATATT
57146033 CATTTCAT
1 CATTTCAT
57146041 TAATTTTTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 19
0.68 0.11 0.21
Matches are distributed among these distances:
7 5 0.08
8 1 0.02
9 1 0.02
10 19 0.31
11 20 0.32
12 13 0.21
13 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (11 bp):
CATTTCATATT
Found at i:57145962 original size:28 final size:28
Alignment explanation
Indices: 57145930--57146041 Score: 100
Period size: 28 Copynumber: 3.8 Consensus size: 28
57145920 ATAATTTATT
57145930 TTCATTTAA-ACTTTCATTCCATTTCATA
1 TTCATTTAACA-TTTCATTCCATTTCATA
*
57145958 TTCATTTAACATTTCATTTCATTTCATA
1 TTCATTTAACATTTCATTCCATTTCATA
* * * *
57145986 TCCATTACAAATTACATTACATTACATTTCATA
1 TTCATT-----TAACATTTCATTCCATTTCATA
* *
57146019 TTTATTTAACATTTCATTTCATT
1 TTCATTTAACATTTCATTCCATT
57146042 AATTTTTTTC
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
28 44 0.65
29 1 0.01
33 23 0.34
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (28 bp):
TTCATTTAACATTTCATTCCATTTCATA
Found at i:57145977 original size:5 final size:5
Alignment explanation
Indices: 57145941--57146041 Score: 58
Period size: 5 Copynumber: 18.4 Consensus size: 5
57145931 TCATTTAAAC
* *
57145941 TTTCA TTCCA TTTCA TATTCA TTTAACA TTTCA TTTCA TTTCA TATCCA
1 TTTCA TTTCA TTTCA T-TTCA TTT--CA TTTCA TTTCA TTTCA T-TTCA
* * * * *
57145990 TTACAAA TTACA TTACA TTACA TTTCA TATTTA TTTAACA TTTCA TTTCA
1 TTTC--A TTTCA TTTCA TTTCA TTTCA T-TTCA TTT--CA TTTCA TTTCA
57146040 TT
1 TT
57146042 AATTTTTTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
5 53 0.66
6 13 0.16
7 14 0.17
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (5 bp):
TTTCA
Found at i:57146133 original size:15 final size:16
Alignment explanation
Indices: 57146113--57146151 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
57146103 AGTAGTCTCA
57146113 TTTCAATTT-ATCTTT
1 TTTCAATTTAATCTTT
*
57146128 TTTCAATTTAATTTTT
1 TTTCAATTTAATCTTT
57146144 TTTCAATT
1 TTTCAATT
57146152 CATTTCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTCAATTTAATCTTT
Found at i:57146156 original size:15 final size:15
Alignment explanation
Indices: 57146113--57146156 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
57146103 AGTAGTCTCA
* *
57146113 TTTCAATTTATCTTT
1 TTTCAATTAATTTTT
57146128 TTTCAATTTAATTTTT
1 TTTCAA-TTAATTTTT
*
57146144 TTTCAATTCATTT
1 TTTCAATTAATTT
57146157 CATATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTCAATTAATTTTT
Found at i:57146241 original size:20 final size:21
Alignment explanation
Indices: 57146200--57146241 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
57146190 TATTAGTGTC
*
57146200 ATTTAAAATTTTTCATATTTT
1 ATTTAAAATTTTTCATAATTT
57146221 ATTT-AAATTTTTC-TCAATTT
1 ATTTAAAATTTTTCAT-AATTT
57146241 A
1 A
57146242 AATATCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 1 0.05
20 14 0.74
21 4 0.21
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAAAATTTTTCATAATTT
Found at i:57146475 original size:17 final size:16
Alignment explanation
Indices: 57146449--57146539 Score: 96
Period size: 17 Copynumber: 5.5 Consensus size: 16
57146439 TTCTTTTTTT
57146449 TTTCATTTCATTTCTA
1 TTTCATTTCATTTCTA
57146465 TTTCTATTTCATTT-TA
1 TTTC-ATTTCATTTCTA
57146481 TTTCATATTTCATTTC-A
1 TTTC--ATTTCATTTCTA
* *
57146498 TTTCATTTGTATTTATA
1 TTTCATTT-CATTTCTA
57146515 TTTCATTTCTATTTCTA
1 TTTCATTTC-ATTTCTA
*
57146532 TTTTATTT
1 TTTCATTT
57146540 AAATTATCTT
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
15 4 0.06
16 14 0.22
17 46 0.72
ACGTcount: A:0.20, C:0.13, G:0.01, T:0.66
Consensus pattern (16 bp):
TTTCATTTCATTTCTA
Found at i:57146475 original size:22 final size:22
Alignment explanation
Indices: 57146449--57146539 Score: 123
Period size: 22 Copynumber: 4.1 Consensus size: 22
57146439 TTCTTTTTTT
57146449 TTTCATTTCATTTCTATTTCTA
1 TTTCATTTCATTTCTATTTCTA
*
57146471 TTTCATTTTATTTCATATTTC-A
1 TTTCATTTCATTTC-TATTTCTA
* *
57146493 TTTCATTTCATTTGTATTTATA
1 TTTCATTTCATTTCTATTTCTA
57146515 TTTCATTTCTATTTCTATTT-TA
1 TTTCATTTC-ATTTCTATTTCTA
57146537 TTT
1 TTT
57146540 AAATTATCTT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
21 5 0.08
22 41 0.67
23 15 0.25
ACGTcount: A:0.20, C:0.13, G:0.01, T:0.66
Consensus pattern (22 bp):
TTTCATTTCATTTCTATTTCTA
Found at i:57146483 original size:5 final size:5
Alignment explanation
Indices: 57146443--57146539 Score: 50
Period size: 5 Copynumber: 17.6 Consensus size: 5
57146433 ATTCTTTTCT
* * * *
57146443 TTTTT TTTTCA TTTCA TTTCTA TTTCTA TTTCA TTTTA TTTCATA TTTCA
1 TTTTA TTTT-A TTTTA TTT-TA TTT-TA TTTTA TTTTA TTT--TA TTTTA
* * *
57146493 TTTCA TTTCA TTTGTA TTTATA TTTCA TTTCTA TTTCTA TTTTA TTT
1 TTTTA TTTTA TTT-TA TTT-TA TTTTA TTT-TA TTT-TA TTTTA TTT
57146540 AAATTATCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
5 39 0.51
6 32 0.42
7 5 0.07
ACGTcount: A:0.19, C:0.12, G:0.01, T:0.68
Consensus pattern (5 bp):
TTTTA
Found at i:57146587 original size:47 final size:48
Alignment explanation
Indices: 57146508--57146895 Score: 551
Period size: 47 Copynumber: 8.2 Consensus size: 48
57146498 TTTCATTTGT
* * *
57146508 ATTTATATTTCATTTCTATTTCT-ATTTTATTTAAATTATCTTT-TTTCC
1 ATTTAAATTTAATTT-T-TTTCTCATTTCATTTAAATTATCTTTCTTTCC
*
57146556 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTT-TTTTC
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
***
57146603 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTAAAATT-TTTCC
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
57146650 ATTTAAATTT-ATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
* *
57146697 ATTTAAATTTAA-TTTTTTCTCATTTCAATTAATTTATCTTTCTTTCC
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
* *
57146744 ATTTAAATTTAATATTTTTCTCATTTAATTTAAATTATCTTT-TTTCC
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
* * *
57146791 ATTTAAATTTAATTTTTTTCTCATTTCATTTTAATTATATTTCTTTCT
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
*
57146839 ATTTTAATTTAA--TTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
*
57146885 ATTTGAATTTA
1 ATTTAAATTTA
57146896 CGTTTTTTAT
Statistics
Matches: 308, Mismatches: 27, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
46 74 0.24
47 180 0.58
48 54 0.18
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.61
Consensus pattern (48 bp):
ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
Found at i:57146853 original size:21 final size:20
Alignment explanation
Indices: 57146814--57146893 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 20
57146804 TTTTTTCTCA
57146814 TTTCATTTTAATTATATTTC
1 TTTCATTTTAATTATATTTC
*
57146834 TTTCTATTTTAATTTAATTTTTCTC
1 TTTC-ATTTTAA-TT-A-TATT-TC
* *
57146859 ATTTCATTTAAATTATCTTTC
1 -TTTCATTTTAATTATATTTC
*
57146880 TTTCCATTTGAATT
1 TTT-CATTTTAATT
57146894 TACGTTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
20 7 0.14
21 18 0.37
22 5 0.10
23 2 0.04
24 5 0.10
25 8 0.16
26 4 0.08
ACGTcount: A:0.24, C:0.12, G:0.01, T:0.62
Consensus pattern (20 bp):
TTTCATTTTAATTATATTTC
Found at i:57147132 original size:44 final size:44
Alignment explanation
Indices: 57146937--57147129 Score: 350
Period size: 44 Copynumber: 4.4 Consensus size: 44
57146927 TTTATTTTTC
57146937 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
57146981 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
57147025 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
* * *
57147069 ATTTAATGTGCTTTAAATTAAATATGCATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
*
57147113 ATTTAACGTGTTTTAAA
1 ATTTAATGTGTTTTAAA
57147130 TTAGGAATAA
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 144 1.00
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (44 bp):
ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
Found at i:57150517 original size:20 final size:23
Alignment explanation
Indices: 57150474--57150518 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
57150464 TTTTTATTCA
57150474 TTTATTCATGTATCTTTGATTTG
1 TTTATTCATGTATCTTTGATTTG
57150497 TTTATT-ATGTAT-TTT-ATTTG
1 TTTATTCATGTATCTTTGATTTG
57150517 TT
1 TT
57150519 GCTCATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 3 0.14
22 6 0.27
23 6 0.27
ACGTcount: A:0.18, C:0.04, G:0.11, T:0.67
Consensus pattern (23 bp):
TTTATTCATGTATCTTTGATTTG
Found at i:57154516 original size:21 final size:21
Alignment explanation
Indices: 57154490--57154561 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
57154480 AAAATCAAAG
*
57154490 TCAAAATGAAAAGGAAAAAAA
1 TCAAAATGAAAAGAAAAAAAA
57154511 TCAAAAAT-AAAA-ATAAAAAAA
1 TC-AAAATGAAAAGA-AAAAAAA
*
57154532 -CAAAAAGAAGAAAGAAGAAAAAA
1 TCAAAATG-A-AAAGAA-AAAAAA
57154555 TCAAAAT
1 TCAAAAT
57154562 CAAGATCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
19 4 0.10
20 1 0.03
21 14 0.35
22 9 0.22
23 7 0.17
24 5 0.12
ACGTcount: A:0.75, C:0.06, G:0.10, T:0.10
Consensus pattern (21 bp):
TCAAAATGAAAAGAAAAAAAA
Found at i:57154614 original size:51 final size:49
Alignment explanation
Indices: 57154520--57154623 Score: 122
Period size: 51 Copynumber: 2.1 Consensus size: 49
57154510 ATCAAAAATA
57154520 AAAATAAAAAAACAAAAAGAAGAAAGAAGAAAAAATCAAAATCAAGATC
1 AAAATAAAAAAACAAAAAGAAGAAAGAAGAAAAAATCAAAATCAAGATC
* * * *
57154569 AAAATAAAAATGAGAAAAAGAA-AGAAGAATGAAAAAA-GAGAAATCAAGATG
