Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 141 of 438
Found at i:42133584 original size:43 final size:42
Alignment explanation
Indices: 42133461--42133625 Score: 199
Period size: 42 Copynumber: 3.9 Consensus size: 42
42133451 ATTAGGGTTA
* *
42133461 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCAAC
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGAT
*
42133503 ATGAGACTACGTGTAAGACAATATCTGGGATATGGCATCGAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGAT
* * * *
42133545 ATGAAACTTCGTGTAAAACCATAGT-TGGGCTATTGGCATCGAT
1 ATGAGACTACGTGTAAGACCATA-TCTGGGATA-TGGCATCGAT
* * *
42133588 ACGAGA-TCACATGTAAGACCATATTTGGGATATGGCAT
1 ATGAGACT-ACGTGTAAGACCATATCTGGGATATGGCAT
42133626 TGGTACGATA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
42 72 0.69
43 33 0.31
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (42 bp):
ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGAT
Found at i:42133823 original size:15 final size:16
Alignment explanation
Indices: 42133797--42133826 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42133787 ATGAACCCTT
42133797 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
42133813 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
42133827 ATAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:42138475 original size:54 final size:54
Alignment explanation
Indices: 42138402--42138509 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
42138392 ATGGAAGAAA
42138402 AAGAATCATGGTTGTGAAATAAAAAACTTTTGTGAAGTAGTTTTCATGGAAACC
1 AAGAATCATGGTTGTGAAATAAAAAACTTTTGTGAAGTAGTTTTCATGGAAACC
* *
42138456 AAGAATCATGGTTGTGAAATAAACAATTTTTGTGAAGTAGTTTTCATGGAAACC
1 AAGAATCATGGTTGTGAAATAAAAAACTTTTGTGAAGTAGTTTTCATGGAAACC
42138510 CTAACTAAGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.32
Consensus pattern (54 bp):
AAGAATCATGGTTGTGAAATAAAAAACTTTTGTGAAGTAGTTTTCATGGAAACC
Found at i:42141236 original size:40 final size:40
Alignment explanation
Indices: 42141186--42141411 Score: 395
Period size: 40 Copynumber: 5.7 Consensus size: 40
42141176 GCTACTTGCT
*
42141186 CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
42141226 CAAGTGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
42141266 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
42141306 CAAATGCCTTTGGGACTTAGCCCGG-TATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
42141345 CAAATGCCTTCGGGACTTAGCCCGG--ATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
42141383 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
42141412 CATCCGAATA
Statistics
Matches: 177, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
38 38 0.21
39 38 0.21
40 101 0.57
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:42148913 original size:25 final size:25
Alignment explanation
Indices: 42148885--42148963 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
42148875 ACTCGACCCT
*
42148885 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
42148910 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
42148932 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
42148957 ATCACAT
1 ATCACAT
42148964 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:42149009 original size:49 final size:49
Alignment explanation
Indices: 42148835--42149188 Score: 540
Period size: 49 Copynumber: 7.3 Consensus size: 49
42148825 CCCTTCGGGA
* * * * * * *
42148835 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
42148882 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42148929 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42148976 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42149025 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42149074 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42149123 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42149172 CTTATCACATATATATA
1 CTTATCACATATATATA
42149189 TCTCATACAT
Statistics
Matches: 290, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 89 0.31
49 200 0.69
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42152697 original size:24 final size:24
Alignment explanation
Indices: 42152665--42152847 Score: 303
Period size: 24 Copynumber: 7.6 Consensus size: 24
42152655 TATCTCAAAT
*
42152665 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
42152689 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
42152713 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
42152737 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
42152761 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
42152785 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
42152809 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
42152833 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
42152848 ACATAATAAG
Statistics
Matches: 153, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 153 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:42152860 original size:48 final size:48
Alignment explanation
Indices: 42152665--42152869 Score: 243
Period size: 48 Copynumber: 4.3 Consensus size: 48
42152655 TATCTCAAAT
** * *
42152665 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATA
* * *
42152713 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGA-TTCACTATG
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACAT-AATATA
* ** *
42152761 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATA
** * *
42152809 GCACTATGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATAATATA
42152857 GCACTATGTGTGC
1 GCACTATGTGTGC
42152870 CACATTCGGT
Statistics
Matches: 146, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
47 2 0.01
48 137 0.94
49 7 0.05
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (48 bp):
GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATA
Found at i:42159921 original size:2 final size:2
Alignment explanation
Indices: 42159916--42159941 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
42159906 CACAATCGGG
42159916 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
42159942 AGTATGCCCA
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:42160422 original size:24 final size:24
Alignment explanation
Indices: 42160390--42160594 Score: 324
Period size: 24 Copynumber: 8.6 Consensus size: 24
42160380 TATCTCAAAT
*
42160390 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
42160414 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
42160438 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
42160462 GCACTATGTGTGCGA-TTACTATG
1 GCACTATGTGTGCGATTTACTATG
42160485 GCACTATGTGTGCGA-TTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
42160508 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
42160532 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
42160556 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
42160580 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
42160595 ACATAATAAG
Statistics
Matches: 174, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
23 45 0.26
24 129 0.74
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:42167802 original size:2 final size:2
Alignment explanation
Indices: 42167797--42167826 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
42167787 CACAATCGGG
42167797 TA TA 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 TA TA
42167827 GTATGCCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:42168307 original size:24 final size:24
Alignment explanation
Indices: 42168275--42168481 Score: 342
Period size: 24 Copynumber: 8.6 Consensus size: 24
42168265 TATCTCAAAT
*
42168275 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
42168299 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
42168323 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
42168347 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
42168371 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
42168395 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
42168419 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
42168443 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
42168467 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
42168482 ACATAATAAG
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:42172676 original size:40 final size:40
Alignment explanation
Indices: 42172625--42172812 Score: 333
Period size: 40 Copynumber: 4.7 Consensus size: 40
42172615 GCTACTTGCT
*
42172625 CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
42172665 CAAGTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
42172705 CAAATGCCTT-GGGACTTAGCCCGGGTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
42172744 CAAATGCCTTCGGGACTTAGCCCGGGTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
42172784 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
42172813 CATCCGAATA
Statistics
Matches: 142, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
39 38 0.27
40 104 0.73
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:42172719 original size:79 final size:80
Alignment explanation
Indices: 42172585--42172812 Score: 336
Period size: 79 Copynumber: 2.9 Consensus size: 80
42172575 TCATTCCCAA
* * * * *
42172585 ACAAGTACCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCC
1 ACAAGTGCCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
42172648 GGTTATAATAACTCGC
65 GGTTATAATAACTCGC
*
42172664 ACAAGTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTT-GGGACTTAGCCCG
1 ACAAGTGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* *
42172728 GGTATAGTAACTCGC
66 GTTATAATAACTCGC
* *
42172743 ACAAATGCCTTCGGGACTTAGCCCGGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 ACAAGTGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
42172808 GTTAT
66 GTTAT
42172813 CATCCGAATA
Statistics
Matches: 135, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
79 94 0.70
80 41 0.30
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
ACAAGTGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
GTTATAATAACTCGC
