Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 63 of 320
Found at i:18968329 original size:27 final size:28
Alignment explanation
Indices: 18968299--18968352 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
18968289 ATTGTTAAAA
18968299 TTCTTCCAAAA-GAAAACTC-AAGAGAAC
1 TTCTT-CAAAAGGAAAACTCAAAGAGAAC
*
18968326 TTCTTGAAAAGGAAAACTCAAAGAGAA
1 TTCTTCAAAAGGAAAACTCAAAGAGAA
18968353 TTTATTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 13 0.54
28 7 0.29
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.19
Consensus pattern (28 bp):
TTCTTCAAAAGGAAAACTCAAAGAGAAC
Found at i:18970639 original size:20 final size:20
Alignment explanation
Indices: 18970595--18970633 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18970585 TATAGGATTA
*
18970595 CACTTCGGTGCTTCCGTTTG
1 CACTTCAGTGCTTCCGTTTG
*
18970615 CACTTCAGTGCTTCTGTTT
1 CACTTCAGTGCTTCCGTTT
18970634 AGACTTTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.28, G:0.21, T:0.44
Consensus pattern (20 bp):
CACTTCAGTGCTTCCGTTTG
Found at i:18971342 original size:100 final size:100
Alignment explanation
Indices: 18971152--18971344 Score: 280
Period size: 101 Copynumber: 1.9 Consensus size: 100
18971142 TAACGAGACA
* * * * *
18971152 GATTGATTAGAAGCTTACACTATTCAGCCATTTTGGTAGTTTTCATATATTTTTTTTGGGTTGTG
1 GATTGACTAGAAGCTCACACTATCCAGCAATTTTGGTAGTTTT-ATATATTTTTTTTGGGATGTG
*
18971217 GCATGTATATAGCTGTTTTGTTGTAAATGTGTGATG
65 GCATGTATATAGCTGTTTTATTGTAAATGTGTGATG
* *
18971253 GATTGACTAGAAGCTCACACTATCCAGTAATTTTGGTAGTTTT-TGTATTTTGTTTTGGGATGTG
1 GATTGACTAGAAGCTCACACTATCCAGCAATTTTGGTAGTTTTATATATTTT-TTTTGGGATGTG
*
18971317 GCATGTATATAGGTGTTTTATTGTAAAT
65 GCATGTATATAGCTGTTTTATTGTAAAT
18971345 ATGGAAATGT
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
99 7 0.09
100 37 0.45
101 38 0.46
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.46
Consensus pattern (100 bp):
GATTGACTAGAAGCTCACACTATCCAGCAATTTTGGTAGTTTTATATATTTTTTTTGGGATGTGG
CATGTATATAGCTGTTTTATTGTAAATGTGTGATG
Found at i:18975590 original size:46 final size:47
Alignment explanation
Indices: 18975508--18975619 Score: 154
Period size: 46 Copynumber: 2.4 Consensus size: 47
18975498 ATAAGTACCT
* *
18975508 CCATAGCCAAATCAAGGTAACTTATCCCAGAGTACCTATACCATGGC
1 CCATAGCCAAATCAAGGTAACTCATCCCAGAATACCTATACCATGGC
* * ***
18975555 CCGT-GCCAAATCAAGGTAACTCCTCTTTGAATACCTATACCATGGC
1 CCATAGCCAAATCAAGGTAACTCATCCCAGAATACCTATACCATGGC
18975601 CCATAGCCAAATCAAGGTA
1 CCATAGCCAAATCAAGGTA
18975620 TTATTCACAC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 39 0.70
47 17 0.30
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.22
Consensus pattern (47 bp):
CCATAGCCAAATCAAGGTAACTCATCCCAGAATACCTATACCATGGC
Found at i:18978533 original size:40 final size:40
Alignment explanation
Indices: 18978478--18978558 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
18978468 GTGCTTTACC
18978478 TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
1 TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
18978518 TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
1 TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
18978558 T
1 T
18978559 GTAAAGCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.30, T:0.21
Consensus pattern (40 bp):
TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
Found at i:18993742 original size:131 final size:129
Alignment explanation
Indices: 18993393--18993759 Score: 377
Period size: 131 Copynumber: 2.8 Consensus size: 129
18993383 ACCTAAAGGA
** *** * * *
18993393 ATATTCGATTA-TTTGAGCAAACAAG-AATCACAACCCAGCACGATAGGGCATGATTCC-CGAAT
1 ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
* * * * * *
18993455 TATCAAAAGCCAAATATTG-CTTCGTTTTAAGTAATTTTTAGAAGATATGAACGAAATCTTGAAG
66 TACCAAAA-TCAAATCTTGTCTTCGTTTGAAG-AA-TTTTAAAAGACATGAACGAAATCTTGAAG
*
18993519 GG
128 CG
* * * * *
18993521 ATACTCGATTCTTCTGAGCAAATGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGTGAAT
1 ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
* * * * *
18993586 TACTAAATATCGAATGC-CGTGTTCGTTTGGAAGAATTTTAAAAGACATGAATGAAAT-TTCGAA
66 TACCAAA-ATCAAAT-CTTGTCTTCGTTT-GAAGAATTTTAAAAGACATGAACGAAATCTT-GAA
18993649 GCG
127 GCG
18993652 ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
1 ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
* *
18993717 TGCCAAACATCAAATCTTGTCTTCGTTTGAAGAATTTTTAAAG
66 TACCAAA-ATCAAATCTTGTCTTCGTTTGAAGAATTTTAAAAG
18993760 GAATACTTAT
Statistics
Matches: 193, Mismatches: 37, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
128 9 0.05
129 10 0.05
130 43 0.22
131 118 0.61
132 10 0.05
133 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (129 bp):
ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
TACCAAAATCAAATCTTGTCTTCGTTTGAAGAATTTTAAAAGACATGAACGAAATCTTGAAGCG
Found at i:18998679 original size:43 final size:43
Alignment explanation
Indices: 18998612--18998733 Score: 192
Period size: 43 Copynumber: 2.9 Consensus size: 43
18998602 TCTGAATTCG
* * *
18998612 TTCACCGGCATT-TCGCCAGCTAGGCTCGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
* *
18998654 TTCACCGACATTATAGCCTGCTAGGCTCGAGGCCCAATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
18998697 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGA
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGA
18998734 ATGGTACCAT
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 11 0.15
43 61 0.85
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.25
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
Found at i:19003974 original size:16 final size:14
Alignment explanation
Indices: 19003939--19003969 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19003929 ACTAAGAAGA
*
19003939 TAAATATAAATACT
1 TAAAAATAAATACT
19003953 TAAAAATAAATACT
1 TAAAAATAAATACT
19003967 TAA
1 TAA
19003970 GAAAAGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAAATAAATACT
Found at i:19009442 original size:27 final size:27
Alignment explanation
Indices: 19009380--19009445 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
19009370 AATATTTTAG
* *
19009380 TTTACCAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACTCAAATACCCTCGA
* **
19009407 CTTGTAAAATTAC-CAAAGTACCCTCGA
1 TTTACAAAATTACTCAAA-TACCCTCGA
19009434 TTTACAAAATTA
1 TTTACAAAATTA
19009446 TCGTTTTACC
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
TTTACAAAATTACTCAAATACCCTCGA
Found at i:19009455 original size:27 final size:26
Alignment explanation
Indices: 19009398--19009591 Score: 154
Period size: 27 Copynumber: 7.2 Consensus size: 26
19009388 ATTACTGAAA
* * ***
19009398 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTATAAAATTA-CATTT
* *
19009425 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTATAAAATTA-CATTT
** *
19009452 TACCCTTAATTTACAAAATTACTATTT
1 TACCCTCGATTTATAAAATTAC-ATTT
* * *
19009479 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTA-CATTT
* *
19009506 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAAAATTAC-ATTT
* *
19009533 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTA-CATTT
* *
19009560 TACCTTCGATTTAAAAAATTACCATTT
1 TACCCTCGATTTATAAAATTA-CATTT
19009587 TACCC
1 TACCC
19009592 CTAGGGTGTT
Statistics
Matches: 138, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
26 2 0.01
27 134 0.97
28 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (26 bp):
TACCCTCGATTTATAAAATTACATTT
Found at i:19009470 original size:54 final size:54
Alignment explanation
Indices: 19009425--19009591 Score: 228
Period size: 54 Copynumber: 3.1 Consensus size: 54
19009415 ATTACCAAAG
* * * * *
19009425 TACCCTCGATTTACAAAATTATCGTTTTACCCTTAATTTACAAAATTACTATTT
1 TACCCTCGATTTATAGAATTATCGTTTTACCCTTGATTTAAAAAATTACCATTT
* * * *
19009479 TACCCTCAATTTATAGAATTATCGTTTTACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTATCGTTTTACCCTTGATTTAAAAAATTACCATTT
*
19009533 TACCCTCGATTTATAGAATTACCGTTTTA-CCTTCGATTTAAAAAATTACCATTT
1 TACCCTCGATTTATAGAATTATCGTTTTACCCTT-GATTTAAAAAATTACCATTT
19009587 TACCC
1 TACCC
19009592 CTAGGGTGTT
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
53 4 0.04
54 97 0.96
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTATCGTTTTACCCTTGATTTAAAAAATTACCATTT
Found at i:19009916 original size:67 final size:67
Alignment explanation
Indices: 19009808--19009983 Score: 289
Period size: 67 Copynumber: 2.6 Consensus size: 67
19009798 GAGGAAGCGT
* *
19009808 TCTGGCAGCCTCACTGCAATTTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAACCTCGCTGCAATTTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
19009873 TA
66 TA
* *
19009875 TCTGGTAACCTCGCTGCAATTTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAACCTCGCTGCAATTTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
19009940 TA
66 TA
* * *
19009942 TCTGGCAGCCTCGCTGCAATCTGCTGGCTTCGCCACATATAT
1 TCTGGCAACCTCGCTGCAATTTGGTGGCTTCGCCACATATAT
19009984 ATATCTGTTC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 100 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (67 bp):
TCTGGCAACCTCGCTGCAATTTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:19010199 original size:6 final size:6
Alignment explanation
Indices: 19010162--19010280 Score: 57
Period size: 6 Copynumber: 19.3 Consensus size: 6
19010152 TTGCATTCAC
* * * *
19010162 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
19010211 -TCACCTA ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTA ATTCTC
1 AT--TCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
19010261 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
19010281 AATGTTTCTT
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
5 5 0.06
6 67 0.80
7 9 0.11
8 3 0.04
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:19010221 original size:25 final size:25
Alignment explanation
Indices: 19010193--19010259 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
19010183 CCTGATACTG
19010193 ATTCTGATTCTAATTCTGTCACCTA
1 ATTCTGATTCTAATTCTGTCACCTA
* *
19010218 ATTCTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTAATTCTGTCACCTA
19010243 ATTCTGATTCTAATTCT
1 ATTCTGATTCTAATTCT
19010260 CATTTTGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.21, C:0.22, G:0.10, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTAATTCTGTCACCTA
Found at i:19010253 original size:31 final size:30
Alignment explanation
Indices: 19010162--19010259 Score: 98
Period size: 31 Copynumber: 3.4 Consensus size: 30
19010152 TTGCATTCAC
