Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 167 of 328
Found at i:49175425 original size:40 final size:40
Alignment explanation
Indices: 49175233--49175418 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
49175223 TCGAATGATG
* * *
49175233 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
49175273 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49175313 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
49175353 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49175394 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49175419 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49175425 original size:80 final size:80
Alignment explanation
Indices: 49175233--49175451 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 80
49175223 TCGAATGATG
* * **
49175233 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
49175297 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
49175313 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
49175375 TCTGTGCGAGTTACTATAA
64 TC-GTGCGAGTTACTA-AA
* **
49175394 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
49175452 TACGTGATTC
Statistics
Matches: 119, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
79 19 0.16
80 90 0.76
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:49183440 original size:40 final size:40
Alignment explanation
Indices: 49183248--49183433 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
49183238 TCGAATGATG
* * *
49183248 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
49183288 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49183328 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49183368 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49183409 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49183434 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49183440 original size:80 final size:80
Alignment explanation
Indices: 49183248--49183466 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 80
49183238 TCGAATGATG
* * **
49183248 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
49183312 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
49183328 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
*
49183391 TTGTGCGAGTTACTATAA
64 TCGTGCGAGTTACTA-AA
* **
49183409 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
49183467 TACGTGATTC
Statistics
Matches: 119, Mismatches: 12, Indels: 17
0.80 0.08 0.11
Matches are distributed among these distances:
79 17 0.14
80 92 0.77
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:49189666 original size:50 final size:46
Alignment explanation
Indices: 49189591--49189712 Score: 151
Period size: 50 Copynumber: 2.6 Consensus size: 46
49189581 TCAGGTGGCA
*
49189591 ATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTGT-GTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCTC---C-TATC-GTAGCCG
* *
49189641 ATGCCATGTCCCAGACATGGTCTTACACAGGCTCCTCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCTCCTATCGTAGCCG
49189687 ATG-CATGTCCCAGACAT-GTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
49189713 TGGCTTACAT
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
44 9 0.13
45 16 0.24
46 9 0.13
47 1 0.01
50 33 0.49
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACAAGCTCCTATCGTAGCCG
Found at i:49189745 original size:46 final size:44
Alignment explanation
Indices: 49189645--49189759 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 44
49189635 GTGTCGATGC
* * **
49189645 CATGTCCCAGACATGGTCTTACACAGGCTCCTCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCATCTCGTAGCCGAAA
*
49189690 CATGTCCCAGACATGTCTTACACTGGCTTACATCTTG-AGGCCGAAA
1 CATGTCCCAGACATGTCTTACACTGGC-T-CATCTCGTA-GCCGAAA
49189736 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
49189760 AGCACTTGTC
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 12 0.19
45 16 0.26
46 34 0.55
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGGCTCATCTCGTAGCCGAAA
Found at i:49194890 original size:45 final size:46
Alignment explanation
Indices: 49194807--49194894 Score: 115
Period size: 45 Copynumber: 1.9 Consensus size: 46
49194797 ATAAATGGTG
*
49194807 AAATAGAGAAATAGAAAACATATAGAAACGATTATGGTTTTCTCCA
1 AAATAGAGAAATAGAAAACATATAGAAACGAATATGGTTTTCTCCA
* * * * *
49194853 AAATGGAGAAAT-GAAATCATTTGGAAATGAATATGGTTTTCT
1 AAATAGAGAAATAGAAAACATATAGAAACGAATATGGTTTTCT
49194895 AAAAAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 25 0.69
46 11 0.31
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (46 bp):
AAATAGAGAAATAGAAAACATATAGAAACGAATATGGTTTTCTCCA
Found at i:49200893 original size:21 final size:21
Alignment explanation
Indices: 49200859--49200920 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
49200849 CTGAAATATA
* *
49200859 ATAATAATATAATATAA-AAAT
1 ATAATAAAAGAATA-AAGAAAT
49200880 ATAATAAAAGAATAAAGAAAT
1 ATAATAAAAGAATAAAGAAAT
* *
49200901 AAAATAGAAA-AAGAAAGAAA
1 ATAATA-AAAGAATAAAGAAA
49200921 GAACAAACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.06
21 30 0.86
22 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (21 bp):
ATAATAAAAGAATAAAGAAAT
Found at i:49203463 original size:26 final size:26
Alignment explanation
Indices: 49203425--49203477 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
49203415 ATATAAATGC
* *
49203425 ATCCCCAATGATCATTTCTTGTACTA
1 ATCCCCAAGGATCATTTCTTCTACTA
49203451 ATCCCCAAGGATCATTTCTTCTACTA
1 ATCCCCAAGGATCATTTCTTCTACTA
49203477 A
1 A
49203478 CATGGAATCA
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:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (26 bp):
ATCCCCAAGGATCATTTCTTCTACTA
Found at i:49205735 original size:5 final size:5
Alignment explanation
Indices: 49205722--49205787 Score: 71
Period size: 5 Copynumber: 13.2 Consensus size: 5
49205712 TTTCATATTG
* * *
49205722 TATCA TATCT TATCA TATCA TAACA TATCA TATCA TACCA TATCGA -ATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATC-A TATCA
* *
49205772 TAGCA TATCT TATCA T
1 TATCA TATCA TATCA T
49205788 GTTATAGAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
4 1 0.02
5 47 0.96
6 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (5 bp):
TATCA
Found at i:49208237 original size:16 final size:16
Alignment explanation
Indices: 49208216--49208246 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49208206 TTCAGACTTG
49208216 AATTTTCTCAAGCTTT
1 AATTTTCTCAAGCTTT
*
49208232 AATTTTTTCAAGCTT
1 AATTTTCTCAAGCTT
49208247 GGATTAGCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (16 bp):
AATTTTCTCAAGCTTT
Found at i:49211329 original size:39 final size:39
Alignment explanation
Indices: 49211282--49211463 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
49211272 AATGTTCGAG
49211282 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
49211321 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
49211360 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * ** *
49211399 TGATATCCGGGTTAAGTCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
** * *
49211438 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
49211464 GTTTGAACGA
Statistics
Matches: 123, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 115 0.93
40 8 0.07
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:49213476 original size:30 final size:29
Alignment explanation
Indices: 49213382--49213513 Score: 158
Period size: 29 Copynumber: 4.6 Consensus size: 29
49213372 TACTCGATTT
* * *
49213382 CGCACACTTAGTGCCATGCATTT-AAGCC
1 CGCACACTTAGTGCCATACATTTCCAGCA
* ** * *
49213410 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACATTTCCAGCA
*
49213439 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACATTTCCAGCA
*
49213468 CTGCACACTTAGTGCCATATATTTCCAGCA
1 C-GCACACTTAGTGCCATACATTTCCAGCA
49213498 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49213514 ATCTCGTCAC
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 19 0.21
29 42 0.47
30 29 0.32
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCCAGCA
Found at i:49213502 original size:59 final size:57
Alignment explanation
Indices: 49213382--49213513 Score: 156
Period size: 59 Copynumber: 2.3 Consensus size: 57
49213372 TACTCGATTT
* * * *
49213382 CGCACACTTAGTGCCATGCATTTAAGCCCGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACATTTAAGCCCGCACACATAGTGCCATACACTTCCAGCA
* * * * * *
49213439 CGCACACTTAGTGCCATATATTTCCAGCACTGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACATTT-AAGC-CCGCACACATAGTGCCATACACTTCCAGCA
49213498 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49213514 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 21 0.33
58 3 0.05
59 39 0.62
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (57 bp):
CGCACACTTAGTGCCATACATTTAAGCCCGCACACATAGTGCCATACACTTCCAGCA
Found at i:49220757 original size:29 final size:28
Alignment explanation
Indices: 49220723--49220825 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 28
49220713 TACTCGATTT
* *
49220723 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCAT-CCATTTAAGCA
* * ** *
49220752 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCAT-CCATTTAAGCA