Found at i:42183250 original size:28 final size:28
Alignment explanation
Indices: 42183219--42183320 Score: 159
Period size: 28 Copynumber: 3.6 Consensus size: 28
42183209 GAATAATTCG
*
42183219 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
42183247 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
42183275 ATATTTCGTACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
42183303 ATATTTCGTACACTAAGT
1 ATATTTCGCACACTAAGT
42183321 ACCATATTTG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:42186079 original size:15 final size:15
Alignment explanation
Indices: 42186026--42186104 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
42186016 GTATTGTAAT
*
42186026 TTGGATTTCCTTATC
1 TTGGATTTCTTTATC
* *
42186041 ATAGATTTCTTTATC
1 TTGGATTTCTTTATC
42186056 TTGGATTTCTTTAT-
1 TTGGATTTCTTTATC
* * *
42186070 TCTGGGTTTCTCTGTC
1 T-TGGATTTCTTTATC
42186086 TCT-GATTATCTTTATC
1 T-TGGATT-TCTTTATC
42186102 TTG
1 TTG
42186105 TAACTTGTTG
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
14 1 0.02
15 38 0.78
16 10 0.20
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.56
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:42192025 original size:20 final size:20
Alignment explanation
Indices: 42192000--42192039 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
42191990 AAATTTTATC
*
42192000 TTATAACCATTTTTTAAAAA
1 TTATAACCATTTTCTAAAAA
**
42192020 TTATAATGATTTTCTAAAAA
1 TTATAACCATTTTCTAAAAA
42192040 CAGAACAGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (20 bp):
TTATAACCATTTTCTAAAAA
Found at i:42192873 original size:28 final size:28
Alignment explanation
Indices: 42192842--42192943 Score: 159
Period size: 28 Copynumber: 3.6 Consensus size: 28
42192832 GAATAATTCG
*
42192842 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
42192870 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
42192898 ATATTTCGTACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
42192926 ATATTTCGTACACTAAGT
1 ATATTTCGCACACTAAGT
42192944 ACCATATTTG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:42195701 original size:15 final size:15
Alignment explanation
Indices: 42195648--42195726 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
42195638 GTATTGTAAT
*
42195648 TTGGATTTCCTTATC
1 TTGGATTTCTTTATC
* *
42195663 ATAGATTTCTTTATC
1 TTGGATTTCTTTATC
42195678 TTGGATTTCTTTAT-
1 TTGGATTTCTTTATC
* * *
42195692 TCTGGGTTTCTCTGTC
1 T-TGGATTTCTTTATC
42195708 TCT-GATTATCTTTATC
1 T-TGGATT-TCTTTATC
42195724 TTG
1 TTG
42195727 TAACTTGTTG
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
14 1 0.02
15 38 0.78
16 10 0.20
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.56
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:42200662 original size:20 final size:21
Alignment explanation
Indices: 42200623--42200662 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
42200613 GTTATAATGA
*
42200623 CCACACGGGCGTGTTGCCCTT
1 CCACACGGACGTGTTGCCCTT
42200644 CCACACGGACGTG-TGCCCT
1 CCACACGGACGTGTTGCCCT
42200663 GTTTCAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGACGTGTTGCCCTT
Found at i:42203222 original size:46 final size:46
Alignment explanation
Indices: 42203069--42203325 Score: 200
Period size: 46 Copynumber: 5.5 Consensus size: 46
42203059 TTTGTGTGCT
* ** **
42203069 AGTGTAAGACATGTATGGGACATGCATCGGCCAGATCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAAATGAGAGCC
* * * * *
42203115 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAAATGAGAGCC
* *
42203163 AGTGTAAGACATGTCTAGGACATGCATTGGCCTCAAAATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAAATG-AGAGCC
** * *
42203209 AGTGTAAGACATGTCTGGGACATGCATCGG-CT-ATGA-GATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAAATGA-GAGCC
* * * * *
42203253 AATGTAAGATCATGTCTGGGACATGGCATCAGCAC-GAATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCAA-A-ATGAGAGCC
42203303 AGTGTAAGACCATGTCTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
42203326 CGGCATCGAC
Statistics
Matches: 167, Mismatches: 31, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 12 0.07
45 16 0.10
46 58 0.35
47 27 0.16
48 27 0.16
50 23 0.14
51 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAAATGAGAGCC
Found at i:42207981 original size:42 final size:42
Alignment explanation
Indices: 42207933--42208097 Score: 233
Period size: 42 Copynumber: 3.9 Consensus size: 42
42207923 ATTAGGGTTA
* *
42207933 ATGAGACTACGTGTAAGACCATATCTGAGATATGGCATCAAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGAT
*
42207975 ATGAGACTACGTGTAAGACCATGTCTGGGATATGGCATCGAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGAT
* * * *
42208017 ATGAAACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATA-TGGCATCGAT
*
42208060 ATGAGA-TCACATGTAAGACCATATCTGGGATATGGCAT
1 ATGAGACT-ACGTGTAAGACCATATCTGGGATATGGCAT
42208098 TGGTATGATA
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
42 73 0.68
43 35 0.32
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGAT
Found at i:42208105 original size:85 final size:84
Alignment explanation
Indices: 42207933--42208097 Score: 233
Period size: 85 Copynumber: 2.0 Consensus size: 84
42207923 ATTAGGGTTA
* * * *
42207933 ATGAGACTACGTGTAAGACCATATCTGAGATATGGCATCAATATGAGACTACGTGTAAGACCATG
1 ATGAAACTACGTGTAAGACCATAGCTGAGATATGGCATCAATATGAGACTACATGTAAGACCATA
42207998 TCTGGGATATGGCATCGAT
66 TCTGGGATATGGCATCGAT
* * * *
42208017 ATGAAACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGA-TCACATGTAAGACCA
1 ATGAAACTACGTGTAAGACCATAGCTGAGATA-TGGCATCAATATGAGACT-ACATGTAAGACCA
42208081 TATCTGGGATATGGCAT
64 TATCTGGGATATGGCAT
42208098 TGGTATGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
84 28 0.39
85 43 0.61
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (84 bp):
ATGAAACTACGTGTAAGACCATAGCTGAGATATGGCATCAATATGAGACTACATGTAAGACCATA
TCTGGGATATGGCATCGAT
Found at i:42224691 original size:9 final size:9
Alignment explanation
Indices: 42224677--42224701 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
42224667 AACCATTCAA
42224677 TCATTCATT
1 TCATTCATT
42224686 TCATTCATT
1 TCATTCATT
42224695 TCATTCA
1 TCATTCA
42224702 ATTTAATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (9 bp):
TCATTCATT
Found at i:42227131 original size:17 final size:17
Alignment explanation
Indices: 42227109--42227141 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
42227099 ATTCTTTGAG
42227109 AATTGCC-ACAGCATTTC
1 AATTGCCTA-AGCATTTC
42227126 AATTGCCTAAGCATTT
1 AATTGCCTAAGCATTT
42227142 TTTTTAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (17 bp):
AATTGCCTAAGCATTTC
Found at i:42228092 original size:10 final size:9
Alignment explanation
Indices: 42228067--42228091 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
42228057 CCTTTACTAA
42228067 TTTAAAATT
1 TTTAAAATT
42228076 TTTAAAATT
1 TTTAAAATT
42228085 TTTAAAA
1 TTTAAAA
42228092 AGCTTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TTTAAAATT
Found at i:42229344 original size:22 final size:22
Alignment explanation
Indices: 42229319--42229362 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
42229309 TAGTCTTATA
42229319 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
42229341 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
42229363 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:42229398 original size:13 final size:14
Alignment explanation
Indices: 42229382--42229423 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
42229372 TTTCAATTTT
42229382 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
42229395 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
42229410 ATTTTAAATAATAT
1 ATTTT-AATAATAT
42229424 TATTAACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:42229408 original size:16 final size:16
Alignment explanation
Indices: 42229386--42229422 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
42229376 AATTTTATTT
42229386 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
42229403 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
42229418 TAATA
1 TAATA
42229423 TTATTAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:42229475 original size:15 final size:15
Alignment explanation
Indices: 42229455--42229511 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
42229445 ATTCAATATT
42229455 AATATTTTAATAATA
1 AATATTTTAATAATA
*
42229470 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
42229489 AATATATTAATAATA
1 AATATTTTAATAATA
*
42229504 AATGTTTT
1 AATATTTT
42229512 GTATTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:42236282 original size:131 final size:130
Alignment explanation
Indices: 42235991--42236479 Score: 418
Period size: 131 Copynumber: 3.7 Consensus size: 130
42235981 CTTGTCTTAG
* * * * * * *
42235991 AAAATATGAGTGAAATTCCGAAGGGATCTTCGATTGTTTTGAACAAATGAAAAAGCGCAACCCAG
1 AAAACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAG
* * *
42236056 CACGATAGGGCTCGATTCTCA--AATCACCAAACATCGAACATCGCCTTCGTTTTGAAAGG-TTT
66 CACGATAGGGCACGATTC-CACGAATTACCAAACATCG-ACATCACCTTCGTTTTG-AAGGATTT
42236118 TTA
128 TTA
* ** * * * * * *
42236121 ATAAACATGAATGAAAACCTAAAGGAATATTCGATTGTTTTGAACTAACGAGAAATCACAGCCCA
1 A-AAACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCA
* * * * *
42236186 GCACGATAGGGCATGATTCCA-GAATTATCAAACACCGAGTATTACCTTCGTTTTGAAGGATTTT
65 GCACGATAGGGCACGATTCCACGAATTACCAAACATCGA-CATCACCTTCGTTTTGAAGGATTTT
42236250 TA
129 TA
* * * * * * *
42236252 GAATACCTGAGTGAAATTTTGAAGGGATATTTGATTATTTT-AAGCAATCAAGAAATTGCAACCC
1 -AAAACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAA-CAAACGAGAAATCGCAACCC
* * * * * *
42236316 AACACGTTAGGGCACAATTCCATGAATTGCCAAATATCGCACATCACCTTCG-TTT-AAGGGA-T
64 AGCACGATAGGGCACGATTCCACGAATTACCAAACATCG-ACATCACCTTCGTTTTGAA-GGATT
42236378 TTTA
127 TTTA
* * * * ** *
42236382 AAAGACATGAGTGAAATTTTGAAGTGATATTTGATTATTTTGAGCAAACGCTAAATTGCAACCCA
1 AAA-ACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCA
* *
42236447 GCACGTTAGGGCACGATTCCACGAATTGCCAAA
65 GCACGATAGGGCACGATTCCACGAATTACCAAA
42236480 TATCAAATCT
Statistics