* *
19010162 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTAATTCTGATTCTGTCACCTGAT-CTG
* *
19010193 ATTCTGATTCTAATTCTGTCACCT-A----
1 ATTCTAATTCTGATTCTGTCACCTGATCTG
*
19010218 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTAATTCTGATTCTGTCACCTGA-TCTG
19010249 ATTCTAATTCT
1 ATTCTAATTCT
19010260 CATTTTGATT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
25 23 0.42
26 1 0.02
30 1 0.02
31 30 0.55
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.47
Consensus pattern (30 bp):
ATTCTAATTCTGATTCTGTCACCTGATCTG
Found at i:19016707 original size:27 final size:27
Alignment explanation
Indices: 19016650--19016897 Score: 289
Period size: 27 Copynumber: 9.2 Consensus size: 27
19016640 ATTACTGAAA
* * ***
19016650 TACCCTCGACTTATAAAATTACCAAAG
1 TACCCTCGATTTATAGAATTACCATTT
* * *
19016677 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
19016704 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
19016731 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * **
19016758 TACCCTCAATTTATAAAATTATTATTT
1 TACCCTCGATTTATAGAATTACCATTT
19016785 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
19016812 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * **
19016839 TACCCTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
19016866 TACCCTCTATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
19016893 TACCC
1 TACCC
19016898 CTAGGGTGTT
Statistics
Matches: 188, Mismatches: 33, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 188 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:19016767 original size:81 final size:81
Alignment explanation
Indices: 19016650--19016897 Score: 327
Period size: 81 Copynumber: 3.1 Consensus size: 81
19016640 ATTACTGAAA
* ***
19016650 TACCCTCGACTTATAAAATTACCAAAGTACCCTCAATTTATAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCGATT
* *
19016715 TACAGAATTACCGTTT
66 TATAGAATTACCATTT
* **
19016731 TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAAAATTATTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCGATT
19016796 TATAGAATTACCATTT
66 TATAGAATTACCATTT
* * * * * * *
19016812 TACCCTTGATTTATAGAATTACTATTTTACCCTCGACTTACAGAATTA-CTGTTTTACCCTCTAT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAGAATTATC-GTTTTACCCTCGAT
*
19016876 TTATAAAATTACCATTT
65 TTATAGAATTACCATTT
19016893 TACCC
1 TACCC
19016898 CTAGGGTGTT
Statistics
Matches: 146, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
81 146 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCGATT
TATAGAATTACCATTT
Found at i:19017177 original size:27 final size:26
Alignment explanation
Indices: 19017133--19017184 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
19017123 CTCGCTGCAA
*
19017133 TCTGGTGGCCTCACCACATATATCTGT
1 TCTGGTGACCTCACCACA-ATATCTGT
* *
19017160 TCTGGTGACTTCATCACAATATCTG
1 TCTGGTGACCTCACCACAATATCTG
19017185 GTAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCACCACAATATCTGT
Found at i:19017230 original size:67 final size:67
Alignment explanation
Indices: 19017116--19017289 Score: 285
Period size: 67 Copynumber: 2.6 Consensus size: 67
19017106 GGAAGCGTTT
* * *
19017116 TGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTGTTCTGGTGACTTCATCACAATA
1 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTATTCTGGTGACTTCATCACAATA
19017181 TC
66 TC
* * * *
19017183 TGGTAGCCTTGCTGCAATCTGGTGGCTTCGCCAGATATATCTATTCTGGTGACTTCGTCACAATA
1 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTATTCTGGTGACTTCATCACAATA
19017248 TC
66 TC
19017250 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATAT
1 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATAT
19017290 ATATATGTTC
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 97 1.00
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.31
Consensus pattern (67 bp):
TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTATTCTGGTGACTTCATCACAATA
TC
Found at i:19017531 original size:25 final size:25
Alignment explanation
Indices: 19017499--19017565 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
19017489 CCTAATACTG
*
19017499 ATTCTGATTCTAATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
* *
19017524 ATTTTGATTCTGATTTTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
19017549 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
19017566 CATTTTGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:19017572 original size:31 final size:30
Alignment explanation
Indices: 19017468--19017565 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 30
19017458 TTGCTTTCAC
* *
19017468 ATTCTGATTTTGATTCTGTTACCTAATACTG
1 ATTCTGATTCTGATTCTGTCACCTAAT-CTG
*
19017499 ATTCTGATTCTAATTCTGTCACCTAA--T-
1 ATTCTGATTCTGATTCTGTCACCTAATCTG
*
19017526 -TT-TGATTCTGATTTTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAA-TCTG
19017555 ATTCTGATTCT
1 ATTCTGATTCT
19017566 CATTTTGATT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 20 0.36
26 2 0.04
28 2 0.04
30 2 0.04
31 30 0.54
ACGTcount: A:0.21, C:0.18, G:0.11, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTCACCTAATCTG
Found at i:19023375 original size:47 final size:47
Alignment explanation
Indices: 19023324--19023483 Score: 151
Period size: 47 Copynumber: 3.3 Consensus size: 47
19023314 AAAGATACCC
19023324 TGTAAGACCATGTTTGAAACATGGCATTTGGTAAGATAAGGATATCA
1 TGTAAGACCATGTTTGAAACATGGCATTTGGTAAGATAAGGATATCA
** * * ** * *
19023371 TGTAAGACCATGCCAATGCATGACATTG-ATAAGTTCTATAAGACAAGGATACCA
1 TGTAAGACCATG--TTTG-A-AACATGGCAT---TT-GGTAAGATAAGGATATCA
* *
19023425 TGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCG
1 TGTAAGACCATGTTTGAAACATGGCATTTGGTAAGATAAGGATATCA
19023472 TGTAAGACCATG
1 TGTAAGACCATG
19023484 CCAAGACATG
Statistics
Matches: 86, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
47 37 0.43
48 2 0.02
49 2 0.02
50 8 0.09
51 7 0.08
52 2 0.02
53 2 0.02
54 26 0.30
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (47 bp):
TGTAAGACCATGTTTGAAACATGGCATTTGGTAAGATAAGGATATCA
Found at i:19023432 original size:101 final size:106
Alignment explanation
Indices: 19023308--19023762 Score: 458
Period size: 108 Copynumber: 4.4 Consensus size: 106
19023298 GCATTGGCAC
* * * * *
19023308 TAAGACAAAGATACCCTGTAAGACCATGTTTGAA-ACATGGCATT-TG-G-TAAGATAAGG-ATA
1 TAAGGCAAGGATACCATGTAAGACCATG-TTCAAGACATGGCATTATGAGTTAAGATAAGGAAAA
* *
19023368 -T-CATGTAAGACCATGCCAATGCATGACATTGATAAGTTCTA
65 GTCCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC-A
* ** *
19023409 TAAGACAAGGATACCATGTAAGACCATGTT-TGGAACATGGCATT-TG-G-TAAGATAAGG-ATA
1 TAAGGCAAGGATACCATGTAAGACCATGTTCAAG-ACATGGCATTATGAGTTAAGATAAGGAAAA
* * *
19023469 -T-CGTGTAAGACCATGCCAAGACATGGTATTGATAAGTTCTA
65 GTCCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC-A
* * * **
19023510 TTAGGCAAGGAAATCATGTAAGACCATG-TCAAGACATGGCATTGATGAGTTACTATAAGGAAAA
1 TAAGGCAAGGATACCATGTAAGACCATGTTCAAGACATGGCATT-ATGAGTTAAGATAAGGAAAA
* *
19023574 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
65 -GT-CCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCA
* **
19023618 TAAGGCAAGGATACCATGTAAGACCATG-TCAAGACATGACATTGATGAGTTACTATAAGGAAAA
1 TAAGGCAAGGATACCATGTAAGACCATGTTCAAGACATGGCATT-ATGAGTTAAGATAAGGAAAA
* *
19023682 GGTTCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
65 -G-TCCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCA
*
19023726 TAAGGCAAGGATACCACGTAAGACCATG-TCAAGACAT
1 TAAGGCAAGGATACCATGTAAGACCATGTTCAAGACAT
19023763 AGCAATGGTA
Statistics
Matches: 313, Mismatches: 28, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
100 13 0.04
101 113 0.36
102 2 0.01
103 1 0.00
104 8 0.03
105 2 0.01
107 1 0.00
108 139 0.44
109 34 0.11
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (106 bp):
TAAGGCAAGGATACCATGTAAGACCATGTTCAAGACATGGCATTATGAGTTAAGATAAGGAAAAG
TCCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCA
Found at i:19023662 original size:108 final size:108
Alignment explanation
Indices: 19023472--19023762 Score: 483
Period size: 108 Copynumber: 2.7 Consensus size: 108
19023462 AAGGATATCG
* * * * * * *
19023472 TGTAAGACCATGCCAAGACATGGTATTGATAAGTTCTATTAGGCAAGGAAATCATGTAAGACCAT
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCATGTAAGACCAT
*
19023537 GTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCA
65 GTCAAGACATGACATTGATGAGTTACTATAAGGAAAAGGTCCCA
19023581 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATG
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATG
*
19023646 TCAAGACATGACATTGATGAGTTACTATAAGGAAAAGGTTCCA
66 TCAAGACATGACATTGATGAGTTACTATAAGGAAAAGGTCCCA
*
19023689 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGTAAGACCATG
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATG
19023754 TCAAGACAT
66 TCAAGACAT
19023763 AGCAATGGTA
Statistics
Matches: 172, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
108 140 0.81
109 32 0.19
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (108 bp):
TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATG
TCAAGACATGACATTGATGAGTTACTATAAGGAAAAGGTCCCA
Found at i:19023778 original size:53 final size:54
Alignment explanation
Indices: 19023462--19023762 Score: 358
Period size: 55 Copynumber: 5.6 Consensus size: 54
19023452 TTGGTAAGAT
* * * * *
19023462 AAGGATATCGTGTAAGACCATGCCAAGACATGGTATTGATAAGTTCTATTAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
19023516 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-C
* * *
19023572 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
19023624 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-C
* * *
19023680 AAGG-TTCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
19023732 AAGGATACCACGTAAGACCATGTCAAGACAT
1 AAGGATACCATGTAAGACCATGCCAAGACAT
19023763 AGCAATGGTA
Statistics
Matches: 210, Mismatches: 30, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
52 8 0.04
53 69 0.33
54 43 0.20
55 82 0.39
56 8 0.04
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:19038626 original size:24 final size:21
Alignment explanation
Indices: 19038576--19038625 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
19038566 TTAAGCAGAA
*
19038576 GCTGCTGCAACCTTTTTTCTT
1 GCTGCTGCAACCTTCTTTCTT
19038597 GCTGCTGCAACCTTCTTTCTT
1 GCTGCTGCAACCTTCTTTCTT
19038618 GCTGCTGC
1 GCTGCTGC
19038626 TACAGTACCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.08, C:0.32, G:0.18, T:0.42
Consensus pattern (21 bp):
GCTGCTGCAACCTTCTTTCTT