1 AAAATAAAAA-AACAAAAAGAAGA-AAGAA-GAAAAAATCA-AAATCAAGATC
57154620 AAAA
1 AAAA
57154624 AATCAGAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
49 11 0.23
50 15 0.32
51 21 0.45
ACGTcount: A:0.72, C:0.05, G:0.14, T:0.09
Consensus pattern (49 bp):
AAAATAAAAAAACAAAAAGAAGAAAGAAGAAAAAATCAAAATCAAGATC
Found at i:57155404 original size:6 final size:7
Alignment explanation
Indices: 57155387--57155420 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
57155377 TCTGAGTTAA
57155387 AAAAATG
1 AAAAATG
57155394 AAAAATG
1 AAAAATG
57155401 AAAAATG
1 AAAAATG
57155408 -AAAATG
1 AAAAATG
57155414 AAAAATG
1 AAAAATG
57155421 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:57155411 original size:13 final size:14
Alignment explanation
Indices: 57155387--57155420 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
57155377 TCTGAGTTAA
57155387 AAAAATGAAAAATG
1 AAAAATGAAAAATG
57155401 AAAAATG-AAAATG
1 AAAAATGAAAAATG
57155414 AAAAATG
1 AAAAATG
57155421 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:57156890 original size:44 final size:44
Alignment explanation
Indices: 57156647--57157773 Score: 387
Period size: 44 Copynumber: 25.7 Consensus size: 44
57156637 AGTGAATATT
* * * * * * *
57156647 AGAGATCTTATCTCCCTGGGATTATAGCGGAGCAAATCGAAGAC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
** * ** * *
57156691 A-CCATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAAT-
1 AGAGATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGTC
* * * ** * *
57156733 AAAGGATCTCATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TC
1 AGA-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGTC
* ** *
57156777 AG-G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG--TC
** * * *
57156821 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
* *
57156865 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAT-
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG-TC
* * * * *
57156909 AGTA-ATCCTATCTCCCTGAGATTACAGTGAAGCAGATTAAAATC
1 AG-AGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
* * * ** * *
57156953 AAAGATCTTATTTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TC
1 AGAGATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGTC
* * * **
57156996 AG-G-TCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG----TC
* * * *** *
57157042 A-A-ACCTTATCTCCCTAAGGTTACAGTGGAGTAGACCAAAGAATT
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG--TC
** *
57157086 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAG-C
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
*
57157129 TAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGAT-
1 -AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG-TC
* * ** * *
57157174 AGTA-ATCCTATCTCCCTGAGATTACAGTGAAGCGGATTAAAATC
1 AG-AGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
* * ** * *
57157218 A-AGGATCTTATTTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TC
1 AGA-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGTC
* **
57157261 AG-G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG----TC
* * * **
57157307 A-A-ACCTTATCTCCCTGAGGTTATAGTGGAGTAGACCGAAGAATTTC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG----TC
* * ** **
57157353 A-A-ACCTTATCTCCCTGAGATTACAGCGGAGTAGATCCAAAAC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
** * * * * *
57157395 A-CTATCTTATCTTCCTAAGGTTACAGTGGAGCAGATTGAAGCC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
* * *
57157438 AGAGATCTTATCTCTCTTAGATTACAGCGGAGTAGATTGAAG-C
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
* * *** * *
57157481 TAGTA-ATCCTATCTCTCTGA-AGTTACAGTGGAACGGATTAAAAT-
1 -AG-AGATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGTC
* * * * * * *
57157525 AAAGGATCTCATCTCTCTGA-AGTTACACTAGAGTAGATCGCA-TC
1 AGA-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGTC
* ** *
57157569 AG-G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG--TC
** * * * * **
57157613 TCAGATCTTATCTCCCTGAGGTTACAGTGAAGCAGA-CGAAAGAA
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTG-AAGTC
* * ** * * * *
57157657 ATTA-ATCCTATCTTTCTGA-AGTTGCAGTGGAGTGGATTAAAATC
1 A-GAGATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGTC
* * * * *
57157701 ACAGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TC
1 AGAGATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGTC
*
57157744 AG-G-TCTTATCTCCCTGAGGTTACAGTGGAG
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAG
57157774 CAGACGAAAG
Statistics
Matches: 819, Mismatches: 201, Indels: 129
0.71 0.17 0.11
Matches are distributed among these distances:
41 135 0.16
42 11 0.01
43 78 0.10
44 374 0.46
45 9 0.01
46 212 0.26
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
Found at i:57157029 original size:219 final size:217
Alignment explanation
Indices: 57156647--57157167 Score: 713
Period size: 219 Copynumber: 2.4 Consensus size: 217
57156637 AGTGAATATT
* * * * * **
57156647 AGAGATCTTATCTCCCTGGGATTATAGCGGAGCAAATCGAAGACACCATCCTATCTCCCTGA-AG
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGAATCCTATCTCCCTGAGA-
*
57156711 TTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
65 TTACAGTGGAGCAGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
* * * * *
57156776 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
130 CAGGTCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTAAG
*** *
57156841 GTTACAGTGGAGCAGATTGAAGCC
195 GTTACAGTGGAGCAGACCAAAG-A
57156865 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAG-AATCCTATCTCCCTGAGA
* * *
57156930 TTACAGTGAAGCAGATTAAAATCAAA-GATCTTATTTCTCTGAAGTTACAGCAGAGTAGATCGCA
65 TTACAGTGGAGCAGATTAAAAT-AAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
57156994 TCAGGTCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTAA
129 TCAGGTCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTAA
*
57157059 GGTTACAGTGGAGTAGACCAAAGA
194 GGTTACAGTGGAGCAGACCAAAGA
* * * * * *
57157083 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCTAGAGATCTTATCTCCCTG
1 A---GAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGA-ATCCTATCTCCCTG
57157148 AGATTACAGTGGAGCAGATT
62 AGATTACAGTGGAGCAGATT
57157168 GAAGATAGTA
Statistics
Matches: 268, Mismatches: 28, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
218 41 0.15
219 150 0.56
220 5 0.02
221 72 0.27
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (217 bp):
AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGAATCCTATCTCCCTGAGAT
TACAGTGGAGCAGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
AGGTCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTAAGG
TTACAGTGGAGCAGACCAAAGA
Found at i:57157254 original size:265 final size:264
Alignment explanation
Indices: 57156781--57157641 Score: 1101
Period size: 265 Copynumber: 3.3 Consensus size: 264
57156771 CGCATCAGGT
57156781 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
1 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
* *
57156846 AGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAG
66 AGTGGAGTAGATTGAAG-CAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAG
57156911 TAATCCTATCTCCCTGAGATTACAGTGAAGCAGATTAAAATCAAAGATCTTATTTCTCTGAAGTT
130 TAATCCTATCTCCCTGAGATTACAGTGAAGCAGATTAAAATCAAAGATCTTATTTCTCTGAAGTT
57156976 ACAGCAGAGTAGATCGCATCAGGTCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTT
195 ACAGCAGAGTAGATCGCATCAGGTCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTT
57157041 CAAAC
260 CAAAC
* *
57157046 CTTATCTCCCTAAGGTTACAGTGGAGTAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
1 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
57157111 AGTGGAGTAGATTGAAGCTAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAG
66 AGTGGAGTAGATTGAAGC-AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAG
* *
57157176 TAATCCTATCTCCCTGAGATTACAGTGAAGCGGATTAAAATCAAGGATCTTATTTCTCTGAAGTT
130 TAATCCTATCTCCCTGAGATTACAGTGAAGCAGATTAAAATCAAAGATCTTATTTCTCTGAAGTT
* *
57157241 ACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTT
195 ACAGCAGAGTAGATCGCATCAGGTCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTT
57157306 CAAAC
260 CAAAC
* * * *
57157311 CTTATCTCCCTGAGGTTATAGTGGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTGAGATTAC
1 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
* ** * ** * * * **
57157376 AGCGGAGTAGATCCAAAACA-CTATCTTATCTTCCTAAGGTTACAGTGGAGCAGATTGAAGCCAG
66 AGTGGAGTAGAT-TGAAGCAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAG
* * * * * * * * * * *
57157440 -AGATCTTATCTCTCTTAGATTACAGCGGAGTAGATT-GAAGC-TAGTAATCCTATCTCTCTGAA
130 TA-ATCCTATCTCCCTGAGATTACAGTGAAGCAGATTAAAATCAAAG--ATCTTATTTCTCTGAA
** *** *** * * * * * * *
57157502 GTTACAGTGGAACGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACACTAGAGTAGATC---
192 GTTACAGCAGAGTAGA-TCGCAT-CAGG-TCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAA
* ***
57157564 GCA--TCAGGT
254 GAATTTCAAAC
57157573 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
1 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
57157638 AGTG
66 AGTG
57157642 AAGCAGACGA
Statistics
Matches: 526, Mismatches: 62, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
262 68 0.13
263 4 0.01
264 92 0.17
265 329 0.63
266 6 0.01