Matches: 289, Mismatches: 59, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
129 2 0.01
130 99 0.34
131 165 0.57
132 22 0.08
133 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (130 bp):
AAAACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAG
CACGATAGGGCACGATTCCACGAATTACCAAACATCGACATCACCTTCGTTTTGAAGGATTTTTA
Found at i:42237112 original size:21 final size:21
Alignment explanation
Indices: 42237071--42237112 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
42237061 GTTAACAAAC
* *
42237071 TATATGATAATTTAAATAATA
1 TATATGATAATTGAAAGAATA
42237092 TATAT-ATAATATGAAAGAATA
1 TATATGATAAT-TGAAAGAATA
42237113 ATAATGAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
TATATGATAATTGAAAGAATA
Found at i:42237671 original size:26 final size:26
Alignment explanation
Indices: 42237638--42237747 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
42237628 TGATACAAAT
42237638 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
42237664 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
42237690 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
42237716 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
42237742 TGATAA
1 TGATAA
42237748 GAATTACATG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:42240541 original size:2 final size:2
Alignment explanation
Indices: 42240534--42240560 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42240524 ATTTACACAT
42240534 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
42240561 TAATATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42245140 original size:23 final size:23
Alignment explanation
Indices: 42245112--42245155 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
42245102 ATAATAACTG
42245112 GGGTTATTATAACACTTGTCACT
1 GGGTTATTATAACACTTGTCACT
42245135 GGGTTATTATAACACTTGTCA
1 GGGTTATTATAACACTTGTCA
42245156 ATATTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (23 bp):
GGGTTATTATAACACTTGTCACT
Found at i:42245390 original size:21 final size:22
Alignment explanation
Indices: 42245346--42245392 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
42245336 AATAATATAG
42245346 ATTTAATAAATATAGAAAAAAA
1 ATTTAATAAATATAGAAAAAAA
42245368 ATTTAAT-AA-ATAGAAAGAAAA
1 ATTTAATAAATATAGAAA-AAAA
42245389 ATTT
1 ATTT
42245393 TGAACTGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 10 0.42
22 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (22 bp):
ATTTAATAAATATAGAAAAAAA
Found at i:42248157 original size:19 final size:20
Alignment explanation
Indices: 42248124--42248169 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
42248114 CCGGAAAATA
42248124 ATTTCTGGAAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
42248144 ATTTCTGG-AAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
*
42248163 TTTTCTG
1 ATTTCTG
42248170 ATGTTTGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (20 bp):
ATTTCTGGAAAATGATTTAC
Found at i:42251080 original size:170 final size:174
Alignment explanation
Indices: 42250829--42251162 Score: 491
Period size: 170 Copynumber: 1.9 Consensus size: 174
42250819 TAAGCGAAAC
42250829 GAAACAGCAGCCCTGAGAAGAGAAGATATGCGACAGACACTAAGAAAAAAAGAAAATAAAAGATG
1 GAAACAGCAGCCCTGAGAAGAGAAGATATGCGACAGACACTAAGAAAAAAAGAAAATAAAAGATG
* *
42250894 AAGAACAAAAGAAGTAGAAGGAGGAAAGTTACCTGGATGAAGAAGAATGAAGATGAAGAATG-AC
66 AAGAACAAAAGAAGTAGAAGGAGGAAAG-TACCTGGATGAAGAAGAAGGAAGATGAAGAACGAAC
42250958 -T-AGGAAAGATTGGTGAAAGTTGGAAAATGTCACAGAGCCAAAT
130 ATGAGGAAAGATTGGTGAAAGTTGGAAAATGTCACAGAGCCAAAT
* * * *
42251001 GAAACAGCAGTCCTGAGAAGAGAAGATATGCGA-A-A-GCTAAGGAAAAAAGGAAATTAAAAGAT
1 GAAACAGCAGCCCTGAGAAGAGAAGATATGCGACAGACACTAA-GAAAAAAAGAAAATAAAAGAT
* * *
42251063 GAAGAACAGAAGAAGTAGAATGAGGAAAGTACCTGGATGAAGAAGAAGGAAGATTAAGAACGACA
65 GAAGAACAAAAGAAGTAGAAGGAGGAAAGTACCTGGATGAAGAAGAAGGAAGATGAAGAACGA-A
* *
42251128 CAATGGGGAAAGATTGGTGAGAGTTGGAAAATGTC
129 C-ATGAGGAAAGATTGGTGAAAGTTGGAAAATGTC
42251163 TTACAGAAAA
Statistics
Matches: 145, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
169 34 0.23
170 47 0.32
171 3 0.02
172 32 0.22
173 1 0.01
174 28 0.19
ACGTcount: A:0.49, C:0.09, G:0.28, T:0.14
Consensus pattern (174 bp):
GAAACAGCAGCCCTGAGAAGAGAAGATATGCGACAGACACTAAGAAAAAAAGAAAATAAAAGATG
AAGAACAAAAGAAGTAGAAGGAGGAAAGTACCTGGATGAAGAAGAAGGAAGATGAAGAACGAACA
TGAGGAAAGATTGGTGAAAGTTGGAAAATGTCACAGAGCCAAAT
Found at i:42254789 original size:11 final size:11
Alignment explanation
Indices: 42254773--42254802 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
42254763 AATGATAAAA
42254773 GTTAATTTGAT
1 GTTAATTTGAT
42254784 GTTAATTTGAT
1 GTTAATTTGAT
*
42254795 ATTAATTT
1 GTTAATTT
42254803 AGATTAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (11 bp):
GTTAATTTGAT
Found at i:42254909 original size:16 final size:16
Alignment explanation
Indices: 42254877--42254919 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
42254867 ATGTGTCTAA
*
42254877 ATTTAATTTTATTTAC
1 ATTTAATATTATTTAC
42254893 AGTTTAATATT-TTTAC
1 A-TTTAATATTATTTAC
42254909 ATTATAATATT
1 ATT-TAATATT
42254920 GTATATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 2 0.08
16 14 0.58
17 8 0.33
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (16 bp):
ATTTAATATTATTTAC
Found at i:42255754 original size:27 final size:23
Alignment explanation
Indices: 42255703--42255749 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
42255693 ATTTTTTGAT
42255703 TTAGTATATATCAAATTAATTTA
1 TTAGTATATATCAAATTAATTTA
42255726 TTAGTATATATCAAATTAATTTA
1 TTAGTATATATCAAATTAATTTA
42255749 T
1 T
42255750 CTATTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TTAGTATATATCAAATTAATTTA
Found at i:42261816 original size:231 final size:223
Alignment explanation
Indices: 42261398--42261819 Score: 576
Period size: 231 Copynumber: 1.9 Consensus size: 223
42261388 AATTATTATA
* *
42261398 ATATATTATTGTTTATTATACTGGTTGAAATATGCTCTAAGTCCCTATATATTCCGTACATCTAA
1 ATATATTATTGTTTATTATACTGGTTGAAATATGCTCTAAATCCCTATATATTCCATACATCTAA
* * * *
42261463 AAGTTAGCCCTCCTACTATATTATATAATGTTATGTCATATCATATATTAATAGTTTATACATAT
66 AAGTTAACCCTCCTACCATATTATATAATGTTATATCATATAATATATTAATAGTTTATACATAT
* * * * *
42261528 GCATCGATGATTAAATATTATAATATCATGTAATACTATATCTTTTATTATAATCTATATTGTAA
131 ACATCGATGATTAAACATTATAATATCACGTAATACTATATCTCTTATTAAAATCTATATTGTAA
42261593 TAATAGTTATATATAATATTAGTACGTT
196 TAATAGTTATATATAATATTAGTACGTT
* * *
42261621 ATATATTATTGTTTATTATTATGCTTGTTGAAATATTCTCTAAATCCCTATACT-TTTCATACAT
1 ATATATTATTGTTTATTA-TA--CTGGTTGAAATATGCTCTAAATCCCTATA-TATTCCATACAT
* * * *
42261685 TTAAAAGTTAACCCTCTTTCCATTTTATATAATGCTATAACATATCATATAATATATTAATAGTT
62 CTAAAAGTTAACCCTCCTACCATATTATATAATG-T-T---ATATCATATAATATATTAATAGTT
* *
42261750 TATATATATACATCGATGATTAAACATTATAATCTCACGTAATACTATATCTCTTATTAAAATCT
122 TATACATATACATCGATGATTAAACATTATAATATCACGTAATACTATATCTCTTATTAAAATCT
42261815 ATATT
187 ATATT
42261820 ATATTAGTAA
Statistics
Matches: 170, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
223 18 0.11
224 2 0.01
226 62 0.36
227 2 0.01
228 1 0.01
231 85 0.50
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (223 bp):
ATATATTATTGTTTATTATACTGGTTGAAATATGCTCTAAATCCCTATATATTCCATACATCTAA
AAGTTAACCCTCCTACCATATTATATAATGTTATATCATATAATATATTAATAGTTTATACATAT
ACATCGATGATTAAACATTATAATATCACGTAATACTATATCTCTTATTAAAATCTATATTGTAA
TAATAGTTATATATAATATTAGTACGTT
Found at i:42264131 original size:27 final size:28
Alignment explanation
Indices: 42264101--42264170 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
42264091 ATAATAAGTC
*
42264101 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
42264128 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
42264156 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42264171 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:42266199 original size:49 final size:49
Alignment explanation
Indices: 42266074--42266333 Score: 429
Period size: 49 Copynumber: 5.4 Consensus size: 49
42266064 TACATATATG
* * * * *
42266074 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCA--TATG
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
42266121 TGTGATAAGGCCT-ATGGCC-ATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
42266168 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
42266217 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
42266266 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
42266315 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
42266334 TAATGTAAAA
Statistics
Matches: 204, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
45 21 0.10
46 6 0.03
47 28 0.14
48 6 0.03
49 143 0.70
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:42266485 original size:37 final size:37
Alignment explanation
Indices: 42266435--42266519 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
42266425 GGAATATGTT
*
42266435 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
42266472 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
42266509 CCGGGTAAGAC
1 CCGGGTAAGAC
42266520 TTCGTAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:42268644 original size:29 final size:29
Alignment explanation
Indices: 42268576--42268793 Score: 372
Period size: 29 Copynumber: 7.7 Consensus size: 29
42268566 CGAATGATTA
*
42268576 GAGGCACTATGTGTGC-A-ATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
42268603 GA-GCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
42268631 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
42268660 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
42268689 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
42268718 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
42268747 GAGGCACTATGTGTGC-AGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
42268775 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
42268794 TTTTTCAACA
Statistics
Matches: 184, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
26 13 0.07
27 3 0.02
28 38 0.21
29 130 0.71
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:42272090 original size:49 final size:49