Found at i:19038944 original size:23 final size:23
Alignment explanation
Indices: 19038913--19040105 Score: 861
Period size: 23 Copynumber: 52.1 Consensus size: 23
19038903 AAATAAGTAC
* *
19038913 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
19038936 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
19038959 TTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
19038983 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
19039005 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
19039027 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * * *
19039050 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
19039073 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
19039096 TTAAGA-ACTTCAATTTACAGCAT
1 TTAA-ACACTTCAATTTACAGCAT
* *
19039119 TTAAACATTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
19039143 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
19039165 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * * *
19039187 TAAAACA-TCTCAATGTCCGGCAA
1 TTAAACACT-TCAATTTACAGCAT
* ** * *
19039210 CTAAACACTTCAATTTTTAGTAC
1 TTAAACACTTCAATTTACAGCAT
* **
19039233 TTAAACACTTCAATTTGCAATAT
1 TTAAACACTTCAATTTACAGCAT
*
19039256 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
19039279 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* **
19039302 TCAAACACTTCAATTTGTAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
19039326 TT-AACACTTCAATTTATAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
19039348 TTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
19039372 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
19039394 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
19039416 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * * *
19039439 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* * *
19039462 TTAAACACTTTAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
19039485 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
19039508 TTAAACACTTCAATTTACGGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
19039531 TCAAATACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
19039554 TTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
19039578 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* * * **
19039600 TTATACACCTCAA-TTATAGCGC
1 TTAAACACTTCAATTTACAGCAT
* * * *
19039622 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
19039645 CTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
19039668 TTTAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
19039691 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
19039715 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
**
19039737 TTAAACACTTCAATTTGTAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
19039761 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
19039783 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
19039805 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * * *
19039828 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
19039851 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
19039874 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
19039897 TTAAACACTTCAATTTACAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
19039920 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
19039944 TT-AACACTTTAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
19039966 TAAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* * *
19039990 TT-AACATTTCAATTAACAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
19040012 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
*
19040034 -TAAGACA-TCTCAATTT-CTAGCAA
1 TTAA-ACACT-TCAATTTAC-AGCAT
* * * *
19040057 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
19040080 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
19040103 TTA
1 TTA
19040106 CTACTAATAT
Statistics
Matches: 914, Mismatches: 194, Indels: 124
0.74 0.16 0.10
Matches are distributed among these distances:
21 2 0.00
22 119 0.13
23 759 0.83
24 34 0.04
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (23 bp):
TTAAACACTTCAATTTACAGCAT
Found at i:19039172 original size:160 final size:160
Alignment explanation
Indices: 19038908--19039300 Score: 723
Period size: 160 Copynumber: 2.5 Consensus size: 160
19038898 ACCCAAAATA
19038908 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
1 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
19038973 TTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTC
66 TTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTC
19039038 AATGTCCAGCAACTAAACACTTCAATTTGC
131 AATGTCCAGCAACTAAACACTTCAATTTGC
* *
19039068 AGTACTTAAACACTTCAATTTGCAACATTTAAGAACTTCAATTTACAGCATTTAAACATTTCAAT
1 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
19039133 TTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTC
66 TTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTC
* **
19039198 AATGTCCGGCAACTAAACACTTCAATTTTT
131 AATGTCCAGCAACTAAACACTTCAATTTGC
*
19039228 AGTACTTAAACACTTCAATTTGCAATATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
1 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
*
19039293 TTACAGCA
66 TTGCAGCA
19039301 TTCAAACACT
Statistics
Matches: 224, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
160 224 1.00
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (160 bp):
AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
TTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTC
AATGTCCAGCAACTAAACACTTCAATTTGC
Found at i:19039291 original size:206 final size:207
Alignment explanation
Indices: 19039055--19040105 Score: 1077
Period size: 206 Copynumber: 5.1 Consensus size: 207
19039045 AGCAACTAAA
* * * * *
19039055 CACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGA-ACTTCAATTTACAGCAT
1 CACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTTAA-ACACTTCAATTTACAGCAT
* *
19039119 TTAAACATTTCAATTTGCAGCACTTT-AACA-TCTCAATTAACAACA-TTTATACACCTCAATT-
65 TTAAACACTTCAATTTACAGCA-TTTAAACACT-TCAATTAACAACACTTTA-ACACCTCAATTA
* * * * * ** *
19039180 ACAGCGA-TAAAACATCTCAATGTCCGGCAACT-AAACA-CTTCAATTTTTAG-TACTTAAACAC
127 ACAAC-ATTAAAACACCTCAAT-TACAGCAACTAAAACATC-TCAATGTCCAGCAAC-TAAACAC
*
19039241 TTCAATTTGCAATATTTAAG
188 TTCAATTTGCAACATTTAAG
* **
19039261 CACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGTAGCACT
1 CACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA-T
* ** * *
19039326 TT-AACACTTCAATTTATAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACA
65 TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTAACAACACTTTAACACCTCAATTAACA
* * *
19039390 ACATTTATACACCTCAATTACAGCGA-TAAAACATCTCAATGTCCAGCAACTAAACACTTCAATT
130 ACATTAAAACACCTCAATTACAGCAACTAAAACATCTCAATGTCCAGCAACTAAACACTTCAATT
** * *
19039454 TGCAGTACTTAAA
195 TGCAACATTTAAG
* * * *
19039467 CACTTTAATTTGCAACATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACGGCATT
1 CACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATT
* * ** * *
19039532 CAAATACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAA
66 TAAACACTTCAATTTACAGCATTTAAACACTTCAATTAACAACACTTTAACACCTCAATTAACAA
* * * *
19039597 CATTTATACACCTCAATTATAGC-GCTAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTT
131 CATTAAAACACCTCAATTACAGCAACTAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTT
*
19039661 GCAACATTTTAG
196 GCAACATTTAAG
* *
19039673 CACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAGCAT
1 CACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA-TTTAAACACTTCAATTTACAGCAT
**
19039737 TTAAACACTTCAATTTGTAGCACTTT-AACA-TCTCAATTAACAACA-TTTATACACCTCAATT-
65 TTAAACACTTCAATTTACAGCA-TTTAAACACT-TCAATTAACAACACTTTA-ACACCTCAATTA
* * * * * *
19039798 ACAGCGA-TAAAACATCTCAATGTCCAGCAACT-AAACA-CTTCAATTTGCAG-TACTTAAACAC
127 ACAAC-ATTAAAACACCTCAAT-TACAGCAACTAAAACATC-TCAATGTCCAGCAAC-TAAACAC
19039859 TTCAATTTGCAACATTTAAG
188 TTCAATTTGCAACATTTAAG
* * *
19039879 CACTTCAATTTACAGCATTTAAACACTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACT
1 CACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA-T
* * ** * **
19039944 TT-AACACTTTAATTTACAGCATTAAAACACTTCAATTTGCAGCACTTTAACATTTCAATTAACA
65 TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTAACAACACTTTAACACCTCAATTAACA
* * * * * *
19040008 ACATTTATACACCTCAATTACAGCGA-TAAGACATCTCAATTTCTAGCAACTAAACACTTCAATT
130 ACATTAAAACACCTCAATTACAGCAACTAAAACATCTCAATGTCCAGCAACTAAACACTTCAATT
** * *
19040072 TGCAGTACTTAAA
195 TGCAACATTTAAG
* *
19040085 CACTTCAATTTGCAACATTTA
1 CACTTCAATTTACAGCATTTA
19040106 CTACTAATAT
Statistics
Matches: 713, Mismatches: 101, Indels: 62
0.81 0.12 0.07
Matches are distributed among these distances:
205 35 0.05
206 618 0.87
207 60 0.08
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (207 bp):
CACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATT
TAAACACTTCAATTTACAGCATTTAAACACTTCAATTAACAACACTTTAACACCTCAATTAACAA
CATTAAAACACCTCAATTACAGCAACTAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTT
GCAACATTTAAG
Found at i:19039354 original size:229 final size:228
Alignment explanation
Indices: 19039051--19039752 Score: 880
Period size: 229 Copynumber: 3.1 Consensus size: 228
19039041 GTCCAGCAAC
* * * *
19039051 TAAACACTTCAATTTGCAGTACTT-AAACACTTCAATTTGCAACATTTAAGAACTTCAATTTACA
1 TAAACACTTCAATTTACAGCA-TTCAAACACTTCAATTTGCAGCATTTAA-CACTTCAATTTACA
19039115 GCATTTAAACATTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATT
64 GCATTTAAACATTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATT
* **
19039180 ACAGCGATAAAACATCTCAATGTCCGGCAACTAAACACTTCAATTTTTAGTACTTAAACACTTCA
129 ACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCA
* *
19039245 ATTTGCAATATTTAAGCACTTCAATTTACAGCATT
194 ATTTGCAACATTTAAACACTTCAATTTACAGCATT
* *
19039280 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGTAGCACTTTAACACTTCAATTTATAG
1 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCA-TTTAACACTTCAATTTACAG
*
19039345 CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
65 CATTTAAACATTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
*
19039410 CAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTTAA
130 CAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAA
19039475 TTTGCAACATTTAAACACTTCAATTTACAGCATT
195 TTTGCAACATTTAAACACTTCAATTTACAGCATT
* * * *
19039509 TAAACACTTCAATTTACGGCATTCAAATACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCATTT-AACACTTCAATTTACAG
* ** * * * * ** * * *