** *
49220781 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATCCATTT-AAGCA
49220810 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49220826 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 2 0.03
29 57 0.97
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.23
Consensus pattern (28 bp):
CGCACACTTAGTGCCATCCATTTAAGCA
Found at i:49227250 original size:14 final size:14
Alignment explanation
Indices: 49227231--49227259 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
49227221 CGCTGAGGTA
49227231 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
49227245 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
49227259 T
1 T
49227260 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:49227326 original size:88 final size:88
Alignment explanation
Indices: 49227176--49227659 Score: 549
Period size: 88 Copynumber: 5.8 Consensus size: 88
49227166 TTCTACCAAA
*
49227176 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCAATTT
49227241 CTGTTTTTCAATTTCTGTTCGTC
66 CTGTTTTTCAATTTCTGTTCGTC
* * * * *
49227264 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTCTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCAATTT
* **
49227329 CTGTCTTTCAA----------AA
66 CTGTTTTTCAATTTCTGTTCGTC
*
49227342 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTTT-AAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACACGCTGAGGT-ATTTTCAAT
**
49227403 TTCTG---TTC-A-------TC-AA
64 TTCTGTTTTTCAATTTCTGTTCGTC
* * *
49227416 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACGCGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCAATTT
49227481 CTGTTTTTCAATTTCTGTTCGTC
66 CTGTTTTTCAATTTCTGTTCGTC
* * *
49227504 AAAATCAACTCATATTACGAGAGGTGAGTTCAGTCTCAGCTCACACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCAATTT
*
49227569 TTGTTTTTCAATTTCTGTTCGTC
66 CTGTTTTTCAATTTCTGTTCGTC
* *
49227592 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGTTGAGGTAATTTT-AATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGT-ATTTTCAATT
49227654 TCTGTT
65 TCTGTT
49227660 CATCAAAAAA
Statistics
Matches: 344, Mismatches: 31, Indels: 44
0.82 0.07 0.11
Matches are distributed among these distances:
72 1 0.00
73 5 0.01
74 37 0.11
75 5 0.01
76 36 0.10
77 4 0.01
78 36 0.10
79 4 0.01
80 1 0.00
86 20 0.06
87 7 0.02
88 188 0.55
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (88 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCAATTT
CTGTTTTTCAATTTCTGTTCGTC
Found at i:49227490 original size:14 final size:14
Alignment explanation
Indices: 49227471--49227499 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
49227461 CGCTGAGGTA
49227471 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
49227485 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
49227499 T
1 T
49227500 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:49228098 original size:44 final size:45
Alignment explanation
Indices: 49228015--49228113 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 45
49228005 TGAAGCTGTT
* *
49228015 AATCTTATAT-TTCTGAAGTCACAGTAAAGCAGATCGAAGCTACA
1 AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
* * ** *
49228059 AATCTTATATCCT-TGAAGTTACATTAAAGTGGATTGAAGCCACA
1 AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
* *
49228103 AAGCATATATC
1 AATCTTATATC
49228114 AGAAGATGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 44 0.98
45 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (45 bp):
AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
Found at i:49228464 original size:35 final size:35
Alignment explanation
Indices: 49228425--49228495 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
49228415 CACTTGCCTC
*
49228425 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
*
49228460 TTCCCATTCTCCCATGCTGTCTGCCACCAACACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
49228495 T
1 T
49228496 CACACACTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.18, C:0.46, G:0.10, T:0.25
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
Found at i:49228903 original size:12 final size:12
Alignment explanation
Indices: 49228882--49228933 Score: 95
Period size: 12 Copynumber: 4.3 Consensus size: 12
49228872 TTAAAACATA
49228882 AAAAAAATATAC
1 AAAAAAATATAC
*
49228894 AAAAAGATATAC
1 AAAAAAATATAC
49228906 AAAAAAATATAC
1 AAAAAAATATAC
49228918 AAAAAAATATAC
1 AAAAAAATATAC
49228930 AAAA
1 AAAA
49228934 TTTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (12 bp):
AAAAAAATATAC
Found at i:49229539 original size:3 final size:3
Alignment explanation
Indices: 49229531--49229746 Score: 136
Period size: 3 Copynumber: 69.0 Consensus size: 3
49229521 TGCATTTCAA
49229531 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
49229579 TAT TGA- AAT ACAT TAGT GTAT ATCT TCAT GTAT GTAT ATAT ATAT GTAG
1 TAT T-AT TAT -TAT TA-T -TAT -TAT T-AT -TAT -TAT -TAT -TAT -TAT
* * * * * * **
49229628 TAA TGT T-T CTAT TAC T-T TAT T-T TAA TAT TTT TAT TAT AAT GGT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
49229671 TTT TGT GT-T TCAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49229717 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49229747 ATATCCTTGT
Statistics
Matches: 173, Mismatches: 26, Indels: 28
0.76 0.11 0.12
Matches are distributed among these distances:
2 6 0.03
3 138 0.80
4 26 0.15
5 3 0.02
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:49230020 original size:33 final size:30
Alignment explanation
Indices: 49229962--49230034 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 30
49229952 TAATATTATG
*
49229962 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
49229992 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
49230025 TATATATTTT
1 TATATATTTT
49230035 CTTAGTACCA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 1 0.03
31 9 0.24
32 9 0.24
33 18 0.49
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:49231567 original size:29 final size:28
Alignment explanation
Indices: 49231535--49231619 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 28
49231525 TGGGATATAT
49231535 GAATGTGAATTGGGCCTAGTGGGCCATAA
1 GAAT-TGAATTGGGCCTAGTGGGCCATAA
* **
49231564 GAATATGAACTGGGCC-AGATGGGCCATTT
1 GAAT-TGAATTGGGCCTAG-TGGGCCATAA
**
49231593 GAATAAAATTGGGCCTAGTGGGCCATA
1 GAATTGAATTGGGCCTAGTGGGCCATA
49231620 TGCATGTATG
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
28 18 0.39
29 28 0.61
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (28 bp):
GAATTGAATTGGGCCTAGTGGGCCATAA
Found at i:49236158 original size:25 final size:25
Alignment explanation
Indices: 49236124--49236174 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
49236114 CGATTGACAT
49236124 AGTCTGGCTATGGTCTTGTTAGGCA
1 AGTCTGGCTATGGTCTTGTTAGGCA
49236149 AGTCTGGCTATGGTCTTGTTAGGCA
1 AGTCTGGCTATGGTCTTGTTAGGCA
49236174 A
1 A
49236175 CTTGCCTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.18, C:0.16, G:0.31, T:0.35
Consensus pattern (25 bp):
AGTCTGGCTATGGTCTTGTTAGGCA
Found at i:49237838 original size:26 final size:24
Alignment explanation
Indices: 49237772--49237841 Score: 67
Period size: 26 Copynumber: 3.0 Consensus size: 24
49237762 ATAAATAGTT
49237772 AATA-ATAA-AAATAATATA-AT-
1 AATATATAATAAATAATATATATA
* * *
49237792 AATATATAATAATTTACATATATA
1 AATATATAATAAATAATATATATA
49237816 AATATAGTAAATAAATAATATATATA
1 AATATA-T-AATAAATAATATATATA
49237842 GTAAAATGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 4 0.11
21 4 0.11
22 7 0.18
23 2 0.05
24 6 0.16
25 1 0.03
26 14 0.37
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (24 bp):
AATATATAATAAATAATATATATA
Found at i:49237856 original size:20 final size:19
Alignment explanation
Indices: 49237809--49237857 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
49237799 AATAATTTAC
*
49237809 ATATATAAATATAGTAAAT
1 ATATATATATATAGTAAAT
*
49237828 AAATAATATATATAGTAAA-
1 ATAT-ATATATATAGTAAAT
*
49237847 ATGTATATATA
1 ATATATATATA
49237858 ATAAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 7 0.28
19 5 0.20
20 13 0.52
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (19 bp):
ATATATATATATAGTAAAT
Found at i:49237898 original size:28 final size:29
Alignment explanation
Indices: 49237825--49237899 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 29
49237815 AAATATAGTA
*
49237825 AATAA-ATAATATATATAGTAAAATGTATAT
1 AATAATATAATATATA-AG-AAAACGTATAT
* *
49237855 -ATAATAAAAATTTATAAG-AAACGTATAT
1 AATAAT-ATAATATATAAGAAAACGTATAT
49237883 AATAATATAATATATAA
1 AATAATATAATATATAA
49237900 ATAAAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
28 18 0.49
29 9 0.24
30 2 0.05
31 8 0.22
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (29 bp):
AATAATATAATATATAAGAAAACGTATAT
Found at i:49239218 original size:2 final size:2
Alignment explanation
Indices: 49239211--49239239 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
49239201 TATAGTTGAT
49239211 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49239240 GTATGCATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49239845 original size:29 final size:29
Alignment explanation