267 27 0.05
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (264 bp):
CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
AGTGGAGTAGATTGAAGCAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGT
AATCCTATCTCCCTGAGATTACAGTGAAGCAGATTAAAATCAAAGATCTTATTTCTCTGAAGTTA
CAGCAGAGTAGATCGCATCAGGTCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTC
AAAC
Found at i:57157462 original size:308 final size:309
Alignment explanation
Indices: 57157000--57157946 Score: 1094
Period size: 308 Copynumber: 3.1 Consensus size: 309
57156990 CGCATCAGGT
* * * *
57157000 CTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTAAGGTTAC
1 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTGAGATTAC
* *
57157065 AGTGGAGTAGA-CCAAAGA-ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAG
66 AGTGGAGTAGATCCAAA-ACA---CAGATCTTATCTTCCTAAGGTTACAGTGGAGTAGATTGAAG
*
57157128 CTAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTG-
127 CCAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGA
57157192 AGATTACAGTGAAGCGGATTAAAATCAAGGATCTTATTTCTCTGAAGTTACAGCAGAGTAGATCG
192 AG-TTACAGTGAAGCGGATTAAAATCAAGGATCTTATTTCTCTGAAGTTACAGCAGAGTAGATCG
57157257 CATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAAC
256 CATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAAC
*
57157311 CTTATCTCCCTGAGGTTATAGTGGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTGAGATTAC
1 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTGAGATTAC
* * *
57157376 AGCGGAGTAGATCCAAAACAC-TATCTTATCTTCCTAAGGTTACAGTGGAGCAGATTGAAGCCAG
66 AGTGGAGTAGATCCAAAACACAGATCTTATCTTCCTAAGGTTACAGTGGAGTAGATTGAAGCCAG
* * * * * *
57157440 AGATCTTATCTCTCTTAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTT
131 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAAGTT
* * *
57157505 ACAGTGGAA-CGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACA-CTAGAGTAGATCGCAT
196 ACAGT-GAAGCGGATTAAAATCAAGGATCTTATTTCTCTGAAGTTACAGC-AGAGTAGATCGCAT
* *
57157568 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGAT
259 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAAC
* * * * **
57157619 CTTATCTCCCTGAGGTTACAGTGAAGCAGA-CGAAAGAAATT-AATCC-TATCTTTCTGA-AGTT
1 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCG-AAGAATTTCAAACCTTATCTCCCTGAGA-TT
* * * * * *
57157680 GCAGTGGAGTGGAT-TAAAATCACAGATCTTATC-TCTCTGAA-GTTACAGTAGAGTAGATCGCA
64 ACAGTGGAGTAGATCCAAAA-CACAGATCTTATCTTC-CT-AAGGTTACAGTGGAGTAGATTGAA
* * * * * *
57157742 -TCAG-G-TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CGAAAGAAATTAATCCTATCTTCCT
126 GCCAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTG-AAGATAGTAATCCTATCTCCCT
* * * * * *
57157803 GAAGTTACAGTGGAGCGGATTAAAACCACA-TATCTTATTTCTCTAAAGTTACAGTAGAGCAGAT
190 GAAGTTACAGTGAAGCGGATTAAAATCA-AGGATCTTATTTCTCTGAAGTTACAGCAGAGTAGAT
* * * * * *
57157867 CACATCCA-GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGA-CGAAAGAA-AT-AAATC
254 CGCAT-CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCG-AAGAATTTCAAA-C
* *
57157922 C-TATCTCCCTGAAGTTACAATGGAG
1 CTTATCTCCCTGAGGTTACAGTGGAG
57157947 CGGATTAAAA
Statistics
Matches: 548, Mismatches: 70, Indels: 45
0.83 0.11 0.07
Matches are distributed among these distances:
302 23 0.04
303 7 0.01
304 129 0.24
305 9 0.02
306 30 0.05
307 34 0.06
308 233 0.43
309 6 0.01
311 71 0.13
312 6 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (309 bp):
CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTGAGATTAC
AGTGGAGTAGATCCAAAACACAGATCTTATCTTCCTAAGGTTACAGTGGAGTAGATTGAAGCCAG
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAAGTT
ACAGTGAAGCGGATTAAAATCAAGGATCTTATTTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAAC
Found at i:57157677 original size:175 final size:173
Alignment explanation
Indices: 57157484--57157814 Score: 504
Period size: 175 Copynumber: 1.9 Consensus size: 173
57157474 TTGAAGCTAG
57157484 TAATCCTATCTCTCTGAAGTTACAGTGGAACGGATTAAAAT-AAAGGATCTCATCTCTCTGAAGT
1 TAATCCTATCTCTCTGAAGTTACAGTGGAACGGATTAAAATCAAA-GATCTCATCTCTCTGAAGT
* *
57157548 TACACTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCG-AAGAAT
65 TACACTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CGAAAGAAA
* *
57157612 TTCAGATCTTATCTCCCTGAGGTTACAGTGAAGCAGACGAAAGAAAT
129 TT-A-ATCCTATCTCCCTGAAGTTACAGTGAAGCAGACGAAAGAAAT
* * ** * *
57157659 TAATCCTATCTTTCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTT
1 TAATCCTATCTCTCTGAAGTTACAGTGGAACGGATTAAAATCAAAGATCTCATCTCTCTGAAGTT
*
57157724 ACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACGAAAGAAATT
66 ACACTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACGAAAGAAATT
*
57157789 AATCCTATCTTCCTGAAGTTACAGTG
131 AATCCTATCTCCCTGAAGTTACAGTG
57157815 GAGCGGATTA
Statistics
Matches: 142, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
173 22 0.15
174 3 0.02
175 115 0.81
176 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (173 bp):
TAATCCTATCTCTCTGAAGTTACAGTGGAACGGATTAAAATCAAAGATCTCATCTCTCTGAAGTT
ACACTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACGAAAGAAATT
AATCCTATCTCCCTGAAGTTACAGTGAAGCAGACGAAAGAAAT
Found at i:57157764 original size:129 final size:129
Alignment explanation
Indices: 57157618--57158035 Score: 640
Period size: 129 Copynumber: 3.2 Consensus size: 129
57157608 GAATTTCAGA
* * * *
57157618 TCTTATCTCCCTGAGGTTACAGTGAAGCAGACGAAAGAAATTAATCCTATCTTTCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTACA
* * * *
57157683 GTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT-CAGG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCA-G
*
57157747 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTACA
* * *
57157812 GTGGAGCGGATTAAAACCACATATCTTATTTCTCTAAAGTTACAGTAGAGCAGATCACATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAG
* * * *
57157876 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACGAAAGAAATAAATCCTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTACA
* * *
57157941 ATGGAGCGGATTAAAACCACAGATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAG
*
57158005 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGA
57158036 TTGAGTAAGC
Statistics
Matches: 266, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
129 264 0.99
130 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTACA
GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAG
Found at i:57157893 original size:41 final size:41
Alignment explanation
Indices: 57157672--57158258 Score: 175
Period size: 44 Copynumber: 13.6 Consensus size: 41
57157662 TCCTATCTTT
** * *
57157672 CTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGA-TCAAATC-CAG-TCTTATCTCC
* * * **
57157716 CTGAAGTTACAGTAGAGTAGATCGCAT-CAGGTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATCAAATCCA-GTCTTATCTCC
* * * * * *
57157757 CTGAGGTTACAGTGGAGCAGA-CGAAAGAAAT-TAATCCTATCTTC
1 CTGAAGTTGCAGTGGAGCAGATC-----AAATCCAGTCTTATCTCC
* * * * * * *
57157801 CTGAAGTTACAGTGGAGCGGATTAAAACCACATATCTTATTTCT
1 CTGAAGTTGCAGTGGAGCAGA-TCAAATC-CA-GTCTTATCTCC
* * * *
57157845 CTAAAGTTACAGTAGAGCAGATCACATCCAGTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATCAAATCCAGTCTTATCTCC
* * * *
57157886 TTGAAGTTGCAGTGGAGCAGA-CGAAAGAAAT-AAATCCTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATC-----AAATCCAGTCTTATCTCC
* * * * * **
57157930 CTGAAGTTACAATGGAGCGGATTAAAACCACAGATCTTATCTTT
1 CTGAAGTTGCAGTGGAGCAGA-TCAAATC-CAG-TCTTATCTCC
* *
57157974 CTGAAGTTGCAGTAGAGCAGATCACATCCAGTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATCAAATCCAGTCTTATCTCC
* * *
57158015 CTGAAGTTGCAGTGGAGCAGATTGAGTAA-GCAGGTCTTATCCCC
1 CTGAAGTTGCAGTGGAGCAGA-TCA--AATCCA-GTCTTATCTCC
* * * * * **
57158059 CTAAAGTTGCAGCGGGGCAGACTGAAGATGGCAAACTTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGA-TCAA-AT-CCAGTC-TTATCTCC
* ** * * *
57158104 CTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATCAAATCC---AGTCTTATCTCC
* * ** * *
57158148 CTGAAGTTGCAGAGGAGCAGATTAAAGTAGTAGATCGTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATCAAA-T-CCAG-TCTTATCTCC
* **
57158192 CTGAAGTTGCAGTAGG-GTAGATCGCAT-CAGGTCTTATCTCC
1 CTGAAGTTGCAGT-GGAGCAGATCAAATCCA-GTCTTATCTCC
* * *
57158233 CTG-AGATTACAGTGGAACAGACCAAA
1 CTGAAG-TTGCAGTGGAGCAGATCAAA
57158259 GAATTTCAGA
Statistics
Matches: 397, Mismatches: 107, Indels: 81
0.68 0.18 0.14
Matches are distributed among these distances:
40 6 0.02
41 111 0.28
42 11 0.03
43 19 0.05
44 212 0.53
45 38 0.10
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (41 bp):
CTGAAGTTGCAGTGGAGCAGATCAAATCCAGTCTTATCTCC
Found at i:57157971 original size:44 final size:44
Alignment explanation
Indices: 57156698--57158173 Score: 332
Period size: 44 Copynumber: 33.8 Consensus size: 44
57156688 GACACCATCC
* * *
57156698 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA-TAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACA-GATCT
* * * * * *
57156742 CATCTCTCTGAAGTTAC-----AGCAGAGTAGATCGCATCAGGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAC-CA-CAGATCT
* * ** ***
57156783 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AACCACAGATCT
* * * *
57156829 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
* * * * *
57156873 TATCTCCCTG-AGATTACAGCGGAGCAGATT-GAA-GATAGTAATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAACCACAG--ATCT