19039574 CACTTT-AACATCTCAATTAACAACA-TTTATACACCTCAATT-ATAGCGCTAAAACATCTCAAT
65 CA-TTTAAACATTTCAATTTGCAGCACTTTA-ACATCTCAATTAACAACATTTATACACCTCAAT
* * * * * ** * * * *
19039636 GTCCAGCAACT-AAACA-CTTCAATTTGCAACATTTTAGCACTTCAATTTACAGCA-TTCAAACA
128 -TACAGCGA-TAAAACATC-TCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTT-AAACA
*
19039698 CTTCAATTTGCAGCACTTT-AACACTTCAATTTACAGCATT
189 CTTCAATTTGCAACA-TTTAAACACTTCAATTTACAGCATT
19039738 TAAACACTTCAATTT
1 TAAACACTTCAATTT
19039753 GTAGCACTTT
Statistics
Matches: 418, Mismatches: 45, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
228 26 0.06
229 380 0.91
230 12 0.03
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (228 bp):
TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCATTTAACACTTCAATTTACAGC
ATTTAAACATTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTAC
AGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAAT
TTGCAACATTTAAACACTTCAATTTACAGCATT
Found at i:19039450 original size:183 final size:182
Alignment explanation
Indices: 19038914--19039949 Score: 815
Period size: 183 Copynumber: 5.7 Consensus size: 182
19038904 AATAAGTACT
* *
19038914 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATTT-AACACTTCAATTTACAG
* * * * * **
19038979 CACTTT-AACA-TCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACATCTCAA
65 CA-TTTAAACACT-TCAATTTACAGCATTTAAACACTTCAATTTGCAGC-ACTTTAACATCTCAA
* * ** * * * * * * * * **
19039040 TGT-CCAGCAACTAAACACTTCAATTTGCAGTACTTAAACA-CTTCAATTTGCAACATT
127 T-TAACAACATTTATACACCTCAA-TTACAGCACTAAAACATC-TCAATGTCCAGCAAC
* * * * *
19039097 TAAGA-ACTTCAATTTACAGCATTTAAACATTTCAATTTGCAGCACTTTAACA-TCTCAATTAAC
1 TAA-ACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCA-TTTAACACT-TCAATTTAC
* * * * * * * *
19039160 AACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATGTCCGGCAAC-TAAACA-CTT
63 AGCATTTAAACACTTCAATTTACAGC-ATTTAAACACT-TCAATTTGCAGC-ACTTTAACATC-T
*** ** * * * * ** * * * * * **
19039220 CAATTTTTAGTACTTAAACACTTCAATTTGCAATATTTAAGCA-CTTCAATTTACAGCATT
124 CAATTAACAACATTTATACACCTCAA-TTACAGCACTAAAACATC-TCAATGTCCAGCAAC
* * * ** *
19039280 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGTAGCACTTTAACACTTCAATTTATAG
1 TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCA-TTTAACACTTCAATTTACAG
* ** * *
19039345 CATTTAAACACTTCAATTTGCAGCACTTT-AACA-TCTCAATTAACAACA-TTTATACACCTCAA
65 CATTTAAACACTTCAATTTACAGCA-TTTAAACACT-TCAATTTGCAGCACTTTA-ACATCTCAA
* * * * * * * *
19039407 TT-ACAGCGA-TAAAACATCTCAATGTCCAGCAACT-AAACA-CTTCAATTTGCAG-TAC
127 TTAACAAC-ATTTATACACCTCAAT-TACAGC-ACTAAAACATC-TCAATGTCCAGCAAC
* *
19039462 TTAAACACTTTAATTTGCAACATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACG
1 -TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATTT-AACACTTCAATTTACA
* *
19039527 GCATTCAAATACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATT
64 GCATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATT
* *
19039592 AACAACATTTATACACCTCAATTATAGCGCTAAAACATCTCAATGTCCAGCAAC
129 AACAACATTTATACACCTCAATTACAGCACTAAAACATCTCAATGTCCAGCAAC
* * * *
19039646 TAAACACTTCAATTTGCAACATTTTAGCACTTCAATTTACAGCATTCAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATT-TAACACTTCAATTTACAG
*
19039711 CACTTT-AACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCACTTTAACATCTCAATT
65 CA-TTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATT
19039775 AACAACATTTATACACCTCAATTACAGCGA-TAAAACATCTCAATGTCCAGCAAC
129 AACAACATTTATACACCTCAATTACAGC-ACTAAAACATCTCAATGTCCAGCAAC
** * * *
19039829 TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAG
1 TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATTTAA-CACTTCAATTTACAG
* *
19039894 CATTTAAACACTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTTAACA
65 CATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACA
19039950 CTTTAATTTA
Statistics
Matches: 707, Mismatches: 109, Indels: 74
0.79 0.12 0.08
Matches are distributed among these distances:
182 35 0.05
183 609 0.86
184 61 0.09
185 2 0.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (182 bp):
TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATTTAACACTTCAATTTACAGC
ATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAA
CAACATTTATACACCTCAATTACAGCACTAAAACATCTCAATGTCCAGCAAC
Found at i:19039885 original size:229 final size:228
Alignment explanation
Indices: 19039440--19040105 Score: 819
Period size: 229 Copynumber: 2.9 Consensus size: 228
19039430 GTCCAGCAAC
* * * *
19039440 TAAACACTTCAATTTGCAGTACTT-AAACACTTTAATTTGCAACA-TTTAAACACTTCAATTTAC
1 TAAACACTTCAATTTACAGCA-TTCAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTAC
* * * * * * *
19039503 AGCATTTAAACACTTCAATTTACGGCA-TTCAA-ATACTTCAATTTACAGCATTTAAACACTTCA
64 AGCATTTAAACACTTCAATTTGCAGCACTTTAACAT-C-TCAATTAACAACATTTATACACCTCA
* ** * * ** * * *
19039566 ATTTGCAGC-ACTTTAACATCTCAATTAACAACATTTATACACCTCAATTATAGC-G--CTAAAA
127 A-TTACAGCGA-TAAAACATCTCAATT-CCAGCAACTAAACACTTCAATT-T-GCAGTACTTAAA
* * * ** *
19039627 CA-TCTCAATGTCCAGCAACTAAACACTTCAATTTGCAACATT
187 CACT-TCAATTTGCAACATTTAAACACTTCAATTTACAACATT
* *
19039669 TTAGCACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAG
1 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAG
*
19039734 CATTTAAACACTTCAATTTGTAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
66 CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
19039799 CAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAA
131 CAGCGATAAAACATCTCAAT-TCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAA
* *
19039864 TTTGCAACATTTAAGCACTTCAATTTACAGCATT
195 TTTGCAACATTTAAACACTTCAATTTACAACATT
* *
19039898 TAAACACTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTTAACACTTTAATTTACAG
1 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAG
* *
19039963 CATTAAAACACTTCAATTTGCAGCACTTTAACATTTCAATTAACAACATTTATACACCTCAATTA
66 CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
* *
19040028 CAGCGATAAGACATCTCAATTTCTAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAA
131 CAGCGATAAAACATCTCAA-TTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAA
19040093 TTTGCAACATTTA
195 TTTGCAACATTTA
19040106 CTACTAATAT
Statistics
Matches: 385, Mismatches: 41, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
226 2 0.01
227 2 0.01
228 36 0.09
229 333 0.86
230 10 0.03
231 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (228 bp):
TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAG
CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
CAGCGATAAAACATCTCAATTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAAT
TTGCAACATTTAAACACTTCAATTTACAACATT
Found at i:19040049 original size:183 final size:182
Alignment explanation
Indices: 19039280--19040105 Score: 740
Period size: 183 Copynumber: 4.5 Consensus size: 182
19039270 TTACAGCATT
* ** *
19039280 TAAACACTTCAATTTACAGCATTCAA-ACACTTCAATTTGTAGCACTTT-AACACTTCAATTTAT
1 TAAACACTTCAATTTGCAGCA-T-AAGACACTTCAATTTACAGCA-TTTAAACACTTCAATTTAC
* * ** * *
19039343 AGCATTTAAACACTTCAATTTGCAGCACTTT-AACA-TCTCAATTAACAACA-TTTATACACCTC
63 AGCATTTAAACACTTCAATTTACAACA-TTTAAACACT-TCAATTTGCAGCACTTTA-ACATCTC
* * * * * * * *
19039405 AATT-ACAGCGA-TAAAACATCTCAATGTCCAGCAACT-AAACA-CTTCAATTTGCAG-TAC
125 AATTAACAAC-ATTTATACACCTCAAT-TTCAGC-ACTAAAACATC-TCAATGTCCAGCAAC
* *
19039462 TTAAACACTTTAATTTGCAACATTTAA-ACACTTCAATTTACAGCATTTAAACACTTCAATTTAC
1 -TAAACACTTCAATTTGCAGCA--TAAGACACTTCAATTTACAGCATTTAAACACTTCAATTTAC
* * * *
19039526 GGCATTCAAATACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAAT
63 AGCATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAAT
*
19039591 TAACAACATTTATACACCTCAATTAT-AGCGCTAAAACATCTCAATGTCCAGCAAC
128 TAACAACATTTATACACCTCAATT-TCAGCACTAAAACATCTCAATGTCCAGCAAC
* * * *
19039646 TAAACACTTCAATTTGCAACATTTTAG-CACTTCAATTTACAGCATTCAAACACTTCAATTTGCA
1 TAAACACTTCAATTTGCAGCA--TAAGACACTTCAATTTACAGCATTTAAACACTTCAATTTACA
* *
19039710 GCACTTT-AACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCACTTTAACATCTCAAT
64 GCA-TTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAAT
*
19039774 TAACAACATTTATACACCTCAATTACAGCGA-TAAAACATCTCAATGTCCAGCAAC
128 TAACAACATTTATACACCTCAATTTCAGC-ACTAAAACATCTCAATGTCCAGCAAC
* * * *
19039829 TAAACACTTCAATTTGCAGTACTTAA-ACACTTCAATTTGCAACATTTAAGCACTTCAATTTACA
1 TAAACACTTCAATTTGCAG--CATAAGACACTTCAATTTACAGCATTTAAACACTTCAATTTACA
* *
19039893 GCATTTAAACACTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTTAACA-CTTTAAT
64 GCATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACATC-TCAAT
* * * * * ** * * * **
19039957 TTACAGCATTAAAACACTTCAATTTGCAGCACTTTAACATTTCAAT-TAACAACATT
128 TAACAACATTTATACACCTCAATTT-CAGCACTAAAACATCTCAATGT-CCAGCAAC
* * * ** *
19040013 TATACACCTCAA-TTACAGCGATAAGACA-TCTCAATTT-CTAGCAACTAAACACTTCAATTTGC
1 TAAACACTTCAATTTGCAGC-ATAAGACACT-TCAATTTAC-AGCATTTAAACACTTCAATTTAC
* * *
19040075 AGTACTTAAACACTTCAATTTGCAACATTTA
63 AGCATTTAAACACTTCAATTTACAACATTTA
19040106 CTACTAATAT
Statistics
Matches: 545, Mismatches: 71, Indels: 54
0.81 0.11 0.08
Matches are distributed among these distances:
181 1 0.00
182 17 0.03
183 470 0.86
184 56 0.10
185 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (182 bp):
TAAACACTTCAATTTGCAGCATAAGACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGC
ATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAA
CAACATTTATACACCTCAATTTCAGCACTAAAACATCTCAATGTCCAGCAAC
Found at i:19040096 original size:389 final size:388
Alignment explanation
Indices: 19038915--19040098 Score: 1615
Period size: 389 Copynumber: 3.0 Consensus size: 388
19038905 ATAAGTACTT
*
19038915 AAACACTTCAATTTGCAACA-TTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
1 AAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
19038979 CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTC
65 CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTC
*
19039044 CAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGAACTTCAA
130 CAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAA
* * * * *
19039109 TTTACAGCATTTAAACATTTCAATTTGCAGCACTT-TAACA-TCTCAATTAACAACATTTATACA
195 TTTACAGCATTTAAACACTTCAATTTACAGCA-TTCAAACACT-TCAATTTACAGCATTTA-ACA
* * * * * * *
19039172 CCTCAA-TTACAGCGA-TAAAACATCTCAATGTCCGGCAAC-TAAACACTTCAATTTTTAGTACT
257 CTTCAATTTACAGC-ATTAAAACATCTCAATTTACAGC-ACTTTAACACTTCAA-TTATAGCACT
* * ** *
19039234 TAAACACTTCAATTTGCAATATTTAAG-CACTTCAATTTACAGCATTTAAACACTTCAATTTACA
319 TAAACACCTCAA-TTACAGCAATTAAGACACTTCAATTTACAGCATTTAAACACTTCAATTTACA