Indices: 49239785--49239859 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
49239775 GGTTGAGAGA
* *
49239785 ATGGCACTAAGTGTGCGGGCTTGAAATGC
1 ATGGCACTAAGTGTGCGAGCTTGAAATAC
* *
49239814 ATGGCACTAACTGTGCGAG-TTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGCTTGAAA-TAC
*
49239843 ATGGCAGTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
49239860 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTTGAAATAC
Found at i:49244324 original size:39 final size:41
Alignment explanation
Indices: 49244279--49244446 Score: 123
Period size: 40 Copynumber: 4.2 Consensus size: 41
49244269 CGGAGTTTAA
* * *
49244279 CCGGATATAACT-ACTCGCA-CAAGGCCTTCGGGTCTTAGC
1 CCGGATATAACTCACTAGCATAAAGGCCTTCGGGACTTAGC
** *
49244318 CCGGATAT-GGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACTCACTAGCATAAAGGCCTTCGGGACTTAGC
* * * * *
49244358 CCGGATAT-AGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACTCACTAGCATAAAGGCCTTCGGGA-CTTAGC
* * * * *
49244398 CCGGATGT-AGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACTCAC-TAGCATAAAGGCCTTCGGGACTTAGC
*
49244439 CCGTATAT
1 CCGGATAT
49244447 CATTCAAGTA
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
39 17 0.16
40 62 0.57
41 26 0.24
42 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (41 bp):
CCGGATATAACTCACTAGCATAAAGGCCTTCGGGACTTAGC
Found at i:49244349 original size:40 final size:40
Alignment explanation
Indices: 49244302--49244446 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
49244292 CTCGCACAAG
* * * *
49244302 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
49244342 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
49244382 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
49244423 GCCTTCGGGACTTAGCCCGTATAT
1 GCCTTCGGGACTTAGCCCGGATAT
49244447 CATTCAAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 26 0.28
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:49250943 original size:29 final size:29
Alignment explanation
Indices: 49250904--49250978 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
49250894 GGTTGAGAGA
* *
49250904 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
49250933 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
49250962 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
49250979 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:49253002 original size:17 final size:18
Alignment explanation
Indices: 49252970--49253003 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49252960 TGATCATGGT
*
49252970 ATGTTTGGTGAATGTGAA
1 ATGTTTGGTAAATGTGAA
49252988 ATGTTTGG-AAATGTGA
1 ATGTTTGGTAAATGTGA
49253004 TTTATGGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.38
Consensus pattern (18 bp):
ATGTTTGGTAAATGTGAA
Found at i:49254751 original size:46 final size:46
Alignment explanation
Indices: 49254701--49254876 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
49254691 TGGTTGAGCA
*
49254701 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
49254747 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
49254794 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
49254840 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49254877 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 65 0.59
47 29 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:49254857 original size:93 final size:93
Alignment explanation
Indices: 49254698--49254869 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
49254688 GGATGGTTGA
***
49254698 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
49254763 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
49254791 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
49254856 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
49254870 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49257781 original size:15 final size:15
Alignment explanation
Indices: 49257761--49257829 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
49257751 GTATCTTGGG
49257761 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
49257776 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
49257791 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
49257806 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
49257821 TTTCTTTAT
1 TTTCTTTAT
49257830 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:49257830 original size:30 final size:30
Alignment explanation
Indices: 49257752--49257839 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
49257742 CATAGTATCG
* * * *
49257752 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
49257782 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
49257812 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
49257840 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:49259959 original size:46 final size:46
Alignment explanation
Indices: 49259909--49260084 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
49259899 TGGTTGAGCA
49259909 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
49259955 TCCGAACTCGCTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--TG
* * * * *
49260002 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
49260048 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49260085 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.58
47 28 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:49260067 original size:93 final size:93
Alignment explanation
Indices: 49259908--49260077 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
49259898 ATGGTTGAGC
* * * * *
49259908 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGCTGAGTTG
1 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATACAAACGCCCGAACTCGCTGAGTTG
49259973 AGTCCGAGTTCGTGAGATGTAACTAGGT
66 AGTCCGAGTTCGTGAGATGTAACTAGGT
* * *
49260001 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATACGAACGCCCGAGCTCGTTGAGTTG
1 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATACAAACGCCCGAACTCGCTGAGTTG
49260066 AGTCCGAGTTCG
66 AGTCCGAGTTCG
49260078 CTTATGGGCG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATACAAACGCCCGAACTCGCTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAGGT
Found at i:49269668 original size:20 final size:21
Alignment explanation
Indices: 49269652--49269692 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
49269642 CAACACAGGT
*
49269652 GTGTGCCTCGGTCCACACGGGC
1 GTGTGCCTCAGTCCACAC-GGC
49269674 GTGTGCCTCAGTCCACACG
1 GTGTGCCTCAGTCCACACG
49269693 AGCATGTCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.12, C:0.37, G:0.32, T:0.20
Consensus pattern (21 bp):
GTGTGCCTCAGTCCACACGGC
Found at i:49272096 original size:37 final size:37
Alignment explanation
Indices: 49272055--49272129 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
49272045 GCACACTCAA
*
49272055 AGGTTTGAACACGTGACCTAAAGATACACTAATACAC
1 AGGTTCGAACACGTGACCTAAAGATACACTAATACAC
49272092 AGGTTCGAACACGTGACCTAAAGATACACTAATACAC
1 AGGTTCGAACACGTGACCTAAAGATACACTAATACAC
49272129 A
1 A
49272130 ACTAACCACC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (37 bp):
AGGTTCGAACACGTGACCTAAAGATACACTAATACAC
Found at i:49273851 original size:27 final size:26
Alignment explanation
Indices: 49273796--49273858 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
49273786 TAAGTAATTA
*
49273796 ATATAAAATATTTGTAAAATTGGTGAT
1 ATATAAAATATTTGTAAAATT-GTAAT
*
49273823 ATATAAAATATTTTTAAAAATT-TAA-
1 ATATAAAATATTTGT-AAAATTGTAAT
49273848 ATATAATAATA
1 ATATAA-AATA
49273859 AATAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 6 0.19
26 6 0.19
27 14 0.44
28 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.41
Consensus pattern (26 bp):
ATATAAAATATTTGTAAAATTGTAAT
Found at i:49274408 original size:19 final size:19
Alignment explanation
Indices: 49274364--49274410 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
49274354 GAAATTTTTC
49274364 TACTTATTTTAAAGAAATCT
1 TACTTA-TTTAAAGAAATCT
*
49274384 TA-TTATTTACAAG-AATTT
1 TACTTATTTA-AAGAAATCT
49274402 TACTTATTT
1 TACTTATTT
49274411 TTAATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.42
19 12 0.50
20 2 0.08
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (19 bp):
TACTTATTTAAAGAAATCT
Found at i:49274455 original size:2 final size:2
Alignment explanation
Indices: 49274448--49274483 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
49274438 AATATTTTAG
49274448 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49274484 GTACGTACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49275477 original size:3 final size:3
Alignment explanation
Indices: 49275469--49275502 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
49275459 TTAACTTCAA
* *
49275469 AAT AAT AAT AAT AAT AAC AAA AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49275503 TAAAAACCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:49275508 original size:18 final size:17
Alignment explanation
Indices: 49275467--49275508 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
49275457 TTTTAACTTC
*
49275467 AAAATAATAATAATAAT
1 AAAAAAATAATAATAAT
49275484 AACAAAAATAATAATAAT
1 AA-AAAAATAATAATAAT
*
49275502 ATAAAAA