* * *
57156917 TATCTCCCTG-AGATTACAGTGAAGCAGATTAAAATCAAAGATCT
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAACCACAGATCT
* * * * * *
57156961 TATTTCTCTGAAGTTAC-----AGCAGAGTAGATCGCATCAGGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAC-CA-CAGATCT
* * * * ** *** * *
57157002 TATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTCAAACCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AACCACAGATCT
* ** ***
57157048 TATCTCCCT-AAGGTTACAGTGGAGTAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAA-GTTACAGTGGAGCAGA-TTAA-AACCACAGATCT
* * * * * *
57157094 TATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCTAGAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
* * * *
57157138 TATCTCCCTG-AGATTACAGTGGAGCAGATT-GAA-GATAGTAATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAACCACAG--ATCT
* * *
57157182 TATCTCCCTG-AGATTACAGTGAAGCGGATTAAAATCA-AGGATCT
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAACCACA-GATCT
* * * * * *
57157226 TATTTCTCTGAAGTTAC-----AGCAGAGTAGATCGCATCAGGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAC-CA-CAGATCT
* * ** *** * *
57157267 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAACCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AACCACAGATCT
* * * ** *** * *
57157313 TATCTCCCTGAGGTTATAGTGGAGTAGACCGAAGAATTTCAAACCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AACCACAGATCT
* * * *
57157359 TATCTCCCTG-AGATTACAGCGGAGTAGATCCAAAA-CAC-TATCT
1 TATCTCCCTGAAG-TTACAGTGGAGCAGAT-TAAAACCACAGATCT
* * * *
57157402 TATCTTCCT-AAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCT
1 TATCTCCCTGAA-GTTACAGTGGAGCAGATTAAAACCACAGATCT
* * * * * * * * *
57157446 TATCTCTCT-TAGATTACAGCGGAGTAGATTGAAGCTAGTA-ATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAACCA-CAGATCT
* * * * *
57157490 TATCTCTCTGAAGTTACAGTGGAACGGATTAAAA-TAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACA-GATCT
* * * * * *
57157534 CATCTCTCTGAAGTTACACT--AG-AG--TAGATCGCATCAGGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAC-CA-CAGATCT
* * ** ***
57157575 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AACCACAGATCT
* * ** * * *
57157621 TATCTCCCTGAGGTTACAGTGAAGCAGACGAAAGA-AATTA-ATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-ACCA-CAGATCT
** * ** *
57157665 TATCTTTCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
* * * *
57157709 TATCTCTCTGAAGTTACAGT--AG-AG--TAGATCGCATCAGGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAC-CA-CAGATCT
* ** * * *
57157750 TATCTCCCTGAGGTTACAGTGGAGCAGACGAAAGA-AATTA-ATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-ACCA-CAGATCT
* * *
57157794 TATCTTCCTGAAGTTACAGTGGAGCGGATTAAAACCACATATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
* * * * * * *
57157838 TATTTCTCTAAAGTTACAGTAGAGCAGA-TCACATC-CAG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
* * ** * * * *
57157879 TATCTCCTTGAAGTTGCAGTGGAGCAGACGAAAGA-AATAAATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-ACCACAGATCT
* *
57157923 TATCTCCCTGAAGTTACAATGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
** * * * * *
57157967 TATCTTTCTGAAGTTGCAGTAGAGCAGA-TCACATC-CAG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
* * * *
57158008 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGTAA--GCAGGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATT-A-AAACCACAGATCT
* * * * * * * *** *
57158052 TATCCCCCTAAAGTTGCAGCGGGGCAGACTGAAGATGGCA-AACTT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TTAAAACCACAGATC-T
* * * * * *
57158097 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACC-ACAGATCT
* *
57158141 TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAA
57158174 GTAGTAGATC
Statistics
Matches: 1052, Mismatches: 286, Indels: 188
0.69 0.19 0.12
Matches are distributed among these distances:
39 31 0.03
40 6 0.01
41 155 0.15
42 22 0.02
43 58 0.06
44 485 0.46
45 58 0.06
46 228 0.22
47 5 0.00
48 4 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
Found at i:57160031 original size:3 final size:3
Alignment explanation
Indices: 57160025--57160067 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
57160015 AACTAATAAG
* *
57160025 TTA TTA TTA TTA TTA TTA TGA TTA TTA TTA ATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
57160068 CTATGTCTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:57162027 original size:113 final size:113
Alignment explanation
Indices: 57161899--57162104 Score: 333
Period size: 113 Copynumber: 1.8 Consensus size: 113
57161889 GTGGTGCCAT
* *
57161899 CCATGAGTGTCCCAAAGTAAAAAAAAATTACCTTGGGACCCGAAAAATGTACTTGGTGCCAG-CT
1 CCATCAGTGTCCCAAAGTAAAAAAAAATTACCTTGGGACCCGAAAAATGTACTTGGTG-CAGACC
*
57161963 ATCTACTGACCAGCACCCAATTTTTTTTTTAAATTGACATTAGTGTCGG
65 ATCTACTGACCAGCACCAAATTTTTTTTTTAAATTGACATTAGTGTCGG
* * *
57162012 CCATCAGTGTCCCAAAGTAAAAAAAAATTGCCTTGGGACTCGAAAAATGTACTTGGTGCTGACCA
1 CCATCAGTGTCCCAAAGTAAAAAAAAATTACCTTGGGACCCGAAAAATGTACTTGGTGCAGACCA
*
57162077 TCTACTGGCCAGCACCAAATTTTTTTTT
66 TCTACTGACCAGCACCAAATTTTTTTTT
57162105 CAATGTCTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
112 2 0.02
113 83 0.98
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (113 bp):
CCATCAGTGTCCCAAAGTAAAAAAAAATTACCTTGGGACCCGAAAAATGTACTTGGTGCAGACCA
TCTACTGACCAGCACCAAATTTTTTTTTTAAATTGACATTAGTGTCGG
Found at i:57162977 original size:18 final size:18
Alignment explanation
Indices: 57162954--57162990 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
57162944 TTGCTTATAT
57162954 AAAAT-AAAAATAATTTTA
1 AAAATAAAAAAT-ATTTTA
57162972 AAAATAAAAAATATTTTA
1 AAAATAAAAAATATTTTA
57162990 A
1 A
57162991 CTTTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATAAAAAATATTTTA
Found at i:57163675 original size:12 final size:12
Alignment explanation
Indices: 57163658--57163682 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57163648 GTGTCACATA
57163658 TCATGTTTCTAT
1 TCATGTTTCTAT
57163670 TCATGTTTCTAT
1 TCATGTTTCTAT
57163682 T
1 T
57163683 AGTAGATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.60
Consensus pattern (12 bp):
TCATGTTTCTAT
Found at i:57164594 original size:20 final size:20
Alignment explanation
Indices: 57164571--57164609 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57164561 TTAAAATTCA
* *
57164571 TAAAAATATTAAAATAAAAG
1 TAAAAACATAAAAATAAAAG
57164591 TAAAAACATAAAAATAAAA
1 TAAAAACATAAAAATAAAA
57164610 ATCTCGGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (20 bp):
TAAAAACATAAAAATAAAAG
Found at i:57164601 original size:14 final size:14
Alignment explanation
Indices: 57164569--57164610 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
57164559 TATTAAAATT
*
57164569 CATAAAAATATTAAA
1 CATAAAAATA-AAAA
*
57164584 -ATAAAAGTAAAAA
1 CATAAAAATAAAAA
57164597 CATAAAAATAAAAA
1 CATAAAAATAAAAA
57164611 TCTCGGACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 3 0.13
14 20 0.87
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (14 bp):
CATAAAAATAAAAA
Found at i:57173992 original size:9 final size:9
Alignment explanation
Indices: 57173980--57174009 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
57173970 CACTTGCTGC
57173980 TCTTTTTCT
1 TCTTTTTCT
57173989 TCTTTTTCT
1 TCTTTTTCT
*
57173998 TCTTATTCT
1 TCTTTTTCT
57174007 TCT
1 TCT
57174010 AATTTTCCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.73
Consensus pattern (9 bp):
TCTTTTTCT
Found at i:57181533 original size:6 final size:6
Alignment explanation
Indices: 57181522--57181548 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
57181512 GGTTTGGATA
57181522 GAGATG GAGATG GAGATG GAGATG GAG
1 GAGATG GAGATG GAGATG GAGATG GAG
57181549 TGTTGGGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (6 bp):
GAGATG
Found at i:57192209 original size:7 final size:7
Alignment explanation
Indices: 57192197--57192242 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
57192187 TTTTATGAAC
57192197 TTTTTAA
1 TTTTTAA
57192204 TTTTTAA
1 TTTTTAA
57192211 -TTTTAA
1 TTTTTAA
* *
57192217 -TTTGAT
1 TTTTTAA
57192223 TTTTTAA
1 TTTTTAA
57192230 TTTTTAA
1 TTTTTAA
57192237 TTTTTA
1 TTTTTA
57192243 TAATTTTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 10 0.29
7 24 0.71
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (7 bp):
TTTTTAA
Found at i:57192216 original size:13 final size:13
Alignment explanation
Indices: 57192198--57192240 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
57192188 TTTATGAACT
57192198 TTTTAATTTTTAA
1 TTTTAATTTTTAA
57192211 TTTTAATTTGATT--
1 TTTTAATTT--TTAA
57192224 TTTTAATTTTTAA
1 TTTTAATTTTTAA
57192237 TTTT
1 TTTT
57192241 TATAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 2 0.08
13 22 0.85
15 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:57192666 original size:30 final size:28
Alignment explanation
Indices: 57192588--57192666 Score: 70
Period size: 30 Copynumber: 2.7 Consensus size: 28
57192578 GTGCAATTTG
* *
57192588 ATACATG-AACTTTAATTTGATGCAATT
1 ATACATGAAACTTTAATTTTATGAAATT
* * *
57192615 ATACAAATGATACTTTGATTTTAGTTAAATGT
1 ATAC--ATGAAACTTTAATTTTA-TGAAAT-T
57192647 ATACATGAAACTTTAATTTT
1 ATACATGAAACTTTAATTTT
57192667 GATTCAATCA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
27 4 0.10
29 3 0.08
30 24 0.60
