Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 64 of 171
Found at i:24235454 original size:13 final size:13
Alignment explanation
Indices: 24235436--24235464 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24235426 TCCTAAACTA
24235436 TTATAATATAAAG
1 TTATAATATAAAG
24235449 TTATAATATAAAG
1 TTATAATATAAAG
24235462 TTA
1 TTA
24235465 ATTTTATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (13 bp):
TTATAATATAAAG
Found at i:24238435 original size:344 final size:338
Alignment explanation
Indices: 24237807--24238475 Score: 1088
Period size: 344 Copynumber: 2.0 Consensus size: 338
24237797 AACACTTCAC
* *
24237807 ATCTGTACAGCGGTGTGAAAACTTCCCAATCTTAAAATAATAACGAAATGTTATGCAACAAATTA
1 ATCTGTACAGCAGTGTGAAAACTTCCAAATCTTAAAATAATAACGAAATGTTATGCAACAAATTA
*
24237872 AAAAAGCCTCGACTTATTGCTCTTTAATCTTTCTTTATTGGGACCCTAATGCACCTTGGCATTGG
66 AAAAAGCCTCGACTTATTGCTCTTTAATCTTTCTTTATTGGGACCCTAATGCACCTTGGCATCGG
* *
24237937 AAACTAGTTTACAAAGCAAATATGACTGGTAATAACTCATGCCTAATCTTCTAAACTTCTAACCA
131 AAACTAGTTCACAAAGCAAATATGACTGATAATAACTCATGCCTAATCTTCTAAACTTCTAACCA
* * *
24238002 GCAAGGGGAAAAAAAGAACTTTTCAAGTGCAGAAGACTTTAGCTAACATCGGAAATCTAGCACTA
196 GCAAGGGGAAAAAAAGAACCTTTCAAGTACAGAAAACTTTAGCTAACATCGGAAATCTAGCACTA
* **
24238067 GCACACTTTGTTGCTCTGACTATTCATTTTTCTAGAAGTATCAGTGTTTGATGCATATCCGGACA
261 GCACACTTTGTTGATCCAACTATTCATTTTTCTAGAAGTATCAGTGTTTGATGCATATCCGGACA
24238132 AAATAATAACGAA
326 AAATAATAACGAA
* * *
24238145 ATCTGTACAGCAGTGTGAAAACTTCCAAATCTTAAACAGAAAATACTAACGAACTGTTATGCAGC
1 ATCTGTACAGCAGTGTGAAAACTTCCAAATCTT------AAAATAATAACGAAATGTTATGCAAC
24238210 AAATTAAAAAAGCCTCGACTTATTGCTCTTTAATCTTTCTTTATTGGGACCCTAATGCACCTTGG
60 AAATTAAAAAAGCCTCGACTTATTGCTCTTTAATCTTTCTTTATTGGGACCCTAATGCACCTTGG
* * *
24238275 CATCGGAAACTAGTTCACAAAGCAAATATGACTGATCATAGCTCATGCCTAAATCTTCTCAACTT
125 CATCGGAAACTAGTTCACAAAGCAAATATGACTGATAATAACTCATGCCT-AATCTTCTAAACTT
*
24238340 CTAACCAGCAAGGGGGAAAAAAG-ACCTTTCAAGTACAGAAAACTTTAGCTAACATCGGAAATCT
189 CTAACCAGCAAGGGGAAAAAAAGAACCTTTCAAGTACAGAAAACTTTAGCTAACATCGGAAATCT
*
24238404 AGCACTAGCACACTTTGTTGATCCAACTATTCATTTTTCTAGAAGTATCCGTGTTTGATGCATAT
254 AGCACTAGCACACTTTGTTGATCCAACTATTCATTTTTCTAGAAGTATCAGTGTTTGATGCATAT
*
24238469 CTGGACA
319 CCGGACA
24238476 TGAGCATGAG
Statistics
Matches: 304, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
338 31 0.10
344 238 0.78
345 35 0.12
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (338 bp):
ATCTGTACAGCAGTGTGAAAACTTCCAAATCTTAAAATAATAACGAAATGTTATGCAACAAATTA
AAAAAGCCTCGACTTATTGCTCTTTAATCTTTCTTTATTGGGACCCTAATGCACCTTGGCATCGG
AAACTAGTTCACAAAGCAAATATGACTGATAATAACTCATGCCTAATCTTCTAAACTTCTAACCA
GCAAGGGGAAAAAAAGAACCTTTCAAGTACAGAAAACTTTAGCTAACATCGGAAATCTAGCACTA
GCACACTTTGTTGATCCAACTATTCATTTTTCTAGAAGTATCAGTGTTTGATGCATATCCGGACA
AAATAATAACGAA
Found at i:24243468 original size:18 final size:16
Alignment explanation
Indices: 24243447--24243511 Score: 53
Period size: 18 Copynumber: 3.9 Consensus size: 16
24243437 TTTTCTCAAC
24243447 TTTTTATAATTTTTTCAA
1 TTTTTA-AATTTTTT-AA
* *
24243465 -TTTT-GATTTTTTTA
1 TTTTTAAATTTTTTAA
24243479 TTTTTAAATATTTTATAA
1 TTTTTAAAT-TTTT-TAA
24243497 TTTTTAAATTATTTT
1 TTTTTAAATT-TTTT
24243512 TGACTGATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
14 1 0.03
15 11 0.29
16 2 0.05
17 10 0.26
18 14 0.37
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTTAAATTTTTTAA
Found at i:24247330 original size:16 final size:17
Alignment explanation
Indices: 24247292--24247331 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
24247282 AATGCTTTTT
*
24247292 AAAAGTGTTTTTGAGTCA
1 AAAAGTGCTTTTGAG-CA
24247310 AAAAGTGCTTTTGAG-A
1 AAAAGTGCTTTTGAGCA
24247326 AAAAGT
1 AAAAGT
24247332 TAAAATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
18 14 0.67
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.33
Consensus pattern (17 bp):
AAAAGTGCTTTTGAGCA
Found at i:24247476 original size:17 final size:17
Alignment explanation
Indices: 24247434--24247476 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
24247424 TGTTTAGTAA
* *
24247434 TGCTTTTATCTCAAAAG
1 TGCTTTTGTCCCAAAAG
24247451 TGCTTTTTGTCCCAAAAG
1 TGC-TTTTGTCCCAAAAG
24247469 TGCTTTTG
1 TGCTTTTG
24247477 AGAAGCAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (17 bp):
TGCTTTTGTCCCAAAAG
Found at i:24247881 original size:23 final size:23
Alignment explanation
Indices: 24247849--24247995 Score: 145
Period size: 23 Copynumber: 6.3 Consensus size: 23
24247839 GCAATAGAAT
24247849 GCACACAAAGTGCTAAACAGAGA
1 GCACACAAAGTGCTAAACAGAGA
* *
24247872 GTACACAAAGTGCTAATCAGAGA
1 GCACACAAAGTGCTAAACAGAGA
* *
24247895 GTACACGAAGTGCTAATAACAGAGA
1 GCACACAAAGTGCT-A-AACAGAGA
* * *
24247920 GCACGA-GACGTGCTAAACGGAGA
1 GCAC-ACAAAGTGCTAAACAGAGA
* *
24247943 GCACACATAGTGCTAAACAGAAA
1 GCACACAAAGTGCTAAACAGAGA
* *
24247966 GAACACACAA-TGTTAAACAGAGA
1 GCACACA-AAGTGCTAAACAGAGA
24247989 GCACACA
1 GCACACA
24247996 CATATGCTAA
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
22 1 0.01
23 80 0.78
24 3 0.03
25 17 0.17
26 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.12
Consensus pattern (23 bp):
GCACACAAAGTGCTAAACAGAGA
Found at i:24253651 original size:88 final size:87
Alignment explanation
Indices: 24253486--24253651 Score: 210
Period size: 88 Copynumber: 1.9 Consensus size: 87
24253476 AACTTTTGCA
* ** *
24253486 ACTTCAACATGACGAGAGGAGGACCCGTTTTGAACTTTGCAACATCAACACGACAAGAAAAGTTT
1 ACTTCAACATGACGAGAGGAGAACCAATTTTGAACTTTGCAACATCAACACGACAAGAAAAG-AT
*
24253551 TTACAACCTTAACATAATGAGTG
65 TTACAACATTAACATAATGAGTG
* *
24253574 ACTTCAACATGGA-GAGAGGATAACCAATTTTGAACTTTGCAACATCAACACTACAAGAGGAAA-
1 ACTTCAACAT-GACGAGAGGAGAACCAATTTTGAACTTTGCAACATCAACACGACAAGA--AAAG
*
24253637 ATTTGCAACATTAAC
63 ATTTACAACATTAAC
24253652 GTGGCCAGAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
88 62 0.93
89 2 0.03
90 3 0.04
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (87 bp):
ACTTCAACATGACGAGAGGAGAACCAATTTTGAACTTTGCAACATCAACACGACAAGAAAAGATT
TACAACATTAACATAATGAGTG
Found at i:24254754 original size:82 final size:82
Alignment explanation
Indices: 24254590--24254823 Score: 328
Period size: 82 Copynumber: 2.9 Consensus size: 82
24254580 AGTTTTTTAG
* * * * * ** *
24254590 TAAGACTTTGATA-CCATGTGTGTCAATGTTTATTTAAACATCATCCA-CAGTATTACAAATGAT
1 TAAGACTTTGACACCCATGTGTCTCAATGTTTATTTAAATATTATCCATAAGTATTACAAAACAC
24254653 ATAAATGTTTGTTTAAA
66 ATAAATGTTTGTTTAAA
*
24254670 TAAGACTTTGACACCCATGTGTCTCAATGTTTATTTAAATATTATCCATAATTATTACAAAACAC
1 TAAGACTTTGACACCCATGTGTCTCAATGTTTATTTAAATATTATCCATAAGTATTACAAAACAC
24254735 ATAAATGTTTGTTTAAA
66 ATAAATGTTTGTTTAAA
* * * * *
24254752 TAAGACCTTGACACCAATTTGTCTCAATATTTATTTAAATATTATCCATAAGTATTACAAAATAC
1 TAAGACTTTGACACCCATGTGTCTCAATGTTTATTTAAATATTATCCATAAGTATTACAAAACAC
24254817 ATAAATG
66 ATAAATG
24254824 GTTATAATTT
Statistics
Matches: 137, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
80 12 0.09
81 31 0.23
82 94 0.69
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.38
Consensus pattern (82 bp):
TAAGACTTTGACACCCATGTGTCTCAATGTTTATTTAAATATTATCCATAAGTATTACAAAACAC
ATAAATGTTTGTTTAAA
Found at i:24257145 original size:22 final size:22
Alignment explanation
Indices: 24257111--24257153 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
24257101 AAAATGGAGA
*
24257111 TAAAAACTAAACCCT-AAAACC
1 TAAAAACAAAACCCTCAAAACC
24257132 TAAAAACAAGAACCCTCAAAAC
1 TAAAAACAA-AACCCTCAAAAC
24257154 TGAAACACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.58, C:0.28, G:0.02, T:0.12
Consensus pattern (22 bp):
TAAAAACAAAACCCTCAAAACC
Found at i:24260071 original size:24 final size:25
Alignment explanation
Indices: 24260044--24260090 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
24260034 TTAACCTAGT
24260044 AAAA-TTTTGACGACTTTACCCTCA
1 AAAATTTTTGACGACTTTACCCTCA
* *
24260068 AAAATTTTTGATGATTTTACCCT
1 AAAATTTTTGACGACTTTACCCT
24260091 TGGTAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (25 bp):
AAAATTTTTGACGACTTTACCCTCA
Found at i:24271883 original size:30 final size:31
Alignment explanation
Indices: 24271848--24272068 Score: 161
Period size: 30 Copynumber: 7.5 Consensus size: 31
24271838 TGAACTTTCC
24271848 AAAATT-CCATTTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTTAACCTCGATTTCACCA
* *
24271878 AAAATTACCA-TTTTACCCCCGAACTTT--CC-
1 AAAATTACCATTTTTAACCTCG-A-TTTCACCA
* *
24271907 AAAATT-CCATTTTTAACCCCAATTTCACCA
1 AAAATTACCATTTTTAACCTCGATTTCACCA
* * *
24271937 AAAATTACCA-TTTTACCCCCAAACTTT--CC-
1 AAAATTACCATTTTTAACCTC-GA-TTTCACCA
*
24271966 AAAATT-CTATTTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTTAACCTCGATTTCACCA
*
24271996 AAAATTATCA-TTTT-ACCTTCGAACTTT--CC-
1 AAAATTACCATTTTTAACC-TCG-A-TTTCACCA
* *
24272025 AAAA-TCCCATTTTTAACCTCGATTTCACAA
1 AAAATTACCATTTTTAACCTCGATTTCACCA
24272055 AAAATTACCATTTT
1 AAAATTACCATTTT
24272069 ACCCCCAAAA
Statistics
Matches: 152, Mismatches: 15, Indels: 47
0.71 0.07 0.22
Matches are distributed among these distances:
27 9 0.06
28 11 0.07
29 48 0.32
30 56 0.37
31 19 0.12
32 9 0.06
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (31 bp):
AAAATTACCATTTTTAACCTCGATTTCACCA
Found at i:24271932 original size:59 final size:59
Alignment explanation
Indices: 24271839--24272074 Score: 391
Period size: 59 Copynumber: 4.0 Consensus size: 59
24271829 ATAGGTCCTT
24271839 GAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCC
1 GAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCC
* *
24271898 GAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCCC
1 GAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCC
* * * **
24271957 AAACTTTCCAAAATTCTATTTTTAACCTCGATTTCACCAAAAATTATCATTTTACCTTC
1 GAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCC
* *
24272016 GAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACAAAAAATTACCATTTTACCCCC
1 GAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCC
24272075 AAAAGTCAAA
Statistics
Matches: 161, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 161 1.00
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
GAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCC
Found at i:24276629 original size:18 final size:18
Alignment explanation
Indices: 24276587--24276629 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
24276577 TTTAAATAAT
24276587 TTTAAATTTATTATTAAA
1 TTTAAATTTATTATTAAA
*
24276605 TATAAATTTATT-TTAAA
1 TTTAAATTTATTATTAAA
24276622 TTTGAAAT
1 TTT-AAAT
24276630 GAATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTAAATTTATTATTAAA
Found at i:24278592 original size:58 final size:59
Alignment explanation
Indices: 24278405--24278755 Score: 519
Period size: 59 Copynumber: 6.0 Consensus size: 59
24278395 TAGGTCCTTG
* *
24278405 AACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCTCA
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCA
* * *
24278464 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATTATCGTTTTACCCCCA
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCA
* * *
24278523 AACTTTTCAAAATTCTATTTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCCTA
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCA
* * *
24278581 AACTTTCCAAAATTCTA-TTTTAACCCCGATTTCACAAAAAATTACCATTTTACCCCCG
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCA
* * * *
24278639 AACTTTCTAAAA-TCCAATTTTTAACCTCGATTTCACCAAAAATTATCATTTTACCCCCG
1 AACTTTCCAAAATTCC-ATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCA
* *
24278698 AACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCC
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
24278756 GAAAGTCAAA
Statistics
Matches: 265, Mismatches: 23, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
57 20 0.08
58 65 0.25
59 178 0.67
60 2 0.01
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCA
Found at i:24278720 original size:175 final size:177
Alignment explanation
Indices: 24278405--24278754 Score: 544
Period size: 175 Copynumber: 2.0 Consensus size: 177
24278395 TAGGTCCTTG
* * *
24278405 AACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCTCAAACTTT
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACAAAAAATTACCATTTTACCCCCAAACTTT
* * *
24278470 CCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATTATCGTTTTACCCCCAAACTTTTCAAAA
66 CCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTATCATTTTACCCCCAAACTTTCCAAAA
* *
24278535 TTCTATTTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCCTA
131 TCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTA
* *
24278581 AACTTTCCAAAATTCTA-TTTTAACCCCGATTTCACAAAAAATTACCATTTTACCCCCGAACTTT
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACAAAAAATTACCATTTTACCCCCAAACTTT
* * *
24278645 CTAAAA-TCCAATTTTTAACCTCGATTTCACCAAAAATTATCATTTTACCCCCGAACTTTCCAAA
66 CCAAAATTCC-ATTTTTAACCCCGATTTCACCAAAAATTATCATTTTACCCCCAAACTTTCCAAA
*
24278709 ATCCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCC
130 ATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCC
24278755 CGAAAGTCAA
Statistics
Matches: 158, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
174 3 0.02
175 120 0.76
176 35 0.22
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (177 bp):
AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACAAAAAATTACCATTTTACCCCCAAACTTT
CCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTATCATTTTACCCCCAAACTTTCCAAAA
TCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTA
Found at i:24287360 original size:20 final size:20
Alignment explanation
Indices: 24287334--24287376 Score: 65
Period size: 17 Copynumber: 2.3 Consensus size: 20
24287324 AATTGAACTG
24287334 ATTTTTTTTTA--TTT-TGA
1 ATTTTTTTTTATTTTTATGA
24287351 ATTTTTTTTTATTTTTATGA
1 ATTTTTTTTTATTTTTATGA
24287371 ATTTTT
1 ATTTTT
24287377 AACAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.48
19 3 0.13
20 9 0.39
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.77
Consensus pattern (20 bp):
ATTTTTTTTTATTTTTATGA
Found at i:24289198 original size:17 final size:18
Alignment explanation
Indices: 24289177--24289211 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24289167 CATTTTTTTG
*
24289177 TTTTTATATTTTTAATTA
1 TTTTAATATTTTTAATTA
*
24289195 TTTTAATTTTTTTAATT
1 TTTTAATATTTTTAATT
24289212 TTAAAAGGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTAATATTTTTAATTA
Found at i:24289945 original size:16 final size:17
Alignment explanation
Indices: 24289902--24289963 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 17
24289892 AATTTTAATT
*
24289902 TTTAAA-TTAAGTTTGA
1 TTTAAATTTAAATTTGA
* * *
24289918 ATTGATTTTAAATTT-A
1 TTTAAATTTAAATTTGA
*
24289934 TTTAAATTTAAATTTGT
1 TTTAAATTTAAATTTGA
24289951 TTTAAATTTAAAT
1 TTTAAATTTAAAT
24289964 ACATTTAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
16 16 0.44
17 20 0.56
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTAAATTTAAATTTGA
Found at i:24289947 original size:27 final size:27
Alignment explanation
Indices: 24289923--24289983 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
24289913 TTTGAATTGA
24289923 TTTTAAATTTATTTAAATTTAAATTTG
1 TTTTAAATTTATTTAAATTTAAATTTG
** * * *
24289950 TTTTAAATTTAAATACATTTAAAATAG
1 TTTTAAATTTATTTAAATTTAAATTTG
24289977 TTTTAAA
1 TTTTAAA
24289984 CTTAAAATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (27 bp):
TTTTAAATTTATTTAAATTTAAATTTG
Found at i:24291832 original size:29 final size:28
Alignment explanation
Indices: 24291797--24291989 Score: 215
Period size: 29 Copynumber: 6.6 Consensus size: 28
24291787 TAAATTGTTT
* *
24291797 AAAAATTACACTTTTACCCCTAAACTTCC
1 AAAAATTCCA-TTTTACCCCAAAACTTCC
*
24291826 AAAAATTCCATTTTAACCCCAAAACTTCT
1 AAAAATTCCATTTT-ACCCCAAAACTTCC
* * *
24291855 AAAAATTACATTTTTACCCCTATACTTCC
1 AAAAATTCCA-TTTTACCCCAAAACTTCC
* *
24291884 AAAACTTCCATTTTTACCCCCAAACTTCC
1 AAAAATTCCA-TTTTACCCCAAAACTTCC
*
24291913 AAAAATTCCATTTTAAACCTCAAAACTTCC
1 AAAAATTCCATTTT--ACCCCAAAACTTCC
* *
24291943 AAATATTCCATTTTGACCCCGAAACTTCC
1 AAAAATTCCATTTT-ACCCCAAAACTTCC
24291972 AAAAATTACCATTTTACC
1 AAAAATT-CCATTTTACC
24291990 TCCAGATGTC
Statistics
Matches: 140, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
28 8 0.06
29 96 0.69
30 36 0.26
ACGTcount: A:0.37, C:0.30, G:0.01, T:0.32
Consensus pattern (28 bp):
AAAAATTCCATTTTACCCCAAAACTTCC
Found at i:24291870 original size:58 final size:58
Alignment explanation
Indices: 24291797--24291986 Score: 245
Period size: 58 Copynumber: 3.2 Consensus size: 58
24291787 TAAATTGTTT
* *
24291797 AAAAATTACACTTTTACCCCTAAACTTCCAAAAATTCCATTTTAACCCCAAAACTTCT
1 AAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCCATTTTAACCCCAAAACTTCC
* * * *
24291855 AAAAATTACATTTTTACCCCTATACTTCCAAAACTTCCATTTTTACCCCCAAACTTCC
1 AAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCCATTTTAACCCCAAAACTTCC
* * * * * * *
24291913 AAAAATTCCATTTTAAACCTCAAAACTTCCAAATATTCCATTTTGACCCCGAAACTTCC
1 AAAAATTACATTTT-TACCCCTAAACTTCCAAAAATTCCATTTTAACCCCAAAACTTCC
24291972 AAAAATTACCATTTT
1 AAAAATTA-CATTTT
24291987 ACCTCCAGAT
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
58 65 0.57
59 43 0.38
60 6 0.05
ACGTcount: A:0.37, C:0.29, G:0.01, T:0.33
Consensus pattern (58 bp):
AAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCCATTTTAACCCCAAAACTTCC
Found at i:24298765 original size:6 final size:6
Alignment explanation
Indices: 24298745--24298820 Score: 136
Period size: 6 Copynumber: 12.8 Consensus size: 6
24298735 TTTTACCATC
24298745 TATTCA TATTC- TATTCA TATTCA TATTCA TATTCA TATTCA TATTCA
1 TATTCA TATTCA TATTCA TATTCA TATTCA TATTCA TATTCA TATTCA
*
24298792 TATTCA TATTCA TATTCA TATTTA TATTC
1 TATTCA TATTCA TATTCA TATTCA TATTC
24298821 TTTGTTTTTT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
5 5 0.07
6 62 0.93
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.53
Consensus pattern (6 bp):
TATTCA
Found at i:24304403 original size:15 final size:16
Alignment explanation
Indices: 24304383--24304412 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24304373 AGCCATAACT
24304383 ACAATTTA-ACCTAAA
1 ACAATTTATACCTAAA
24304398 ACAATTTATACCTAA
1 ACAATTTATACCTAA
24304413 CACATCCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
ACAATTTATACCTAAA
Found at i:24308331 original size:69 final size:69
Alignment explanation
Indices: 24308211--24308348 Score: 186
Period size: 69 Copynumber: 2.0 Consensus size: 69
24308201 ACACTAGCGC
* * * *
24308211 GCTCTCTATTTAGCACTGTGTATGCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTTAGCACTGT
1 GCTCGCTAATTAGCACTGTGTATGCTCTCTGATTAGCACGTCTCGTACTCTCTGTTTAGCACTGT
24308276 GTGT
66 GTGT
* * * * * *
24308280 GCTCGCTAATTAGCACTTTGTGTGCTCTCTGATTAGTACTTTTTGTACTCTCTGTTTAGCACTGT
1 GCTCGCTAATTAGCACTGTGTATGCTCTCTGATTAGCACGTCTCGTACTCTCTGTTTAGCACTGT
24308345 GTGT
66 GTGT
24308349 ACTCTCTGTT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.43
Consensus pattern (69 bp):
GCTCGCTAATTAGCACTGTGTATGCTCTCTGATTAGCACGTCTCGTACTCTCTGTTTAGCACTGT
GTGT
Found at i:24308356 original size:23 final size:23
Alignment explanation
Indices: 24308211--24308358 Score: 163
Period size: 23 Copynumber: 6.4 Consensus size: 23
24308201 ACACTAGCGC
* *
24308211 GCTCTCTATTTAGCACTGTGTAT
1 GCTCTCTGTTTAGCACTGTGTGT
*
24308234 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTGT-GT
24308257 GCTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* ** *
24308280 GCTCGCTAATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* * * *
24308303 GCTCTCTGATTAGTACTTTTTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
24308326 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
24308349 ACTCTCTGTT
1 GCTCTCTGTT
24308359 GCCCAGCACT
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
22 3 0.03
23 100 0.94
24 3 0.03
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:24309504 original size:34 final size:35
Alignment explanation
Indices: 24309464--24309544 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 35
24309454 AATTTTATTT
* *
24309464 TAATATAAATATT-CAATATGATTAAA-TAATTCAA
1 TAATATAAATATTACAAAATG-TGAAATTAATTCAA
*
24309498 TAATATAAATATTACAAAATGTGAAATTTAATTTAA
1 TAATATAAATATTACAAAATGTGAAA-TTAATTCAA
24309534 TAATATAAATA
1 TAATATAAATA
24309545 AAATTATTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
34 17 0.41
35 6 0.15
36 18 0.44
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (35 bp):
TAATATAAATATTACAAAATGTGAAATTAATTCAA
Found at i:24314657 original size:19 final size:18
Alignment explanation
Indices: 24314622--24314661 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
24314612 CTTTAAAAAA
24314622 TAATTTTTTATATATTTT
1 TAATTTTTTATATATTTT
24314640 TAATTATTTTA-ATAATTTT
1 TAATT-TTTTATAT-ATTTT
24314659 TAA
1 TAA
24314662 AAAGCAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TAATTTTTTATATATTTT
Found at i:24314661 original size:10 final size:10
Alignment explanation
Indices: 24314620--24314661 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
24314610 AACTTTAAAA
24314620 AATAATTTTT
1 AATAATTTTT
*
24314630 TATATATTTTT
1 AATA-ATTTTT
*
24314641 AATTA-TTTT
1 AATAATTTTT
24314650 AATAATTTTT
1 AATAATTTTT
24314660 AA
1 AA
24314662 AAAGCAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.31
10 10 0.38
11 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
AATAATTTTT
Found at i:24318143 original size:25 final size:25
Alignment explanation
Indices: 24318095--24318143 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
24318085 ACCAATAAAA
**
24318095 TTATTATATTTAAATTTATTATTAG
1 TTATTATATTTAAATTTAAAATTAG
* *
24318120 TTATTATGTTTAATTTTAAAATTA
1 TTATTATATTTAAATTTAAAATTA
24318144 TTTAAAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (25 bp):
TTATTATATTTAAATTTAAAATTAG
Found at i:24318149 original size:10 final size:10
Alignment explanation
Indices: 24318134--24318167 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
24318124 TATGTTTAAT
24318134 TTTAAAATTA
1 TTTAAAATTA
24318144 TTTAAAATTA
1 TTTAAAATTA
*
24318154 -TTAAAAATA
1 TTTAAAATTA
24318163 TTTAA
1 TTTAA
24318168 TTGTTAAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTAAAATTA
Found at i:24318159 original size:19 final size:18
Alignment explanation