Alignment explanation
Indices: 42271975--42272187 Score: 349
Period size: 49 Copynumber: 4.4 Consensus size: 49
42271965 TACATATATG
* * * *
42271975 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCA--TATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
42272022 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
42272071 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
42272120 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
42272169 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
42272188 TAATGTAAAA
Statistics
Matches: 158, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 40 0.25
49 118 0.75
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:42272339 original size:37 final size:37
Alignment explanation
Indices: 42272289--42272373 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
42272279 GGAATATGTT
*
42272289 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
42272326 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
42272363 CCGGGTAAGAC
1 CCGGGTAAGAC
42272374 TTCATAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:42276724 original size:42 final size:42
Alignment explanation
Indices: 42276635--42276780 Score: 145
Period size: 42 Copynumber: 3.5 Consensus size: 42
42276625 TATCCCAGAT
* * * * *
42276635 ATGGTCTTACATGTTATAGT-ATATCAATACCAATAGCCC-AGC
1 ATGGTCTTACATG-AATA-TCATATCGATGCCAATACCCCAAAC
* * *
42276677 TATGGTCTTACGTGAATCTCATATCGATGCCAATGCCCCAAAC
1 -ATGGTCTTACATGAATATCATATCGATGCCAATACCCCAAAC
* * *
42276720 ATGGTCTTACACGAATATCATATCGATGCCAATATCCCAGAC
1 ATGGTCTTACATGAATATCATATCGATGCCAATACCCCAAAC
42276762 ATGGTCTTACATGAA-ATCA
1 ATGGTCTTACATGAATATCA
42276781 CATTCGGATA
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 5 0.06
42 67 0.78
43 14 0.16
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGGTCTTACATGAATATCATATCGATGCCAATACCCCAAAC
Found at i:42280476 original size:25 final size:26
Alignment explanation
Indices: 42280440--42280490 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
42280430 ATTGTGGTCC
42280440 CAAAACCTAACATATTTTTGGAACAA
1 CAAAACCTAACATATTTTTGGAACAA
*
42280466 CAAAA-CTAACATATTTTTGTAACAA
1 CAAAACCTAACATATTTTTGGAACAA
42280491 TTTCATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (26 bp):
CAAAACCTAACATATTTTTGGAACAA
Found at i:42281909 original size:24 final size:24
Alignment explanation
Indices: 42281877--42281929 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
42281867 AAGTCTGTCA
42281877 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
42281901 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
42281925 GGAGA
1 GGAGA
42281930 ACAGTGTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.32, C:0.04, G:0.43, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:42283352 original size:27 final size:26
Alignment explanation
Indices: 42283312--42283422 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
42283302 AGGAAGCGTC
* *
42283312 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
42283339 CTGGTGGCTCTGCCACATATGTCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
42283366 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* * *
42283393 CTGGTGACTCTGTCACATTATCTATT
1 CTGGTGGCTCTGCCACATTATCTGTT
42283419 CTGG
1 CTGG
42283423 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:42292513 original size:46 final size:48
Alignment explanation
Indices: 42292405--42292522 Score: 161
Period size: 46 Copynumber: 2.5 Consensus size: 48
42292395 AAACTGACGC
* *
42292405 CATGTCCTAGACAGGTCTTACACTAGCTTGTATATCCCAAGGACGATG
1 CATGTCCTAGACATGTCTTACACTAGCTTGTACATCCCAAGGACGATG
* * *
42292453 CATGTCCCAGACATGTCTTACACTAGC-TGT-CATCTCAATG-CTGATG
1 CATGTCCTAGACATGTCTTACACTAGCTTGTACATCCCAAGGAC-GATG
42292499 CATGTCCTAGACATGTCTTACACT
1 CATGTCCTAGACATGTCTTACACT
42292523 GGCCCACATA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
45 1 0.02
46 34 0.54
47 3 0.05
48 25 0.40
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (48 bp):
CATGTCCTAGACATGTCTTACACTAGCTTGTACATCCCAAGGACGATG
Found at i:42298809 original size:41 final size:40
Alignment explanation
Indices: 42298642--42298820 Score: 232
Period size: 40 Copynumber: 4.5 Consensus size: 40
42298632 GCTCGATTGT
* * * * *
42298642 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
* *
42298682 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
* *
42298722 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
* * * *
42298762 CTTCGGGACTTAACCCGGTTTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAAC-TCGCACAAATGC
42298803 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
42298821 ATACCATTCG
Statistics
Matches: 122, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
40 95 0.78
41 27 0.22
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
Found at i:42302507 original size:6 final size:6
Alignment explanation
Indices: 42302489--42302554 Score: 64
Period size: 6 Copynumber: 10.8 Consensus size: 6
42302479 AAGAAACATT
* *
42302489 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
*
42302538 ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAG
42302555 GTAACAGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
5 2 0.04
6 44 0.88
7 3 0.06
8 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:42302533 original size:31 final size:31
Alignment explanation
Indices: 42302498--42302563 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
42302488 TATCAGAACT
* *
42302498 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
42302529 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
42302560 AGAA
1 AGAA
42302564 AAAATCAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:42303033 original size:27 final size:27
Alignment explanation
Indices: 42302994--42303219 Score: 303
Period size: 27 Copynumber: 8.4 Consensus size: 27
42302984 TACCTCACAA
*
42302994 GGTATCTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
42303021 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
42303048 GGTATTTCGGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
42303075 GGTATTTCGGTAATTCTACCCTACA-G
1 GGTATTTCGGTAATTCTACCCTACAGG
42303101 GGTATTTCGGTAATTCTACCCTACA-G
1 GGTATTTCGGTAATTCTACCCTACAGG
* ** * *
42303127 GGTATTGCAATAATTCTACCCTATAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
42303154 GGTATTTCGGTAATTCTACCCTACAGT
1 GGTATTTCGGTAATTCTACCCTACAGG
* * * *
42303181 GGTATTGCGATAAATCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
42303208 GGTATTTTGGTA
1 GGTATTTCGGTA
42303220 TTATACAAAT
Statistics
Matches: 174, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 48 0.28
27 126 0.72
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:42303248 original size:133 final size:133
Alignment explanation
Indices: 42303004--42303248 Score: 305
Period size: 133 Copynumber: 1.8 Consensus size: 133
42302994 GGTATCTCGG
* * * **
42303004 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGCGATAAATCTACCC
* ** * *
42303069 TACAAGGGTATTTCGGTAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGTATTG
66 TACAAGGGTATTTCGGTAATTATACAATACAGAGTATTTCGATAATTCTACCCTACAGGGTATTG
42303134 CAA
131 CAA
* * *
42303137 TAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGTGGTATTGCGATAAATCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGCGATAAATCTACCC
* * * *
42303202 TATAGGGGTATTTTGGT-ATTATACAA-ATCGAGAGTATTTTGATAATT
66 TACAAGGGTATTTCGGTAATTATACAATA-C-AGAGTATTTCGATAATT
42303249 TCACAAATCA
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
131 1 0.01
132 7 0.08
133 85 0.91
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (133 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGCGATAAATCTACCC
TACAAGGGTATTTCGGTAATTATACAATACAGAGTATTTCGATAATTCTACCCTACAGGGTATTG
CAA
Found at i:42303271 original size:24 final size:24
Alignment explanation
Indices: 42303239--42303287 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
42303229 TCGAGAGTAT
42303239 TTTGATAATTTCACAAATCAGGGG
1 TTTGATAATTTCACAAATCAGGGG
* * *
42303263 TTTGGTAATTTTACAAGTCAGGGG
1 TTTGATAATTTCACAAATCAGGGG
42303287 T
1 T
42303288 ATTTTAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (24 bp):
TTTGATAATTTCACAAATCAGGGG
Found at i:42303302 original size:27 final size:27
Alignment explanation
Indices: 42303205--42303355 Score: 143
Period size: 27 Copynumber: 5.7 Consensus size: 27
42303195 TCTACCCTAT
*
42303205 AGGGGTATTTTGGT-ATTATACAAATC
1 AGGGGTATTTTGGTAATTTTACAAATC
* * *
42303231 -GAGAGTATTTTGATAATTTCACAAATC
1 AG-GGGTATTTTGGTAATTTTACAAATC
*
42303258 AGGGG---TTTGGTAATTTTACAAGTC
1 AGGGGTATTTTGGTAATTTTACAAATC
* * *
42303282 AGGGGTATTTTAGTAATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTACAAATC
**
42303309 AGGGGTATTTTGGTAATTTTACTGATC
1 AGGGGTATTTTGGTAATTTTACAAATC
*
42303336 -GAGGGTGTTTTGGTAATTTT
1 AG-GGGTATTTTGGTAATTTT
42303356 TTAAACTAAG
Statistics
Matches: 100, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
24 21 0.21
25 1 0.01
26 11 0.11
27 66 0.66
28 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAATC
Found at i:42303411 original size:27 final size:27
Alignment explanation
Indices: 42303375--42303651 Score: 410
Period size: 27 Copynumber: 10.3 Consensus size: 27
42303365 GGTATTTCAA
* * *
42303375 TAATTTTGTAAATCGAGGATAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
42303402 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * *
42303429 TAATTCTATAAATCGAGGGTAAAATGA
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42303456 TAATTGTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
**
42303483 TAATTCTGTAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42303510 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
42303537 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
42303564 TAATTCTGTAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
42303591 TAATTTTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42303618 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
42303645 TAATTCT