31 4 0.10
32 5 0.12
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (28 bp):
ATACATGAAACTTTAATTTTATGAAATT
Found at i:57192906 original size:13 final size:13
Alignment explanation
Indices: 57192888--57192913 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57192878 TATTACTTTG
57192888 AACTCTTAGAAAA
1 AACTCTTAGAAAA
57192901 AACTCTTAGAAAA
1 AACTCTTAGAAAA
57192914 CTTTTGAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
AACTCTTAGAAAA
Found at i:57192957 original size:20 final size:19
Alignment explanation
Indices: 57192932--57192989 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
57192922 TCAACCTTTA
57192932 AATCAAATTAAAATAGTTTC
1 AATCAAATTAAAAT-GTTTC
* * *
57192952 AATCAAGTTAGAATTTTTC
1 AATCAAATTAAAATGTTTC
*
57192971 AATCAAAGTTAAATTGTTT
1 AATCAAA-TTAAAATGTTT
57192990 TTAAAACAAG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 10 0.33
20 20 0.67
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (19 bp):
AATCAAATTAAAATGTTTC
Found at i:57192972 original size:19 final size:19
Alignment explanation
Indices: 57192948--57192985 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
57192938 ATTAAAATAG
57192948 TTTCAATC-AAGTTAGAATT
1 TTTCAATCAAAGTTA-AATT
57192967 TTTCAATCAAAGTTAAATT
1 TTTCAATCAAAGTTAAATT
57192986 GTTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (19 bp):
TTTCAATCAAAGTTAAATT
Found at i:57198622 original size:105 final size:105
Alignment explanation
Indices: 57198369--57198739 Score: 549
Period size: 103 Copynumber: 3.6 Consensus size: 105
57198359 AACCGTTATT
* * * *
57198369 GGTGGATCTCGCACTTAGCACCACCACTGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
57198434 ATCAGCACATAGCAACCCCCTTTT--CATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
*
57198472 GGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGAAACCCCTCGGGGG
1 GGTGGATCA-CGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
57198536 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAT
65 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
* *
57198577 GGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCTTCGGGGGA
1 GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
*
57198642 ATCAGCACATAGCAACCCCC-TTTCACATTT-AAAAATAC
66 ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
* **
57198680 GGTGGACTCA-TCACTTAGCAACCACCAAT-AAGTAGGGGAATCAGCACTTAGCAACCCCTC
1 GGTGGA-TCACGCACTTAGC-ACCACCAATGAA-CCGGGGAATCAGCACTTAGCAACCCCTC
57198740 TATATGTAAT
Statistics
Matches: 245, Mismatches: 16, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
103 104 0.42
104 47 0.19
105 93 0.38
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (105 bp):
GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
Found at i:57199102 original size:31 final size:30
Alignment explanation
Indices: 57199071--57199128 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
57199061 CCACTCAACT
57199071 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
57199101 TTTTGCATAATTACATTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
57199129 GCTCAGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:57201431 original size:7 final size:7
Alignment explanation
Indices: 57201421--57201487 Score: 64
Period size: 7 Copynumber: 9.7 Consensus size: 7
57201411 CATAAATTTG
57201421 AAACTCA
1 AAACTCA
57201428 AAACTCA
1 AAACTCA
* **
57201435 AAAATTG
1 AAACTCA
57201442 AAACTCA
1 AAACTCA
* *
57201449 AAACCCT
1 AAACTCA
57201456 AAACTCA
1 AAACTCA
*
57201463 AAACTCC
1 AAACTCA
*
57201470 AAATTCA
1 AAACTCA
57201477 AAAC-CA
1 AAACTCA
57201483 AAACT
1 AAACT
57201488 TGAAGCCCTA
Statistics
Matches: 45, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
6 6 0.13
7 39 0.87
ACGTcount: A:0.55, C:0.27, G:0.01, T:0.16
Consensus pattern (7 bp):
AAACTCA
Found at i:57201466 original size:21 final size:20
Alignment explanation
Indices: 57201442--57201520 Score: 59
Period size: 21 Copynumber: 3.9 Consensus size: 20
57201432 TCAAAAATTG
57201442 AAACTCAAAACCCTAAACTCA
1 AAACTCAAAACCCTAAAC-CA
* ** *
57201463 AAACTCCAAATTCAAAACCA
1 AAACTCAAAACCCTAAACCA
** * *
57201483 AAACTTGAAGCCCTAAACCTT
1 AAACTCAAAACCCTAAACC-A
*
57201504 AAACCCAAAACCCTAAA
1 AAACTCAAAACCCTAAA
57201521 ATCAACCCAA
Statistics
Matches: 42, Mismatches: 15, Indels: 2
0.71 0.25 0.03
Matches are distributed among these distances:
20 15 0.36
21 27 0.64
ACGTcount: A:0.51, C:0.32, G:0.03, T:0.15
Consensus pattern (20 bp):
AAACTCAAAACCCTAAACCA
Found at i:57201477 original size:28 final size:28
Alignment explanation
Indices: 57201428--57201481 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
57201418 TTGAAACTCA
**
57201428 AAACTCAAAAATTGAAACTCAAAACCCT
1 AAACTCAAAAATCCAAACTCAAAACCCT
* *
57201456 AAACTCAAAACTCCAAATTCAAAACC
1 AAACTCAAAAATCCAAACTCAAAACC
57201482 AAAACTTGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.54, C:0.28, G:0.02, T:0.17
Consensus pattern (28 bp):
AAACTCAAAAATCCAAACTCAAAACCCT
Found at i:57201501 original size:48 final size:48
Alignment explanation
Indices: 57201425--57201535 Score: 118
Period size: 48 Copynumber: 2.3 Consensus size: 48
57201415 AATTTGAAAC
* * * *
57201425 TCAAAACTCAAAAATTGAAACTCAAAACCCTAAACTCAAAACTCC-AAAT
1 TCAAAAC-CAAAACTTGAAACCCAAAACCCTAAACCCAAAAC-CCTAAAA
* * *
57201474 TCAAAACCAAAACTTGAAGCCCTAAACCTTAAACCCAAAACCCTAAAA
1 TCAAAACCAAAACTTGAAACCCAAAACCCTAAACCCAAAACCCTAAAA
*
57201522 TC-AACCCAAAACTT
1 TCAAAACCAAAACTT
57201536 TAGATCATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
47 13 0.25
48 33 0.62
49 7 0.13
ACGTcount: A:0.50, C:0.30, G:0.03, T:0.17
Consensus pattern (48 bp):
TCAAAACCAAAACTTGAAACCCAAAACCCTAAACCCAAAACCCTAAAA
Found at i:57208566 original size:10 final size:11
Alignment explanation
Indices: 57208537--57208569 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
57208527 ATTGTGAACA
57208537 TACCGTTTCAT
1 TACCGTTTCAT
*
57208548 TACCTTTTC-T
1 TACCGTTTCAT
57208558 TACCGTTTCAT
1 TACCGTTTCAT
57208569 T
1 T
57208570 TGTATAATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.15, C:0.27, G:0.06, T:0.52
Consensus pattern (11 bp):
TACCGTTTCAT
Found at i:57209040 original size:34 final size:33
Alignment explanation
Indices: 57208997--57209113 Score: 139
Period size: 34 Copynumber: 3.5 Consensus size: 33
57208987 AGTCCAACCA
57208997 AACACACCAGATGCTCACACAAGTCAATCCCTCC
1 AACACACCA-ATGCTCACACAAGTCAATCCCTCC
* *
57209031 AACACACCAGATGCTCACACGAGTTAATCCCTCC
1 AACACACCA-ATGCTCACACAAGTCAATCCCTCC
* **
57209065 AACACACCAATGCTCATA-AGAG-CTAATCCAACC
1 AACACACCAATGCTCACACA-AGTC-AATCCCTCC
57209098 AACACACCAATGCTCA
1 AACACACCAATGCTCA
57209114 TAAGAGCTAA
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
33 33 0.45
34 41 0.55
ACGTcount: A:0.38, C:0.38, G:0.09, T:0.15
Consensus pattern (33 bp):
AACACACCAATGCTCACACAAGTCAATCCCTCC
Found at i:57209092 original size:33 final size:34
Alignment explanation
Indices: 57208997--57209125 Score: 158
Period size: 33 Copynumber: 3.9 Consensus size: 34
57208987 AGTCCAACCA
57208997 AACACACCAGATGCTCACACA-AG-TCAATCCCTCC
1 AACACACCAGATGCTCACA-AGAGCT-AATCCCTCC
* *
57209031 AACACACCAGATGCTCACACGAGTTAATCCCTCC
1 AACACACCAGATGCTCACAAGAGCTAATCCCTCC
* **
57209065 AACACACCA-ATGCTCATAAGAGCTAATCCAACC
1 AACACACCAGATGCTCACAAGAGCTAATCCCTCC
*
57209098 AACACACCA-ATGCTCATAAGAGCTAATC
1 AACACACCAGATGCTCACAAGAGCTAATC
57209126 TAACCAATAC
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
33 47 0.54
34 39 0.45
35 1 0.01
ACGTcount: A:0.38, C:0.36, G:0.10, T:0.16
Consensus pattern (34 bp):
AACACACCAGATGCTCACAAGAGCTAATCCCTCC
Found at i:57209131 original size:33 final size:33
Alignment explanation
Indices: 57208989--57209140 Score: 155
Period size: 33 Copynumber: 4.5 Consensus size: 33
57208979 ACATTGTCAG
*
57208989 TCCAACCAAACACACCAGATGCTCACACA-AG-TCAA
1 TCCAACC-AACACACCA-ATGCTCATA-AGAGCT-AA
** * * *
57209024 TCCCTCCAACACACCAGATGCTCACACGAGTTAA
1 TCCAACCAACACACCA-ATGCTCATAAGAGCTAA
**
57209058 TCCCTCCAACACACCAATGCTCATAAGAGCTAA
1 TCCAACCAACACACCAATGCTCATAAGAGCTAA
57209091 TCCAACCAACACACCAATGCTCATAAGAGCTAA
1 TCCAACCAACACACCAATGCTCATAAGAGCTAA
* *
57209124 TCTAACCAATACACCAA
1 TCCAACCAACACACCAA
57209141 ACAGAGTGTA
Statistics
Matches: 105, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
33 60 0.57
34 39 0.37
35 6 0.06
ACGTcount: A:0.39, C:0.36, G:0.09, T:0.16
Consensus pattern (33 bp):
TCCAACCAACACACCAATGCTCATAAGAGCTAA
Found at i:57212038 original size:3 final size:3
Alignment explanation
Indices: 57212030--57212059 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
57212020 TTCATTTCAT
57212030 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57212060 ACACTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:57213605 original size:15 final size:16
Alignment explanation
Indices: 57213585--57213615 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57213575 ACCGTAAAAT
57213585 TAAAA-CATAAACCCA
1 TAAAACCATAAACCCA
57213600 TAAAACCATAAACCCA
1 TAAAACCATAAACCCA
57213616 GACCTCATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.58, C:0.29, G:0.00, T:0.13
Consensus pattern (16 bp):
TAAAACCATAAACCCA
Found at i:57213960 original size:14 final size:14
Alignment explanation
Indices: 57213941--57213967 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57213931 AAATCAATCC