Indices: 24318131--24318167 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
24318121 TATTATGTTT
*
24318131 AATTTTAAAATTATTTAA
1 AATTTTAAAAATATTTAA
24318149 AATTATTAAAAATATTTAA
1 AATT-TTAAAAATATTTAA
24318168 TTGTTAAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTTTAAAAATATTTAA
Found at i:24318174 original size:17 final size:16
Alignment explanation
Indices: 24318128--24318175 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 16
24318118 AGTTATTATG
*
24318128 TTTAATTTTAAAATTA
1 TTTAATTTTAAAAATA
24318144 TTTAAAATTATTAAAAATA
1 TTT--AATT-TTAAAAATA
24318163 TTTAATTGTTAAA
1 TTTAATT-TTAAA
24318176 GCATGACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 3 0.11
17 9 0.33
18 4 0.15
19 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TTTAATTTTAAAAATA
Found at i:24319800 original size:62 final size:63
Alignment explanation
Indices: 24319693--24319823 Score: 194
Period size: 62 Copynumber: 2.1 Consensus size: 63
24319683 TTAATATAAA
* *
24319693 AATAATTATATTAAGAATGTTATTAAATTATATAATTATTATTTTTATTAAACTATATTTAAT
1 AATAATTATATTAAGAATATGATTAAATTATATAATTATTATTTTTATTAAACTATATTTAAT
* * *
24319756 AATAATTATATTAA-AATATGATTAAATTTTTTAATTATCT-TTTTTATTAAATTATATTTAAT
1 AATAATTATATTAAGAATATGATTAAATTATATAATTAT-TATTTTTATTAAACTATATTTAAT
24319818 AATAAT
1 AATAAT
24319824 CTTATTATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
62 47 0.76
63 15 0.24
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (63 bp):
AATAATTATATTAAGAATATGATTAAATTATATAATTATTATTTTTATTAAACTATATTTAAT
Found at i:24320314 original size:21 final size:20
Alignment explanation
Indices: 24320290--24320328 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
24320280 AATTTGATTT
24320290 AATACGATAATAATAAAATTA
1 AATACGATAA-AATAAAATTA
*
24320311 AATACTATAAAATAAAAT
1 AATACGATAAAATAAAAT
24320329 AAAAATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (20 bp):
AATACGATAAAATAAAATTA
Found at i:24320335 original size:21 final size:21
Alignment explanation
Indices: 24320290--24320332 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
24320280 AATTTGATTT
*
24320290 AATACGATAATAATAAAATTA
1 AATACGATAATAATAAAATAA
*
24320311 AATACTATAA-AATAAAATAA
1 AATACGATAATAATAAAATAA
24320331 AA
1 AA
24320333 ATAAACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (21 bp):
AATACGATAATAATAAAATAA
Found at i:24321473 original size:16 final size:18
Alignment explanation
Indices: 24321434--24321467 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24321424 TTAGCTTATA
24321434 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
24321451 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
24321468 AATTTAGAAA
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:24321978 original size:36 final size:36
Alignment explanation
Indices: 24321931--24322002 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
24321921 GGCTCATTTA
24321931 GTATCGATATTATTAAAGTTGAGAAATATTTTCTAT
1 GTATCGATATTATTAAAGTTGAGAAATATTTTCTAT
*
24321967 GTATCGATATTATTAAAGTTGAGCAATATTTTCTAT
1 GTATCGATATTATTAAAGTTGAGAAATATTTTCTAT
24322003 CTATTGTCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (36 bp):
GTATCGATATTATTAAAGTTGAGAAATATTTTCTAT
Found at i:24322348 original size:170 final size:169
Alignment explanation
Indices: 24322066--24322420 Score: 692
Period size: 170 Copynumber: 2.1 Consensus size: 169
24322056 TTTGATAATT
24322066 AAAAATTGATGGCTATGAATCCAACAAGTGTTTCTAGTGAAAAAGAGGATGTTGTTCATCCTAGA
1 AAAAATTGATGGCTATGAATCCAACAAGTGTTTCTAGTGAAAAAGAGGATGTTGTTCATCCTAGA
24322131 GATATCGGGTTCGAGCACCTGTGTGTGCAAGGTGTGTGCGTATTATTAAAAGATTAAAAAAATAT
66 GATATCGGGTTCGAGCACCTGTGTGTGCAAGGTGTGTGCGTATTATTAAAAGATTAAAAAAATAT
24322196 GAACAGATATTATCATGTAATGATATTAGTATATTAAAAA
131 GAACAGATATTATCATGTAATGATATTAGTATATT-AAAA
24322236 AAAAATTGATGGCTATGAATCCAACAAGTGTTTCTAGTGAAAAAGAGGATGTTGTTCATCCTAGA
1 AAAAATTGATGGCTATGAATCCAACAAGTGTTTCTAGTGAAAAAGAGGATGTTGTTCATCCTAGA
*
24322301 GATATCGGGTTCGAGCGCCTGTGTGTGCAAGGTGTGTGCGTATTATTAAAAGATTAAAAAAATAT
66 GATATCGGGTTCGAGCACCTGTGTGTGCAAGGTGTGTGCGTATTATTAAAAGATTAAAAAAATAT
24322366 GAACAGATATTATCATGTAATGATATTAGTATATTAAAA
131 GAACAGATATTATCATGTAATGATATTAGTATATTAAAA
24322405 AAAAATTGATGGCTAT
1 AAAAATTGATGGCTAT
24322421 AGCTATATAG
Statistics
Matches: 184, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
169 20 0.11
170 164 0.89
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (169 bp):
AAAAATTGATGGCTATGAATCCAACAAGTGTTTCTAGTGAAAAAGAGGATGTTGTTCATCCTAGA
GATATCGGGTTCGAGCACCTGTGTGTGCAAGGTGTGTGCGTATTATTAAAAGATTAAAAAAATAT
GAACAGATATTATCATGTAATGATATTAGTATATTAAAA
Found at i:24326590 original size:5 final size:5
Alignment explanation
Indices: 24326580--24326617 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
24326570 ATGTTTGGGT
24326580 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAA
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAA
24326618 AGACGGGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:24327535 original size:34 final size:29
Alignment explanation
Indices: 24327488--24327564 Score: 84
Period size: 34 Copynumber: 2.5 Consensus size: 29
24327478 AATTATTTTT
24327488 TTAA-AATTTATTATTAAAATAAAATTGAAATA
1 TTAATAATTTATTATTAAAAT-AAATT---ATA
**
24327520 TTAAATAATTTATTATTTTAATAAATTATA
1 TT-AATAATTTATTATTAAAATAAATTATA
24327550 TTAATAATTTATTAT
1 TTAATAATTTATTAT
24327565 ATGACTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 13 0.32
30 5 0.12
32 2 0.05
33 7 0.17
34 14 0.34
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
TTAATAATTTATTATTAAAATAAATTATA
Found at i:24327542 original size:16 final size:16
Alignment explanation
Indices: 24327517--24327566 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 16
24327507 TAAAATTGAA
24327517 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
*
24327534 ATTTTAATAA---ATT
1 ATATTAATAATTTATT
24327547 ATATTAATAATTTATT
1 ATATTAATAATTTATT
24327563 ATAT
1 ATAT
24327567 GACTAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 12 0.43
16 12 0.43
17 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:24327573 original size:29 final size:30
Alignment explanation
Indices: 24327517--24327574 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
24327507 TAAAATTGAA
* *
24327517 ATATTAAATAATTTATTATTTTAATAAATT
1 ATATTAAATAATTTATTATATGAATAAATT
*
24327547 ATATT-AATAATTTATTATATGACTAAAT
1 ATATTAAATAATTTATTATATGAATAAAT
24327575 ATAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (30 bp):
ATATTAAATAATTTATTATATGAATAAATT
Found at i:24327576 original size:26 final size:27
Alignment explanation
Indices: 24327515--24327584 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 27
24327505 AATAAAATTG
* *
24327515 AAATATTAAATAATTTATTATTTTAATA
1 AAATATT-AATAATTTATTATATGAATA
*
24327543 AATTATATTAATAATTTATTATATGACT-
1 AA--ATATTAATAATTTATTATATGAATA
*
24327571 AAATATAAATAATT
1 AAATATTAATAATT
24327585 AAATATGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 11 0.31
28 4 0.11
29 16 0.44
30 5 0.14
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
AAATATTAATAATTTATTATATGAATA
Found at i:24331716 original size:59 final size:58
Alignment explanation
Indices: 24331549--24331718 Score: 182
Period size: 59 Copynumber: 2.9 Consensus size: 58
24331539 TTTTTCTAAT
* * * * *
24331549 ATTATATATTATGATTTTTATTAATTTATATTTTAATAATAATCATATTAAAAATGTTATTAA
1 ATTAT-TATTAT--TTTTTATTAAATTATA-TTTAATAATAATTATATT-AAAATATAAATAA
* * * *
24331612 ATTA-TA-TATTATTTATTAAATTGTATTTTATAATAATTATGTTAAAATATAAATAA
1 ATTATTATTATTTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAAATAA
*
24331668 ATTATTTATTATTTTTTATTAAATTATATTTAATAATAATTTTATTAAAAT
1 ATTA-TTATTATTTTTTATTAAATTATATTTAATAATAATTATATTAAAAT
24331719 TTAATAACAA
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
56 14 0.16
57 15 0.17
58 15 0.17
59 37 0.41
60 3 0.03
61 2 0.02
63 4 0.04
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (58 bp):
ATTATTATTATTTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAAATAA
Found at i:24331897 original size:16 final size:16
Alignment explanation
Indices: 24331885--24331932 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
24331875 GATTACAATC
*
24331885 CTATTTCATTACAGTT
1 CTATTACATTACAGTT
*
24331901 ATATTACATTACAGTT
1 CTATTACATTACAGTT
*
24331917 CTATTCCATTACAGTT
1 CTATTACATTACAGTT
24331933 TAATTCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (16 bp):
CTATTACATTACAGTT
Found at i:24331938 original size:16 final size:16
Alignment explanation
Indices: 24331891--24331946 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
24331881 AATCCTATTT
*
24331891 CATTACAG-TTATATTA
1 CATTACAGTTTA-ATTC
24331907 CATTACAGTTCT-ATTC
1 CATTACAGTT-TAATTC
24331923 CATTACAGTTTAATTC
1 CATTACAGTTTAATTC
*
24331939 TATTACAG
1 CATTACAG
24331947 CGAACCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 1 0.03
16 32 0.91
17 1 0.03
18 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (16 bp):
CATTACAGTTTAATTC
Found at i:24333656 original size:2 final size:2
Alignment explanation
Indices: 24333644--24333701 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
24333634 ATGGAATTTG
*
24333644 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24333686 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
24333702 TCATTTAGCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24336643 original size:15 final size:14
Alignment explanation
Indices: 24336614--24336648 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
24336604 CCATCTTTAC
24336614 TTTTAATTTCTTTT
1 TTTTAATTTCTTTT
24336628 TTTTAATTT-TTGTT
1 TTTTAATTTCTT-TT
24336642 TTTTAAT
1 TTTTAAT
24336649 GTTGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 2 0.10
14 18 0.90
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTAATTTCTTTT
Found at i:24342304 original size:75 final size:75
Alignment explanation
Indices: 24342181--24342331 Score: 266
Period size: 75 Copynumber: 2.0 Consensus size: 75
24342171 ATGCTTGGAA
* *
24342181 AAACTTTTATTGAATATACCCGTGTCGTGAGCCCACCCTTGTCCGAGTAGCATAGGTTGAGTTGA
1 AAACTTTTATTGAATATACCCGTGTCGCGAGCCCACCCTTGTCCGAGTAGCATAGGTTGAATTGA
24342246 TTCCATCTGT
66 TTCCATCTGT
* *
24342256 AAACTTTTATTGAATATACCTGTGTCGCGAGGCCACCCTTGTCCGAGTAGCATAGGTTGAATTGA
1 AAACTTTTATTGAATATACCCGTGTCGCGAGCCCACCCTTGTCCGAGTAGCATAGGTTGAATTGA
24342321 TTCCATCTGT
66 TTCCATCTGT
24342331 A
1 A
24342332 TATAAGGTTG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (75 bp):
AAACTTTTATTGAATATACCCGTGTCGCGAGCCCACCCTTGTCCGAGTAGCATAGGTTGAATTGA
TTCCATCTGT
Found at i:24368057 original size:2 final size:2
Alignment explanation
Indices: 24368050--24368075 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24368040 CCAGTGCTTT
24368050 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
24368076 AACTTCGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24369056 original size:27 final size:27
Alignment explanation
Indices: 24369025--24369079 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
24369015 TCTTGTTTTA
* *
24369025 ATTTAGAGTTAAATTGATTTTAAATTT