19039298 GCATTC
383 GCATTC
* *
19039304 AAACACTTCAATTTGTAGCACTTTAACACTTCAATTTATAGCATTTAAACACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGC
19039369 ACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
* *
19039434 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTTAATTTGCAACATTTAAACACTTCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAAT
* *
19039499 TTACAGCATTTAAACACTTCAATTTACGGCATTCAAATACTTCAATTTACAGCATTTAAACACTT
196 TTACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTACAGCATTT-AACACTT
* * * * * * *
19039564 CAATTTGCAGCACTT-TAACATCTCAATTAACAACA-TTTATACACCTCAATTATAGCGCTAAAA
260 CAATTTACAGCA-TTAAAACATCTCAATTTACAGCACTTTA-ACACTTCAATTATAGCACTTAAA
* * * * * * *
19039627 CATCTCAATGTCCAGCAACTAA-ACACTTCAATTTGCAACATTTTAGCACTTCAATTTACAGCAT
323 CACCTCAAT-TACAGCAATTAAGACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCAT
19039691 TC
387 TC
*
19039693 AAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGC
1 AAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGC
19039758 ACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
19039823 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAAT
* *
19039888 TTACAGCATTTAAACACTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTTAACACTT
196 TTACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTACAGCA-TTTAACACTT
* * * * * * *
19039953 TAATTTACAGCATTAAAACA-CTTCAATTTGCAGCACTTTAACATTTCAATTAACAACATTTATA
260 CAATTTACAGCATTAAAACATC-TCAATTTACAGCACTTTAACACTTCAATT-ATAGCACTTAAA
* ** * *
19040017 CACCTCAATTACAGCGA-TAAGACA-TCTCAATTT-CTAGCAACTAAACACTTCAATTTGCAGTA
323 CACCTCAATTACAGCAATTAAGACACT-TCAATTTAC-AGCATTTAAACACTTCAATTTACAGCA
19040079 CTT-
386 -TTC
19040082 AAACACTTCAATTTGCA
1 AAACACTTCAATTTGCA
19040099 ACATTTACTA
Statistics
Matches: 704, Mismatches: 71, Indels: 40
0.86 0.09 0.05
Matches are distributed among these distances:
388 11 0.02
389 635 0.90
390 57 0.08
391 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (388 bp):
AAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGC
ACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAAT
TTACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTACAGCATTTAACACTTC
AATTTACAGCATTAAAACATCTCAATTTACAGCACTTTAACACTTCAATTATAGCACTTAAACAC
CTCAATTACAGCAATTAAGACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTC
Found at i:19041013 original size:18 final size:16
Alignment explanation
Indices: 19040964--19041017 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 16
19040954 GATTATAAAA
19040964 ATAACTCAACATCTTT
1 ATAACTCAACATCTTT
* *
19040980 ATCACTCTTAAGATCTTGT
1 ATAACTC--AACATCTT-T
19040999 ATAAACTCAACATCTTT
1 AT-AACTCAACATCTTT
19041016 AT
1 AT
19041018 TGAAAGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 6 0.20
17 3 0.10
18 14 0.47
19 3 0.10
20 4 0.13
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (16 bp):
ATAACTCAACATCTTT
Found at i:19042359 original size:7 final size:7
Alignment explanation
Indices: 19042347--19042431 Score: 98
Period size: 7 Copynumber: 12.0 Consensus size: 7
19042337 ATATGGACTA
*
19042347 AAATATT
1 AAATTTT
*
19042354 AAATATT
1 AAATTTT
*
19042361 AAGTTTTT
1 AAAT-TTT
*
19042369 AAGTTTT
1 AAATTTT
*
19042376 TAATTTT
1 AAATTTT
*
19042383 TAATTTT
1 AAATTTT
*
19042390 AAATATT
1 AAATTTT
19042397 AAATTTT
1 AAATTTT
19042404 AAATTTT
1 AAATTTT
19042411 AAATTTT
1 AAATTTT
19042418 AAATTTT
1 AAATTTT
19042425 AAATTTT
1 AAATTTT
19042432 TTTGAAGATT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
7 64 0.91
8 6 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (7 bp):
AAATTTT
Found at i:19042451 original size:9 final size:8
Alignment explanation
Indices: 19042359--19042458 Score: 72
Period size: 7 Copynumber: 12.9 Consensus size: 8
19042349 ATATTAAATA
*
19042359 TTAAGTTT
1 TTAAATTT
*
19042367 TTAAGTTT
1 TTAAATTT
19042375 TT-AATTT
1 TTAAATTT
19042382 TT-AA-TT
1 TTAAATTT
*
19042388 TTAAA-TA
1 TTAAATTT
19042395 TTAAA-TT
1 TTAAATTT
19042402 TTAAA-TT
1 TTAAATTT
19042409 TTAAA-TT
1 TTAAATTT
19042416 TTAAA-TT
1 TTAAATTT
19042423 TTAAATTTTT
1 TTAAA--TTT
19042433 TTGAAGATTT
1 TT-AA-ATTT
19042443 TTATAATTT
1 TTA-AATTT
19042452 TTAAATT
1 TTAAATT
19042459 AACATATAAA
Statistics
Matches: 82, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
6 4 0.05
7 43 0.52
8 14 0.17
9 8 0.10
10 10 0.12
11 2 0.02
12 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (8 bp):
TTAAATTT
Found at i:19042921 original size:22 final size:22
Alignment explanation
Indices: 19042877--19042953 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
19042867 CATAAACCCT
*
19042877 AAACACTAAAACCCTAACTATA
1 AAACACTAAAACCCAAACTATA
*
19042899 AAACACTAAATCCCAAA-TCATA
1 AAACACTAAAACCCAAACT-ATA
* * *
19042921 AACCA-T-AAACCATAAACTTTA
1 AAACACTAAAACC-CAAACTATA
19042942 AAACAC-AAAACC
1 AAACACTAAAACC
19042954 ATAAACTCGA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
20 4 0.09
21 11 0.26
22 28 0.65
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (22 bp):
AAACACTAAAACCCAAACTATA
Found at i:19043146 original size:50 final size:50
Alignment explanation
Indices: 19043092--19043212 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
19043082 AACTCCTAAT
* * * *
19043092 CCCTAATCCCTAAATCATAAA-CCTTAAATCTTAAAACATAAACCCTGAAC
1 CCCTAATCCCTAAACCATAAATCC-CAAACCTTAAAACATAAACCCTAAAC
* * * *
19043142 CCCTAACCCCTAAACCTTAAATCCCAACCCTTAAAACATAATCCCTAAAC
1 CCCTAATCCCTAAACCATAAATCCCAAACCTTAAAACATAAACCCTAAAC
* * *
19043192 CCATAATCCATAAACCTTAAA
1 CCCTAATCCCTAAACCATAAA
19043213 ATAGTAACTC
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 57 0.97
51 2 0.03
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.22
Consensus pattern (50 bp):
CCCTAATCCCTAAACCATAAATCCCAAACCTTAAAACATAAACCCTAAAC
Found at i:19043196 original size:15 final size:15
Alignment explanation
Indices: 19043178--19043207 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19043168 ACCCTTAAAA
*
19043178 CATAATCCCTAAACC
1 CATAATCCATAAACC
19043193 CATAATCCATAAACC
1 CATAATCCATAAACC
19043208 TTAAAATAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:19043212 original size:22 final size:21
Alignment explanation
Indices: 19043178--19043246 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
19043168 ACCCTTAAAA
* *
19043178 CATAATCCCTAAACCCATAATC
1 CATAAACCTTAAACCCATAA-C
**
19043200 CATAAACCTTAAA-ATAGTAAC
1 CATAAACCTTAAACCCA-TAAC
*
19043221 TCATAAACCTTAAACCCTTAAC
1 -CATAAACCTTAAACCCATAAC
19043243 CATA
1 CATA
19043247 TGCCCTAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
21 6 0.16
22 31 0.84
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (21 bp):
CATAAACCTTAAACCCATAAC
Found at i:19059391 original size:33 final size:33
Alignment explanation
Indices: 19059354--19059419 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
19059344 ATGCATGACT
*
19059354 ACTAGATACATCTATTCTAAATACATTCATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
19059387 ACTAGATACATCTACTCTAAATACATTCATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
19059420 GTAAAAGTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (33 bp):
ACTAGATACATCTACTCTAAATACATTCATTAA
Found at i:19062003 original size:17 final size:17
Alignment explanation
Indices: 19061983--19062032 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
19061973 AATAAAAAAA
19061983 TTTATATTTTTAAAATT
1 TTTATATTTTTAAAATT
**
19062000 TTTA-ATTGTTTTGAATT
1 TTTATATT-TTTAAAATT
19062017 TTTATATTTTTTAAAA
1 TTTATA-TTTTTAAAA
19062033 AATTGCTGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
16 3 0.12
17 15 0.58
18 6 0.23
19 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTATATTTTTAAAATT
Found at i:19069564 original size:38 final size:38
Alignment explanation
Indices: 19069513--19069589 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
19069503 GAACGAGCAG
*
19069513 TTAAATTACATGGATAACAATCTTCGATCTCAAAACAA
1 TTAAATTACATGGATAACAATCCTCGATCTCAAAACAA
19069551 TTAAATTACATGGATAACAATCCTCGATCTCAAAACAA
1 TTAAATTACATGGATAACAATCCTCGATCTCAAAACAA
19069589 T
1 T
19069590 CCTTATAGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (38 bp):
TTAAATTACATGGATAACAATCCTCGATCTCAAAACAA
Found at i:19075353 original size:19 final size:19
Alignment explanation
Indices: 19075307--19075354 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
19075297 GTATATATTT
19075307 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
19075325 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
19075344 TAAGTTTTATT
1 TAAATTTTATT
19075355 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:19075416 original size:43 final size:43
Alignment explanation
Indices: 19075368--19075503 Score: 229
Period size: 43 Copynumber: 3.2 Consensus size: 43
19075358 ATTCTAGAAA
* *
19075368 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
19075411 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
*
19075454 TATTTTCTTTTTATGTTTTAATAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
19075497 TATTTTC
1 TATTTTC
19075504 CCAATTAGGA
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
43 88 0.99
44 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (43 bp):
TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
Found at i:19078527 original size:19 final size:20
Alignment explanation
Indices: 19078503--19078540 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
19078493 GGTACCACCA
19078503 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
19078522 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
19078541 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:19078880 original size:93 final size:93
Alignment explanation
Indices: 19078770--19078940 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
19078760 GCCCCTAAGT
* *
19078770 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
19078835 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
19078863 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
19078928 CGAGTTCGGATGC
66 CGAGTTCGGATGC
19078941 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:19078937 original size:46 final size:46
Alignment explanation
Indices: 19078765--19078937 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
19078755 AACCCGCCCC
* * * *
19078765 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
19078811 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