57213941 CATAAACCATAAAT
1 CATAAACCATAAAT
57213955 CATAAACCATAAA
1 CATAAACCATAAA
57213968 ACTAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (14 bp):
CATAAACCATAAAT
Found at i:57224700 original size:19 final size:20
Alignment explanation
Indices: 57224662--57224702 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
57224652 TTAGTTTTTT
57224662 TATAAAAATACATAAGATTA
1 TATAAAAATACATAAGATTA
57224682 TATAAAATATACA-AA-ATTA
1 TATAAAA-ATACATAAGATTA
57224701 TA
1 TA
57224703 CCTTTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 9 0.45
21 5 0.25
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (20 bp):
TATAAAAATACATAAGATTA
Found at i:57226261 original size:16 final size:16
Alignment explanation
Indices: 57226240--57226270 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
57226230 AAATGTGCAA
57226240 ATTAAAAATATATCAT
1 ATTAAAAATATATCAT
57226256 ATTAAAAATATATCA
1 ATTAAAAATATATCA
57226271 CGGTGTTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTAAAAATATATCAT
Found at i:57227692 original size:42 final size:42
Alignment explanation
Indices: 57227594--57227694 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
57227584 AGACACATGC
* * * *
57227594 TCGTGTCTCAGGCCGTGTAACAATCGAAATAGGGACACACGG
1 TCGTGTCCCAGCCCGTGTAACAATCGAAATAGAGACACACAG
*** * * *
57227636 TCGTGTCGTTGCCCGTGTAACATTCGAACTAGAGACATACAG
1 TCGTGTCCCAGCCCGTGTAACAATCGAAATAGAGACACACAG
57227678 TCGTGTCCCAGCCCGTG
1 TCGTGTCCCAGCCCGTG
57227695 CCTCTGCCCG
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.23
Consensus pattern (42 bp):
TCGTGTCCCAGCCCGTGTAACAATCGAAATAGAGACACACAG
Found at i:57229928 original size:14 final size:13
Alignment explanation
Indices: 57229903--57229932 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
57229893 TTCTCCTTTC
57229903 TCTTTTTTTTCTT
1 TCTTTTTTTTCTT
57229916 TCTTTTCTTTTCTT
1 TCTTTT-TTTTCTT
57229930 TCT
1 TCT
57229933 AATTTGCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TCTTTTTTTTCTT
Found at i:57232895 original size:21 final size:21
Alignment explanation
Indices: 57232870--57232928 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
57232860 CTTCAGTGGG
* *
57232870 ATCGCGGTATCCCCTTTTGGT
1 ATCGCGATATCCCCTTTAGGT
57232891 ATCGCGATATCCCCTTTAGGT
1 ATCGCGATATCCCCTTTAGGT
57232912 ATCGCGATATCCACCTT
1 ATCGCGATATCC-CCTT
57232929 CTAAGGAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 31 0.89
22 4 0.11
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.34
Consensus pattern (21 bp):
ATCGCGATATCCCCTTTAGGT
Found at i:57240193 original size:40 final size:39
Alignment explanation
Indices: 57240140--57240277 Score: 118
Period size: 40 Copynumber: 3.5 Consensus size: 39
57240130 GCGTTTAGAT
* * *
57240140 AAAAAACGTCGCTAAAAATCAAGCAATAGCGGCGTTTTA
1 AAAAAACGCCGCAAAAAATCAAGCATTAGCGGCGTTTTA
* * * *
57240179 GAAAAAACGCCGCTAAAGATCCAA-TATTAGCGGCGTTTTTC
1 -AAAAAACGCCGCAAAAAAT-CAAGCATTAGCGGCG-TTTTA
* * *
57240220 AGAAAACACCGCAAAAAAT-AAGCATTAGTGGCGCTTTTCA
1 AAAAAACGCCGCAAAAAATCAAGCATTAGCGGCG-TTTT-A
*
57240260 AAAAAGCGCCGCAAAAAA
1 AAAAAACGCCGCAAAAAA
57240278 CCTAAGCACA
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 2 0.03
39 13 0.17
40 56 0.72
41 7 0.09
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (39 bp):
AAAAAACGCCGCAAAAAATCAAGCATTAGCGGCGTTTTA
Found at i:57240387 original size:41 final size:40
Alignment explanation
Indices: 57240314--57240592 Score: 237
Period size: 41 Copynumber: 6.7 Consensus size: 40
57240304 GTTTTTGGGC
* * * * *
57240314 CTTTAGCGGCGTTTTTTAAAAAGTGCCACTAATGCTCGGGG
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC-GGT
*
57240355 CTTTAGCGGTGTTTTTGAAGAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC-GGT
57240396 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTAGGCTTGCTCT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC---G---G---T
* *
57240445 GGGCTTTAGTGGCGTTTTTGGA-AAGCGCCGCTAATG--C--T
1 ---CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGT
**
57240483 CTTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGCTCTAT
1 CTTTAGCGGCGTTTTT-GAAGAAGCGCCGCTAATGCTCGGT
* * * *
57240523 TTTTAGCGGTGTTTTTTAAGAAGCGCCGCTAATGCTTTGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC-TCGGT
*
57240564 CTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGC
57240593 AAAAAATATT
Statistics
Matches: 197, Mismatches: 23, Indels: 36
0.77 0.09 0.14
Matches are distributed among these distances:
35 15 0.08
36 16 0.08
38 2 0.01
39 2 0.01
40 30 0.15
41 97 0.49
43 1 0.01
46 1 0.01
49 2 0.01
51 14 0.07
52 17 0.09
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.33
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGT
Found at i:57240507 original size:87 final size:90
Alignment explanation
Indices: 57240346--57240521 Score: 252
Period size: 87 Copynumber: 2.0 Consensus size: 90
57240336 GTGCCACTAA
*
57240346 TGCTCGGGGCTTTAGCGGTGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTT
1 TGCTCGGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC-C--GTCTTTAGCGGCGTTTT
57240411 TGAAGAAGCGCCGCTAATGCTCTAGGCT
63 TGAAGAAGCGCCGCTAATGCTCTAGGCT
* * *
57240439 TGCTCTGGGCTTTAGTGGCGTTTTTGGA-AAGCGCCGCTAATG-C-TCTTTAGCGGCGTTTTTGG
1 TGCTCGGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCCGTCTTTAGCGGCGTTTTT-G
57240501 AA-AAGCGCCGCTAATGCTCTA
65 AAGAAGCGCCGCTAATGCTCTA
57240522 TTTTTAGCGG
Statistics
Matches: 78, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
87 36 0.46
88 3 0.04
90 1 0.01
92 14 0.18
93 24 0.31
ACGTcount: A:0.16, C:0.22, G:0.30, T:0.32
Consensus pattern (90 bp):
TGCTCGGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCCGTCTTTAGCGGCGTTTTTGA
AGAAGCGCCGCTAATGCTCTAGGCT
Found at i:57240547 original size:40 final size:37
Alignment explanation
Indices: 57240449--57240592 Score: 157
Period size: 40 Copynumber: 3.7 Consensus size: 37
57240439 TGCTCTGGGC
* *
57240449 TTTAGTGGCGTTTTTGGAAAGCGCCGCTAATGCTC--
1 TTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCTT
57240484 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTATT
1 TTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTC--TT
* * *
57240524 TTTAGCGGTGTTTTTTAAGAAGCGCCGCTAATGCTTTGGT
1 TTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCT--T
57240564 CTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 -TTTAGCGGCGTTTTTG-AAAAGCGCCGC
57240593 AAAAAATATT
Statistics
Matches: 92, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
35 14 0.15
36 19 0.21
38 1 0.01
39 2 0.02
40 31 0.34
41 23 0.25
42 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (37 bp):
TTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCTT
Found at i:57241639 original size:14 final size:14
Alignment explanation
Indices: 57241620--57241646 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57241610 GGTTTAGGGG
57241620 TTTAAGATTTAGGA
1 TTTAAGATTTAGGA
57241634 TTTAAGATTTAGG
1 TTTAAGATTTAGG
57241647 GGTTAGGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TTTAAGATTTAGGA
Found at i:57242150 original size:22 final size:22
Alignment explanation
Indices: 57242124--57242166 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
57242114 TTTTTTTTTT
57242124 CCCTAAATTTCCCCCCTAAAAC
1 CCCTAAATTTCCCCCCTAAAAC
* *
57242146 CCCTAATTTTTCCCCCTAAAA
1 CCCTAAATTTCCCCCCTAAAA
57242167 TTGGTCTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.42, G:0.00, T:0.28
Consensus pattern (22 bp):
CCCTAAATTTCCCCCCTAAAAC
Found at i:57242786 original size:13 final size:13
Alignment explanation
Indices: 57242764--57242808 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
57242754 ATCCATACGA
*
57242764 AATCCGGGAGTTG
1 AATCCAGGAGTTG
*
57242777 AATCCTGGAGTTG
1 AATCCAGGAGTTG
*
57242790 AAATCCAAGAGTTG
1 -AATCCAGGAGTTG
57242804 AATCC
1 AATCC
57242809 CTTATAAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (13 bp):
AATCCAGGAGTTG
Found at i:57245758 original size:42 final size:43
Alignment explanation
Indices: 57245694--57245800 Score: 153
Period size: 42 Copynumber: 2.5 Consensus size: 43
57245684 GTAGAAGTGC
* * * * * *
57245694 CTTTAGTGGCATTTTTAGGAAAAGCGTCGCTGAAGGTTTTGGT
1 CTTTAGCGGCGTTTTTGGGAAAAGCGCCACTGAAGGTCTTGGT
57245737 CTTTAGCGGCG-TTTTGGGAAAAGCGCCACTGAAGGTCTTGGT
1 CTTTAGCGGCGTTTTTGGGAAAAGCGCCACTGAAGGTCTTGGT
57245779 CTTTAGCGGCGTTTTTGGGAAA
1 CTTTAGCGGCGTTTTTGGGAAA
57245801 GTGCCGCTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 38 0.67
43 19 0.33
ACGTcount: A:0.20, C:0.15, G:0.32, T:0.34
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGGAAAAGCGCCACTGAAGGTCTTGGT
Found at i:57245890 original size:43 final size:43
Alignment explanation
Indices: 57245803--57245898 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 43
57245793 TTGGGAAAGT
* **
57245803 GCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTCCACGAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAAAAAC
* **
57245846 GCCGCTAAAGACCATGACCTTTAGC-GCGTTTATTTTTAAAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTT-TTTCCAAAAAC
57245889 GCCGCTAAAG
1 GCCGCTAAAG
57245899 TTAGCGGCGC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 5 0.11
43 41 0.89
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (43 bp):
GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAAAAAC
Found at i:57253978 original size:21 final size:21
Alignment explanation
Indices: 57253954--57253993 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
57253944 TATGTCGAAA
* *
57253954 TTTAGTCTCTTTATTTTTATT
1 TTTAGTCTATTTACTTTTATT
57253975 TTTAGTCTATTTACTTTTA
1 TTTAGTCTATTTACTTTTA
57253994 AGATTTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTAGTCTATTTACTTTTATT
Found at i:57294632 original size:46 final size:46
Alignment explanation
Indices: 57294569--57294666 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 46
57294559 ATCCATGGAA
* *
57294569 AGTTATGAAAAGTAGGTATGGTGCTTCAGTGAAGAAAA-TCATACTG
1 AGTTATGAAAAGCAGGTATGGTACTTCAGTGAAGAAAACT-ATACTG
* * *
57294615 AGTTGTGAAAAGCAGGTATGGTATTTCAGTGAAGGAAACTATACTG
1 AGTTATGAAAAGCAGGTATGGTACTTCAGTGAAGAAAACTATACTG
57294661 AGTTAT
1 AGTTAT
57294667 AGCATTGTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 44 0.98
47 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.30
Consensus pattern (46 bp):
AGTTATGAAAAGCAGGTATGGTACTTCAGTGAAGAAAACTATACTG
Found at i:57295021 original size:22 final size:22
Alignment explanation
Indices: 57294996--57295053 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
57294986 CATGAAGCAA
57294996 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
57295018 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
* *
57295040 TCCCATACCTCCAC
1 CCCCATACCCCCAC
57295054 AGTCCTCGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.29, C:0.55, G:0.03, T:0.12
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:57296734 original size:40 final size:39
Alignment explanation
Indices: 57296688--57296897 Score: 217
Period size: 40 Copynumber: 5.3 Consensus size: 39
57296678 GGACTAAGAT
*
57296688 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
57296727 CCTGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CC-GAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* **
57296768 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* ** *
57296808 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
57296848 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
57296887 CCGAAGGCATT
1 CCGAAGGCATT
57296898 TGAATGAGGA
Statistics
Matches: 154, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
39 35 0.23
40 113 0.73
41 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:57296917 original size:79 final size:80
Alignment explanation
Indices: 57296750--57296932 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
57296740 GTGCGAGATA
** * *
57296750 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
57296815 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
57296830 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* *
57296894 CATTTGAATGAGGAG
66 CATTCGAACGAGGAG
* * *
57296909 CTATATCC-GATTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
57296933 TACGTGATTT
Statistics
Matches: 84, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 13 0.15
79 44 0.52
80 27 0.32
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:57299395 original size:38 final size:38
Alignment explanation
Indices: 57299346--57299432 Score: 117
Period size: 38 Copynumber: 2.3 Consensus size: 38
57299336 ATTACTTTTA
57299346 ATTATT-GTATTTTAATATTATTATTA-TATTATATAT-
1 ATTATTCGTATTTTAATATTATTATTAGTATTAT-TATC
* *
57299382 ACTTCTTCGTATTTTATTATTATTATTAGTATTATTATC
1 A-TTATTCGTATTTTAATATTATTATTAGTATTATTATC
57299421 ATTATTCGTATT
1 ATTATTCGTATT
57299433 AGCATATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
36 1 0.02
37 4 0.09
38 32 0.73
39 7 0.16
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.60
Consensus pattern (38 bp):
ATTATTCGTATTTTAATATTATTATTAGTATTATTATC
Found at i:57299503 original size:3 final size:3
Alignment explanation
Indices: 57299497--57299551 Score: 62
Period size: 3 Copynumber: 18.3 Consensus size: 3
57299487 ACTATTATAT
57299497 TTA TTA TTA -TA TTA TTTA TT- TTCA TTA TTA TTA TTA TTA TT- TTCA
1 TTA TTA TTA TTA TTA -TTA TTA TT-A TTA TTA TTA TTA TTA TTA TT-A
57299542 TTA TTA TTA T
1 TTA TTA TTA T
57299552 ACATATATGT
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
2 6 0.13
3 33 0.72
4 7 0.15
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:57299504 original size:12 final size:12
Alignment explanation
Indices: 57299484--57299552 Score: 51
Period size: 12 Copynumber: 6.0 Consensus size: 12
57299474 ATTATCTTTT
*
57299484 TTTACTATTATA
1 TTTATTATTATA
57299496 TTTATTATTATA
1 TTTATTATTATA
57299508 -TTA-T-TTAT-
1 TTTATTATTATA
57299516 TTTCATTATTAT-
1 TTT-ATTATTATA
*
57299528 TATTATTATTTTCA
1 T-TTATTATTAT-A
57299542 -TTATTATTATA
1 TTTATTATTATA
57299553 CATATATGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
9 6 0.13
10 2 0.04
11 5 0.11
12 32 0.68
13 2 0.04
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTATTATTATA
Found at i:57299514 original size:15 final size:14
Alignment explanation
Indices: 57299489--57299552 Score: 62
Period size: 15 Copynumber: 4.5 Consensus size: 14
57299479 CTTTTTTTAC
57299489 TATTATA-T-TTAT
1 TATTATATTATTAT
57299501 TATTATATTATTTAT
1 TATTATATTA-TTAT
57299516 T-TTCATTATTATTAT
1 TATT-A-TATTATTAT
*
57299531 TATTATTTTCATTAT
1 TATTATATT-ATTAT
57299546 TATTATA
1 TATTATA
57299553 CATATATGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
12 7 0.16
13 1 0.02
14 5 0.12
15 23 0.53
16 7 0.16
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATATTATTAT
Found at i:57299549 original size:21 final size:21
Alignment explanation
Indices: 57299489--57299551 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
57299479 CTTTTTTTAC
57299489 TATTATATTT-ATTATTA-TAT
1 TATTAT-TTTCATTATTATTAT
57299509 TATTTATTTTCATTATTATTAT
1 TA-TTATTTTCATTATTATTAT
57299531 TATTATTTTCATTATTATTAT
1 TATTATTTTCATTATTATTAT
57299552 ACATATATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.12
21 30 0.75
22 5 0.12
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTATTTTCATTATTATTAT
Found at i:57312133 original size:72 final size:72
Alignment explanation
Indices: 57312037--57312172 Score: 182
Period size: 72 Copynumber: 1.9 Consensus size: 72
57312027 AAAAAAAGAG
* * * *
57312037 TCAACTCATATGGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
1 TCAACTCATATGGCGAGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTTAAATTTCTGTGT
57312102 TTTAATT
66 TTTAATT
* * * * * *
57312109 TCAACTTATATTGCGAGAGGTGAGTCGAGCCTCAGGGCAGGTTGAGTTATTTTAAATTTCTGTG
1 TCAACTCATATGGCGAGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTTAAATTTCTGTG
57312173 GTCAGTTTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 54 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (72 bp):
TCAACTCATATGGCGAGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTTAAATTTCTGTGT
TTTAATT
Found at i:57312676 original size:74 final size:73
Alignment explanation
Indices: 57312442--57312677 Score: 253
Period size: 74 Copynumber: 3.2 Consensus size: 73
57312432 GAGTTAATCC
* * * *
57312442 TTTT-AATTTTGGTTTTTCAAAATCAACTCATATCGCTAGAGGTGAGTTGAGCCTCGGGGCAC--
1 TTTTCAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
*
57312504 GCTGAGGCA
65 GCTGAGGTA
* ** *
57312513 TTTTCAATTTTTGTGTTTGAATTTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
1 TTTTCAATTTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
*
57312578 GCCGAGGTA
65 GCTGAGGTA
** * * ** *
57312587 TTTTCAAAATCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGTTCACAT
1 TTTTCAATTTTTGTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
*
57312652 GCTGAGATA
65 GCTGAGGTA
*
57312661 TTTTCAGTTTTTGTTTT
1 TTTTCAATTTTTGTTTT
57312678 TAATATCTAT
Statistics
Matches: 133, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
71 5 0.04
72 48 0.36
73 3 0.02
74 77 0.58
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (73 bp):
TTTTCAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG
CTGAGGTA
Found at i:57313437 original size:22 final size:22
Alignment explanation
Indices: 57313412--57313469 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
57313402 CATGAAGCAA
57313412 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
57313434 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
* *
57313456 TCCCATACCTCCAC
1 CCCCATACCCCCAC
57313470 AGTCCTCGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.29, C:0.55, G:0.03, T:0.12
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:57314046 original size:20 final size:21
Alignment explanation
Indices: 57314001--57314046 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
57313991 GTGGCCGGAG
57314001 CTCT-CCC-CTCCCTTCTCTT
1 CTCTCCCCGCTCCCTTCTCTT
* *
57314020 CTTTCCCCGCTCCC-TCTTTT
1 CTCTCCCCGCTCCCTTCTCTT
57314040 CTCTCCC
1 CTCTCCC
57314047 TCCTCTTCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.00, C:0.57, G:0.02, T:0.41
Consensus pattern (21 bp):
CTCTCCCCGCTCCCTTCTCTT
Found at i:57314751 original size:3 final size:3
Alignment explanation
Indices: 57314745--57314802 Score: 68
Period size: 3 Copynumber: 19.3 Consensus size: 3
57314735 ACTATTATAT
57314745 TTA TTA TTA -TA TTA TTTA TT- TTCA TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA -TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