1 AAAAAAA
49275509 CCCAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAAATAATAATAAT
Found at i:49275608 original size:20 final size:20
Alignment explanation
Indices: 49275586--49275622 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49275576 AATTTATATT
*
49275586 TTTTAAA-ATTTTCATATAA
1 TTTTAAATATTTTAATATAA
49275605 TTTTAAATATTTTAATAT
1 TTTTAAATATTTTAATAT
49275623 TTTTGCCCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTAAATATTTTAATATAA
Found at i:49276047 original size:15 final size:14
Alignment explanation
Indices: 49276017--49276058 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
49276007 CACTTTCTTG
*
49276017 AAAA-TATTTCAAA
1 AAAACTATTTAAAA
49276030 AAAACTATTTTAAAA
1 AAAACTA-TTTAAAA
49276045 AAAACTATTTAAAA
1 AAAACTATTTAAAA
49276059 TGAAACAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 4 0.15
14 9 0.35
15 13 0.50
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAACTATTTAAAA
Found at i:49277506 original size:12 final size:12
Alignment explanation
Indices: 49277489--49277528 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
49277479 TTTGCAACCC
49277489 AAGAGGAAGGGG
1 AAGAGGAAGGGG
49277501 AAGAGGAAGGGG
1 AAGAGGAAGGGG
* *
49277513 AAGAGAAAAGGG
1 AAGAGGAAGGGG
49277525 AAGA
1 AAGA
49277529 AAATTTAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (12 bp):
AAGAGGAAGGGG
Found at i:49279417 original size:19 final size:19
Alignment explanation
Indices: 49279393--49279432 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49279383 TGTGTCATCA
*
49279393 TAAATTCATAGGCATAACT
1 TAAATTCATAGACATAACT
**
49279412 TAAATTTGTAGACATAACT
1 TAAATTCATAGACATAACT
49279431 TA
1 TA
49279433 CACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGACATAACT
Found at i:49281110 original size:22 final size:23
Alignment explanation
Indices: 49281057--49281110 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 23
49281047 AATCTAAGAT
49281057 TTTAT-TTAT-TTTAATTATATAA
1 TTTATATTATATTTAA-TATATAA
*
49281079 -TTA-ATGATATTTAA-ATATAA
1 TTTATATTATATTTAATATATAA
49281099 TTTATATTATAT
1 TTTATATTATAT
49281111 GAATTTATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 11 0.42
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATATTATATTTAATATATAA
Found at i:49281128 original size:35 final size:35
Alignment explanation
Indices: 49281066--49281151 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
49281056 TTTTATTTAT
*
49281066 TTTA-ATTATATAATTAATGATATTTAAA-TATAA
1 TTTATATTATATAATTAATGATAATTAAATTATAA
*
49281099 TTTATATTATATGAATTTATGATAATTAAATTATAA
1 TTTATATTATAT-AATTAATGATAATTAAATTATAA
* *
49281135 -TGATATTATATTATTAA
1 TTTATATTATATAATTAA
49281152 ATAAATCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.09
34 11 0.24
35 25 0.56
36 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (35 bp):
TTTATATTATATAATTAATGATAATTAAATTATAA
Found at i:49281137 original size:25 final size:23
Alignment explanation
Indices: 49281093--49281153 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
49281083 TGATATTTAA
*
49281093 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
49281117 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
49281142 ATATTATTAAAT
1 ATATAATTAAAT
49281154 AAATCAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:49282574 original size:45 final size:45
Alignment explanation
Indices: 49282524--49282634 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
49282514 AGACTACCTT
* *
49282524 TACTGTTACCATTACTGTTACCGATT-AGACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTTGAA
* *
49282569 TACTGTTACCGCTACTGTTATAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
* *
49282614 TATTGTTACTGTTACTGTTAC
1 TACTGTTACCGTTACTGTTAC
49282635 TGCTACCGTT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 55 0.96
46 2 0.04
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
Found at i:49282628 original size:6 final size:6
Alignment explanation
Indices: 49282617--49282657 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
49282607 TGTTGAATAT
* *
49282617 TGTTAC TGTTAC TGTTAC TGCTAC CGTTAC TGATTAC TGTT
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TG-TTAC TGTT
49282658 TAGGTACTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (6 bp):
TGTTAC
Found at i:49284162 original size:29 final size:28
Alignment explanation
Indices: 49284105--49284219 Score: 97
Period size: 29 Copynumber: 4.0 Consensus size: 28
49284095 TACATACATG
* * *
49284105 CATATGGCCCACTGGGCCCAATCTTATT
1 CATATGGCCCACTAGGCCCATTCATATT
49284133 CATATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCA-TTCATATT
* * * *
49284162 CTTATGGCCCACTAGGCCTAATTCACATA
1 CATATGGCCCACTAGGCC-CATTCATATT
* * *
49284191 CATATGGCCTATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCC-ATTCATATT
49284220 ATACTTATGC
Statistics
Matches: 69, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
28 19 0.28
29 49 0.71
30 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (28 bp):
CATATGGCCCACTAGGCCCATTCATATT
Found at i:49284209 original size:58 final size:57
Alignment explanation
Indices: 49284107--49284219 Score: 129
Period size: 58 Copynumber: 2.0 Consensus size: 57
49284097 CATACATGCA
* ** * **
49284107 TATGGCCCACTGGGCCCAATCTTATTCATATGGCCCATCTGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCACATACATATGGCCCATCTGGCCCAAATCATATTCT
* *
49284164 TATGGCCCACTAGGCCTAATTCACATACATATGGCCTAT-TAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCACATACATATGGCCCATCT-GGCCCAAATCATATT
49284220 ATACTTATGC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
57 18 0.39
58 28 0.61
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATACATATGGCCCATCTGGCCCAAATCATATTCT
Found at i:49284325 original size:19 final size:18
Alignment explanation
Indices: 49284292--49284328 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
49284282 TGGGTCCAAC
49284292 AGCCCATCAGGCCCATTT
1 AGCCCATCAGGCCCATTT
*
49284310 AGCCCATTCCGGCCCATTT
1 AGCCCA-TCAGGCCCATTT
49284329 GGCCAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.19, C:0.41, G:0.16, T:0.24
Consensus pattern (18 bp):
AGCCCATCAGGCCCATTT
Found at i:49284337 original size:19 final size:19
Alignment explanation
Indices: 49284301--49284337 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49284291 CAGCCCATCA
*
49284301 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
49284320 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
49284338 TCAACCCAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:49287763 original size:118 final size:117
Alignment explanation
Indices: 49287543--49287757 Score: 272
Period size: 119 Copynumber: 1.8 Consensus size: 117
49287533 AAATTCTTAT
* * * * *
49287543 AAAAACCCGAATAATTTTCTATAAAATCCCAAGTTTTTCTCTTTTACTGGGGAAAAATAAAATTA
1 AAAAACCCAAATAATTCTCTATAAAATCCCAAGTTTTTCTCTTTTACTGAGAAAAAATAAAACTA
*
49287608 ATTCTAAAAAGGGAAAAAATAAAGAAAATAAAGAAAAATAGTTTTTCCTATAAA
66 ATTCTAAAAAGGAAAAAAATAAAGAAAAT--AGAAAAATAGTTTTTCCTATAAA
* * *
49287662 AAAAACCCAAATAGTTCTCTATAAAATCCGATGTTTTT-TCCTTTTACT-AGAAAAAATAAAACT
1 AAAAACCCAAATAATTCTCTATAAAATCCCAAGTTTTTCT-CTTTTACTGAGAAAAAATAAAACT
*
49287725 AATTCTAAAAGAGGAAATAATAATAAAGGAAAT
65 AATTCTAAAA-AGGAAA-AA-AATAAAGAAAAT
49287758 TAAAAAGATA
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 23 0.28
119 46 0.56
120 2 0.02
121 11 0.13
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (117 bp):
AAAAACCCAAATAATTCTCTATAAAATCCCAAGTTTTTCTCTTTTACTGAGAAAAAATAAAACTA
ATTCTAAAAAGGAAAAAAATAAAGAAAATAGAAAAATAGTTTTTCCTATAAA
Found at i:49287889 original size:15 final size:15
Alignment explanation
Indices: 49287871--49287899 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49287861 AACTAAAATT
49287871 ATCATTTTTAAAAAA
1 ATCATTTTTAAAAAA
49287886 ATCATTTTTAAAAA
1 ATCATTTTTAAAAA
49287900 GATAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (15 bp):
ATCATTTTTAAAAAA
Found at i:49289093 original size:28 final size:29
Alignment explanation
Indices: 49289053--49289121 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
49289043 CCTAAACAAG
49289053 TTTTATAGTAATTTTATATATTT-TATGTTT
1 TTTTATA--AATTTTATATATTTATATGTTT
*
49289083 TTTTATAAA-TTTATATATTTATATTTTT
1 TTTTATAAATTTTATATATTTATATGTTT
*
49289111 TTTTGTAAATT
1 TTTTATAAATT
49289122 ATAAATTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 11 0.31
28 16 0.46
29 1 0.03
30 7 0.20
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (29 bp):
TTTTATAAATTTTATATATTTATATGTTT
Found at i:49289095 original size:27 final size:28
Alignment explanation
Indices: 49289065--49289121 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
49289055 TTATAGTAAT
49289065 TTTATATATTT-TATGTTTTTTTATAAA
1 TTTATATATTTATATGTTTTTTTATAAA
* *
49289092 TTTATATATTTATATTTTTTTTTGTAAA
1 TTTATATATTTATATGTTTTTTTATAAA
49289120 TT
1 TT
49289122 ATAAATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (28 bp):
TTTATATATTTATATGTTTTTTTATAAA
Found at i:49289136 original size:28 final size:28
Alignment explanation
Indices: 49289080--49289137 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
49289070 ATATTTTATG
* *
49289080 TTTTTTTATAAATTTATATATTTATATT