1 TAATTCT
42303652 ATCTTATTTC
Statistics
Matches: 227, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 227 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGG
Found at i:42303696 original size:27 final size:25
Alignment explanation
Indices: 42303666--42303750 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 25
42303656 TATTTCAGTG
42303666 ATTTTACAAATCGAGGATATTTGGGTA
1 ATTTTACAAATCGAGG-TATTT-GGTA
* *
42303693 ATTTTATAAATCGGGGGTACTTTGGTA
1 ATTTTACAAATC-GAGGTA-TTTGGTA
* *
42303720 ATTTTACAAGTCGAAGGTATTTCAGTA
1 ATTTTACAAATCG-AGGTATTT-GGTA
42303747 ATTT
1 ATTT
42303751 GGTAAACTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
26 4 0.08
27 38 0.79
28 6 0.12
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (25 bp):
ATTTTACAAATCGAGGTATTTGGTA
Found at i:42305879 original size:28 final size:28
Alignment explanation
Indices: 42305833--42305901 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
42305823 TTTAAAACCC
*
42305833 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
42305860 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
42305888 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
42305902 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:42307548 original size:20 final size:20
Alignment explanation
Indices: 42307525--42307562 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42307515 CACATCCAAA
*
42307525 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
42307545 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
42307563 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:42313839 original size:28 final size:28
Alignment explanation
Indices: 42313793--42313861 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
42313783 TTTAAAACCC
*
42313793 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
42313820 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
42313848 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
42313862 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:42315507 original size:20 final size:20
Alignment explanation
Indices: 42315484--42315521 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42315474 CACATCCAAA
*
42315484 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
42315504 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
42315522 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:42317399 original size:17 final size:18
Alignment explanation
Indices: 42317362--42317399 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
42317352 CCCCAGGGAG
* *
42317362 AAAAACTCGGTTTAGCAA
1 AAAAACTCAGTCTAGCAA
42317380 AAAAACTCAGTCTAGCAA
1 AAAAACTCAGTCTAGCAA
42317398 AA
1 AA
42317400 CCTCTATCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.18, G:0.13, T:0.18
Consensus pattern (18 bp):
AAAAACTCAGTCTAGCAA
Found at i:42320339 original size:24 final size:24
Alignment explanation
Indices: 42320306--42320382 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
42320296 CTGGAGGCCT
*
42320306 AGCCTCTTTTAAT-GACTAGGGCAA
1 AGCCT-TTTTAATAAACTAGGGCAA
*
42320330 AGCCCTTTTTGATAAACTAGGGCAA
1 AG-CCTTTTTAATAAACTAGGGCAA
*** *
42320355 AGCCTTTTCGGTAAACTAGGGCAT
1 AGCCTTTTTAATAAACTAGGGCAA
42320379 AGCC
1 AGCC
42320383 CCTTTAGCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 31 0.67
25 15 0.33
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AGCCTTTTTAATAAACTAGGGCAA
Found at i:42320352 original size:25 final size:25
Alignment explanation
Indices: 42320320--42320383 Score: 94
Period size: 24 Copynumber: 2.6 Consensus size: 25
42320310 TCTTTTAATG
*
42320320 ACTAGGGCAAAGCCCTTTTTGATAA
1 ACTAGGGCAAAGCCCTTTTCGATAA
*
42320345 ACTAGGGCAAAG-CCTTTTCGGTAA
1 ACTAGGGCAAAGCCCTTTTCGATAA
*
42320369 ACTAGGGCATAGCCC
1 ACTAGGGCAAAGCCC
42320384 CTTTAGCACT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 21 0.60
25 14 0.40
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (25 bp):
ACTAGGGCAAAGCCCTTTTCGATAA
Found at i:42320627 original size:27 final size:27
Alignment explanation
Indices: 42320592--42320707 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
42320582 GGCAAAATGG
42320592 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTTTACCCCACAAGGGTATCTCGA
* *
42320619 TCATTTTACCCCACAAGGGTATCTCGG
1 TAATTTTACCCCACAAGGGTATCTCGA
* * * * * *
42320646 TAATTCTATCCTACAGGGGTATTTCGG
1 TAATTTTACCCCACAAGGGTATCTCGA
* * * *
42320673 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTTTACCCCACAAGGGTATCTCGA
42320700 T-ATTTTAC
1 TAATTTTAC
42320708 AAATCGAGAG
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 6 0.08
27 72 0.92
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (27 bp):
TAATTTTACCCCACAAGGGTATCTCGA
Found at i:42320749 original size:80 final size:81
Alignment explanation
Indices: 42320659--42320812 Score: 195
Period size: 80 Copynumber: 1.9 Consensus size: 81
42320649 TTCTATCCTA
**
42320659 CAGGGGTATTTCGGTAATTCTACCCTAC-AGGGGTATTTCGAT-ATTTTACAAATCGAGAGTATT
1 CAGGGGTATTTCGGTAATTCTA-CAAACTAGGGGTATTTCGATAATTTTACAAATCGAGAGTATT
42320722 TTGATAATTTCACAAAT
65 TTGATAATTTCACAAAT
* * * * ** *
42320739 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTGATCGAGGGTATTT
1 CAGGGGTATTTCGGTAATTCTACAAACTAGGGGTATTTCGATAATTTTACAAATCGAGAGTATTT
*
42320804 TGGTAATTT
66 TGATAATTT
42320813 TGTAAACCAA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
79 3 0.05
80 32 0.52
81 27 0.44
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (81 bp):
CAGGGGTATTTCGGTAATTCTACAAACTAGGGGTATTTCGATAATTTTACAAATCGAGAGTATTT
TGATAATTTCACAAAT
Found at i:42320853 original size:27 final size:27
Alignment explanation
Indices: 42320689--42321028 Score: 170
Period size: 27 Copynumber: 12.6 Consensus size: 27
42320679 TACCCTACAG
* *
42320689 GGGTATTTCGAT-ATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
* * * * *
42320715 GAGTATTTTGATAATTTCACAAATC-A
1 GGGTATTTCGGTAATTTTATAAATCGA
* * *
42320741 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCGGTAATTTTATAAATCGA
* *
42320768 GGGGTATTTTGGTAATTTTACT-GATCGA
1 -GGGTATTTCGGTAATTTTA-TAAATCGA
* * * *
42320796 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTATAAATCGA
*
42320823 GGGTATTTCAGTAATTTTATAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
*** * * * *
42320850 GGGTAAAACAGTAATTCTGTAAATCAA
1 GGGTATTTCGGTAATTTTATAAATCGA
*** *
42320877 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
*** * **
42320904 GGGTAAAACGGTAATTCTATAAATTAA
1 GGGTATTTCGGTAATTTTATAAATCGA
** *
42320931 GGGTAAAAT-GGTAATTCTATAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
*** * * *
42320958 GGGTAAAGCAGTAATTCTGTAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
* *
42320985 GGGTACTTT-GGTAATTTTACAAATTGA
1 GGGTA-TTTCGGTAATTTTATAAATCGA
* *
42321012 GGGCATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
42321029 GGTAAACAAA
Statistics
Matches: 259, Mismatches: 45, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
26 19 0.07
27 235 0.91
28 5 0.02
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTATAAATCGA
Found at i:42320864 original size:54 final size:53
Alignment explanation
Indices: 42320806--42320989 Score: 233
Period size: 54 Copynumber: 3.4 Consensus size: 53
42320796 GGGTATTTTG
* * ** * *
42320806 GTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAT-GGTAATTCTATAAATCGAGGGTAAAACA
* *
42320860 GTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGT-AAATGGTAATTCTATAAATCGAGGGTAAAACA
* * *
42320914 GTAATTCTATAAATTAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAGCA
1 GTAATTCTGTAAATCAAGGGT-AAATGGTAATTCTATAAATCGAGGGTAAAACA
*
42320968 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCAAGGGTA
42320990 CTTTGGTAAT
Statistics
Matches: 113, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 111 0.98
55 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (53 bp):
GTAATTCTGTAAATCAAGGGTAAATGGTAATTCTATAAATCGAGGGTAAAACA
Found at i:42320890 original size:81 final size:81
Alignment explanation
Indices: 42320805--42321014 Score: 242
Period size: 81 Copynumber: 2.6 Consensus size: 81
42320795 AGGGTATTTT
* * * * * *
42320805 GGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGT
1 GGTAATTCTGTAAATCGAGGGTATTTCGGTAATTTTATAAATTGAGGGTAAAACAGTAATTCTAT
42320870 AAATCAAGGGTAAAAC
66 AAATCAAGGGTAAAAC
* *** * * **
42320886 GGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATTAAGGGTAAAATGGTAATTCTAT
1 GGTAATTCTGTAAATCGAGGGTATTTCGGTAATTTTATAAATTGAGGGTAAAACAGTAATTCTAT
* *
42320951 AAATCGAGGGTAAAGC
66 AAATCAAGGGTAAAAC
* *
42320967 AGTAATTCTGTAAATCGAGGGTACTTT-GGTAATTTTACAAATTGAGGG
1 GGTAATTCTGTAAATCGAGGGTA-TTTCGGTAATTTTATAAATTGAGGG
42321015 CATTTCAGTA
Statistics
Matches: 104, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
81 104 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (81 bp):
GGTAATTCTGTAAATCGAGGGTATTTCGGTAATTTTATAAATTGAGGGTAAAACAGTAATTCTAT
AAATCAAGGGTAAAAC
Found at i:42321014 original size:54 final size:54
Alignment explanation
Indices: 42320833--42320989 Score: 251
Period size: 54 Copynumber: 2.9 Consensus size: 54
42320823 GGGTATTTCA
* *
42320833 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATG
* * *
42320887 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATTAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATG
* *
42320941 GTAATTCTATAAATCGAGGGTAAAGCAGTAATTCTGTAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTA
42320990 CTTTGGTAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 93 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATG
Found at i:42325025 original size:46 final size:46
Alignment explanation
Indices: 42324958--42325047 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
42324948 GACGTTAGCT
*
42324958 GCATCACGATCCTCTCTAAGTTTAGTGGCATAGAAAAGTGCAGATC
1 GCATCACGATCCTCTCTAAGTTTAGTGGCATAGAAAAGTACAGATC
* *
42325004 GCATCACGATCCTCTTTAAGTTTGGTGGCATAGAAAAGTACAGA
1 GCATCACGATCCTCTCTAAGTTTAGTGGCATAGAAAAGTACAGA
42325048 CTTTCTGGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (46 bp):