19078859 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
19078904 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
19078938 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:19079392 original size:30 final size:30
Alignment explanation
Indices: 19079358--19079417 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
19079348 ATTTAATACG
19079358 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
19079388 AACTTTTGCATAATTATACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
19079418 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:19087191 original size:19 final size:19
Alignment explanation
Indices: 19087145--19087192 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
19087135 GTATATATTT
19087145 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
19087163 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
19087182 TAAGTTTTATT
1 TAAATTTTATT
19087193 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:19087254 original size:43 final size:43
Alignment explanation
Indices: 19087206--19087298 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
19087196 ATTCTAGAAA
*
19087206 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGTGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
19087249 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
19087292 TATTTTC
1 TATTTTC
19087299 CCAATTAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:19088344 original size:19 final size:17
Alignment explanation
Indices: 19088312--19088346 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
19088302 GAATTAGAAT
19088312 TAAATTGAGATTATTTG
1 TAAATTGAGATTATTTG
19088329 TAAATTTGAGGATTATTT
1 TAAA-TTGA-GATTATTT
19088347 TTTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (17 bp):
TAAATTGAGATTATTTG
Found at i:19088459 original size:30 final size:30
Alignment explanation
Indices: 19088419--19088512 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 30
19088409 CTATATCGAT
*
19088419 TAGTTGGGTGATCAAATTAAAAAAAATTGA
1 TAGTTAGGTGATCAAATTAAAAAAAATTGA
* ** * **
19088449 TAGTTAGGTGATAAAAAGGAAAAAAGA-CAA
1 TAGTTAGGTGAT-CAAATTAAAAAAAATTGA
*
19088479 TAATTAGGTGATCAAATT-AAAAAAATTGA
1 TAGTTAGGTGATCAAATTAAAAAAAATTGA
19088508 TAGTT
1 TAGTT
19088513 GAATGATTAA
Statistics
Matches: 47, Mismatches: 15, Indels: 5
0.70 0.22 0.07
Matches are distributed among these distances:
28 6 0.13
29 8 0.17
30 23 0.49
31 10 0.21
ACGTcount: A:0.50, C:0.03, G:0.19, T:0.28
Consensus pattern (30 bp):
TAGTTAGGTGATCAAATTAAAAAAAATTGA
Found at i:19088548 original size:59 final size:60
Alignment explanation
Indices: 19088419--19088548 Score: 176
Period size: 59 Copynumber: 2.2 Consensus size: 60
19088409 CTATATCGAT
*
19088419 TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTAGGTGATAAAAAGGAAAAAAGACAA
1 TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTAGATGATAAAAAGGAAAAAAGACAA
* * **
19088479 TAATTAGGTGATCAAATT-AAAAAAATTGATAGTT-GAATGATTAAAAAGGAAAGGAG-CAA
1 TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTAG-ATGA-TAAAAAGGAAAAAAGACAA
19088538 TAGTTGGGTGA
1 TAGTTGGGTGA
19088549 CTTGTATTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
58 1 0.02
59 31 0.51
60 29 0.48
ACGTcount: A:0.48, C:0.03, G:0.23, T:0.25
Consensus pattern (60 bp):
TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTAGATGATAAAAAGGAAAAAAGACAA
Found at i:19088919 original size:15 final size:15
Alignment explanation
Indices: 19088899--19088929 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19088889 ACAGCAGCAG
19088899 CAGCAGCAACAACAA
1 CAGCAGCAACAACAA
*
19088914 CAGCAGCAGCAACAA
1 CAGCAGCAACAACAA
19088929 C
1 C
19088930 CCCTTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.35, G:0.16, T:0.00
Consensus pattern (15 bp):
CAGCAGCAACAACAA
Found at i:19089257 original size:7 final size:7
Alignment explanation
Indices: 19089245--19089271 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19089235 TATGGCACTC
19089245 TGAGTAG
1 TGAGTAG
19089252 TGAGTAG
1 TGAGTAG
19089259 TGAGTAG
1 TGAGTAG
19089266 TGAGTA
1 TGAGTA
19089272 TTTTGATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.41, T:0.30
Consensus pattern (7 bp):
TGAGTAG
Found at i:19099144 original size:17 final size:17
Alignment explanation
Indices: 19099122--19099160 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
19099112 TTGCTTAGAG
19099122 TTGAAAAATGTATAGTT
1 TTGAAAAATGTATAGTT
19099139 TTGAAAAATGTATAGTT
1 TTGAAAAATGTATAGTT
19099156 TTGAA
1 TTGAA
19099161 CTAACATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (17 bp):
TTGAAAAATGTATAGTT
Found at i:19100961 original size:64 final size:64
Alignment explanation
Indices: 19100885--19101014 Score: 242
Period size: 64 Copynumber: 2.0 Consensus size: 64
19100875 CTGTAAAACT
19100885 TTCCCATAGTATGAGGGCTTGTTTCATTGAAAACAATACTTCATCCAAGCATTAGAAAACATAC
1 TTCCCATAGTATGAGGGCTTGTTTCATTGAAAACAATACTTCATCCAAGCATTAGAAAACATAC
* *
19100949 TTCCCATGGTATGAGGGCTTGTTTCATTGAAAATAATACTTCATCCAAGCATTAGAAAACATAC
1 TTCCCATAGTATGAGGGCTTGTTTCATTGAAAACAATACTTCATCCAAGCATTAGAAAACATAC
19101013 TT
1 TT
19101015 TTTCGAAACA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (64 bp):
TTCCCATAGTATGAGGGCTTGTTTCATTGAAAACAATACTTCATCCAAGCATTAGAAAACATAC
Found at i:19110430 original size:18 final size:18
Alignment explanation
Indices: 19110407--19110443 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
19110397 GACGAGGAAA
*
19110407 CTTGTTGTCCCGATGAGC
1 CTTGTTGTCCCAATGAGC
19110425 CTTGTTGTCCCAATGAGC
1 CTTGTTGTCCCAATGAGC
19110443 C
1 C
19110444 CTAAAACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.30, G:0.24, T:0.32
Consensus pattern (18 bp):
CTTGTTGTCCCAATGAGC
Found at i:19111823 original size:24 final size:23
Alignment explanation
Indices: 19111796--19111872 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 23
19111786 CTTATTTACT
*
19111796 TTAATTAAATATTTAATTACTTAA
1 TTAATTAAA-ATTTAATGACTTAA
19111820 TTAACTT--AA-TTAA-GACTTAA
1 TTAA-TTAAAATTTAATGACTTAA
*
19111840 TTAATTAAAATTTAATCAC--AA
1 TTAATTAAAATTTAATGACTTAA
*
19111861 TTAATCAAAATT
1 TTAATTAAAATT
19111873 AGTAGAAGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
19 2 0.04
20 10 0.22
21 19 0.42
22 5 0.11
23 3 0.07
24 4 0.09
25 2 0.04
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43
Consensus pattern (23 bp):
TTAATTAAAATTTAATGACTTAA
Found at i:19116483 original size:48 final size:48
Alignment explanation
Indices: 19116325--19116708 Score: 326
Period size: 48 Copynumber: 8.0 Consensus size: 48
19116315 AGGGTAAAAT
** * **
19116325 GCCGATGCCATGTCCTGGACATGGTCTTACACTGGCTCTCATA-CAACGG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATTGA--G
* ** * ** *** *
19116374 TGCTGATGCCATGTCCCAGACATGGTCTTACACTAACACATATAACAAT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATTGAG
* * * *
19116423 GCCAATGTCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATTGAG
* *
19116471 GCTGATGCCATGTCCCAGACATGGTTTTACACTGGCTCGCATATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATTGAG
* * * *
19116519 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATTGAG
* * * * **
19116567 ACCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGAATATACCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATAT-TGAG
* * * * * *
19116616 TGCCAATACCATGTCCTAGACATGGTCTTACATTGACAT---ATATCGAG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCGCATATTGAG
* * *
19116663 GCTGATGCGATGTCCCAGACATGGTCTTACACTGGCTCTCATATTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATTG
19116709 CCATGGTCCA
Statistics
Matches: 266, Mismatches: 61, Indels: 16
0.78 0.18 0.05
Matches are distributed among these distances:
45 1 0.00
46 29 0.11
47 3 0.01
48 165 0.62
49 1 0.00
50 63 0.24
51 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATTGAG
Found at i:19116590 original size:144 final size:145
Alignment explanation
Indices: 19116324--19116705 Score: 459
Period size: 144 Copynumber: 2.6 Consensus size: 145
19116314 AAGGGTAAAA
* *
19116324 TGCCGATGCCATGTCCTGGACATGGTCTTACACTGGCTCTCATA-CAACGGTGCTGATGCCATGT
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-CATATCGA--G-GCTGATGCCATGT
** * * * *
19116388 CCCAGACATGGTCTTACACTAACACATATAACAATGCCAATGTCATGTTCCAAACATGGTCTTAC
62 CCCAGACATGGTCTTACACTGGCTCACATAACAATACCAATGCCATGTTCCAAACATGGTCTTAC
* **
19116453 ACTGGCTCGCATAT-TGAG
127 ACTGGCTCGAATATACCAG
* * * * *
19116471 -GCTGATGCCATGTCCCAGACATGGTTTTACACTGGCTCGCATATTGAGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-CATATCGAGGCTGATGCCATGTCCC
* *
19116535 AGACATGGTCTTACACTGGCTCACATAATAATACCGATGCCATGTTCCAAACATGGTCTTACACT
65 AGACATGGTCTTACACTGGCTCACATAACAATACCAATGCCATGTTCCAAACATGGTCTTACACT
19116600 GGCTCGAATATACCAG
130 GGCTCGAATATACCAG
* * * * *
19116616 TGCCAATACCATGTCCTAGACATGGTCTTACATTGACAT--ATATCGAGGCTGATGCGATGTCCC
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGC-TCCATATCGAGGCTGATGCCATGTCCC
*
19116679 AGACATGGTCTTACACTGGCTCTCATA
65 AGACATGGTCTTACACTGGCTCACATA
19116706 TTGCCATGGT
Statistics
Matches: 201, Mismatches: 30, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
144 129 0.64
145 3 0.01
146 67 0.33
147 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (145 bp):
TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCCATATCGAGGCTGATGCCATGTCCCA
GACATGGTCTTACACTGGCTCACATAACAATACCAATGCCATGTTCCAAACATGGTCTTACACTG
GCTCGAATATACCAG
Found at i:19125026 original size:21 final size:22
Alignment explanation
Indices: 19125000--19125041 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19124990 CTTTTGAAAC
19125000 AGGGGC-ACACGCCCGTGTGGA
1 AGGGGCGACACGCCCGTGTGGA
19125021 AGGGGCGACACGCCCGTGTGG
1 AGGGGCGACACGCCCGTGTGG
19125042 CCTTCTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.17, C:0.29, G:0.45, T:0.10
Consensus pattern (22 bp):
AGGGGCGACACGCCCGTGTGGA
Found at i:19126387 original size:47 final size:47
Alignment explanation
Indices: 19126317--19126451 Score: 189
Period size: 49 Copynumber: 2.8 Consensus size: 47
19126307 CGATGCCGAC
* *
19126317 GCCATGTTCCAAACATGGTCTTACACTGGCTCTCACATCTAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTCTCACATCTAAGTCGAT
* *
19126365 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATCTATGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCAC--ATCTAAGTCGAT
* *
19126414 GCCATGTCCCAGACAGGTCTTACACTGGCACACACATC
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCACATC
19126452 ACCCAAATGT