1 TTTTTTTATAAATTTATAAATTTAAATT
*
49289108 TTTTTTTGTAAA-TTATAAATTATAAATT
1 TTTTTTTATAAATTTATAAATT-TAAATT
49289136 TT
1 TT
49289138 ATGTATTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTTTTTATAAATTTATAAATTTAAATT
Found at i:49292293 original size:31 final size:29
Alignment explanation
Indices: 49292257--49292327 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
49292247 TTATAAAAAT
* *
49292257 ATCATTAAATTATTATTTTTATTTTATTTTA
1 ATCATTAAATTATTAATTTT-TTTGA-TTTA
*
49292288 GTCATTAAATTATTAATTTTTTTGATTTA
1 ATCATTAAATTATTAATTTTTTTGATTTA
49292317 ATCATTAAATT
1 ATCATTAAATT
49292328 TTTTGAAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 14 0.39
30 4 0.11
31 18 0.50
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (29 bp):
ATCATTAAATTATTAATTTTTTTGATTTA
Found at i:49297046 original size:44 final size:42
Alignment explanation
Indices: 49296969--49297123 Score: 109
Period size: 43 Copynumber: 3.6 Consensus size: 42
49296959 CTAATATGTT
* * * * *
49296969 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATTG-ACTTATGA
1 TTTT-GTGTAAGACCATGTCTAGGACATCGGCATCGTA-TT-TGA
*
49297013 TTTATGTGTAAGACCATGTCTAGGATATCGGCATCGTATTTGA
1 TTT-TGTGTAAGACCATGTCTAGGACATCGGCATCGTATTTGA
* * *
49297056 TTTTGTGTAAGACCCTGTCT-GCGACAGT-GGCATCAATATTCGA
1 TTTTGTGTAAGACCATGTCTAG-GACA-TCGGCATC-GTATTTGA
*** *
49297099 TTACATGTAAGACCACGTCTAGGAC
1 TTTTGTGTAAGACCATGTCTAGGAC
49297124 TTTGGCATTG
Statistics
Matches: 90, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 25 0.28
43 31 0.34
44 31 0.34
45 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (42 bp):
TTTTGTGTAAGACCATGTCTAGGACATCGGCATCGTATTTGA
Found at i:49302779 original size:43 final size:43
Alignment explanation
Indices: 49302738--49302928 Score: 210
Period size: 43 Copynumber: 4.5 Consensus size: 43
49302728 GAAAAATGCT
* *
49302738 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATGCT
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
** *
49302781 GCTAAAGATTA-GTACCTTTAGCGGCGC-TTTCCCACCAACGCC
1 GCTAAAGAACATG-ACCTTTAGCGGCGCTTTTCCCACAAACGCC
49302823 GCTAAAGATA-ATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTAAAGA-ACATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* * * * * * *
49302866 ACTAAAGATCACGACCTTTAGCAGCTCTTTTCTCAAAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
*
49302909 GTTAAA-AATCATGACCTTTA
1 GCTAAAGAA-CATGACCTTTA
49302929 AAAAAATTAT
Statistics
Matches: 124, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
42 37 0.30
43 87 0.70
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (43 bp):
GCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
Found at i:49302883 original size:85 final size:86
Alignment explanation
Indices: 49302729--49302928 Score: 235
Period size: 85 Copynumber: 2.3 Consensus size: 86
49302719 CATTTATTTG
* * * ** *
49302729 AAAAATGCTGCTAAAGA-ACATGACCTTTAGCGGCGCTTTTCCCACAAATGCTGCTAAAGATTAG
1 AAAAACGCCGCTAAAGATA-ATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGATCAG
*
49302793 TACCTTTAGCGGCGC-TTTCCC
65 TACCTTTAGCAGCGCTTTTCCC
**
49302814 ACCAACGCCGCTAAAGATAATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGATCACG
1 AAAAACGCCGCTAAAGATAATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGATCA-G
* *
49302879 -ACCTTTAGCAGCTCTTTTCTC
65 TACCTTTAGCAGCGCTTTTCCC
* * *
49302900 AAAAACGCCGTTAAAAATCATGACCTTTA
1 AAAAACGCCGCTAAAGATAATGACCTTTA
49302929 AAAAAATTAT
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
85 65 0.68
86 31 0.32
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (86 bp):
AAAAACGCCGCTAAAGATAATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGATCAGT
ACCTTTAGCAGCGCTTTTCCC
Found at i:49304401 original size:15 final size:16
Alignment explanation
Indices: 49304375--49304405 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
49304365 TCTCTCTTGC
49304375 TTTTAGATCATATATA
1 TTTTAGATCATATATA
49304391 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
49304406 AGACAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:49306852 original size:42 final size:43
Alignment explanation
Indices: 49306792--49307063 Score: 300
Period size: 42 Copynumber: 6.3 Consensus size: 43
49306782 GTTTTGTTGA
* *
49306792 AAAAAATGCCGCTAAAGACCAGGACTTTTAGCGACGCTTATAT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTATAT
* *
49306835 AAAAAACGCCGC-AAAGACCAGGACTTATAGCGGTGCTTATAT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTATAT
* * * *
49306877 -AAAAACGCCTCTAAAGACCAGGACTTTTAGTGGCGCTTTTCT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTATAT
* *
49306919 AAAAAACGGCGCTAAAGACCAGGACTTTTAGCGGCGTTTATAT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTATAT
* ** * *
49306962 -AAAAACACCGCTAAAGACCAGGA-TTTATAGCGGCTTTTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACTTT-TAGCGGC-GCTTATAT
* * * *
49307005 AACAAAACGTCGCTAAAGACCAGGACTTTTAGCGGTGCTTTTTT
1 AA-AAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTATAT
* *
49307049 AAAAAAGGCTGCTAA
1 AAAAAACGCCGCTAA
49307064 TTTGCCCAGT
Statistics
Matches: 193, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
41 13 0.07
42 80 0.41
43 62 0.32
44 9 0.05
45 26 0.13
46 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTATAT
Found at i:49306939 original size:127 final size:129
Alignment explanation
Indices: 49306792--49307063 Score: 354
Period size: 127 Copynumber: 2.1 Consensus size: 129
49306782 GTTTTGTTGA
* *
49306792 AAAAAATGCCGCTAAAGACCAGGACTTTTAGCGACGCTTATATAAAAAACGCCGC-AAAGACCAG
1 AAAAAA-GGCGCTAAAGACCAGGACTTTTAGCGACGCTTATAT-AAAAACACCGCTAAAGACCAG
* *
49306856 GACTTATAGCGG-TGCTTATAT-A-AAAACGCCTCTAAAGACCAGGACTTTTAGTGGCGCTTTTC
64 GACTTATAGCGGCTGCTTATATAACAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTC
49306918 T
129 T
* *
49306919 AAAAAACGGCGCTAAAGACCAGGACTTTTAGCGGCGTTTATATAAAAACACCGCTAAAGACCAGG
1 AAAAAA-GGCGCTAAAGACCAGGACTTTTAGCGACGCTTATATAAAAACACCGCTAAAGACCAGG
* ** * * * * *
49306984 ATTTATAGCGGCTTTTTTTTTAACAAAACGTCGCTAAAGACCAGGACTTTTAGCGGTGCTTTTTT
65 ACTTATAGCGGCTGCTTATATAACAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTCT
49307049 AAAAAAGGCTGCTAA
1 AAAAAAGGC-GCTAA
49307064 TTTGCCCAGT
Statistics
Matches: 125, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
126 10 0.08
127 59 0.47
128 5 0.04
129 4 0.03
130 47 0.38
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (129 bp):
AAAAAAGGCGCTAAAGACCAGGACTTTTAGCGACGCTTATATAAAAACACCGCTAAAGACCAGGA
CTTATAGCGGCTGCTTATATAACAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTCT
Found at i:49306960 original size:85 final size:85
Alignment explanation
Indices: 49306793--49307053 Score: 319
Period size: 85 Copynumber: 3.1 Consensus size: 85
49306783 TTTTGTTGAA
* * *
49306793 AAAAATGCCGCTAAAGACCAGGACTTTTAGCGACGCTTATATAAAAAACGCCGC-AAAGACCAGG
1 AAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAGG
* *
49306857 ACTTATAGCGGTGCTTATAT
66 ACTTTTAGCGGCGCTTATAT
* * * *
49306877 AAAAACGCCTCTAAAGACCAGGACTTTTAGTGGCGCTTTTCTAAAAAACGGCGCTAAAGACCAGG
1 AAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAGG
*
49306942 ACTTTTAGCGGCGTTTATAT
66 ACTTTTAGCGGCGCTTATAT
* ** * *
49306962 AAAAACACCGCTAAAGACCAGGA-TTTATAGCGGCTTTTTTTTTAACAAAACGTCGCTAAAGACC
1 AAAAACGCCGCTAAAGACCAGGACTTT-TAGCGGC-GCTTTTATAA-AAAACGCCGCTAAAGACC
* * *
49307026 AGGACTTTTAGCGGTGCTTTTTT
63 AGGACTTTTAGCGGCGCTTATAT
49307049 AAAAA
1 AAAAA
49307054 AGGCTGCTAA
Statistics
Matches: 152, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
84 50 0.33
85 54 0.36
86 7 0.05
87 41 0.27
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (85 bp):
AAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAGG
ACTTTTAGCGGCGCTTATAT
Found at i:49312937 original size:9 final size:9
Alignment explanation
Indices: 49312923--49313089 Score: 145
Period size: 9 Copynumber: 17.6 Consensus size: 9
49312913 ATGTATTAGT
49312923 TAAGTTATG
1 TAAGTTATG
49312932 TAAGTTGTTATG
1 TAA---GTTATG
*
49312944 TACGTTATG
1 TAAGTTATG
*
49312953 TGAGTTATG
1 TAAGTTATG
*
49312962 TAAATTATG
1 TAAGTTATG
*
49312971 TATGTTATG
1 TAAGTTATG
*
49312980 TGAGTTATG
1 TAAGTTATG
49312989 TAAGTTGTTATG
1 TAA---GTTATG
*
49313001 TAAATTATG
1 TAAGTTATG
49313010 TAAGTTATG
1 TAAGTTATG
*
49313019 TGAGTTATG
1 TAAGTTATG
49313028 TAAGTTGTTATG
1 TAA---GTTATG
*
49313040 TAAATTATG
1 TAAGTTATG
*
49313049 TAAGTTATA
1 TAAGTTATG
*
49313058 TGAGTTATG
1 TAAGTTATG
49313067 TAAGTTATG
1 TAAGTTATG
* *
49313076 TAATTTATT
1 TAAGTTATG
49313085 TAAGT
1 TAAGT
49313090 AATGATCAAT
Statistics
Matches: 126, Mismatches: 23, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
9 100 0.79
12 26 0.21
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:49312970 original size:39 final size:41
Alignment explanation
Indices: 49312927--49313089 Score: 156
Period size: 39 Copynumber: 4.2 Consensus size: 41
49312917 ATTAGTTAAG
49312927 TTATGTAAGTTGTTATGT-ACGTTATGT-G-AGTTATGTAAA
1 TTATGTAAGTTGTTATGTGA-GTTATGTAGTAGTTATGTAAA
*
49312966 TTATGT-A--TGTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
*
49313005 TTATGTAA---GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
* *