57314789 TTCA TTA TTA TTA T
1 TT-A TTA TTA TTA T
57314803 ACATATATGT
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
2 6 0.12
3 36 0.73
4 7 0.14
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:57314752 original size:12 final size:11
Alignment explanation
Indices: 57314731--57314800 Score: 72
Period size: 12 Copynumber: 6.2 Consensus size: 11
57314721 TATTATCTTT
*
57314731 TTTTACTATTA
1 TTTTATTATTA
57314742 TATTTATTATTA
1 T-TTTATTATTA
*
57314754 TATTA-T-TTA
1 TTTTATTATTA
57314763 TTTTCATTATTA
1 TTTT-ATTATTA
57314775 TTATTATTATTA
1 TT-TTATTATTA
57314787 TTTTCATTATTA
1 TTTT-ATTATTA
57314799 TT
1 TT
57314801 ATACATATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
9 6 0.12
10 2 0.04
11 7 0.14
12 33 0.66
13 2 0.04
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:57314764 original size:24 final size:23
Alignment explanation
Indices: 57314745--57314803 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 23
57314735 ACTATTATAT
57314745 TTATTATTATATTATTTATTTTCA
1 TTATTATTATATTA-TTATTTTCA
57314769 TTATTATTATTATTATTATTTTCA
1 TTATTATTA-TATTATTATTTTCA
57314793 TTATTATTATA
1 TTATTATTATA
57314804 CATATATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
23 2 0.06
24 27 0.79
25 5 0.15
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (23 bp):
TTATTATTATATTATTATTTTCA
Found at i:57320324 original size:24 final size:23
Alignment explanation
Indices: 57320280--57320333 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
57320270 TTTATAAATT
* *
57320280 ATTTATAATTTTATAATTAATTAA
1 ATTTA-AATTTTATAAATAATAAA
57320304 ATTTAAATTTTATTAAATAATAAA
1 ATTTAAATTTTA-TAAATAATAAA
*
57320328 AATTAA
1 ATTTAA
57320334 CATTATGGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTAAATTTTATAAATAATAAA
Found at i:57329610 original size:23 final size:24
Alignment explanation
Indices: 57329592--57329652 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 24
57329582 CACAGCTTGT
57329592 ATGAGCTTACCG-TT-TCAGCTCG
1 ATGAGCTTACCGTTTATCAGCTCG
57329614 ATAGAGCTTACCGTTTATCAGCTCGG
1 AT-GAGCTTACCGTTTATCAGCTC-G
57329640 AATGAGCTTACCG
1 -ATGAGCTTACCG
57329653 ATCATGGCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 2 0.06
23 10 0.29
24 2 0.06
25 7 0.21
26 11 0.32
27 2 0.06
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (24 bp):
ATGAGCTTACCGTTTATCAGCTCG
Found at i:57330763 original size:44 final size:44
Alignment explanation
Indices: 57330694--57331333 Score: 535
Period size: 44 Copynumber: 14.5 Consensus size: 44
57330684 CTGTCGGTGC
* * * *
57330694 AGGAAGGCAAGACCTGCTATTTTCGATCTACTTCACACCAATAA
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* * *
57330738 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-CACCAATAT
* *
57330783 GGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * * * * *
57330826 AGGATGAC-AGAACCAGCTATGTTCGATCTACTTCACGCCAATAC
1 AGGAAGACAAG-ATCTGCTATCTTCGATCTACTTCACACCAATAT
* * * * *
57330870 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCGCCAGTAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATAT
* * * *
57330915 GGGAAGATAATATCTGC-ATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * * * *
57330958 AGGAAGACAGGACCTGCTATCTTTGATCTACTTCACTCCAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* ** * * *
57331002 ATGAAGTTAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATAT
* * * *
57331047 GGGAAGACAAGATCTGC-GTCTTCGATCCACTTCGCTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * * * *
57331091 AGGAAGACAGGATCTTCTATATTCGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* *
57331135 ATGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * * ** *
57331178 AGGAAGACAGGACCTGCTATCTTCAATCTACTTCACGTCAATAA
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* * * * * *
57331222 ATGAAAACAATATCTGCTTTCTTCGATCTACTCCGCCACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATAT
* * *
57331267 GGGAAGACAAGATCAGC-ATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * * *
57331310 AAGAAGACAGGACCTACTATCTTC
1 AGGAAGACAAGATCTGCTATCTTC
57331334 ACTAATCTGC
Statistics
Matches: 462, Mismatches: 115, Indels: 38
0.75 0.19 0.06
Matches are distributed among these distances:
42 6 0.01
43 89 0.19
44 269 0.58
45 98 0.21
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (44 bp):
AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
Found at i:57330946 original size:132 final size:132
Alignment explanation
Indices: 57330694--57331211 Score: 734
Period size: 132 Copynumber: 3.9 Consensus size: 132
57330684 CTGTCGGTGC
* * * * *
57330694 AGGAAGGCAAGACCTGCTATTTTCGATCTACTTCACACCAATAAATGAAGACAAGATCTGCTTTC
1 AGGAAGACAGGACCTGCTATATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
*
57330759 TTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
57330824 AT
131 AT
* * * *
57330826 AGGATGACAGAACCAGCTATGTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
1 AGGAAGACAGGACCTGCTATATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * *
57330891 TTCGATCTACTTCGCCGCCAGTATGGGAAGATAATATCTGCATCTTCGATCCACTTCCTACCAAT
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
57330956 AT
131 AT
* * * **
57330958 AGGAAGACAGGACCTGCTATCTTTGATCTACTTCACTCCAATACATGAAGTTAAGATCTGCTTTC
1 AGGAAGACAGGACCTGCTATATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
*
57331023 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCGTCTTCGATCCACTTCGCTACCAA
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAA
57331088 TAT
130 TAT
* * *
57331091 AGGAAGACAGGATCTTCTATATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC-ATC
1 AGGAAGACAGGACCTGCTATATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * * * * * * *
57331155 TTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATCTTCAATCTACTTC
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC
57331212 ACGTCAATAA
Statistics
Matches: 343, Mismatches: 41, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
131 22 0.06
132 257 0.75
133 64 0.19
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
AGGAAGACAGGACCTGCTATATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
AT
Found at i:57331152 original size:220 final size:220
Alignment explanation
Indices: 57330693--57331321 Score: 669
Period size: 220 Copynumber: 2.9 Consensus size: 220
57330683 ACTGTCGGTG
* * * * * * * * *
57330693 CAGGAAGGCAAGACCTGCTATTTTCGATCTACTTCAC-ACCAATAAATGAAGACAAGATCTGCTT
1 CAGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTA
* ** * *** * * * * *
57330757 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTAC
64 TCTTCAATCTACTTCA-CGTCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCAC
* * * * * * * * *
57330820 CAATATAGGATGAC-AGAACCAGCTATGTTCGATCTACTTCAC-GCCAATACATGAAGACAAGAT
128 CAATATGGGAAGACAAG-ATCAGC-ATCTTCGATCCACTTC-CTACCAATATAAGAAGACAGGAT
* * * *
57330883 CTGCTTTCTTCGATCTACTTCGCCGCCAGTA
190 CTGCTATATTCGATCTACTTCGACGCCAATA
** * *
57330914 TGGGAAGATAATATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATC
1 CAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATC
** * *** *
57330979 TTTGATCTACTTCAC-TCCAATACATGAAGTTAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
66 TTCAATCTACTTCACGT-CAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCACCA
* * * * *
57331043 GTATGGGAAGACAAGATCTGCGTCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTTC
130 ATATGGGAAGACAAGATCAGCATCTTCGATCCACTTC-CTACCAATATAAGAAGACAGGATCTGC
57331108 TATATTCGATCTACTTC-ACGCCAATA
194 TATATTCGATCTACTTCGACGCCAATA
*
57331134 CATGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATC
1 CAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATC
*
57331199 TTCAATCTACTTCACGTCAATAAATGAAAACAATATCTGCTTTCTTCGATCTACTCCGCCACCAA
66 TTCAATCTACTTCACGTCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAA
57331264 TATGGGAAGACAAGATCAGCATCTTCGATCCACTTCCTACCAATATAAGAAGACAGGA
131 TATGGGAAGACAAGATCAGCATCTTCGATCCACTTCCTACCAATATAAGAAGACAGGA
57331322 CCTACTATCT
Statistics
Matches: 342, Mismatches: 59, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
219 40 0.12
220 234 0.68
221 66 0.19
222 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (220 bp):
CAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATC
TTCAATCTACTTCACGTCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAA
TATGGGAAGACAAGATCAGCATCTTCGATCCACTTCCTACCAATATAAGAAGACAGGATCTGCTA
TATTCGATCTACTTCGACGCCAATA
Found at i:57332553 original size:6 final size:6
Alignment explanation
Indices: 57332542--57332570 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
57332532 GGCCTCTCCA
57332542 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
57332571 ATCACTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:57337008 original size:26 final size:25
Alignment explanation
Indices: 57336948--57337016 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 25
57336938 AACTATAAAG
* * *
57336948 TATATTAAAAAAACATATATTTTCA
1 TATATTAAAAAAATAAATATATTCA
* *
57336973 TTTTTTTAAAAAAATAAATATATTCA
1 -TATATTAAAAAAATAAATATATTCA
*
57336999 TATATATAAATAAATAAA
1 TATAT-TAAAAAAATAAA
57337017 AATTGGTTCA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
25 3 0.09
26 31 0.91
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (25 bp):
TATATTAAAAAAATAAATATATTCA
Done.