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
47 22 0.28
48 13 0.17
49 43 0.55
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTCTCACATCTAAGTCGAT
Found at i:19137275 original size:18 final size:18
Alignment explanation
Indices: 19137252--19137290 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
19137242 ATTAACTTCA
19137252 CAACTTAATCCATTATAC
1 CAACTTAATCCATTATAC
*
19137270 CAACTTAATCCATTGTAC
1 CAACTTAATCCATTATAC
19137288 CAA
1 CAA
19137291 TTATGCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (18 bp):
CAACTTAATCCATTATAC
Found at i:19141765 original size:20 final size:20
Alignment explanation
Indices: 19141732--19141826 Score: 124
Period size: 20 Copynumber: 4.8 Consensus size: 20
19141722 ATACATGGGA
19141732 TATGATAT--ACATGAT-TGG
1 TATGATATGCACATGATAT-G
19141750 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* *
19141770 TATAAAATGCACATGATATG
1 TATGATATGCACATGATATG
19141790 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* *
19141810 TATGAAATGCACGTGAT
1 TATGATATGCACATGAT
19141827 GTATTCATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
18 8 0.12
20 59 0.87
21 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:19141767 original size:11 final size:11
Alignment explanation
Indices: 19141751--19141809 Score: 54
Period size: 11 Copynumber: 5.7 Consensus size: 11
19141741 CATGATTGGT
19141751 ATGATATGCAC
1 ATGATATGCAC
*
19141762 ATGATATG--T
1 ATGATATGCAC
* *
19141771 ATAAAATGCAC
1 ATGATATGCAC
*
19141782 ATGATATG--T
1 ATGATATGCAC
19141791 ATGATATGCAC
1 ATGATATGCAC
19141802 ATGATATG
1 ATGATATG
19141810 TATGAAATGC
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
9 14 0.39
11 22 0.61
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:19141784 original size:40 final size:40
Alignment explanation
Indices: 19141740--19141826 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
19141730 GATATGATAT
19141740 ACATGAT-TGGTATGATATGCACATGATATGTATAAAATGC
1 ACATGATAT-GTATGATATGCACATGATATGTATAAAATGC
*
19141780 ACATGATATGTATGATATGCACATGATATGTATGAAATGC
1 ACATGATATGTATGATATGCACATGATATGTATAAAATGC
*
19141820 ACGTGAT
1 ACATGAT
19141827 GTATTCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (40 bp):
ACATGATATGTATGATATGCACATGATATGTATAAAATGC
Found at i:19141905 original size:26 final size:26
Alignment explanation
Indices: 19141876--19141969 Score: 163
Period size: 26 Copynumber: 3.7 Consensus size: 26
19141866 GAGGAAGTGC
19141876 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
19141902 AAAAGGGCTTATGCCCCAGTTTACCT
1 AAAAGGGCTTATGCCCCAGTTTACCG
19141928 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
19141954 -AAAGGGCTTTTGCCCC
1 AAAAGGGCTTATGCCCC
19141970 TGTTATTAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 15 0.23
26 50 0.77
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:19143635 original size:18 final size:18
Alignment explanation
Indices: 19143601--19143636 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19143591 AACATTAGGT
*
19143601 AACTATATAACATAACCA
1 AACTATATAACAGAACCA
*
19143619 AACTATATAATAGAACCA
1 AACTATATAACAGAACCA
19143637 GCTATACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.03, T:0.22
Consensus pattern (18 bp):
AACTATATAACAGAACCA
Found at i:19147402 original size:27 final size:27
Alignment explanation
Indices: 19147364--19147520 Score: 133
Period size: 27 Copynumber: 5.8 Consensus size: 27
19147354 GATTCTCGAC
19147364 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
*
19147391 TTGTAAAATTACTAAAATA-CCCTCGAT
1 TTGTAAAATTACCAAAATACCCCT-GAT
* * * *
19147418 TTGTAAAATTATCGAAATA-CCCTCAAC
1 TTGTAAAATTACCAAAATACCCCT-GAT
* *
19147445 TTGTAAAATTACTAAAATACCCTTG-T
1 TTGTAAAATTACCAAAATACCCCTGAT
* * *
19147471 AATGTAAAATTACCGAAATACCCTTG-T
1 -TTGTAAAATTACCAAAATACCCCTGAT
** *
19147498 AGGGTAAAATTACCGAAATACCC
1 -TTGTAAAATTACCAAAATACCC
19147521 TTGTAGGGTA
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
26 4 0.04
27 103 0.94
28 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAT
Found at i:19147449 original size:54 final size:55
Alignment explanation
Indices: 19147358--19147494 Score: 181
Period size: 54 Copynumber: 2.5 Consensus size: 55
19147348 CGTTAAGATT
* * * *
19147358 CTCGACTTGTAAAATTACCAAAATACCC-CTGATTTGTAAAATTACTAAAATACC
1 CTCGATTTGTAAAATTACCGAAATACCCTCTAACTTGTAAAATTACTAAAATACC
*
19147412 CTCGATTTGTAAAATTATCGAAATACCCTC-AACTTGTAAAATTACTAAAATACC
1 CTCGATTTGTAAAATTACCGAAATACCCTCTAACTTGTAAAATTACTAAAATACC
* *
19147466 CTTG-TAATGTAAAATTACCGAAATACCCT
1 CTCGAT-TTGTAAAATTACCGAAATACCCT
19147495 TGTAGGGTAA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 71 0.97
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (55 bp):
CTCGATTTGTAAAATTACCGAAATACCCTCTAACTTGTAAAATTACTAAAATACC
Found at i:19147505 original size:54 final size:53
Alignment explanation
Indices: 19147365--19147534 Score: 173
Period size: 54 Copynumber: 3.2 Consensus size: 53
19147355 ATTCTCGACT
* * * *
19147365 TGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATA-CCCTGACTTGTAAAATTACTAAAATACCCTTGTA-A
* *
19147419 TGTAAAATTATCGAAATACCCTCAACTTGTAAAATTACTAAAATACCCTTGTAA
1 TGTAAAATTACCGAAATACCCT-GACTTGTAAAATTACTAAAATACCCTTGTAA
** ** *
19147473 TGTAAAATTACCGAAATACCCTTGTA-GGGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCC-TG-ACTTGTAAAATTACTAAAATACCCTTGTAA
*
19147527 GGTAAAAT
1 TGTAAAAT
19147535 GACTGTTTTG
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
53 4 0.04
54 91 0.93
55 3 0.03
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (53 bp):
TGTAAAATTACCGAAATACCCTGACTTGTAAAATTACTAAAATACCCTTGTAA
Found at i:19147505 original size:81 final size:81
Alignment explanation
Indices: 19147362--19147521 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 81
19147352 AAGATTCTCG
* * **
19147362 ACTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAAT
1 ACTTGTAAAATTACCAAAATACCCCTGATATGTAAAATTACCAAAATACCCTCGATGGGTAAAAT
*
19147427 TATCGAAATACCCTCA
66 TACCGAAATACCCTCA
* * * *
19147443 ACTTGTAAAATTACTAAAATACCCTTG-TAATGTAAAATTACCGAAATACCCTTG-TAGGGTAAA
1 ACTTGTAAAATTACCAAAATACCCCTGAT-ATGTAAAATTACCAAAATACCCTCGAT-GGGTAAA
19147506 ATTACCGAAATACCCT
64 ATTACCGAAATACCCT
19147522 TGTAGGGTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 2 0.03
81 66 0.97
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
ACTTGTAAAATTACCAAAATACCCCTGATATGTAAAATTACCAAAATACCCTCGATGGGTAAAAT
TACCGAAATACCCTCA
Found at i:19147521 original size:27 final size:27
Alignment explanation
Indices: 19147447--19147534 Score: 140
Period size: 27 Copynumber: 3.3 Consensus size: 27
19147437 CCCTCAACTT
** **
19147447 GTAAAATTACTAAAATACCCTTGTAAT
1 GTAAAATTACCGAAATACCCTTGTAGG
19147474 GTAAAATTACCGAAATACCCTTGTAGG
1 GTAAAATTACCGAAATACCCTTGTAGG
19147501 GTAAAATTACCGAAATACCCTTGTAGG
1 GTAAAATTACCGAAATACCCTTGTAGG
19147528 GTAAAAT
1 GTAAAAT
19147535 GACTGTTTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTTGTAGG
Found at i:19148007 original size:32 final size:32
Alignment explanation
Indices: 19147966--19148053 Score: 122
Period size: 32 Copynumber: 2.8 Consensus size: 32
19147956 ATTTACCCAA
*
19147966 GGCTATGTGCCAATTATATTACCGTCACTGAT
1 GGCTATGTGCCAATTATAATACCGTCACTGAT
** * *
19147998 GGCTATGTGCCAAACATAATACAGTTACTGAT
1 GGCTATGTGCCAATTATAATACCGTCACTGAT
*
19148030 GGCTTTGTGCCAATTATAATACCG
1 GGCTATGTGCCAATTATAATACCG
19148054 CTACTGAAGA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (32 bp):
GGCTATGTGCCAATTATAATACCGTCACTGAT
Found at i:19148994 original size:20 final size:20
Alignment explanation
Indices: 19148969--19149007 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19148959 GGATTTTCAT
* *
19148969 AATTTTTGAGAATTTGGTAA
1 AATTTTTAAAAATTTGGTAA
19148989 AATTTTTAAAAATTTGGTA
1 AATTTTTAAAAATTTGGTA
19149008 TTTGGTTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (20 bp):
AATTTTTAAAAATTTGGTAA
Found at i:19149633 original size:22 final size:22
Alignment explanation
Indices: 19149607--19149649 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19149597 AAACCAAACC
19149607 ACTACTCCCTTTCTTTTCATCT
1 ACTACTCCCTTTCTTTTCATCT
*
19149629 ACTACTTCCTTTCTTTTCATC
1 ACTACTCCCTTTCTTTTCATC
19149650 ACCCTTGCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.35, G:0.00, T:0.51
Consensus pattern (22 bp):
ACTACTCCCTTTCTTTTCATCT
Found at i:19150643 original size:25 final size:25
Alignment explanation
Indices: 19150615--19150663 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
19150605 TTAAAATATG
* * *
19150615 AAAAATGACTGTTTTGCCCCTAGGT
1 AAAAATGACTATTATACCCCTAGGT
19150640 AAAAATGACTATTATACCCCTAGG
1 AAAAATGACTATTATACCCCTAGG
19150664 GTTAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (25 bp):
AAAAATGACTATTATACCCCTAGGT
Found at i:19150736 original size:21 final size:21
Alignment explanation
Indices: 19150700--19150750 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
19150690 ATTTTGATAT
19150700 ACATGATATGACATGA-TATGC
1 ACATGATATGACATGAGT-TGC
* **
19150721 ACGTGATATGTTATGAGTTGC
1 ACATGATATGACATGAGTTGC
19150742 ACATGATAT
1 ACATGATAT
19150751 ACTCATTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (21 bp):
ACATGATATGACATGAGTTGC
Found at i:19150855 original size:24 final size:24
Alignment explanation
Indices: 19150823--19150869 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
19150813 TAGCTTACCA
**
19150823 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
19150846 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCCTCCAGTTAT
19150870 ATGGTAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:19155574 original size:26 final size:26
Alignment explanation
Indices: 19155538--19155591 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
19155528 CAGGAGGGAG
19155538 TAAGATGTATCGAGACTTGCGAGAGC
1 TAAGATGTATCGAGACTTGCGAGAGC
19155564 TAAGATGTATCGAGACTTGCGAGAGC
1 TAAGATGTATCGAGACTTGCGAGAGC
19155590 TA
1 TA
19155592 TATTGGTGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (26 bp):
TAAGATGTATCGAGACTTGCGAGAGC
Found at i:19156873 original size:20 final size:20
Alignment explanation
Indices: 19156848--19156886 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19156838 AGATTTTCAT
* *
19156848 AATTTTTGAGAATTTGGTAA
1 AATTTTTAAAAATTTGGTAA
19156868 AATTTTTAAAAATTTGGTA
1 AATTTTTAAAAATTTGGTA
19156887 TTTGGTTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (20 bp):
AATTTTTAAAAATTTGGTAA
Found at i:19159083 original size:351 final size:352