49313044 TTATGTAA---GTTATATGAGTTATGTA--AGTTATGTAAT
1 TTATGTAAGTTGTTATGTGAGTTATGTAGTAGTTATGTAAA
*
49313080 TTATTTAAGT
1 TTATGTAAGT
49313090 AATGATCAAT
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
36 31 0.28
37 1 0.01
38 3 0.03
39 76 0.68
40 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.48
Consensus pattern (41 bp):
TTATGTAAGTTGTTATGTGAGTTATGTAGTAGTTATGTAAA
Found at i:49312998 original size:57 final size:58
Alignment explanation
Indices: 49312923--49313089 Score: 198
Period size: 57 Copynumber: 2.9 Consensus size: 58
49312913 ATGTATTAGT
*
49312923 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGT-A-TGTTATG
1 TAAGTTATGTAAGTTGTTATGTA-GTTATGTAAGTTATGTAAATTATGTAAGTGTTATG
* * * *
49312980 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGTTATG
1 TAAGTTATGTAAGTTGTTATGT-AGTTATGTAAGTTATGTAAATTATGTAAG-TGTTATG
* * * *
49313040 TAAATTATGTAAGTT-ATATG-AGTTATGTAAGTTATGTAATTTATTTAAGT
1 TAAGTTATGTAAGTTGTTATGTAGTTATGTAAGTTATGTAAATTATGTAAGT
49313090 AATGATCAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
56 1 0.01
57 67 0.71
58 2 0.02
59 4 0.04
60 20 0.21
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (58 bp):
TAAGTTATGTAAGTTGTTATGTAGTTATGTAAGTTATGTAAATTATGTAAGTGTTATG
Found at i:49313078 original size:48 final size:48
Alignment explanation
Indices: 49312923--49313078 Score: 179
Period size: 48 Copynumber: 3.2 Consensus size: 48
49312913 ATGTATTAGT
* * *
49312923 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * * * *
49312971 TATGTTATGTGAGTTATGTAAGT-TGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGT-TATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * *
49313019 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
49313067 TAAGTTATGTAA
1 TAAGTTATGTAA
49313079 TTTATTTAAG
Statistics
Matches: 87, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
47 4 0.05
48 79 0.91
49 4 0.05
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (48 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
Found at i:49313673 original size:23 final size:23
Alignment explanation
Indices: 49313647--49313696 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
49313637 GTTCAAGTTT
49313647 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
49313670 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
49313693 ATTT
1 ATTT
49313697 GATTAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:49316186 original size:19 final size:19
Alignment explanation
Indices: 49316162--49316199 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
49316152 GGTCGTCCAC
*
49316162 TCGGAGTCTTCAATGGCAG
1 TCGGAGTCTTCAACGGCAG
49316181 TCGGAGTCTTCAACGGCAG
1 TCGGAGTCTTCAACGGCAG
49316200 AAGGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.24
Consensus pattern (19 bp):
TCGGAGTCTTCAACGGCAG
Found at i:49316256 original size:19 final size:20
Alignment explanation
Indices: 49316217--49316259 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
49316207 TTTCGATTTT
* *
49316217 GATTCGGGGAAATATTTAGG
1 GATTCAGGGAAATAGTTAGG
49316237 GATTCAGGGAAA-AGTTAGG
1 GATTCAGGGAAATAGTTAGG
49316256 GATT
1 GATT
49316260 TGGGGAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.33, C:0.05, G:0.35, T:0.28
Consensus pattern (20 bp):
GATTCAGGGAAATAGTTAGG
Found at i:49316265 original size:19 final size:20
Alignment explanation
Indices: 49316217--49316268 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
49316207 TTTCGATTTT
*
49316217 GATTCGGGGAAATATTTAGG
1 GATTCGGGGAAATAGTTAGG
*
49316237 GATTCAGGGAAA-AGTTAGG
1 GATTCGGGGAAATAGTTAGG
*
49316256 GATTTGGGGAAAT
1 GATTCGGGGAAAT
49316269 TTGGGTGGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.33, C:0.04, G:0.37, T:0.27
Consensus pattern (20 bp):
GATTCGGGGAAATAGTTAGG
Found at i:49317383 original size:14 final size:15
Alignment explanation
Indices: 49317351--49317387 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
49317341 GAAATTTATT
49317351 TTTAGGGTTTACAAA
1 TTTAGGGTTTACAAA
*
49317366 TTTAGGGTTTA-TAA
1 TTTAGGGTTTACAAA
49317380 TTTAGGGT
1 TTTAGGGT
49317388 ATAAGGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.46
Consensus pattern (15 bp):
TTTAGGGTTTACAAA
Found at i:49317421 original size:37 final size:36
Alignment explanation
Indices: 49317354--49317438 Score: 89
Period size: 37 Copynumber: 2.3 Consensus size: 36
49317344 ATTTATTTTT
* *
49317354 AGGGTTTACAAATTTAGGGTTTATAATTTAGGGTATA
1 AGGGTTTA-AAATTTAGGGTTTAGAATTTAGAGTATA
** * * *
49317391 AGGGTTTAAAGATTTAGTTTTTAGAGTTTAGAGTTTT
1 AGGGTTTAAA-ATTTAGGGTTTAGAATTTAGAGTATA
49317428 AGGGTTTAAAA
1 AGGGTTTAAAA
49317439 GGTTTATAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
36 3 0.08
37 37 0.93
ACGTcount: A:0.32, C:0.01, G:0.25, T:0.42
Consensus pattern (36 bp):
AGGGTTTAAAATTTAGGGTTTAGAATTTAGAGTATA
Found at i:49317471 original size:21 final size:21
Alignment explanation
Indices: 49317447--49317489 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
49317437 AAGGTTTATA
49317447 GGTTATGG-ATTATGATTTAGG
1 GGTTA-GGCATTATGATTTAGG
* *
49317468 GGTTAGGCTTTATGTTTTAGG
1 GGTTAGGCATTATGATTTAGG
49317489 G
1 G
49317490 TTTAATTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (21 bp):
GGTTAGGCATTATGATTTAGG
Found at i:49317591 original size:29 final size:29
Alignment explanation
Indices: 49317558--49317615 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
49317548 TTAGAGTTTA
*
49317558 GATCATGGGTTATGATTTAGGGGTTAGGC
1 GATCATGGGTTATGATTTAAGGGTTAGGC
49317587 GATCATGGGTTATGATTTAAGGGTTAGGC
1 GATCATGGGTTATGATTTAAGGGTTAGGC
49317616 TTGTAACACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.22, C:0.07, G:0.36, T:0.34
Consensus pattern (29 bp):
GATCATGGGTTATGATTTAAGGGTTAGGC
Found at i:49318570 original size:27 final size:26
Alignment explanation
Indices: 49318533--49318643 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 26
49318523 AGCATGGCTG
* *
49318533 CAGAACAGATAATGTGACAGAGTCAC
1 CAGAACAGATAATGTGGCAGAGCCAC
49318559 CAGATACAGATAATCGTGGCAGAGCCAC
1 CAGA-ACAGATAAT-GTGGCAGAGCCAC
*
49318587 CAGAACAGAAATATGTGGCAGAGCCAC
1 CAGAACAGATA-ATGTGGCAGAGCCAC
* *
49318614 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGAACAGATAA-TGTGGCAGAGCCAC
49318641 CAG
1 CAG
49318644 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 5 0.07
27 53 0.71
28 17 0.23
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CAGAACAGATAATGTGGCAGAGCCAC
Found at i:49318625 original size:54 final size:54
Alignment explanation
Indices: 49318533--49318643 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
49318523 AGCATGGCTG
* *
49318533 CAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCAC
1 CAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCAC
* * *
49318587 CAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCAC
1 CAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCAC
49318641 CAG
1 CAG
49318644 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCAC
Found at i:49326381 original size:27 final size:27
Alignment explanation
Indices: 49326345--49326457 Score: 124
Period size: 27 Copynumber: 4.2 Consensus size: 27
49326335 CAGCATGGCT
* *
49326345 ACCAGA-ACAGATAATGTGACAGAGTC
1 ACCAGATACAGATAATGTGGCAGAGCC
* *
49326371 ACTAGATACAGATAATCGTGGTAGAGCC
1 ACCAGATACAGATAAT-GTGGCAGAGCC
*
49326399 ACCAGA-ACAGAAATATGTGGCAGAGCC
1 ACCAGATACAGATA-ATGTGGCAGAGCC
*
49326426 ACCAGAT-CAGATAATTGTGGCATAGCC
1 ACCAGATACAGATAA-TGTGGCAGAGCC
49326453 ACCAG
1 ACCAG
49326458 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.08
27 52 0.71
28 15 0.21
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (27 bp):
ACCAGATACAGATAATGTGGCAGAGCC
Found at i:49326409 original size:54 final size:54
Alignment explanation
Indices: 49326345--49326457 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
49326335 CAGCATGGCT
* * * *
49326345 ACCAGAACAGATA-ATGTGACAGAGTCACTAGATACAGATAATCGTGGTAGAGCC
1 ACCAGAACAGAAATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
* * *
49326399 ACCAGAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
49326453 ACCAG
1 ACCAG
49326458 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (54 bp):
ACCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:49328168 original size:28 final size:28
Alignment explanation
Indices: 49328103--49328174 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
49328093 ATAGTGAATC
* *
49328103 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAGCT
49328132 CGCACACTTAGTGCTATAGA-ATCAAGCT
1 CGCACACTTAGTGCTATAGATATC-AGCT
49328160 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49328175 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAGCT
Found at i:49336084 original size:28 final size:28
Alignment explanation
Indices: 49336019--49336090 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
49336009 ATAGTGAATC
* *
49336019 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAGCT
49336048 CGCACACTTAGTGCTATAGA-ATCAAGCT
1 CGCACACTTAGTGCTATAGATATC-AGCT
49336076 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49336091 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAGCT
Found at i:49337921 original size:16 final size:15