1 ATTTAAAGTTAAATTGATCTTAAATTT
* *
24369052 ATTTAAATTTAAATTTATCTTAAATTT
1 ATTTAAAGTTAAATTGATCTTAAATTT
24369079 A
1 A
24369080 AATTTATCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (27 bp):
ATTTAAAGTTAAATTGATCTTAAATTT
Found at i:24369061 original size:6 final size:6
Alignment explanation
Indices: 24369043--24369160 Score: 106
Period size: 6 Copynumber: 20.0 Consensus size: 6
24369033 TTAAATTGAT
24369043 TTTAAA TTT--A TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA
* *
24369086 TCTTAAA TTTAAA TTTAATTA TTTAAA TTT-AC CTTAAA TTTAAA TTTAAA
1 T-TTAAA TTTAAA TTTAA--A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
24369136 TTTAAA TTAAAA TACTAAA TTTAAA
1 TTTAAA TTTAAA T-TTAAA TTTAAA
24369161 CATTAAAAAT
Statistics
Matches: 92, Mismatches: 8, Indels: 24
0.74 0.06 0.19
Matches are distributed among these distances:
4 8 0.09
5 7 0.08
6 63 0.68
7 8 0.09
8 6 0.07
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:24369061 original size:17 final size:16
Alignment explanation
Indices: 24369043--24369148 Score: 126
Period size: 17 Copynumber: 6.4 Consensus size: 16
24369033 TTAAATTGAT
24369043 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
24369059 TTTAAATTTATCTTAAA
1 TTTAAATTTAT-TTAAA
24369076 TTTAAATTTATCTTAAA
1 TTTAAATTTAT-TTAAA
*
24369093 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
*
24369107 TTTAAATTTACCTTAAA
1 TTTAAATTTA-TTTAAA
24369124 TTTAAATTTAAATTTAAA
1 TTTAAATTT--ATTTAAA
*
24369142 TTAAAAT
1 TTTAAAT
24369149 ACTAAATTTA
Statistics
Matches: 80, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
14 11 0.14
15 2 0.03
16 13 0.16
17 42 0.52
18 11 0.14
19 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:24369145 original size:11 final size:11
Alignment explanation
Indices: 24369044--24369146 Score: 79
Period size: 11 Copynumber: 9.5 Consensus size: 11
24369034 TAAATTGATT
*
24369044 TTAAATTT-AT
1 TTAAATTTAAA
24369054 TTAAATTTAAA
1 TTAAATTTAAA
*
24369065 TT-TATCTTAAA
1 TTAAAT-TTAAA
**
24369076 TTTAAATTTATC
1 -TTAAATTTAAA
24369088 TTAAATTTAAA
1 TTAAATTTAAA
* *
24369099 TTTAA-TT-AT
1 TTAAATTTAAA
**
24369108 TTAAATTTACC
1 TTAAATTTAAA
24369119 TTAAATTTAAA
1 TTAAATTTAAA
24369130 TTTAAATTTAAA
1 -TTAAATTTAAA
24369142 TTAAA
1 TTAAA
24369147 ATACTAAATT
Statistics
Matches: 72, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
9 5 0.07
10 14 0.19
11 35 0.49
12 16 0.22
13 2 0.03
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:24369155 original size:31 final size:30
Alignment explanation
Indices: 24369054--24369160 Score: 87
Period size: 31 Copynumber: 3.6 Consensus size: 30
24369044 TTAAATTTAT
*
24369054 TTAAATTTAAATTT--ATCTTAA-ATTTAAA
1 TTAAAATTAAATTTAAAT-TTAATATTTAAA
* **
24369082 TTTATCTTAAATTTAAATTTAATTATTTAAA
1 TTAAAATTAAATTTAAATTTAA-TATTTAAA
* **
24369113 TTTACCTTAAATTTAAATTTAA-ATTTAAA
1 TTAAAATTAAATTTAAATTTAATATTTAAA
24369142 TTAAAATACTAAATTTAAA
1 TTAAAAT--TAAATTTAAA
24369161 CATTAAAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
28 11 0.17
29 15 0.23
30 2 0.03
31 38 0.58
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (30 bp):
TTAAAATTAAATTTAAATTTAATATTTAAA
Found at i:24369158 original size:48 final size:46
Alignment explanation
Indices: 24369055--24369160 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 46
24369045 TAAATTTATT
* * *
24369055 TAAATTTAAATTTATCTTAAATTTAAATTTATCTTAAATTTAAATT
1 TAAATTTAAATTTACCTTAAATTTAAATTTATCTTAAATTAAAATC
24369101 TAATTATTTAAATTTACCTTAAATTTAAATTTAAAT-TTAAATTAAAATAC
1 TAA--ATTTAAATTTACCTTAAATTTAAATTT--ATCTTAAATTAAAAT-C
24369151 TAAATTTAAA
1 TAAATTTAAA
24369161 CATTAAAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
46 3 0.06
48 33 0.63
49 11 0.21
50 5 0.10
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (46 bp):
TAAATTTAAATTTACCTTAAATTTAAATTTATCTTAAATTAAAATC
Found at i:24369844 original size:3 final size:3
Alignment explanation
Indices: 24369838--24369921 Score: 96
Period size: 3 Copynumber: 27.3 Consensus size: 3
24369828 TGAATATTAT
* * * ** *
24369838 TAA TAA TAA TTA TAA TAA TAAA TAA TAC CAA TAAA TGT TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA
24369885 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
24369922 GGTTTAAATA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
3 62 0.91
4 6 0.09
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:24370659 original size:13 final size:14
Alignment explanation
Indices: 24370641--24370669 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24370631 GGGAAATTTT
24370641 AATGAAA-TAAAAA
1 AATGAAATTAAAAA
24370654 AATGAAATTAAAAA
1 AATGAAATTAAAAA
24370668 AA
1 AA
24370670 CCTAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (14 bp):
AATGAAATTAAAAA
Found at i:24371072 original size:162 final size:161
Alignment explanation
Indices: 24370874--24371206 Score: 506
Period size: 162 Copynumber: 2.1 Consensus size: 161
24370864 TTCCATTTAG
* * *
24370874 TCCTTTGACTGTTTGACTGCATAAGAGGCAGCCACGTGTCACTTTTTAGCTTATTTTTGTATCTA
1 TCCTTTGACTGTTTAACTGCACAAGAGGCAGCCACGTGTCACTTTTTAGCTTATTTATGTATCTA
* *
24370939 GTCCCTGTCATTTTTTATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACACAATT
66 GTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTCATTTAATTACA-AATT
* *
24371004 GGCCCAATAATTTTTCAAGATTTATAAATTAA
130 GGCCCAAGAATTTTTCAAGATATATAAATTAA
* *
24371036 TCCTTTGACTGTTTAACTGCACCAA-AGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATCT
1 TCCTTTGACTGTTTAACTGCA-CAAGAGGCAGCCACGTGTCACTTTTTAGCTTATTTATGTATCT
24371100 AGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTCATTTAATTACAAATT
65 AGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTCATTTAATTACAAATT
* *** *
24371165 GGCCCGAGAATTTTTTTGGATATATAAATTAG
130 GGCCCAAGAATTTTTCAAGATATATAAATTAA
*
24371197 TCCTTCGACT
1 TCCTTTGACT
24371207 TCTGGGTACT
Statistics
Matches: 155, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
161 38 0.25
162 115 0.74
163 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (161 bp):
TCCTTTGACTGTTTAACTGCACAAGAGGCAGCCACGTGTCACTTTTTAGCTTATTTATGTATCTA
GTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTCATTTAATTACAAATTG
GCCCAAGAATTTTTCAAGATATATAAATTAA
Found at i:24371312 original size:29 final size:29
Alignment explanation
Indices: 24371280--24371430 Score: 143
Period size: 29 Copynumber: 5.2 Consensus size: 29
24371270 GATTTCACCA
*
24371280 AAAATTATCATTTTACCCCTGAATTTTCC
1 AAAATTACCATTTTACCCCTGAATTTTCC
* *
24371309 AAAATT-CCATTTTTAACCCC--AGTTTCACC
1 AAAATTACCA-TTTT-ACCCCTGAATTT-TCC
*
24371338 AAAAATTACCATTTTACCCCCGAATTTTCC
1 -AAAATTACCATTTTACCCCTGAATTTTCC
*
24371368 AAAATT-CCATTTTTAACCCTG-ATTTTACC
1 AAAATTACCA-TTTTACCCCTGAATTTT-CC
* *
24371397 AAAATTACCA-TTTACCCCTAAACTTTCC
1 AAAATTACCATTTTACCCCTGAATTTTCC
24371425 AAAATT
1 AAAATT
24371431 CTTTTTTTAA
Statistics
Matches: 101, Mismatches: 10, Indels: 23
0.75 0.07 0.17
Matches are distributed among these distances:
28 30 0.30
29 44 0.44
30 20 0.20
31 7 0.07
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCTGAATTTTCC
Found at i:24371364 original size:59 final size:59
Alignment explanation
Indices: 24371266--24371532 Score: 324
Period size: 59 Copynumber: 4.6 Consensus size: 59
24371256 TTTTATAGGT
* * *
24371266 CCCCGATTTCACCAAAAATTATCATTTTACCCCTGAATTTTCCAAAATTCCATTTTTAA
1 CCCCGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAA
*
24371325 CCCC-AGTTTCACCAAAAATTACCATTTTACCCCCGAATTTTCCAAAATTCCATTTTTAA
1 CCCCGA-TTTCACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAA
* * ** **
24371384 CCCTGATTTTACC-AAAATTACCA-TTTACCCCTAAACTTTCCAAAATTCTTTTTTTAA
1 CCCCGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAA
** * * * * * *
24371441 CCTTGGTTCCATCAAAAATTACCATTTTGCCCCCGAACTTTCCAAAATTCTATTTTTGA
1 CCCCGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAA
* *
24371500 CCCCGATTTCACCGAAAATTACCATTTTGCCCC
1 CCCCGATTTCACCAAAAATTACCATTTTACCCC
24371533 GTGAGTCCAA
Statistics
Matches: 179, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
57 37 0.21
58 21 0.12
59 120 0.67
60 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.36
Consensus pattern (59 bp):
CCCCGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAA
Found at i:24371424 original size:116 final size:117
Alignment explanation
Indices: 24371266--24371526 Score: 353
Period size: 116 Copynumber: 2.2 Consensus size: 117
24371256 TTTTATAGGT
* * *
24371266 CCCCGATTTCACCAAAAATTATCATTTTACCCCTGAATTTTCCAAAATTCCATTTTTAACCCCAG
1 CCCCGATTTCACCAAAAATTACCA-TTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAG
* *
24371331 TTTCACCAAAAATTACCATTTTACCCCCGAATTTTCCAAAATTCCATTTTTAA
65 TTCCACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAA
* * ** ***
24371384 CCCTGATTTTACC-AAAATTACCATTTACCCCTAAACTTTCCAAAATTCTTTTTTTAACCTTGGT
1 CCCCGATTTCACCAAAAATTACCATTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAGT
* * * *
24371448 TCCATCAAAAATTACCATTTTGCCCCCGAACTTTCCAAAATTCTATTTTTGA
66 TCCACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAA
*
24371500 CCCCGATTTCACCGAAAATTACCATTT
1 CCCCGATTTCACCAAAAATTACCATTT
24371527 TGCCCCGTGA
Statistics
Matches: 124, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
116 91 0.73
117 22 0.18
118 11 0.09
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (117 bp):
CCCCGATTTCACCAAAAATTACCATTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAGT
TCCACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAA
Found at i:24371532 original size:29 final size:27
Alignment explanation
Indices: 24371455--24371561 Score: 85
Period size: 29 Copynumber: 3.8 Consensus size: 27
24371445 GGTTCCATCA
*
24371455 AAAATTACCATTTTGCCCCCGAACTTTCC
1 AAAATTACCATTTTGACCCCG-A-TTTCC
*
24371484 AAAATT-CTATTTTTGACCCCGATTTCACC
1 AAAATTACCA-TTTTGACCCCGATTT--CC
*
24371513 GAAAATTACCATTTTG-CCCCG-TGAGTCC
1 -AAAATTACCATTTTGACCCCGAT--TTCC
*
24371541 AAAATTACCATTTTGCCCCCG
1 AAAATTACCATTTTGACCCCG
24371562 GGTATCCAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 17
0.76 0.05 0.20
Matches are distributed among these distances:
27 18 0.27
28 11 0.17
29 23 0.35
30 12 0.18
31 2 0.03
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACCATTTTGACCCCGATTTCC
Found at i:24371569 original size:28 final size:27
Alignment explanation
Indices: 24371514--24371572 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 27
24371504 GATTTCACCG
*
24371514 AAAATTACCATTTTGCCCCGTGAGTCC
1 AAAATTACCATTTTGCCCCGGGAGTCC
24371541 AAAATTACCATTTTGCCCCCGGGTA-TCC
1 AAAATTACCATTTTG-CCCCGGG-AGTCC
24371569 AAAA
1 AAAA
24371573 ATCCCGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 15 0.52
28 13 0.45
29 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
AAAATTACCATTTTGCCCCGGGAGTCC
Found at i:24383741 original size:38 final size:38
Alignment explanation
Indices: 24383640--24383897 Score: 183
Period size: 38 Copynumber: 6.8 Consensus size: 38
24383630 CCGCACCAAC
***
24383640 ATCATTTCCTATCCTCTTGAAATTGAAGT-AGAGTTGG
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAGAGCAAG
** *
24383677 ATAACAAGTCTTTAT-CTC-TGAAATTGAAGTAAGAGCAAG
1 AT--CATTTC-CTATCCTCTTGAAATTGAAGTAAGAGCAAG
* * *
24383716 ATCATTTCCTATCCTCTTGACATTGAAGTAA-AGCTGGAT
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAGAGC--AAG
** *
24383755 ATCAAGTCTTTAT-CTC-TGAAATTGAAGTAAGAGCAAG
1 ATCATTTC-CTATCCTCTTGAAATTGAAGTAAGAGCAAG
* * ***
24383792 ATCGTTTCCCATCCTCTTGAAATTGAAGT-AGAGTTGG
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAGAGCAAG
** * *
24383829 ATAACACGTCTTTAT-CTC-TGAAATTGAAGTAAGAGAAAG
1 AT--CATTTC-CTATCCTCTTGAAATTGAAGTAAGAGCAAG
24383868 ATCATTTCCTATCCTCTTGAAATTGAAGTA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTA
24383898 GAGTTGGATA
Statistics
Matches: 166, Mismatches: 37, Indels: 35
0.70 0.16 0.15
Matches are distributed among these distances:
36 8 0.05
37 35 0.21
38 75 0.45
39 40 0.24
40 8 0.05
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (38 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAAGAGCAAG
Found at i:24383766 original size:76 final size:76
Alignment explanation
Indices: 24383640--24384246 Score: 666
Period size: 76 Copynumber: 7.8 Consensus size: 76
24383630 CCGCACCAAC
*
24383640 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
24383705 GTAAGAGCAAG
66 GTAAGAGCAAG
* * *
24383716 ATCATTTCCTATCCTCTTGACATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
24383781 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * *
24383792 ATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
24383857 GTAAGAGAAAG
66 GTAAGAGCAAG
*
24383868 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTCTGAAATTG
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTA--TCTCTGAAATTG
24383933 AAGTAAGAGCAAG
64 AAGTAAGAGCAAG
** *** * * *** *** * ***
24383946 AAGGAGCACC-AACATCATTTCCTATCCTTTTG-AAA-TTGAAGT-A-AAGATGGATATCAAGTC
1 -ATCATTTCCTATCCTC--TTGAAAT--TGAAGTAAAGTTGGA-TAACAAG-TCTTTATC---TC
*
24384006 TTGATCTCTGAAATTGAAGTAAGAGCAAA
56 -TGA------AA-TTGAAGTAAGAGCAAG
* *
24384035 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTGTCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
24384100 GTAAGAACAAG
66 GTAAGAGCAAG
* *
24384111 GTCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATTTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
24384176 GTAAGAGCAAG
66 GTAAGAGCAAG
* * *
24384187 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATTGGACAGCAAGTCTTTATCTTTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAG-TTGGATAACAAGTCTTTATCTCTGAA
24384247 GAGCAAGAAT
Statistics
Matches: 439, Mismatches: 66, Indels: 51
0.79 0.12 0.09
Matches are distributed among these distances:
76 305 0.69
77 24 0.05
78 30 0.07
79 7 0.02
80 12 0.03
81 5 0.01
82 5 0.01
83 3 0.01
84 2 0.00
85 2 0.00
86 4 0.01
87 12 0.03
88 9 0.02
89 19 0.04
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (76 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAG
Found at i:24383920 original size:152 final size:152
Alignment explanation
Indices: 24383640--24384246 Score: 856
Period size: 152 Copynumber: 3.9 Consensus size: 152
24383630 CCGCACCAAC
*
24383640 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
* * *
24383705 GTAAGAGCAAGATCATTTCCTATCCTCTTGACATTGAAGTAAAGCTGGATATCAAGTCTTTATCT
66 GTAAGAGAAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCT
24383770 CTGAAATTGAAGTAAGAGCAAG
131 CTGAAATTGAAGTAAGAGCAAG
* * * *
24383792 ATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
* *
24383857 GTAAGAGAAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCT
66 GTAAGAGAAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTA--T
24383922 CTCTGAAATTGAAGTAAGAGCAAGAAGGAG
129 CTCTGAAATTGAAGTAAGAGC----A--AG
* * * *
24383952 CACCAACATCATTTCCTATCCTTTTGAAATTGAAGTAAAGATGGATATCAAGTCTTGATCTCTGA
1 -------ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGA
24384017 AATTGAAGTAAGAGCAAA-ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGT
59 AATTGAAGTAAGAG-AAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGT
* *
24384081 CTTTGTCTCTGAAATTGAAGTAAGAACAAG
123 CTTTATCTCTGAAATTGAAGTAAGAGCAAG
* *
24384111 GTCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATTTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
* * *
24384176 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATTGGACAGCAAGTCTTTATC
66 GTAAGAGAAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAG-TTGGATATCAAGTCTTTATC
*
24384241 TTTGAA
130 TCTGAA
24384247 GAGCAAGAAT
Statistics
Matches: 406, Mismatches: 31, Indels: 35
0.86 0.07 0.07
Matches are distributed among these distances:
151 2 0.00
152 218 0.54
153 22 0.05
154 22 0.05
158 1 0.00
159 2 0.00
160 2 0.00
161 1 0.00
165 21 0.05
167 112 0.28
168 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (152 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
GTAAGAGAAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCT
CTGAAATTGAAGTAAGAGCAAG
Found at i:24384027 original size:38 final size:37
Alignment explanation
Indices: 24383976--24384246 Score: 156
Period size: 38 Copynumber: 7.1 Consensus size: 37
24383966 CCTATCCTTT
24383976 TGAAATTGAAGTAAAGATGGATATCAAGTCTTGATCTC
1 TGAAATTGAAGTAAAGATGGATATCAAGTCTT-ATCTC
* * ** *
24384014 TGAAATTGAAGT-AAGA-GCAAAATCATTTCCTATCCTC
1 TGAAATTGAAGTAAAGATG-GATATCAAGTCTTAT-CTC
* *
24384051 TTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTGTCTC
1 -TGAAATTGAAGTAAAGATGGATATCAAGTC-TTATCTC
*** ** ** *
24384090 TGAAATTGAAGT-AAGAACAAGGTCATTTCCTATCCTC
1 TGAAATTGAAGTAAAGATGGATATCAAGTCTTAT-CTC
* * *
24384127 TTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATTTC
1 -TGAAATTGAAGTAAAGATGGATATCAAGTC-TTATCTC
* * ** *
24384166 TGAAATTGAAGT-AAGA-GCAAGATCATTTCCTATCCTC
1 TGAAATTGAAGTAAAGATG-GATATCAAGTCTTAT-CTC
* * *
24384203 TTGAAATTGAAGTAAAGATTGGACAGCAAGTCTTTATCTT
1 -TGAAATTGAAGTAAAGA-TGGATATCAAGTC-TTATCTC
24384243 TGAA
1 TGAA
24384247 GAGCAAGAAT
Statistics
Matches: 168, Mismatches: 48, Indels: 33
0.67 0.19 0.13
Matches are distributed among these distances:
36 9 0.05
37 38 0.23
38 72 0.43
39 31 0.18
40 14 0.08
41 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.33
Consensus pattern (37 bp):
TGAAATTGAAGTAAAGATGGATATCAAGTCTTATCTC
Found at i:24384148 original size:243 final size:241
Alignment explanation
Indices: 24383716--24384187 Score: 793
Period size: 243 Copynumber: 2.0 Consensus size: 241
24383706 TAAGAGCAAG
* * *
24383716 ATCATTTCCTATCCTCTTGACATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATATCAAGTCTTGATCTCTGAAATTGAA
* * * *
24383781 GTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCT
66 GTAAGAGCAAAATCATTTCCCATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCT
*
24383846 CTGAAATTGAAGTAAGAGAAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACA
131 CTGAAATTGAAGTAAGAGAAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACA
24383911 AGTCTTTATCTCTCTGAAATTGAAGTAAGAGCAAGAAGGAGCACCAAC
196 AGTCTTTAT-T-TCTGAAATTGAAGTAAGAGCAAGAAGGAGCACCAAC
*
24383959 ATCATTTCCTATCCTTTTGAAATTGAAGTAAAGATGGATATCAAGTCTTGATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATATCAAGTCTTGATCTCTGAAATTGAA
* * *
24384024 GTAAGAGCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTGTCT
66 GTAAGAGCAAAATCATTTCCCATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCT
*
24384089 CTGAAATTGAAGTAAGA-ACAAGGTCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAAC
131 CTGAAATTGAAGTAAGAGA-AAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAAC
24384153 AAGTCTTTATTTCTGAAATTGAAGTAAGAGCAAGA
195 AAGTCTTTATTTCTGAAATTGAAGTAAGAGCAAGA
24384188 TCATTTCCTA
Statistics
Matches: 215, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
241 24 0.11
242 2 0.01
243 189 0.88
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (241 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATATCAAGTCTTGATCTCTGAAATTGAA
GTAAGAGCAAAATCATTTCCCATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCT
CTGAAATTGAAGTAAGAGAAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACA
AGTCTTTATTTCTGAAATTGAAGTAAGAGCAAGAAGGAGCACCAAC
Found at i:24384211 original size:319 final size:320
Alignment explanation
Indices: 24383632--24384241 Score: 1033
Period size: 319 Copynumber: 1.9 Consensus size: 320
24383622 GAATCAGACC
* * *
24383632 GCACCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTG
1 GCACCAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATAACAAGTCTTGATCTCTG
* *
24383697 AAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGACATTGAAGTAAAGCTGGATATCAAGT
66 AAATTGAAGTAAGAGCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGT
* * *
24383762 CTTTATCTCTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTT
131 CTTTATCTCTGAAATTGAAGTAAGAACAAGATCATTTCCCATCCTCTTGAAATTGAAGTAAAGTT
*
24383827 GGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGAAAGATCATTTCCTATCCTCTTGAAATT
196 GGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGAAAGATCATTTCCTATCCTCTTGAAATT
* *
24383892 GAAGTAGAG-TTGGATAACAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCAAGAAGGA
261 GAAGTAAAGATTGGACAACAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCAAGAAGGA
* *
24383951 GCACCAACATCATTTCCTATCCTTTTGAAATTGAAGTAAAGATGGATATCAAGTCTTGATCTCTG
1 GCACCAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATAACAAGTCTTGATCTCTG
*
24384016 AAATTGAAGTAAGAGCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGT
66 AAATTGAAGTAAGAGCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGT
* * *
24384081 CTTTGTCTCTGAAATTGAAGTAAGAACAAGGTCATTTCCTATCCTCTTGAAATTGAAGTAAAGTT
131 CTTTATCTCTGAAATTGAAGTAAGAACAAGATCATTTCCCATCCTCTTGAAATTGAAGTAAAGTT
* *
24384146 GGATAACAAGTCTTTATTTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATT
196 GGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGAAAGATCATTTCCTATCCTCTTGAAATT
*
24384211 GAAGTAAAGATTGGACAGCAAGTCTTTATCT
261 GAAGTAAAGATTGGACAACAAGTCTTTATCT
24384242 TTGAAGAGCA
Statistics
Matches: 270, Mismatches: 20, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
319 251 0.93
320 19 0.07
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (320 bp):
GCACCAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATAACAAGTCTTGATCTCTG
AAATTGAAGTAAGAGCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGT
CTTTATCTCTGAAATTGAAGTAAGAACAAGATCATTTCCCATCCTCTTGAAATTGAAGTAAAGTT
GGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGAAAGATCATTTCCTATCCTCTTGAAATT
GAAGTAAAGATTGGACAACAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCAAGAAGGA
Found at i:24384564 original size:11 final size:11
Alignment explanation
Indices: 24384535--24384596 Score: 56
Period size: 11 Copynumber: 5.8 Consensus size: 11
24384525 TAATTTAGAG
* *
24384535 TTAAATTGATT
1 TTAAATTTATC
24384546 TTAAATTTATC
1 TTAAATTTATC
**
24384557 TTAAATTTAAA
1 TTAAATTTATC
*
24384568 TTTAA-TTAT-
1 TTAAATTTATC
*
24384577 TTAAATTTACC
1 TTAAATTTATC
24384588 TTAAATTTA
1 TTAAATTTA
24384597 AATTAAAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
9 4 0.10
10 6 0.15
11 31 0.76
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (11 bp):
TTAAATTTATC
Found at i:24384566 original size:6 final size:6