GCATCACGATCCTCTCTAAGTTTAGTGGCATAGAAAAGTACAGATC
Found at i:42330292 original size:37 final size:37
Alignment explanation
Indices: 42330237--42330307 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
42330227 TAAAGGTGTG
*
42330237 CGGGAAAGATAAGTCCGTTGACTTTCACTAATACCTA
1 CGGGAAAGATAAGCCCGTTGACTTTCACTAATACCTA
42330274 CGGGAAAGATAAGCCCGTTGACTTTCACTAATAC
1 CGGGAAAGATAAGCCCGTTGACTTTCACTAATAC
42330308 ATCCTCAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (37 bp):
CGGGAAAGATAAGCCCGTTGACTTTCACTAATACCTA
Found at i:42334203 original size:21 final size:22
Alignment explanation
Indices: 42334158--42334204 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
42334148 CTAAAATCAA
* *
42334158 TTAAAAAATAATTTGAAAATTT
1 TTAAAAAATAATTTCAAAATAT
*
42334180 TTAAAAAATATTTTCAAAA-AT
1 TTAAAAAATAATTTCAAAATAT
42334201 TTAA
1 TTAA
42334205 TTTTAAAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
TTAAAAAATAATTTCAAAATAT
Found at i:42352503 original size:42 final size:42
Alignment explanation
Indices: 42352445--42352599 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
42352435 TAAAATTTTG
* *
42352445 TGTAAGACCATATCTGGGATATTGCATTGATATGGGATTTCG
1 TGTAAGACCATATCTGGGATATTGCATTGATATGAGATTTCA
*
42352487 TGTAAGACCATATCTGGGATA-CGACATTGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATTG-CATTGATATGAGATTTCA
* * * ** * *
42352529 TGTAAGATCATAGCTGGGCTATTGGCATCAATACGAGATTACA
1 TGTAAGACCATATCTGGGATATT-GCATTGATATGAGATTTCA
*
42352572 TGTAAGACCATATCTGGGATATGGCATT
1 TGTAAGACCATATCTGGGATATTGCATT
42352600 AGTACAATAC
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 59 0.63
43 33 0.35
44 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATTGCATTGATATGAGATTTCA
Found at i:42355089 original size:18 final size:18
Alignment explanation
Indices: 42355068--42355110 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
42355058 AATAGAATGA
42355068 AAATTGAATTGGAAGATC
1 AAATTGAATTGGAAGATC
42355086 AAATTGAATTGGAAGATC
1 AAATTGAATTGGAAGATC
42355104 AAATTGA
1 AAATTGA
42355111 GTAGAATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.28
Consensus pattern (18 bp):
AAATTGAATTGGAAGATC
Found at i:42359563 original size:42 final size:42
Alignment explanation
Indices: 42359495--42359654 Score: 212
Period size: 42 Copynumber: 3.8 Consensus size: 42
42359485 GGTTACTAAA
* *
42359495 ATTTCGTGTAAGATCATATCTTGGATATGGCATCGATATGAG
1 ATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATGAG
* *
42359537 ATTTCGTGTAAGACCATACCTGGGATATGACATCGATATGAG
1 ATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATGAG
* * * * *
42359579 ATTTCGTGTAAGACCATAGCTGGGCTATTGGTATTGATACGAG
1 ATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAG
* *
42359622 ATTACATGTAAGACCATATCTGGGATATGGCAT
1 ATTTCGTGTAAGACCATATCTGGGATATGGCAT
42359655 TGGTACGATA
Statistics
Matches: 102, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
42 68 0.67
43 34 0.33
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (42 bp):
ATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATGAG
Found at i:42359634 original size:85 final size:84
Alignment explanation
Indices: 42359495--42359650 Score: 213
Period size: 85 Copynumber: 1.8 Consensus size: 84
42359485 GGTTACTAAA
* * * * * *
42359495 ATTTCGTGTAAGATCATATCTTGGATATGGCATCGATATGAGATTTCGTGTAAGACCATACCTGG
1 ATTTCGTGTAAGACCATAGCTGGGATATGGCATCGATACGAGATTACATGTAAGACCATACCTGG
42359560 GATATGACATCGATATGAG
66 GATATGACATCGATATGAG
* * * *
42359579 ATTTCGTGTAAGACCATAGCTGGGCTATTGGTATTGATACGAGATTACATGTAAGACCATATCTG
1 ATTTCGTGTAAGACCATAGCTGGGATA-TGGCATCGATACGAGATTACATGTAAGACCATACCTG
42359644 GGATATG
65 GGATATG
42359651 GCATTGGTAC
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 23 0.38
85 38 0.62
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (84 bp):
ATTTCGTGTAAGACCATAGCTGGGATATGGCATCGATACGAGATTACATGTAAGACCATACCTGG
GATATGACATCGATATGAG
Found at i:42361330 original size:43 final size:43
Alignment explanation
Indices: 42361272--42361433 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 43
42361262 AATGCCAACG
** * *
42361272 TCCCAGACATAGTCTTACATGTAATCAAATATCGATGCCACTA
1 TCCCAGACAGGGTCTTACACGAAATCAAATATCGATGCCACTA
* * * *
42361315 TCCCAGACAGGGTCTTACACGAAATCAAATA-CAATGCAAATG
1 TCCCAGACAGGGTCTTACACGAAATCAAATATCGATGCCACTA
* * *
42361357 TCCCAGACACGGTCTTACATGTAAATCTCAA-ATCGATGCCAAC-A
1 TCCCAGACAGGGTCTTACACG-AAATC-AAATATCGATGCC-ACTA
42361401 TCCCAGAC-GTGGTCTTACACGAAATCAAATATC
1 TCCCAGACAG-GGTCTTACACGAAATCAAATATC
42361434 AGAAATCCTA
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
42 28 0.29
43 41 0.43
44 25 0.26
45 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACACGAAATCAAATATCGATGCCACTA
Found at i:42361422 original size:86 final size:85
Alignment explanation
Indices: 42361259--42361431 Score: 244
Period size: 86 Copynumber: 2.0 Consensus size: 85
42361249 GGAAAGCTCG
* *
42361259 TACAATGCCAACGTCCCAGACATAGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACA
1 TACAATGCAAACGTCCCAGACACAGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACA
42361324 GGGTCTTACACGAAATCAAA
66 GGGTCTTACACGAAATCAAA
* * *
42361344 TACAATGCAAATGTCCCAGACACGGTCTTACATGTAAATCTCAA-ATCGATGCCAAC-ATCCCAG
1 TACAATGCAAACGTCCCAGACACAGTCTTACATGT-AATC-AAATATCGATGCC-ACTATCCCAG
42361407 AC-GTGGTCTTACACGAAATCAAA
63 ACAG-GGTCTTACACGAAATCAAA
42361430 TA
1 TA
42361432 TCAGAAATCC
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
85 32 0.41
86 43 0.54
87 4 0.05
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (85 bp):
TACAATGCAAACGTCCCAGACACAGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACA
GGGTCTTACACGAAATCAAA
Found at i:42365742 original size:48 final size:48
Alignment explanation
Indices: 42365622--42365992 Score: 273
Period size: 48 Copynumber: 7.7 Consensus size: 48
42365612 AGGGAAAGAT
* * * * * ***
42365622 GCCGATGCCATGTCCCAGACACGGTCTTATACTGGCTCTCATATTTTGG
1 GCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCACATA-TAAAG
* * * **
42365671 TGCCGATACCATGT-TCCAAACATGGTCTTACTCTAGCTCACATATTGAG
1 -GCCGATGCCATGTCT-CAGACATGGTCTTACACTAGCTCACATATAAAG
* * *
42365720 GCCGATGCCATGTCTCAGACATGGTCTTACAGTAGCTCTCATATAAAT
1 GCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCACATATAAAG
* * * * * * *
42365768 GCCAATTCCATAT-TCCAAACATGGTCTTACATTGGCTCACATATCAAG
1 GCCGATGCCATGTCT-CAGACATGGTCTTACACTAGCTCACATATAAAG
* * * * *
42365816 GCCGATGCCATGCCCCAGACATGGTCTTACGCTAGCTCTCATATAAAT
1 GCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCACATATAAAG
* * * * * *
42365864 GCCAATTCCATGT-TCCAAATATGGTCTTACACTGGCTCACATATCAAG
1 GCCGATGCCATGTCT-CAGACATGGTCTTACACTAGCTCACATATAAAG
* * ** *
42365912 GCCGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTTATATAAAT
1 GCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCACATATAAAG
* * * *
42365960 GTCAATGCCATGT-TCCAAATATGGTCTTACACT
1 GCCGATGCCATGTCT-CAGACATGGTCTTACACT
42365993 GGTTCAGATA
Statistics
Matches: 247, Mismatches: 67, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
47 1 0.00
48 208 0.84
49 4 0.02
50 34 0.14
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCACATATAAAG
Found at i:42365934 original size:144 final size:146
Alignment explanation
Indices: 42365622--42365949 Score: 338
Period size: 144 Copynumber: 2.3 Consensus size: 146
42365612 AGGGAAAGAT
* * * *** **
42365622 GCCGATGCCATGTCCCAGACACGGTCTTATACTGGCTCTCATATTTTGGTGCCGATACCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTCAAGTGCCGATACCATGCCC
* ** * * *
42365687 CAAACATGGTCTTACTCTAGCTCACATATTGAGGCCGATGCCATGTCTCAGACATGGTCTTACAG
66 CAAACATGGTCTTACGCTAGCTCACATATAAAGGCCAATGCCATGTCTCAAACATGGTCTTACAC
* *
42365752 TAGCTCTCATATAAAT
131 TAGCTCACATATAAAG
* * * * * * *
42365768 GCCAATTCCATATTCCAAACATGGTCTTACATTGGCTCACATA-TCAAG-GCCGATGCCATGCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTCAAGTGCCGATACCATGCCC
* * * * *
42365831 CAGACATGGTCTTACGCTAGCTCTCATATAAATGCCAATTCCATGT-TCCAAATATGGTCTTACA
66 CAAACATGGTCTTACGCTAGCTCACATATAAAGGCCAATGCCATGTCT-CAAACATGGTCTTACA
* *
42365895 CTGGCTCACATATCAAG
130 CTAGCTCACATATAAAG
* *
42365912 GCCGATGCCATGCCCCAGACATGGTCTTACACTAGCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
42365950 TTATATAAAT
Statistics
Matches: 143, Mismatches: 38, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
143 1 0.01
144 106 0.74
145 2 0.01
146 34 0.24
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (146 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTCAAGTGCCGATACCATGCCC
CAAACATGGTCTTACGCTAGCTCACATATAAAGGCCAATGCCATGTCTCAAACATGGTCTTACAC
TAGCTCACATATAAAG
Found at i:42365991 original size:96 final size:96
Alignment explanation
Indices: 42365622--42365994 Score: 512
Period size: 96 Copynumber: 3.9 Consensus size: 96
42365612 AGGGAAAGAT
* * * * *** * *
42365622 GCCGATGCCATGTCCCAGACACGGTCTTATACTGGCTCTCATATTTTGGTGCCGATACCATGTTC
1 GCCGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATA--TAAATGCCAATTCCATGTTC
* * **
42365687 CAAACATGGTCTTACTCTAGCTCACATATTGAG
64 CAAACATGGTCTTACACTGGCTCACATATCAAG
* * * *
42365720 GCCGATGCCATGTCTCAGACATGGTCTTACAGTAGCTCTCATATAAATGCCAATTCCATATTCCA
1 GCCGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCAATTCCATGTTCCA
*
42365785 AACATGGTCTTACATTGGCTCACATATCAAG
66 AACATGGTCTTACACTGGCTCACATATCAAG
*
42365816 GCCGATGCCATGCCCCAGACATGGTCTTACGCTAGCTCTCATATAAATGCCAATTCCATGTTCCA
1 GCCGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCAATTCCATGTTCCA
*
42365881 AATATGGTCTTACACTGGCTCACATATCAAG
66 AACATGGTCTTACACTGGCTCACATATCAAG
* * *
42365912 GCCGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTTATATAAATGTCAATGCCATGTTCCA
1 GCCGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCAATTCCATGTTCCA
*
42365977 AATATGGTCTTACACTGG
66 AACATGGTCTTACACTGG
42365995 TTCAGATAAC
Statistics
Matches: 248, Mismatches: 27, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
96 210 0.85
98 38 0.15
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (96 bp):
GCCGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCAATTCCATGTTCCA
AACATGGTCTTACACTGGCTCACATATCAAG