Alignment explanation
Indices: 49337900--49337930 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
49337890 CAAAATACCA
49337900 ACTTTTCGACATTTTG
1 ACTTTTCGAC-TTTTG
49337916 ACTTTTCGACTTTTG
1 ACTTTTCGACTTTTG
49337931 CCGATCTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.16, C:0.19, G:0.13, T:0.52
Consensus pattern (15 bp):
ACTTTTCGACTTTTG
Found at i:49339997 original size:41 final size:41
Alignment explanation
Indices: 49339950--49340187 Score: 361
Period size: 41 Copynumber: 5.8 Consensus size: 41
49339940 GGACCTAAAG
*
49339950 CGCCACTATAT-CTCAGTTTTTTGCGGCGTTTTGCATGAAAA
1 CGCCACTAT-TGCTCAGTTTTTAGCGGCGTTTTGCATGAAAA
* *
49339991 CACCACTATTACTCAGTTTTTAGCGGCGTTTTGCATGAAAA
1 CGCCACTATTGCTCAGTTTTTAGCGGCGTTTTGCATGAAAA
*
49340032 CGCCACTATTACTCAGTTTTTAGCGGCGTTTTGCATGAAAA
1 CGCCACTATTGCTCAGTTTTTAGCGGCGTTTTGCATGAAAA
49340073 CGCCACTATTGCTCAGTTTTTAGCGGCGTTTTGCATGAAAA
1 CGCCACTATTGCTCAGTTTTTAGCGGCGTTTTGCATGAAAA
* * ** * *
49340114 CGCCGCTGTTGCTCAGTTTTTAATGGCATTTTGCACGAAAA
1 CGCCACTATTGCTCAGTTTTTAGCGGCGTTTTGCATGAAAA
*
49340155 TGCCACTATTGCTCAGTTTTTAGCGGCGTTTTG
1 CGCCACTATTGCTCAGTTTTTAGCGGCGTTTTG
49340188 TTTCAAACGC
Statistics
Matches: 180, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 1 0.01
41 179 0.99
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (41 bp):
CGCCACTATTGCTCAGTTTTTAGCGGCGTTTTGCATGAAAA
Found at i:49341853 original size:23 final size:23
Alignment explanation
Indices: 49341827--49341879 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
49341817 TAAATTTTTT
*
49341827 ATTTTTTATTTTTTATTTTTAAA
1 ATTTTTTATTTTTAATTTTTAAA
*
49341850 ATTTTTAATTTTTAATTTTTAAA
1 ATTTTTTATTTTTAATTTTTAAA
*
49341873 TTTTTTT
1 ATTTTTT
49341880 TGAAGATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (23 bp):
ATTTTTTATTTTTAATTTTTAAA
Found at i:49341856 original size:29 final size:29
Alignment explanation
Indices: 49341815--49341870 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
49341805 ATATTACATA
* * *
49341815 TTTAAATTTTTTATTTTTTATTTTTTATT
1 TTTAAAATTTTTAATTTTTAATTTTTATT
49341844 TTTAAAATTTTTAATTTTTAATTTTTA
1 TTTAAAATTTTTAATTTTTAATTTTTA
49341871 AATTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (29 bp):
TTTAAAATTTTTAATTTTTAATTTTTATT
Found at i:49341871 original size:7 final size:7
Alignment explanation
Indices: 49341819--49341877 Score: 64
Period size: 7 Copynumber: 8.0 Consensus size: 7
49341809 TACATATTTA
49341819 AATTTTT
1 AATTTTT
*
49341826 TATTTTT
1 AATTTTT
*
49341833 TATTTTT
1 AATTTTT
*
49341840 TATTTTT
1 AATTTTT
49341847 AAAATTTTT
1 --AATTTTT
49341856 AATTTTT
1 AATTTTT
49341863 AATTTTT
1 AATTTTT
49341870 AAATTTTT
1 -AATTTTT
49341878 TTTGAAGATT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
7 34 0.72
8 7 0.15
9 6 0.13
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
AATTTTT
Found at i:49342692 original size:21 final size:21
Alignment explanation
Indices: 49342649--49342713 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
49342639 CCTAACACTT
* *
49342649 AACCCCTAACCCTAAGCCTTA
1 AACCCCTAACCCTAAACCATA
49342670 AACCCC-AACCCTTAAACCATA
1 AACCCCTAACCC-TAAACCATA
*
49342691 AA-CCATAATCCCTAAACCCATA
1 AACCCCTAA-CCCTAAA-CCATA
49342713 A
1 A
49342714 TCCATAAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 7 0.19
21 21 0.57
22 9 0.24
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.17
Consensus pattern (21 bp):
AACCCCTAACCCTAAACCATA
Found at i:49342711 original size:15 final size:15
Alignment explanation
Indices: 49342676--49342723 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
49342666 CTTAAACCCC
* *
49342676 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
49342691 AA-CCATAATCCCTA
1 AACCCATAATCCATA
49342705 AACCCATAATCCATA
1 AACCCATAATCCATA
49342720 AACC
1 AACC
49342724 TTAAAACAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:49342728 original size:22 final size:22
Alignment explanation
Indices: 49342679--49342774 Score: 67
Period size: 22 Copynumber: 4.5 Consensus size: 22
49342669 AAACCCCAAC
* *
49342679 CCTTAAA-CCATAAACCATAAT
1 CCTTAAACCCATAATCCATAAA
*
49342700 CCCTAAACCCATAATCCATAAA
1 CCTTAAACCCATAATCCATAAA
* *
49342722 CCTTAAA-ACAGTAA-CTCATACA
1 CCTTAAACCCA-TAATC-CATAAA
*
49342744 CTTTAAACCC-TAAAT-CATAAA
1 CCTTAAACCCAT-AATCCATAAA
*
49342765 CCCTAAACCC
1 CCTTAAACCC
49342775 TAAACTATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
21 23 0.40
22 34 0.59
23 1 0.02
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (22 bp):
CCTTAAACCCATAATCCATAAA
Found at i:49342761 original size:21 final size:21
Alignment explanation
Indices: 49342676--49342778 Score: 73
Period size: 21 Copynumber: 4.8 Consensus size: 21
49342666 CTTAAACCCC
* *
49342676 AACCCTTAAACCATAAACCATA
1 AACCC-TAAACCCTAAATCATA
*
49342698 ATCCCTAAACCC-ATAATCCATA
1 AACCCTAAACCCTA-AAT-CATA
* ** *
49342720 AACCTTAAAACAGTAACTCATA
1 AACCCT-AAACCCTAAATCATA
* **
49342742 CACTTTAAACCCTAAATCATA
1 AACCCTAAACCCTAAATCATA
49342763 AACCCTAAACCCTAAA
1 AACCCTAAACCCTAAA
49342779 CTATAATGAT
Statistics
Matches: 61, Mismatches: 16, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.54
22 20 0.33
23 6 0.10
24 1 0.02
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (21 bp):
AACCCTAAACCCTAAATCATA
Found at i:49342778 original size:14 final size:14
Alignment explanation
Indices: 49342676--49342779 Score: 57
Period size: 14 Copynumber: 7.2 Consensus size: 14
49342666 CTTAAACCCC
49342676 AACCCTTAAACCATA
1 AACCC-TAAACCATA
* * *
49342691 AACCATAATCCCTA
1 AACCCTAAACCATA
*
49342705 AACCCATAATCCATA
1 AACCC-TAAACCATA
* *
49342720 AACCTTAAAACAGT-
1 AACCCTAAACCA-TA
* * **
49342734 AACTCATACACTTTA
1 AAC-CCTAAACCATA
*
49342749 AACCCTAAATCATA
1 AACCCTAAACCATA
*
49342763 AACCCTAAACCCTA
1 AACCCTAAACCATA
49342777 AAC
1 AAC
49342780 TATAATGATA
Statistics
Matches: 65, Mismatches: 20, Indels: 9
0.69 0.21 0.10
Matches are distributed among these distances:
14 41 0.63
15 24 0.37
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (14 bp):
AACCCTAAACCATA
Found at i:49342889 original size:7 final size:7
Alignment explanation
Indices: 49342877--49342974 Score: 67
Period size: 7 Copynumber: 13.9 Consensus size: 7
49342867 ATTAATTAAT
49342877 CTAAACC
1 CTAAACC
*
49342884 CTAAACT
1 CTAAACC
*
49342891 C-ATAATC
1 CTA-AACC
49342898 CTAAACC
1 CTAAACC
49342905 CTAAACC
1 CTAAACC
* *
49342912 ATAAATC
1 CTAAACC
*
49342919 CTAAAAC
1 CTAAACC
*
49342926 ATAAACC
1 CTAAACC
* *
49342933 TTGAACC
1 CTAAACC
49342940 CTAAACC
1 CTAAACC
49342947 ACT-AACC
1 -CTAAACC
49342954 CTTAAACC
1 C-TAAACC
49342962 CT-AACAC
1 CTAAAC-C
49342969 CTAAAC
1 CTAAAC
49342975 GTAAAACCCC
Statistics
Matches: 70, Mismatches: 14, Indels: 13
0.72 0.14 0.13
Matches are distributed among these distances:
6 5 0.07
7 54 0.77
8 11 0.16
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:49342903 original size:21 final size:20
Alignment explanation
Indices: 49342873--49342951 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 20
49342863 AAACATTAAT
49342873 TAAT-CTAAACCCTAAACTCA
1 TAATCCTAAACCCTAAAC-CA
49342893 TAATCCTAAACCCTAAACCA
1 TAATCCTAAACCCTAAACCA
* * *
49342913 TAAATCCTAAAACATAAACCT
1 T-AATCCTAAACCCTAAACCA
*
49342934 TGAACCCTAAACCACTAA
1 T-AATCCTAAACC-CTAA
49342952 CCCTTAAACC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
20 7 0.14
21 39 0.80
22 3 0.06
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (20 bp):
TAATCCTAAACCCTAAACCA
Found at i:49343024 original size:15 final size:15
Alignment explanation
Indices: 49343002--49343035 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
49342992 AAACCACCCT
*
49343002 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
49343016 TAAACCCATAATCCA
1 TAAACCCATAATCCA
49343031 TAAAC
1 TAAAC
49343036 ATTAAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:49343087 original size:313 final size:307
Alignment explanation
Indices: 49342470--49343180 Score: 959
Period size: 313 Copynumber: 2.3 Consensus size: 307
49342460 TTACATAATT
* * * *
49342470 TAAACTATAATCATAATT--TT-AATATATTAAAATTAATATTATCTCTTTTACAATTATATAAT
1 TAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACAATTATATAAG
* * * * *
49342532 AAATTATTTAAT-ATATAAATTACAAAACATTAATTAATCTAAGCCTTAAACTCCTAACCCCTAC
66 AAAATATTT-ATCATATAAATTA-AAAACATTAATTAATCTAAACCCTAAACTCATAACCCCTAA
* * * *
49342596 CCCTAAACCCTAAATCATAAACATAATCTCTAAACCTTAAAAACCTAACACTTAACCCCTAACCC
129 CCCTAAACCATAAATCATAAACATAACCTCTAAACCCTAAAAACCTAACACTTAAACCCTAACCC
* * *
49342661 TAAGCCTTAAACCCCAACCCTTAAACCATAAACCATAATCCCTAAACCCATAATCCATAAACCTT
194 TAAACCTAAAACCCCAACCCTTAAACCATAAACCATAATCCCTAAACCCATAATCCATAAACATT
* * *
49342726 AAAACAGTAACTCATACACTTTAAACCCTAAATCATAAACCCTAAACCC
259 AAAACAGTAACTCATAAACATTAAACCCTAAACCATAAACCCTAAACCC
*
49342775 TAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTATAATTATATAAG
1 TAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACAATTATATAAG
*
49342840 AAAATATTTATCATATAAATTAAAAACATTAATTAATCTAAACCCTAAACTCATAA-TCCTAAAC
66 AAAATATTTATCATATAAATTAAAAACATTAATTAATCTAAACCCTAAACTCATAACCCCT-AAC
* * * *