Alignment explanation
Indices: 24384545--24384617 Score: 53
Period size: 6 Copynumber: 12.0 Consensus size: 6
24384535 TTAAATTGAT
* *
24384545 TTTAAA TTT--A TCTTAAA TTTAAA TTTAATTA TTTAAA TTT-AC CTTAAA
1 TTTAAA TTTAAA T-TTAAA TTTAAA TTTAA--A TTTAAA TTTAAA TTTAAA
* *
24384593 TTTAAA TTAAAA TACTAAA TTTAAA
1 TTTAAA TTTAAA T-TTAAA TTTAAA
24384618 CATTAATAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
4 2 0.04
5 5 0.10
6 33 0.63
7 6 0.12
8 6 0.12
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:24385609 original size:162 final size:160
Alignment explanation
Indices: 24385405--24385731 Score: 492
Period size: 162 Copynumber: 2.0 Consensus size: 160
24385395 TTCAATTTAG
* * * * *
24385405 TCCTTTGATTGTTTGACTGCACAAGAGGCTACCATGTGTCACTTTTTGGCTTATTTCTATATCTA
1 TCCTTTAACTGTTTGAATGCACAAGAGGCTACCACGTGTCACTTTTTGGCTTATTTATATATCTA
* *
24385470 GTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACACAATT
66 GTCCCTATCATTTTTAATTT-TTTTAATTTAATCCTTAAATCAACTTTCATTTAATTACA-AATT
*
24385535 GGCCCAATAATTTTTCAAGATTTATAAATTAA
129 GGCCCAAGAATTTTTCAAGATTTATAAATTAA
* * *
24385567 TCCTTTAACTGTTTGAATGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATCTA
1 TCCTTTAACTGTTTGAATGCACAAGAGGCTACCACGTGTCACTTTTTGGCTTATTTATATATCTA
*
24385632 GTCCCTATCATTTTTAATTTTTTTAATTTAATCCTTAAATCAACTTTCATTTAATTATAAATTGG
66 GTCCCTATCATTTTTAATTTTTTTAATTTAATCCTTAAATCAACTTTCATTTAATTACAAATTGG
* * * *
24385697 CCCGAGAATTTTTTAGGATTTATAAATTAG
131 CCCAAGAATTTTTCAAGATTTATAAATTAA
24385727 TCCTT
1 TCCTT
24385732 CGACTTCTGG
Statistics
Matches: 149, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
160 36 0.24
161 37 0.25
162 76 0.51
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.45
Consensus pattern (160 bp):
TCCTTTAACTGTTTGAATGCACAAGAGGCTACCACGTGTCACTTTTTGGCTTATTTATATATCTA
GTCCCTATCATTTTTAATTTTTTTAATTTAATCCTTAAATCAACTTTCATTTAATTACAAATTGG
CCCAAGAATTTTTCAAGATTTATAAATTAA
Found at i:24385843 original size:29 final size:29
Alignment explanation
Indices: 24385810--24386018 Score: 107
Period size: 29 Copynumber: 7.1 Consensus size: 29
24385800 GATTTCACTA
*
24385810 AAAATTATCATTTTACCCCTAAACTTTCC
1 AAAATTACCATTTTACCCCTAAACTTTCC
* *
24385839 AAAATT-CCATTTTTA-ACCTCAA-TTTCACC
1 AAAATTACCA-TTTTACCCCTAAACTTT--CC
*
24385868 AAAAATTACCATTTTACCCCCAAACTTTCC
1 -AAAATTACCATTTTACCCCTAAACTTTCC
* *
24385898 AAAATT-CTATTTTTAACCCC--GA-TTTCACC
1 AAAATTACCA-TTTT-ACCCCTAAACTTT--CC
* *
24385927 AAAAATTACCATTTTA-CCCTCAAATTTTCT
1 -AAAATTACCATTTTACCCCT-AAACTTTCC
** **
24385957 AAAATT-CCATTTTTA-ATCTCGA-TTTCACC
1 AAAATTACCA-TTTTACCCCTAAACTTT--CC
24385986 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATTACCATTTTACCCCTAAACTTTCC
24386016 AAA
1 AAA
24386019 GTTTCATTTT
Statistics
Matches: 136, Mismatches: 20, Indels: 48
0.67 0.10 0.24
Matches are distributed among these distances:
27 9 0.07
28 17 0.12
29 43 0.32
30 42 0.31
31 16 0.12
32 9 0.07
ACGTcount: A:0.35, C:0.27, G:0.01, T:0.36
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCTAAACTTTCC
Found at i:24385866 original size:59 final size:59
Alignment explanation
Indices: 24385796--24386118 Score: 443
Period size: 59 Copynumber: 5.5 Consensus size: 59
24385786 TTTTATAGGT
* *
24385796 CCTCGATTTCACTAAAAATTATCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAA
1 CCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAA
* * *
24385855 CCTCAATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAA
1 CCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAA
* * *
24385914 CCCCGATTTCACCAAAAATTACCATTTTA-CCCTCAAATTTTCTAAAATTCCATTTTTAA
1 CCTCGATTTCACCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAA
* * *
24385973 TCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAGTTTCATTTTTAA
1 CCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAA
* * ** * *
24386032 CCTC-AGTTCCATCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCTATTTTTGA
1 CCTCGA-TTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAA
* *
24386091 CCCCGATTTCACCGAAAATTACCATTTT
1 CCTCGATTTCACCAAAAATTACCATTTT
24386119 GCCCTGCAAG
Statistics
Matches: 230, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
58 4 0.02
59 221 0.96
60 5 0.02
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.37
Consensus pattern (59 bp):
CCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAA
Found at i:24386096 original size:177 final size:177
Alignment explanation
Indices: 24385797--24386123 Score: 555
Period size: 177 Copynumber: 1.8 Consensus size: 177
24385787 TTTATAGGTC
* *
24385797 CTCGATTTCACTAAAAATTATCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCAAT
1 CTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCAAT
*
24385862 TTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACC
66 TCCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACC
24385927 AAAAATTACCATTTTACCCTCAAATTTTCTAAAATTCCATTTTTAAT
131 AAAAATTACCATTTTACCCTCAAATTTTCTAAAATTCCATTTTTAAT
* * *
24385974 CTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAGTTTCATTTTTAACCTCAGT
1 CTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCAAT
* * *
24386039 TCCATCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCTATTTTTGACCCCGATTTCACC
66 TCCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACC
* *
24386104 GAAAATTACCATTTTGCCCT
131 AAAAATTACCATTTTACCCT
24386124 GCAAGTCCAA
Statistics
Matches: 139, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
177 139 1.00
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (177 bp):
CTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCAAT
TCCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACC
AAAAATTACCATTTTACCCTCAAATTTTCTAAAATTCCATTTTTAAT
Found at i:24387904 original size:4 final size:4
Alignment explanation
Indices: 24387895--24387964 Score: 70
Period size: 4 Copynumber: 17.2 Consensus size: 4
24387885 AAAATAAGGG
* * * *
24387895 GAAA GAAA GAGAG GAAA GAAA GAAA GAAA GTAA GAAA GAAG GAGAG GAAA
1 GAAA GAAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA-AA GAAA
*
24387945 GAAA G-AA GAAG GAAA GAAA G
1 GAAA GAAA GAAA GAAA GAAA G
24387965 GTAATGTGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
3 3 0.05
4 45 0.82
5 7 0.13
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:24387940 original size:33 final size:32
Alignment explanation
Indices: 24387895--24387964 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 32
24387885 AAAATAAGGG
*
24387895 GAAAGAAAGAGAGGAAAGAAAGAAAGAAAGTAA
1 GAAAGAAAGAGAGGAAAGAAAG-AAGAAAGAAA
* *
24387928 GAAAGAAGGAGAGGAAAGAAAGAAGAAGGAAA
1 GAAAGAAAGAGAGGAAAGAAAGAAGAAAGAAA
24387960 GAAAG
1 GAAAG
24387965 GTAATGTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.01
Consensus pattern (32 bp):
GAAAGAAAGAGAGGAAAGAAAGAAGAAAGAAA
Found at i:24391121 original size:21 final size:21
Alignment explanation
Indices: 24391095--24391141 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
24391085 TTAGGGTCCA
* *
24391095 ATTGCCCCGGAAGAGTAGAGT
1 ATTGCCCAGGAAGAGTAAAGT
*
24391116 ATTGCCCAGGAGGAGTAAAGT
1 ATTGCCCAGGAAGAGTAAAGT
24391137 ATTGC
1 ATTGC
24391142 GCTGGCTCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (21 bp):
ATTGCCCAGGAAGAGTAAAGT
Found at i:24391270 original size:12 final size:12
Alignment explanation
Indices: 24391250--24391274 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24391240 TGCCTCCTCC
24391250 TCCTCCTCTTCT
1 TCCTCCTCTTCT
24391262 TCCTCCTCTTCT
1 TCCTCCTCTTCT
24391274 T
1 T
24391275 GTTGCTCTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (12 bp):
TCCTCCTCTTCT
Found at i:24393166 original size:16 final size:16
Alignment explanation
Indices: 24393145--24393193 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
24393135 TGATTGGGGT
24393145 ATTATTTTGATAATTA
1 ATTATTTTGATAATTA
*
24393161 ATTATTTTTAT-ATT-
1 ATTATTTTGATAATTA
*
24393175 A-TATTTTGGTAATTA
1 ATTATTTTGATAATTA
24393190 ATTA
1 ATTA
24393194 GCTAGGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 7 0.26
14 4 0.15
15 4 0.15
16 12 0.44
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
ATTATTTTGATAATTA
Found at i:24393503 original size:95 final size:95
Alignment explanation
Indices: 24393386--24394026 Score: 1001
Period size: 95 Copynumber: 6.8 Consensus size: 95
24393376 TTATATTATT
* *
24393386 TTTTAAAATTAATAAATATGAACAATATTTTTTACTTACTACTATTTACTAACAACAAAATAAAA
1 TTTT-AAATCAATAAATATGAACAATATTTTTTACTTACTACTACTTACTAACAACAAAATAAAA
*
24393451 TTACTAACTAATTTTTTTAAACATTAATAAA
65 TTACTAACTAATTTTTTTAAACATTATTAAA
24393482 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTTACTAACAACAAAATAAAAT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTTACTAACAACAAAATAAAAT
*
24393547 TACTAATTAATTTTTTTAAACATTATTAAA
66 TACTAACTAATTTTTTTAAACATTATTAAA
*
24393577 GTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTTACTAACAACAAAATAAAAT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTTACTAACAACAAAATAAAAT
*
24393642 TATTAACTAATTTTTTTAAACATTATTAAA
66 TACTAACTAATTTTTTTAAACATTATTAAA
* **
24393672 GTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTTACTAACGGC-AAATAAAAT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTTACTAACAACAAAATAAAAT
*
24393736 TACTAACCAATTTTTTTAAACATTATTAAA
66 TACTAACTAATTTTTTTAAACATTATTAAA
* * * * *
24393766 TTTTAAATCAAAAAATATGAACAATGTTTTTTACTAACTACTACTACTACTAAAAATAAAATAAA
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACT--TACTAACAACAAAATAAA
24393831 ATTACTAACTAA-TTTTTTAAACATTATTAAA
64 ATTACTAACTAATTTTTTTAAACATTATTAAA
* *
24393862 TTTTAAATCAATAAATATAAACAATGTTTTTTACTTACTACTAC-TACTAACAACAAAATAAAAT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTTACTAACAACAAAATAAAAT
***
24393926 TACTAACTAGCA-AAATTTAAACATTATTAAA
66 TACTAACTA--ATTTTTTTAAACATTATTAAA
24393957 TTTTAAATCAATAAATATGAACAATATTTTTTAC-T--TACTAC-TACTAACAACAAAATAAAAT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTTACTAACAACAAAATAAAAT
24394018 TACTAACTA
66 TACTAACTA
24394027 GCAAAATTAA
Statistics
Matches: 510, Mismatches: 30, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
92 35 0.07
93 27 0.05
94 79 0.15
95 281 0.55
96 70 0.14
97 18 0.04
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.38
Consensus pattern (95 bp):
TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTTACTAACAACAAAATAAAAT
TACTAACTAATTTTTTTAAACATTATTAAA
Found at i:24394023 original size:20 final size:21
Alignment explanation
Indices: 24393998--24394040 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
24393988 TACTTACTAC
24393998 TACTAAC-AACAAAATAAAAT
1 TACTAACTAACAAAATAAAAT
* *
24394018 TACTAACTAGCAAAATTAAAT
1 TACTAACTAACAAAATAAAAT
24394039 TA
1 TA
24394041 AAGTAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (21 bp):
TACTAACTAACAAAATAAAAT
Found at i:24394669 original size:27 final size:27
Alignment explanation
Indices: 24394639--24394690 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
24394629 CTTTAGTGTC
*
24394639 GCCACTTGATATTCCTCCATTGGTGCT
1 GCCACTTGATATTCCTCCACTGGTGCT
* *
24394666 GCCACTTGGTGTTCCTCCACTGGTG
1 GCCACTTGATATTCCTCCACTGGTG