Found at i:42373452 original size:16 final size:16
Alignment explanation
Indices: 42373428--42373467 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
42373418 TGACATAGGA
* *
42373428 AAATATTTAAACTTTT
1 AAATTTTTAAAATTTT
42373444 AAATTTTTAAAATTTT
1 AAATTTTTAAAATTTT
*
42373460 AAGTTTTT
1 AAATTTTT
42373468 CTGTTATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
AAATTTTTAAAATTTT
Found at i:42375423 original size:28 final size:28
Alignment explanation
Indices: 42375372--42375432 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
42375362 AGGAGATTCC
* *
42375372 ATTAAGTTATTTTAGACTACTTAATTTA
1 ATTAGGTTATTTTAGACTAATTAATTTA
* **
42375400 GTTAGGTTATTTTAGTTTAATTAATTTA
1 ATTAGGTTATTTTAGACTAATTAATTTA
42375428 ATTAG
1 ATTAG
42375433 TTTAATTCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.52
Consensus pattern (28 bp):
ATTAGGTTATTTTAGACTAATTAATTTA
Found at i:42376400 original size:21 final size:21
Alignment explanation
Indices: 42376376--42376417 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
42376366 TTGATTTGAC
* * *
42376376 TTTTTTAGAATTTATTTTTAT
1 TTTTTTAAAATTCATATTTAT
42376397 TTTTTTAAAATTCATATTTAT
1 TTTTTTAAAATTCATATTTAT
42376418 AAATTTATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTTAAAATTCATATTTAT
Found at i:42379878 original size:26 final size:26
Alignment explanation
Indices: 42379847--42379899 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
42379837 AGAGATAAGC
42379847 GGTTAGAAAATACAGAGCGCAAGTAT
1 GGTTAGAAAATACAGAGCGCAAGTAT
* *
42379873 GGTTAGAAAATACAGAGTGCATGTAT
1 GGTTAGAAAATACAGAGCGCAAGTAT
42379899 G
1 G
42379900 CCTTTTTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (26 bp):
GGTTAGAAAATACAGAGCGCAAGTAT
Found at i:42388557 original size:48 final size:48
Alignment explanation
Indices: 42388472--42388899 Score: 387
Period size: 48 Copynumber: 8.9 Consensus size: 48
42388462 TGACATTGGG
* * * * * *
42388472 TGATATGTGTGCCAGTGTAAGGCCATGTTTGGAACATGGCATCAGCAA
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
* * * * *
42388520 TGTTATGAGAGCCAGTGTAAGACCATGTCCGGGACATGGCATCAGCGT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
* * * * *
42388568 TGATAGGTGCGCTAGTGTAAGACCATATCCGGGACATGGCATCAGCGT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
* * * * *
42388616 TGATAGGTGCGCTAGTGTAGGACCATGTCCGGGACATGGCATCAAC-T
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
* * *
42388663 TCGATAGGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 T-GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
* * * * * *
42388712 CGATATGTGCGCTAGTGTAAGACCATGTCTGGGACACGACAACGGCCA-
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CAT
* * * *
42388760 -CATTATGAGAGCTAATGTAAGACCATGTCTGGGACATGGTATC-GACAT
1 TGA-TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CAT
* * * * * *
42388808 TGAGACGAGAGCTAGTTTAAGACCATGTCTGGGACATGGCATCGGCCT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
* * * * *
42388856 TGACATGTGAGCCAGTGTAAAACCATGTTTGGAACATGGCATCA
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCA
42388900 ACAATTTACC
Statistics
Matches: 319, Mismatches: 54, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
47 6 0.02
48 308 0.97
49 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
Found at i:42396750 original size:27 final size:28
Alignment explanation
Indices: 42396694--42396763 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
42396684 AAATTTGTAC
42396694 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
42396722 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
42396749 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
42396764 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:42404676 original size:27 final size:28
Alignment explanation
Indices: 42404592--42404687 Score: 185
Period size: 28 Copynumber: 3.5 Consensus size: 28
42404582 AAATTTGTAC
42404592 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
42404620 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
42404648 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
42404675 AGCACTAAGTGTG
1 AGCACTAAGTGTG
42404688 TGGACTCACT
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
27 23 0.34
28 45 0.66
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:42415413 original size:122 final size:120
Alignment explanation
Indices: 42415198--42415420 Score: 338
Period size: 122 Copynumber: 1.8 Consensus size: 120
42415188 CACAATAACA
* * *
42415198 ATGAGAATGAGAATAGAAATGTAATGGGTATGAGGTTTTCCTAATCTCAATTTAACACGGAATGT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTCAATTTAACACGAAATGT
42415263 ATGATAACTAACCTAGGAATGCAAATTAAATGATAGGCATTGGCATGGTAATAGC
66 ATGATAACTAACCTAGGAATGCAAATTAAATGATAGGCATTGGCATGGTAATAGC
* * * **
42415318 ATGAGAATAAGCATAGTAATGTCATGGGTATGAGGTGTTCCTAATAACTTGATTTAACACGAAAT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAAT--CTCAATTTAACACGAAAT
* *
42415383 GTATGATAACTAACCTATGAATGTAAATTAAATGATAG
64 GTATGATAACTAACCTAGGAATGCAAATTAAATGATAG
42415421 AAAAATGAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
120 40 0.44
122 51 0.56
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (120 bp):
ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTCAATTTAACACGAAATGT
ATGATAACTAACCTAGGAATGCAAATTAAATGATAGGCATTGGCATGGTAATAGC
Found at i:42420684 original size:46 final size:46
Alignment explanation
Indices: 42420634--42420809 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
42420624 TGGTTGAGCA
42420634 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
42420680 TCCGATCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
42420725 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
42420773 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42420810 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42420790 original size:93 final size:93
Alignment explanation
Indices: 42420631--42420802 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
42420621 GGATGGTTGA
* * * *
42420631 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGATCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
42420696 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
42420724 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
42420789 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
42420803 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:42428217 original size:46 final size:46
Alignment explanation
Indices: 42428167--42428342 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
42428157 TGGTTGAGCA
42428167 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42428213 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
42428258 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42428306 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42428343 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42428323 original size:93 final size:93
Alignment explanation
Indices: 42428164--42428335 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
42428154 GGATGGTTGA
* *
42428164 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
42428229 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
42428257 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
42428322 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
42428336 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:42432908 original size:43 final size:43
Alignment explanation
Indices: 42432848--42432930 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
42432838 GATCTATGTG
* * *
42432848 GCATCTGAGCTCATTGAGAGGTTCGAGTTCATTATGGATGCAA
1 GCATCCGAGCTCATTGAGAGGTTAGAGTTCATAATGGATGCAA
* *
42432891 GCATCCGAGCTCGTTGAGTGGTTAGAGTTCATAATGGATG
1 GCATCCGAGCTCATTGAGAGGTTAGAGTTCATAATGGATG
42432931 TGATTCATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (43 bp):
GCATCCGAGCTCATTGAGAGGTTAGAGTTCATAATGGATGCAA
Found at i:42432991 original size:51 final size:51
Alignment explanation
Indices: 42432892--42432991 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
42432882 TGGATGCAAG
* * * *
42432892 CATCCGAGCTCGTTGAGTGGTTAGAGTTCATAATGGATGTGATTCATGTAA
1 CATCCGAGCTCGTTGAGAGGTCAGAGTTCATAATGGATGTAATACATGTAA
* * *
42432943 CATCTGAGCTCGTTGAGAGGTCCGAGTTCATTATTGGATG-AATACATGT
1 CATCCGAGCTCGTTGAGAGGTCAGAGTTCA-TAATGGATGTAATACATGT
42432992 TCTGAGGTAG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 33 0.80
52 8 0.20
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (51 bp):
CATCCGAGCTCGTTGAGAGGTCAGAGTTCATAATGGATGTAATACATGTAA
Found at i:42433287 original size:33 final size:33
Alignment explanation
Indices: 42433250--42433317 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
42433240 GCCAAAAGGG
42433250 TTTGAATGATGAGTAATATTTATGGTTATGTTA
1 TTTGAATGATGAGTAATATTTATGGTTATGTTA
42433283 TTTGAATGATGAGTAATATTTATGGTTATGTTA
1 TTTGAATGATGAGTAATATTTATGGTTATGTTA
42433316 TT
1 TT
42433318 ATGTCTTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (33 bp):
TTTGAATGATGAGTAATATTTATGGTTATGTTA
Found at i:42438285 original size:2 final size:2
Alignment explanation
Indices: 42438278--42438305 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
42438268 TATGATATGC
42438278 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
42438306 TCTATGAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42440047 original size:30 final size:30
Alignment explanation
Indices: 42440011--42440111 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
42440001 GACAAGATTG
* * *
42440011 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
42440041 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
42440069 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
42440098 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
42440112 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:42440123 original size:29 final size:28
Alignment explanation
Indices: 42440040--42440115 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
42440030 AAAATTGTAC
* *
42440040 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