49342904 CCTAAACCATAAATCCTAAAACATAAACCT-TGAACCCT-AAACCACTAACCCTTAAACCCTAAC
130 CCTAAACCATAAATCAT-AAACAT-AACCTCTAAACCCTAAAAAC-CTAACACTTAAACCCTAAC
*
49342967 ACCTAAACGTAAAACCCCAACCCTTAAACCACCCTTAAACCATAATCCCTAAACCCATAATCCAT
192 -CCTAAACCTAAAACCCCAACCCTTAAACCA----TAAACCATAATCCCTAAACCCATAATCCAT
* * * * **
49343032 AAACATTAAAATAGTAACTCATAAAGATTAAACCCTTAACCATATACTGTAAACCC
252 AAACATTAAAACAGTAACTCATAAACATTAAACCCTAAACCATAAACCCTAAACCC
* *
49343088 TAAACTATAATGATAATTAACTCAATATTTTAAAATTAATACTATCTCTTTTACAATTCTATAAG
1 TAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACAATTATATAAG
*
49343153 AAAATATTTAACATATAAATTAAAAACA
66 AAAATATTTATCATATAAATTAAAAACA
49343181 ATTAGTCATA
Statistics
Matches: 357, Mismatches: 36, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
305 17 0.05
306 3 0.01
307 56 0.16
308 85 0.24
309 31 0.09
313 165 0.46
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.30
Consensus pattern (307 bp):
TAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACAATTATATAAG
AAAATATTTATCATATAAATTAAAAACATTAATTAATCTAAACCCTAAACTCATAACCCCTAACC
CTAAACCATAAATCATAAACATAACCTCTAAACCCTAAAAACCTAACACTTAAACCCTAACCCTA
AACCTAAAACCCCAACCCTTAAACCATAAACCATAATCCCTAAACCCATAATCCATAAACATTAA
AACAGTAACTCATAAACATTAAACCCTAAACCATAAACCCTAAACCC
Found at i:49343722 original size:40 final size:39
Alignment explanation
Indices: 49343645--49343733 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 39
49343635 GTACATATAG
*
49343645 CGGCGTTTTTAAAAAAGTGCCACTAATACTTGATCTTTAA
1 CGGC-TTTTTAAAAAAGTGCCACTAATACTTCATCTTTAA
* * * *
49343685 CGGCATTTTTTAAAAAGTGCCGCTAATGC-TCATTCTTTAG
1 CGGC-TTTTTAAAAAAGTGCCACTAATACTTCA-TCTTTAA
49343725 CGGCTTTTT
1 CGGCTTTTT
49343734 CATTAAAACG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 7 0.17
40 35 0.83
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (39 bp):
CGGCTTTTTAAAAAAGTGCCACTAATACTTCATCTTTAA
Found at i:49346141 original size:55 final size:53
Alignment explanation
Indices: 49346054--49346308 Score: 243
Period size: 55 Copynumber: 4.8 Consensus size: 53
49346044 ATTAGGGTTT
*
49346054 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAACGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * * *
49346109 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * * *
49346164 AAAGG-TCCCATGTAAGACCGTGCCAAGGCATGGCATTGGTGAG-TTCATAAGTC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* *
49346217 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
** * * * *
49346266 AAGGATACCACATAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
49346309 GTACCCACGT
Statistics
Matches: 167, Mismatches: 27, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
49 38 0.23
52 7 0.04
53 40 0.24
54 11 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:49346260 original size:108 final size:110
Alignment explanation
Indices: 49346061--49346261 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
49346051 TTTAAGGATA
*
49346061 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAACGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAACGTTTCTAAGGCAAGGAAACCATGTAAGA
*
49346126 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
49346171 CCATGTAAGACCGTGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGTCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAACGTTTC-TAAGGCAAGGAAACCATGTAAG
*
49346233 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
49346262 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAACGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:49346403 original size:23 final size:24
Alignment explanation
Indices: 49346377--49346424 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
49346367 AAGGTAAGGT
*
49346377 AAGGTAAGACGAGTT-ATACTAAA
1 AAGGTAAGACAAGTTGATACTAAA
*
49346400 AAGGTAAGACAAGTTGATGCTAAA
1 AAGGTAAGACAAGTTGATACTAAA
49346424 A
1 A
49346425 GAGCAAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.21
Consensus pattern (24 bp):
AAGGTAAGACAAGTTGATACTAAA
Found at i:49352315 original size:27 final size:28
Alignment explanation
Indices: 49352258--49352327 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
49352248 AAATTTGTAC
**
49352258 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
49352286 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
49352313 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49352328 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:49352336 original size:27 final size:27
Alignment explanation
Indices: 49352258--49352339 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
49352248 AAATTTGTAC
* *
49352258 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
49352286 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
49352313 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
49352340 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:49360390 original size:27 final size:28
Alignment explanation
Indices: 49360333--49360402 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
49360323 AAATTTGTAC
**
49360333 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
49360361 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
49360388 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49360403 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:49360411 original size:27 final size:27
Alignment explanation
Indices: 49360333--49360414 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
49360323 AAATTTGTAC
* *
49360333 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
49360361 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
49360388 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
49360415 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:49363067 original size:23 final size:23
Alignment explanation
Indices: 49363041--49363088 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
49363031 CAATCATAAA
49363041 AATAAAAACAATTTAGTTACACG
1 AATAAAAACAATTTAGTTACACG
*
49363064 AATAAAAATAATTTAGTTACACG
1 AATAAAAACAATTTAGTTACACG
49363087 AA
1 AA
49363089 CTTACCTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.27
Consensus pattern (23 bp):
AATAAAAACAATTTAGTTACACG
Found at i:49366411 original size:29 final size:29
Alignment explanation
Indices: 49366378--49366480 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
49366368 GTGACGAGAT
49366378 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49366407 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
49366436 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
49366465 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
49366481 AGTTCGGAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49369507 original size:12 final size:12
Alignment explanation
Indices: 49369490--49369514 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49369480 TATGTATGTT
49369490 TGAAAATTTTTA
1 TGAAAATTTTTA
49369502 TGAAAATTTTTA
1 TGAAAATTTTTA
49369514 T
1 T
49369515 TATTTGCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:49371566 original size:25 final size:25
Alignment explanation
Indices: 49371537--49371584 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
49371527 TTATAATATG
* *
49371537 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
49371562 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
49371585 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:49371743 original size:25 final size:25
Alignment explanation
Indices: 49371715--49371809 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
49371705 GAGGAAGTGC
* *
49371715 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
49371740 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* * *
49371765 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
49371790 AAAAGGGATTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
49371810 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:49372066 original size:31 final size:31
Alignment explanation
Indices: 49372031--49372140 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
49372021 CGTTTGCAGT
49372031 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
49372062 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
49372093 AAAGGCTTCGGCCCAGTGACATGGATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
49372124 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
49372141 ATCTGCTGAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:49378557 original size:40 final size:40
Alignment explanation
Indices: 49378502--49378722 Score: 336
Period size: 40 Copynumber: 5.5 Consensus size: 40
49378492 TATTCGGATG
49378502 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
49378542 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
49378582 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
49378622 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
49378662 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
49378702 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
49378723 ATACTTGGGT
Statistics
Matches: 167, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 12 0.07
40 155 0.93
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Done.