24394691 TCAGGTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.12, C:0.31, G:0.23, T:0.35
Consensus pattern (27 bp):
GCCACTTGATATTCCTCCACTGGTGCT
Found at i:24395289 original size:21 final size:21
Alignment explanation
Indices: 24395265--24395304 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
24395255 TTAACAAATT
24395265 AATA-AATGAATTATTAGAATA
1 AATATAAT-AATTATTAGAATA
24395286 AATATAATAATTATTAGAA
1 AATATAATAATTATTAGAA
24395305 ATTGATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (21 bp):
AATATAATAATTATTAGAATA
Found at i:24396869 original size:18 final size:18
Alignment explanation
Indices: 24396848--24396888 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
24396838 TTAATTTAGT
* *
24396848 TAATTCGATTAATTCGGA
1 TAATTCGAATAATTCAGA
24396866 TAATTCGAATAATTCAGA
1 TAATTCGAATAATTCAGA
24396884 TAATT
1 TAATT
24396889 TTTTATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (18 bp):
TAATTCGAATAATTCAGA
Found at i:24401545 original size:41 final size:41
Alignment explanation
Indices: 24401498--24401579 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
24401488 ATGACAAGCT
24401498 GACGTTGCAATTTAAAAAAATCAATATAATAACAAATTTAA
1 GACGTTGCAATTTAAAAAAATCAATATAATAACAAATTTAA
24401539 GACGTTGCAATTTAAAAAAATCAATATAATAACAAATTTAA
1 GACGTTGCAATTTAAAAAAATCAATATAATAACAAATTTAA
24401580 CCCTCAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (41 bp):
GACGTTGCAATTTAAAAAAATCAATATAATAACAAATTTAA
Found at i:24402855 original size:21 final size:22
Alignment explanation
Indices: 24402818--24402869 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
24402808 TTTAGTCAAC
*
24402818 TAAAAAAA-TAATTTGACTCT-TT
1 TAAAAAAATTAA-TTGAC-CTAGT
24402840 TAAAAAAATTAA-TGACCTAGT
1 TAAAAAAATTAATTGACCTAGT
24402861 TAAAAAAAT
1 TAAAAAAAT
24402870 AAAAGTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.07
21 14 0.52
22 8 0.30
23 3 0.11
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.33
Consensus pattern (22 bp):
TAAAAAAATTAATTGACCTAGT
Found at i:24404201 original size:24 final size:24
Alignment explanation
Indices: 24404169--24404217 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
24404159 GCATAACAGA
24404169 ATATCAAAAACATTACATGACATG
1 ATATCAAAAACATTACATGACATG
24404193 ATATCAAAAACATTACATGACATG
1 ATATCAAAAACATTACATGACATG
24404217 A
1 A
24404218 CATGCACCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.24
Consensus pattern (24 bp):
ATATCAAAAACATTACATGACATG
Found at i:24405379 original size:23 final size:23
Alignment explanation
Indices: 24405349--24405396 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
24405339 TATGCATGGT
24405349 TTGAATTTGATGGGAAGTAGGGA
1 TTGAATTTGATGGGAAGTAGGGA
24405372 TTGAATTTGATGGGAAGTAGGGA
1 TTGAATTTGATGGGAAGTAGGGA
24405395 TT
1 TT
24405397 ATCATTAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.38, T:0.33
Consensus pattern (23 bp):
TTGAATTTGATGGGAAGTAGGGA
Found at i:24407448 original size:27 final size:28
Alignment explanation
Indices: 24407411--24407463 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
24407401 AATTAAATCG
*
24407411 AATTTTAATCATTTTTGAA-TTAAAATAT
1 AATTTTAATCATTATT-AATTTAAAATAT
24407439 AATTTT-ATCATTATTAATTTAAAAT
1 AATTTTAATCATTATTAATTTAAAAT
24407464 TTTATAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 2 0.09
27 15 0.65
28 6 0.26
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (28 bp):
AATTTTAATCATTATTAATTTAAAATAT
Found at i:24407837 original size:31 final size:31
Alignment explanation
Indices: 24407802--24407874 Score: 146
Period size: 31 Copynumber: 2.4 Consensus size: 31
24407792 TTAAGAAGGC
24407802 TTTGTAGTAATTTCTGACATGTTTTGATTAA
1 TTTGTAGTAATTTCTGACATGTTTTGATTAA
24407833 TTTGTAGTAATTTCTGACATGTTTTGATTAA
1 TTTGTAGTAATTTCTGACATGTTTTGATTAA
24407864 TTTGTAGTAAT
1 TTTGTAGTAAT
24407875 ACTGTATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.52
Consensus pattern (31 bp):
TTTGTAGTAATTTCTGACATGTTTTGATTAA
Found at i:24408709 original size:15 final size:16
Alignment explanation
Indices: 24408690--24408730 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
24408680 AAAAATATTT
24408690 TAACAAATACAATTAA
1 TAACAAATACAATTAA
*
24408706 -AACAAATGA-ATTTAA
1 TAACAAAT-ACAATTAA
24408721 TAACAAATAC
1 TAACAAATAC
24408731 GGTGGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.61, C:0.12, G:0.02, T:0.24
Consensus pattern (16 bp):
TAACAAATACAATTAA
Found at i:24414498 original size:29 final size:29
Alignment explanation
Indices: 24414455--24414512 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
24414445 CTCTTCACAA
*
24414455 CACTGAATAATATATTAAAAGAAGATCAT
1 CACTGAATAACATATTAAAAGAAGATCAT
*
24414484 CACTGAATAACATATTAAAAGAAGCTCAT
1 CACTGAATAACATATTAAAAGAAGATCAT
24414513 AGATATATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (29 bp):
CACTGAATAACATATTAAAAGAAGATCAT
Found at i:24416354 original size:21 final size:21
Alignment explanation
Indices: 24416305--24416364 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
24416295 ATGATTATTA
* *
24416305 AATAATATTTATATTTATGAC
1 AATATTATTTATTTTTATGAC
* *
24416326 CATATTATTTATTTTTATGAT
1 AATATTATTTATTTTTATGAC
* *
24416347 AATTTTATATATTTTTAT
1 AATATTATTTATTTTTAT
24416365 TTTCTTATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (21 bp):
AATATTATTTATTTTTATGAC
Found at i:24416401 original size:20 final size:20
Alignment explanation
Indices: 24416376--24416421 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
24416366 TTCTTATATA
*
24416376 CAAAATCTATATAAAGTTTT
1 CAAAATCTATATAAACTTTT
* * *
24416396 CAAAATTTATCTAATCTTTT
1 CAAAATCTATATAAACTTTT
24416416 CAAAAT
1 CAAAAT
24416422 GTAGATAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (20 bp):
CAAAATCTATATAAACTTTT
Found at i:24417540 original size:15 final size:16
Alignment explanation
Indices: 24417502--24417541 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
24417492 AGATTTAGTC
24417502 CTTATA-TTTTAATTT
1 CTTATATTTTTAATTT
*
24417517 CGTAT-TTTTTAATTT
1 CTTATATTTTTAATTT
24417532 -TTATATTTTT
1 CTTATATTTTT
24417542 CAAATTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (16 bp):
CTTATATTTTTAATTT
Found at i:24419344 original size:27 final size:27
Alignment explanation
Indices: 24419304--24419366 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
24419294 GATTATTCCA
*
24419304 CATTCCAT-TACCAAATCAAGCCAATT
1 CATTCCTTATACCAAATCAAGCCAATT
24419330 CATTCCTTATACCAAATCAAGCCAATT
1 CATTCCTTATACCAAATCAAGCCAATT
24419357 CATTCCTTAT
1 CATTCCTTAT
24419367 CTTGCCACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 7 0.20
27 28 0.80
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.32
Consensus pattern (27 bp):
CATTCCTTATACCAAATCAAGCCAATT
Found at i:24420328 original size:36 final size:36
Alignment explanation
Indices: 24420281--24420353 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
24420271 GAATTGAATG
*
24420281 TTAAAAAGAGATTATAAATGAAGTATGGTGAAATAA
1 TTAAAAAGAGATTACAAATGAAGTATGGTGAAATAA
*
24420317 TTAAAAAGAGATTACAAATGAAGTGTGGTGAAATAA
1 TTAAAAAGAGATTACAAATGAAGTATGGTGAAATAA
24420353 T
1 T
24420354 GTTTAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.51, C:0.01, G:0.21, T:0.27
Consensus pattern (36 bp):
TTAAAAAGAGATTACAAATGAAGTATGGTGAAATAA
Found at i:24423325 original size:11 final size:11
Alignment explanation
Indices: 24423311--24423353 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
24423301 GTTGTTTTCG
*
24423311 TACTGTTTTGC
1 TACTATTTTGC
*
24423322 TACTATTTTAC
1 TACTATTTTGC
* *
24423333 TATTATGTTGC
1 TACTATTTTGC
24423344 TACTATTTTG
1 TACTATTTTG
24423354 TTGTTATTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.19, C:0.14, G:0.12, T:0.56
Consensus pattern (11 bp):
TACTATTTTGC
Found at i:24424230 original size:20 final size:21
Alignment explanation
Indices: 24424207--24424263 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
24424197 ATTTTTTATC
24424207 AAAAAATTTTAATATT-TAAT
1 AAAAAATTTTAATATTATAAT
*
24424227 AAAATATTTT--TATTATAAT
1 AAAAAATTTTAATATTATAAT
24424246 AACAATAA-TTTAATATTA
1 AA-AA-AATTTTAATATTA
24424264 AATGCCATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 4 0.13
19 6 0.20
20 14 0.47
21 1 0.03
22 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAAAATTTTAATATTATAAT
Found at i:24426287 original size:11 final size:12
Alignment explanation
Indices: 24426252--24426296 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
24426242 TTTATCAAGA
24426252 TAAATATTAA-AT
1 TAAAT-TTAATAT
24426264 TAAATTTAATAT
1 TAAATTTAATAT
*
24426276 TAAATTT-TTAT
1 TAAATTTAATAT
24426287 TAAA-TTAATA
1 TAAATTTAATA
24426297 AAATATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 2 0.07
11 13 0.45
12 14 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TAAATTTAATAT
Found at i:24426302 original size:60 final size:62
Alignment explanation
Indices: 24426224--24426342 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 62
24426214 ATCACTTCAA
*
24426224 TATTAAATTAACATAATATTTA-T-CAAGATAAATATTAAATTAAATTTAATATTAAATTTT
1 TATTAAATTAACAAAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATTTT
* * * *
24426284 TATTAAATTAATAAAATATTTATCTACAAGATAGATATTTAATTTAATTTAATATTAAA
1 TATTAAATTAACAAAATATTTA-CTACAAGATAAATATTAAATTAAATTTAATATTAAA
24426343 ACAATCACTT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
60 20 0.39
62 1 0.02
63 30 0.59
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (62 bp):
TATTAAATTAACAAAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATTTT
Found at i:24426304 original size:22 final size:23
Alignment explanation
Indices: 24426262--24426304 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
24426252 TAAATATTAA
*
24426262 ATTAAATTTAATATTAAATTTTT
1 ATTAAATTTAATATAAAATTTTT
24426285 ATTAAA-TTAATA-AAATATTT
1 ATTAAATTTAATATAAA-ATTT
24426305 ATCTACAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 2 0.11
22 10 0.56
23 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTAAATTTAATATAAAATTTTT
Found at i:24426305 original size:20 final size:22
Alignment explanation
Indices: 24426251--24426306 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 22
24426241 ATTTATCAAG
*
24426251 ATAAATATTAAATTAAATTTAAT
1 ATAAATATT-TATTAAATTTAAT
*
24426274 ATTAAATTTTTATTAAA-TTAAT
1 A-TAAATATTTATTAAATTTAAT
24426296 A-AAATATTTAT
1 ATAAATATTTAT
24426307 CTACAAGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 9 0.31
22 6 0.21
23 7 0.24
24 7 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATATTTATTAAATTTAAT
Found at i:24426793 original size:18 final size:18
Alignment explanation
Indices: 24426749--24426797 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
24426739 TTTAATCAAA
*
24426749 TAACTAACATTCTTGACT
1 TAACTAACATTCTTGAAT
*
24426767 TAACCAACATTCTTGAAT
1 TAACTAACATTCTTGAAT
**
24426785 TAGGTAACATTCT
1 TAACTAACATTCT
24426798 AATAAAAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (18 bp):
TAACTAACATTCTTGAAT
Found at i:24427804 original size:11 final size:11
Alignment explanation