42440068 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
42440097 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
42440116 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:42443153 original size:42 final size:44
Alignment explanation
Indices: 42443046--42443196 Score: 141
Period size: 43 Copynumber: 3.5 Consensus size: 44
42443036 TAGAAATCTC
* *
42443046 AGCTCGTTGAGCGGTCCGAGTTCGTGATATATGTGAGAATCCGA
1 AGCTTGTTGAGAGGTCCGAGTTCGTGATATATGTGAGAATCCGA
* * * *
42443090 A-CTTGTTGAGTGGTCCAAGTTCGTGATCTATGTG-GCATCC-A
1 AGCTTGTTGAGAGGTCCGAGTTCGTGATATATGTGAGAATCCGA
* * ** * *
42443131 AGCTTGTTGAGAGGTCCGAGTTCATTATGGATGTGAGCATTCG-
1 AGCTTGTTGAGAGGTCCGAGTTCGTGATATATGTGAGAATCCGA
*
42443174 AGCTCGTTGA-ATGGTCCGAGTTC
1 AGCTTGTTGAGA-GGTCCGAGTTC
42443197 ATAATGGATG
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.02
42 33 0.37
43 54 0.60
44 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (44 bp):
AGCTTGTTGAGAGGTCCGAGTTCGTGATATATGTGAGAATCCGA
Found at i:42450483 original size:47 final size:49
Alignment explanation
Indices: 42450266--42450521 Score: 439
Period size: 49 Copynumber: 5.3 Consensus size: 49
42450256 GTATGAGGTA
42450266 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
42450315 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
42450364 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
42450413 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
42450460 TATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
42450507 TATAAATGTGATAAG
1 TATATATGTGATAAG
42450522 TCCCGAAGGG
Statistics
Matches: 199, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 56 0.28
48 5 0.03
49 138 0.69
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:42454836 original size:93 final size:93
Alignment explanation
Indices: 42454724--42454895 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
42454714 GCCCATAAGT
* *
42454724 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42454789 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
42454817 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42454882 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
42454896 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:42454891 original size:46 final size:46
Alignment explanation
Indices: 42454716--42454891 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
42454706 TGTAACCCGC
* * *
42454716 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
42454762 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
42454812 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
42454855 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
42454892 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:42457316 original size:30 final size:30
Alignment explanation
Indices: 42457272--42457360 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
42457262 CAAAGATAAC
42457272 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
42457301 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
42457331 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
42457361 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:42457320 original size:15 final size:15
Alignment explanation
Indices: 42457272--42457351 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
42457262 CAAAGATAAC
*
42457272 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
42457286 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
42457301 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
42457316 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
42457331 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
42457346 AAGAAA
1 AAGAAA
42457352 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:42457360 original size:15 final size:15
Alignment explanation
Indices: 42457283--42457360 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
42457273 AGAAAACCGA
42457283 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
42457298 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
42457312 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
42457327 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
42457343 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
42457358 ATA
1 ATA
42457361 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:42460381 original size:93 final size:93
Alignment explanation
Indices: 42460269--42460440 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
42460259 GCCCATAAGT
* *
42460269 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42460334 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
42460362 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42460427 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
42460441 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:42460436 original size:46 final size:46
Alignment explanation
Indices: 42460261--42460436 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
42460251 TGTAACCCGC
* * *
42460261 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
42460307 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
42460357 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
42460400 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
42460437 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:42463829 original size:48 final size:48
Alignment explanation
Indices: 42463722--42464132 Score: 378
Period size: 48 Copynumber: 8.6 Consensus size: 48
42463712 TATGTGTGCC
* * * * * *** *
42463722 AGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTATAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAGGTGAGCT
* * * *
42463770 AATGTAAGACCATGTCTGGGACATTGCATCGGTATTGATAGGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAGGTGAGCT
* * * *
42463818 AGTGTACGACCATGTCCGGGACATGGCATCGGCGTTGATAGGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAGGTGAGCT
* * * * *
42463866 AGTGTAAGACCATGTATGGGACATGGCATCGGCGTCGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAGGTGAGCT
* * * * *
42463914 AGTGTAAGACCATGTCTGGGACACGACAAT-GGTCA-T-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGC-ATCGG-CATTGA-TAGGTGAGCT
* *
42463962 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAGGTGAGCT
* * * ** * * * *
42464010 AGTGTAAGTCCATGTCTGGGACATGGCATCAGCCTCAACATGTGATCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAGGTGAGCT
* * * * *
42464058 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAGGTGAGCT
*
42464106 AGCGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACCATGTCTGGGACATGGC
42464133 GTCGACAATT
Statistics
Matches: 305, Mismatches: 52, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
47 5 0.02
48 296 0.97
49 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAGGTGAGCT
Found at i:42467539 original size:44 final size:44
Alignment explanation
Indices: 42467440--42467567 Score: 143
Period size: 44 Copynumber: 2.9 Consensus size: 44
42467430 GAATTAAGAA
* * * * * ** *
42467440 ATCCGAACTCATTGAGTTGGTCTGGGTTCGTGATATATATGAGGC
1 ATCCGAACTCGTTGAGTTGGTCCGAGTTCATAATGGATGTGA-GC
42467485 ATCCGAACTCGTTGCA-TTGGTCCGAGTTCACT-ATGGATGTGAGC
1 ATCCGAACTCGTTG-AGTTGGTCCGAGTTCA-TAATGGATGTGAGC
42467529 ATCCGAACTCGTTGAGTTGGTCCGAGTTCATAATGGATG
1 ATCCGAACTCGTTGAGTTGGTCCGAGTTCATAATGGATG
42467568 CAATGCATGT
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
43 2 0.03
44 37 0.51
45 31 0.43
46 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGGTCCGAGTTCATAATGGATGTGAGC
Found at i:42475492 original size:45 final size:43
Alignment explanation
Indices: 42475418--42475538 Score: 134
Period size: 45 Copynumber: 2.7 Consensus size: 43
42475408 GAATTAAGAA
* * * * *
42475418 ATCCAAACTCATTGAGTTGGTCTGGGTTCATGATATATATGAGGC
1 ATCCGAACTCGTTGAGTTGGTCTGAGTTCAT-ATAGATACGA-GC
*
42475463 ATCCGAACTCGTTGAGTTGGTCTGAGTTCACTATGGATACGAGC
1 ATCCGAACTCGTTGAGTTGGTCTGAGTTCA-TATAGATACGAGC
* * *
42475507 ATCTGAACTTGTTGAGTTGGTCTGACTTCATA
1 ATCCGAACTCGTTGAGTTGGTCTGAGTTCATA
42475539 ATGGATGCGA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.03
44 29 0.44
45 34 0.52
46 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
ATCCGAACTCGTTGAGTTGGTCTGAGTTCATATAGATACGAGC
Found at i:42475524 original size:44 final size:45
Alignment explanation
Indices: 42475418--42475553 Score: 141
Period size: 44 Copynumber: 3.0 Consensus size: 45
42475408 GAATTAAGAA
* * * * ** *
42475418 ATCCAAACTCATTGAGTTGGTCTGGGTTCATGATATATATGAGGC
1 ATCCGAACTCGTTGAGTTGGTCTGAGTTCATAATGGATACGAGGC
42475463 ATCCGAACTCGTTGAGTTGGTCTGAGTTCACT-ATGGATACGA-GC
1 ATCCGAACTCGTTGAGTTGGTCTGAGTTCA-TAATGGATACGAGGC
* * * * *
42475507 ATCTGAACTTGTTGAGTTGGTCTGACTTCATAATGGATGCGATGC
1 ATCCGAACTCGTTGAGTTGGTCTGAGTTCATAATGGATACGAGGC
42475552 AT
1 AT
42475554 GTAATTGAGT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.01
44 38 0.49
45 38 0.49
46 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (45 bp):
ATCCGAACTCGTTGAGTTGGTCTGAGTTCATAATGGATACGAGGC
Found at i:42480365 original size:25 final size:23
Alignment explanation
Indices: 42480337--42480383 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
42480327 AAGAAATCAT
*
42480337 ATTATATAATAAGGTTAAATATGTA
1 ATTAAATAATAA-GTT-AATATGTA
42480362 ATTAAATAATAAGTTAATATGT
1 ATTAAATAATAAGTTAATATGT
42480384 GTTATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 3 0.14
25 11 0.52
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (23 bp):
ATTAAATAATAAGTTAATATGTA
Found at i:42480392 original size:23 final size:26
Alignment explanation
Indices: 42480337--42480393 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 26
42480327 AAGAAATCAT
42480337 ATTAT-ATAATAAGGTTAAATATGTA
1 ATTATAATAATAAGGTTAAATATGTA
42480362 ATTA-AATAATAA-GTT-AATATGT-
1 ATTATAATAATAAGGTTAAATATGTA
*
42480384 GTTATAATAA
1 ATTATAATAA
42480394 AACATAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 3 0.10
23 12 0.41
24 3 0.10
25 11 0.38
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (26 bp):
ATTATAATAATAAGGTTAAATATGTA
Done.