Indices: 24427784--24427823 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
24427774 AACCGTTTTA
24427784 AAATTAAATTT
1 AAATTAAATTT
*
24427795 AAATTCAATTT
1 AAATTAAATTT
24427806 AAATTAAATTT
1 AAATTAAATTT
24427817 AATATTA
1 AA-ATTA
24427824 TTATAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 22 0.85
12 4 0.15
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
AAATTAAATTT
Found at i:24427830 original size:22 final size:21
Alignment explanation
Indices: 24427784--24427832 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 21
24427774 AACCGTTTTA
24427784 AAATTAAATTTAAATTCAATTT
1 AAATTAAATTTAAATT-AATTT
24427806 AAATTAAATTTAATATT-ATTAT
1 AAATTAAATTTAA-ATTAATT-T
24427828 AAATT
1 AAATT
24427833 TAAAAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATTAAATTTAAATTAATTT
Found at i:24428585 original size:15 final size:15
Alignment explanation
Indices: 24428567--24428597 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24428557 ATTAATTTCA
24428567 ATAATAATAATAAAT
1 ATAATAATAATAAAT
24428582 ATAATAATAATAAAT
1 ATAATAATAATAAAT
24428597 A
1 A
24428598 AAAAAGGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAATAATAATAAAT
Found at i:24429227 original size:8 final size:8
Alignment explanation
Indices: 24429214--24429244 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
24429204 GACCAAGGGT
24429214 GAGAAAGA
1 GAGAAAGA
24429222 GAGAAAGA
1 GAGAAAGA
24429230 GAGAAAAGA
1 GAG-AAAGA
24429239 GAGAAA
1 GAGAAA
24429245 AGGAAAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (8 bp):
GAGAAAGA
Found at i:24429239 original size:9 final size:9
Alignment explanation
Indices: 24429217--24429246 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24429207 CAAGGGTGAG
24429217 AAAGAGAG-
1 AAAGAGAGA
24429225 AAAGAGAGA
1 AAAGAGAGA
24429234 AAAGAGAGA
1 AAAGAGAGA
24429243 AAAG
1 AAAG
24429247 GAAAGGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (9 bp):
AAAGAGAGA
Found at i:24429902 original size:29 final size:30
Alignment explanation
Indices: 24429792--24430004 Score: 159
Period size: 29 Copynumber: 7.2 Consensus size: 30
24429782 AGAGGTCCCT
* *
24429792 AAACTATCCAAAAATTATA-TTTTGACCTCA
1 AAACT-TCCAAAAATTCTATTTTTGACCTCG
* * **
24429822 AAACTTCTCTAAAATTATATTTTTGACCTTA
1 AAACTTC-CAAAAATTCTATTTTTGACCTCG
* **
24429853 AAATTTCTTAAAATTAC-A-TTTTGACCTCG
1 AAACTTCCAAAAATT-CTATTTTTGACCTCG
** * * *
24429882 AAACTTTGAGAAATTCTATTTTTAACCCCG
1 AAACTTCCAAAAATTCTATTTTTGACCTCG
* * *
24429912 AAACTTCCCAAAATTATGTTTTT-ACCCTCG
1 AAACTTCCAAAAATTCTATTTTTGA-CCTCG
* *
24429942 -AACTTTCAAAAATTCTATTTTTGACC-CT
1 AAACTTCCAAAAATTCTATTTTTGACCTCG
* *
24429970 AAACTTCCAAAAATTCCATTTTTGACCTCA
1 AAACTTCCAAAAATTCTATTTTTGACCTCG
24430000 AAACT
1 AAACT
24430005 CCCGAAATTA
Statistics
Matches: 145, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
28 2 0.01
29 67 0.46
30 60 0.41
31 16 0.11
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (30 bp):
AAACTTCCAAAAATTCTATTTTTGACCTCG
Found at i:24429927 original size:59 final size:58
Alignment explanation
Indices: 24429792--24430004 Score: 185
Period size: 59 Copynumber: 3.6 Consensus size: 58
24429782 AGAGGTCCCT
* * * * * **
24429792 AAACTATCCAAAAATTATATTTTGACCTCAAAACTTCTCTAAAATTATATTTTTGACCTTA
1 AAACT-TCCAAAAATTACATTTTGACCTCGAAACTT-TCAAAAATTCTATTTTTAACC-CG
* ** * *
24429853 AAATTTCTTAAAATTACATTTTGACCTCGAAACTTTGAGAAATTCTATTTTTAACCCCG
1 AAACTTCCAAAAATTACATTTTGACCTCGAAACTTTCAAAAATTCTATTTTTAA-CCCG
* ** * * *
24429912 AAACTTCCCAAAATTATGTTTTTACCCTCG-AACTTTCAAAAATTCTATTTTTGACCCT
1 AAACTTCCAAAAATTACATTTTGA-CCTCGAAACTTTCAAAAATTCTATTTTTAACCCG
* *
24429970 AAACTTCCAAAAATTCCATTTTTGACCTCAAAACT
1 AAACTTCCAAAAATTACA-TTTTGACCTCGAAACT
24430005 CCCGAAATTA
Statistics
Matches: 120, Mismatches: 28, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
58 21 0.17
59 62 0.52
60 33 0.28
61 4 0.03
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (58 bp):
AAACTTCCAAAAATTACATTTTGACCTCGAAACTTTCAAAAATTCTATTTTTAACCCG
Found at i:24431216 original size:21 final size:20
Alignment explanation
Indices: 24431169--24431220 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
24431159 GATGTTGGTG
*
24431169 GATTAATT-AAATTAATAAA
1 GATTAATTAAAATAAATAAA
* *
24431188 GGTTAATTAAAAGTAAATCAA
1 GATTAATTAAAA-TAAATAAA
24431209 GATTAATTAAAA
1 GATTAATTAAAA
24431221 AGTACTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 7 0.26
20 3 0.11
21 17 0.63
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.33
Consensus pattern (20 bp):
GATTAATTAAAATAAATAAA
Found at i:24442125 original size:11 final size:10
Alignment explanation
Indices: 24442104--24442134 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
24442094 CTGTATTTCC
24442104 CTTTTTTTTT
1 CTTTTTTTTT
24442114 CTTTTCTTTTT
1 CTTTT-TTTTT
24442125 CTTTTTTTTT
1 CTTTTTTTTT
24442135 AAAAAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:24444265 original size:49 final size:49
Alignment explanation
Indices: 24444177--24444648 Score: 258
Period size: 49 Copynumber: 9.6 Consensus size: 49
24444167 CAGGATTTGT
* * ** * * * *
24444177 CGTTGCGGCTTCAATTTTTCCCTTTGTGTCTTCGTGGTACTAGATTCGT
1 CGTTGCGGCTTAAATCTTTCCCTTCATGTTTTTGAGGTACTAGATTCGC
* * *
24444226 CGTTGCGGCTTAAATCTTTCCCTTCATGTTTTTGAGGTACAAGGTTCAC
1 CGTTGCGGCTTAAATCTTTCCCTTCATGTTTTTGAGGTACTAGATTCGC
** ** * * * *
24444275 TATTGCAACTTAAACCTTTTCC-TCCT-TTATCTTCGTGGTACT-GAATTCGC
1 CGTTGCGGCTTAAATCTTTCCCTTCATGTT-T-TT-GAGGTACTAG-ATTCGC
* * * *
24444325 CGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTA-TAAGGTCCGC
1 CGTTGCGGCTTAAATCTTTCCCTTCATGTTTTTGAGGTACT-AGATTCGC
* * * * * * * * *
24444374 CGTTGTGACTTAAA-CATTTTCCTTTATCTCTTCGTGGTACTAGATTTGC
1 CGTTGCGGCTTAAATC-TTTCCCTTCATGTTTTTGAGGTACTAGATTCGC
* * * * * *
24444423 CGTTGCGGCTTAAATATTTCCTTTCATGCTTTTGAGGTACAAGGTTTGC
1 CGTTGCGGCTTAAATCTTTCCCTTCATGTTTTTGAGGTACTAGATTCGC
* * * * * * *
24444472 CGTTGCGACTTAAACCTTTCCCTCCAT-TATCTTCATGGTATTGGATTCGC
1 CGTTGCGGCTTAAATCTTTCCCTTCATGT-TTTTGA-GGTACTAGATTCGC
* * * * * * *
24444522 CATTGCGGCTTAAAAT-TTTCCCTTCATGCTTCTGAGGTACAAGGTCCAC
1 CGTTGCGGCTT-AAATCTTTCCCTTCATGTTTTTGAGGTACTAGATTCGC
* * * * * *
24444571 CGTTGCGACTTAAACCTTTTCCTCCAT-TATCTTCATGGTACTAGATTCGC
1 CGTTGCGGCTTAAATCTTTCCCTTCATGT-TTTTGA-GGTACTAGATTCGC
*
24444621 CGTTGTGGCTTAAATCTTTCCCTTCATG
1 CGTTGCGGCTTAAATCTTTCCCTTCATG
24444649 CTTCGTGGTG
Statistics
Matches: 299, Mismatches: 105, Indels: 36
0.68 0.24 0.08
Matches are distributed among these distances:
47 2 0.01
48 9 0.03
49 188 0.63
50 92 0.31
51 7 0.02
52 1 0.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (49 bp):
CGTTGCGGCTTAAATCTTTCCCTTCATGTTTTTGAGGTACTAGATTCGC
Found at i:24444314 original size:99 final size:99
Alignment explanation
Indices: 24444205--24444652 Score: 596
Period size: 99 Copynumber: 4.5 Consensus size: 99
24444195 TCCCTTTGTG
* * *
24444205 TCTTCGTGGTACTAGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTTTTTGAGGTACAAGG
1 TCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGG
* ** * *
24444270 TTCACTATTGCAACTTAAACCTTTTCCTCCTTTA
66 TCCACCGTTGCGACTTAAACCTTTTCCTCCATTA
*
24444304 TCTTCGTGGTACT-GAATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTATAAG
1 TCTTCGTGGTACTAG-ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAG
* * * ** *
24444368 GTCCGCCGTTGTGACTTAAACATTTTCCTTTA-TC
65 GTCCACCGTTGCGACTTAAACCTTTTCCTCCATTA
* * * *
24444402 TCTTCGTGGTACTAGATTTGCCGTTGCGGCTTAAATATTTCCTTTCATGCTTTTGAGGTACAAGG
1 TCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGG
*** *
24444467 TTTGCCGTTGCGACTTAAACCTTTCCCTCCATTA
66 TCCACCGTTGCGACTTAAACCTTTTCCTCCATTA
* * * *
24444501 TCTTCATGGTATTGGATTCGCCATTGCGGCTTAAAAT-TTTCCCTTCATGCTTCTGAGGTACAAG
1 TCTTCGTGGTACTAGATTCGCCGTTGCGGCTT-AAATCTTTCCCTTCATGCTTCTGAGGTACAAG
24444565 GTCCACCGTTGCGACTTAAACCTTTTCCTCCATTA
65 GTCCACCGTTGCGACTTAAACCTTTTCCTCCATTA
* *
24444600 TCTTCATGGTACTAGATTCGCCGTTGTGGCTTAAATCTTTCCCTTCATGCTTC
1 TCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTC
24444653 GTGGTGATGA
Statistics
Matches: 301, Mismatches: 43, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
98 88 0.29
99 209 0.69
100 4 0.01
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (99 bp):
TCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGG
TCCACCGTTGCGACTTAAACCTTTTCCTCCATTA
Found at i:24444544 original size:197 final size:198
Alignment explanation
Indices: 24444205--24444651 Score: 646
Period size: 197 Copynumber: 2.3 Consensus size: 198
24444195 TCCCTTTGTG
* *
24444205 TCTTCGTGGTACTAGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTTTTTGAGGTACAAGG
1 TCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGG
* * * * *
24444270 TTCACTATTGCAACTTAAACCTTTTCCTCCTTTATCTTCGTGGTACTGAATTCGCCGTTGCGGCT
66 TTCACCATTGCAACTTAAACCTTTCCCTCCATTATCTTCATGGTACTGAATTCGCCATTGCGGCT
* * * **
24444335 TAAATCTTTCCCTTCATGCTTCTGAGGTATAAGGTCCGCCGTTGTGACTTAAACATTTTCCTTTA
131 TAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTCCACCGTTGCGACTTAAACATTTTCCTCCA
*
24444400 -TC
196 TTA
* * *
24444402 TCTTCGTGGTACTAGATTTGCCGTTGCGGCTTAAATATTTCCTTTCATGCTTTTGAGGTACAAGG
1 TCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGG
** * * * *
24444467 TTTGCCGTTGCGACTTAAACCTTTCCCTCCATTATCTTCATGGTATTGGATTCGCCATTGCGGCT
66 TTCACCATTGCAACTTAAACCTTTCCCTCCATTATCTTCATGGTACTGAATTCGCCATTGCGGCT
*
24444532 TAAAAT-TTTCCCTTCATGCTTCTGAGGTACAAGGTCCACCGTTGCGACTTAAACCTTTTCCTCC
131 T-AAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTCCACCGTTGCGACTTAAACATTTTCCTCC
24444596 ATTA
195 ATTA
* *
24444600 TCTTCATGGTACTAGATTCGCCGTTGTGGCTTAAATCTTTCCCTTCATGCTT
1 TCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTT
24444652 CGTGGTGATG
Statistics
Matches: 220, Mismatches: 28, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
197 168 0.76
198 52 0.24
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (198 bp):
TCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGG
TTCACCATTGCAACTTAAACCTTTCCCTCCATTATCTTCATGGTACTGAATTCGCCATTGCGGCT
TAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTCCACCGTTGCGACTTAAACATTTTCCTCCA
TTA
Found at i:24452827 original size:23 final size:23
Alignment explanation
Indices: 24452801--24452846 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24452791 AATTTCGAAT
** *
24452801 TTCGAATTATTCGAATCGAGTTA
1 TTCGAATTAAACGAATAGAGTTA
*
24452824 TTCGAGTTAAACGAATAGAGTTA
1 TTCGAATTAAACGAATAGAGTTA
24452847 AATTTTTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (23 bp):
TTCGAATTAAACGAATAGAGTTA
Found at i:24453114 original size:42 final size:42
Alignment explanation
Indices: 24453055--24453138 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
24453045 CAAATATTTT
24453055 TAAACCCAAATATAATTTCATTCTTTAAA-AACACTCATAAAC
1 TAAACCCAAATATAATTTCATTC-TTAAATAACACTCATAAAC
*
24453097 TAAACCCAAATATAATTTTATTCTTAAATAACACTCATAAAC
1 TAAACCCAAATATAATTTCATTCTTAAATAACACTCATAAAC
24453139 AACTCCTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 5 0.12
42 35 0.88
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (42 bp):
TAAACCCAAATATAATTTCATTCTTAAATAACACTCATAAAC
Done.