Alignment explanation
Indices: 19157911--19159317 Score: 2600
Period size: 352 Copynumber: 4.0 Consensus size: 352
19157901 ACTATGGTAG
* *
19157911 GTGGACTTTGGGTTTGATTAGCATGAACTATAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
1 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTGT
*
19157976 CGTGGGAGACTTTGTTGGCGAACATCACAAAAAAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
66 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
*
19158041 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTCGGGAATGTGAGATTTTGCATGT
131 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTCGGGAACGTGAGATTTTGCATGT
19158106 GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
196 GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
19158171 TTTGTGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
261 TTTGTGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
19158236 TTTGGGTAAAATGGATAGAAAATGGAA
326 TTTGGGTAAAATGGATAGAAAATGGAA
*
19158263 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
1 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTGT
*
19158328 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGATGTGTAACAACCCTCGTAGTAGCTTAGGC
66 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
* *
19158393 TAATATTCGCTGAAAAGCCGGAATACTAAAATTCTGGCATTTCAGGAACGTGAGATTTTGCATGT
131 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTCGGGAACGTGAGATTTTGCATGT
*
19158458 GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCAATGAAACAGGTAAGAGCACAAT
196 GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
* *
19158523 TTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGTCCCA
261 TTTGTGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
*
19158588 TTTGGATAAAATGGATAGAAAATGGAA
326 TTTGGGTAAAATGGATAGAAAATGGAA
19158615 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTGT
1 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTGT
19158680 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
66 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
* * * *
19158745 TAATATTCGTTGAAATGCCGAAATACTAAAATTCCGGCATTTTGGGAACGTGAGATTTTGCATGT
131 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTCGGGAACGTGAGATTTTGCATGT
*
19158810 GGTTTTAGATGCGATAAGTACAATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
196 GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
*
19158875 TTTGTGCACGATGGTAAGTTGGGCCTCAAT-GGTTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
261 TTTGTGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
19158939 TTTGGGTAAAATGGATAGAAAATGGAA
326 TTTGGGTAAAATGGATAGAAAATGGAA
*
19158966 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGATGATTAATTGTAGGTTGT
1 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTGT
19159031 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
66 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
*
19159096 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTTGGGAACGTGAGATTTTGCATGT
131 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTCGGGAACGTGAGATTTTGCATGT
*
19159161 GGTTTTAGATGTGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
196 GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
* *
19159226 TTTGTGCACGATGGTAAGTTGGGCCTGAATGGGCTGGAATTGGGCCCAATGGGCTTTCGGGCCCA
261 TTTGTGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
19159291 TTTGGGTAAAATGGATAGAAAATGGAA
326 TTTGGGTAAAATGGATAGAAAATGGAA
19159318 CTTGGAAAAG
Statistics
Matches: 1021, Mismatches: 33, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
351 341 0.33
352 680 0.67
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (352 bp):
GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTGT
CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTCGGGAACGTGAGATTTTGCATGT
GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
TTTGTGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
TTTGGGTAAAATGGATAGAAAATGGAA
Found at i:19159259 original size:703 final size:704
Alignment explanation
Indices: 19157911--19159317 Score: 2600
Period size: 703 Copynumber: 2.0 Consensus size: 704
19157901 ACTATGGTAG
*
19157911 GTGGACTTTGGGTTTGATTAGCATGAACTATAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
1 GTGGACTTTGGGTTTGATTAGCATGAACTATAAACTAAGAATGGTGGTGATTAATTGTAGGTTGT
19157976 CGTGGGAGACTTTGTTGGCGAACATCACAAAAAAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
66 CGTGGGAGACTTTGTTGGCGAACATCACAAAAAAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
* *
19158041 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTCGGGAATGTGAGATTTTGCATGT
131 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCCGGCATTTCGGGAACGTGAGATTTTGCATGT
*
19158106 GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
196 GGTTTTAGATGCGATAAGTACAATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
19158171 TTTGTGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
261 TTTGTGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
19158236 TTTGGGTAAAATGGATAGAAAATGGAAGTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAA
326 TTTGGGTAAAATGGATAGAAAATGGAAGTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAA
* *
19158301 GAATGGTGGTGATTAATTGTAGGTTTTCGTGGGAGACTTTGTTGGCGAACATCACAAAACAGATG
391 GAATGGTGATGATTAATTGTAGGTTGTCGTGGGAGACTTTGTTGGCGAACATCACAAAACAGATG
*
19158366 TGTAACAACCCTCGTAGTAGCTTAGGCTAATATTCGCTGAAAAGCCGGAATACTAAAATTCTGGC
456 TGTAACAACCCTCGTAGTAGCTTAGGCTAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGC
19158431 ATTTCAGGAACGTGAGATTTTGCATGTGGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTG
521 ATTTCAGGAACGTGAGATTTTGCATGTGGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTG
19158496 GATCAATGAAACAGGTAAGAGCACAATTTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGA
586 GATCAATGAAACAGGTAAGAGCACAATTTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGA
*
19158561 ATTGGGCCCAATGGGCTTCCGGTCCCATTTGGATAAAATGGATAGAAAATGGAA
651 ATTGGGCCCAATGGGCTTCCGGGCCCATTTGGATAAAATGGATAGAAAATGGAA
*
19158615 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTGT
1 GTGGACTTTGGGTTTGATTAGCATGAACTATAAACTAAGAATGGTGGTGATTAATTGTAGGTTGT
*
19158680 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
66 CGTGGGAGACTTTGTTGGCGAACATCACAAAAAAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
* * *
19158745 TAATATTCGTTGAAATGCCGAAATACTAAAATTCCGGCATTTTGGGAACGTGAGATTTTGCATGT
131 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCCGGCATTTCGGGAACGTGAGATTTTGCATGT
19158810 GGTTTTAGATGCGATAAGTACAATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
196 GGTTTTAGATGCGATAAGTACAATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
*
19158875 TTTGTGCACGATGGTAAGTTGGGCCTCAAT-GGTTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
261 TTTGTGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
19158939 TTTGGGTAAAATGGATAGAAAATGGAAGTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAA
326 TTTGGGTAAAATGGATAGAAAATGGAAGTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAA
*
19159004 GAATGGTGATGATTAATTGTAGGTTGTCGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTG
391 GAATGGTGATGATTAATTGTAGGTTGTCGTGGGAGACTTTGTTGGCGAACATCACAAAACAGATG
19159069 TGTAACAACCCTCGTAGTAGCTTAGGCTAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGC
456 TGTAACAACCCTCGTAGTAGCTTAGGCTAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGC
** *
19159134 ATTTTGGGAACGTGAGATTTTGCATGTGGTTTTAGATGTGATAAGTACGATATGATCGGTGTTTG
521 ATTTCAGGAACGTGAGATTTTGCATGTGGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTG
* * *
19159199 GATCGATGAAACAGGTAAGAGCACAATTTTGTGCACGATGGTAAGTTGGGCCTGAATGGGCTGGA
586 GATCAATGAAACAGGTAAGAGCACAATTTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGA
* *
19159264 ATTGGGCCCAATGGGCTTTCGGGCCCATTTGGGTAAAATGGATAGAAAATGGAA
651 ATTGGGCCCAATGGGCTTCCGGGCCCATTTGGATAAAATGGATAGAAAATGGAA
19159318 CTTGGAAAAG
Statistics
Matches: 680, Mismatches: 23, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
703 399 0.59
704 281 0.41
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (704 bp):
GTGGACTTTGGGTTTGATTAGCATGAACTATAAACTAAGAATGGTGGTGATTAATTGTAGGTTGT
CGTGGGAGACTTTGTTGGCGAACATCACAAAAAAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
TAATATTCGCTGAAAAGCCGAAATACTAAAATTCCGGCATTTCGGGAACGTGAGATTTTGCATGT
GGTTTTAGATGCGATAAGTACAATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
TTTGTGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
TTTGGGTAAAATGGATAGAAAATGGAAGTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAA
GAATGGTGATGATTAATTGTAGGTTGTCGTGGGAGACTTTGTTGGCGAACATCACAAAACAGATG
TGTAACAACCCTCGTAGTAGCTTAGGCTAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGC
ATTTCAGGAACGTGAGATTTTGCATGTGGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTG
GATCAATGAAACAGGTAAGAGCACAATTTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGA
ATTGGGCCCAATGGGCTTCCGGGCCCATTTGGATAAAATGGATAGAAAATGGAA
Found at i:19159651 original size:10 final size:10
Alignment explanation
Indices: 19159630--19159663 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
19159620 CATGAGATTT
19159630 TGATAT-ACA
1 TGATATGACA
19159639 TGATATGACA
1 TGATATGACA
19159649 TGATATGCACA
1 TGATATG-ACA
19159660 TGAT
1 TGAT
19159664 TTGTTATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.26
10 10 0.43
11 7 0.30
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:19159662 original size:21 final size:21
Alignment explanation
Indices: 19159636--19159686 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
19159626 ATTTTGATAT
*
19159636 ACATGATATGACATGATATGC
1 ACATGATATGACATGAGATGC
* **
19159657 ACATGATTTGTTATGAGATGC
1 ACATGATATGACATGAGATGC
*
19159678 ACACGATAT
1 ACATGATAT
19159687 ACTCATTATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGAGATGC
Found at i:19159791 original size:24 final size:24
Alignment explanation
Indices: 19159735--19159805 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
19159725 GGAAGTGGGG
*
19159735 AAAG-GGCTTTGCCCCAGTTTACCA
1 AAAGAGGCTTTGCCCCAG-TTATCA
*
19159759 AAA-AGGGCTTTGCCCCAGTTATTA
1 AAAGA-GGCTTTGCCCCAGTTATCA
**
19159783 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAGAGGCTTTGCC-CCAGTTAT
19159806 ATGATAAAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 17 0.44
25 22 0.56
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAGAGGCTTTGCCCCAGTTATCA
Found at i:19160703 original size:51 final size:51
Alignment explanation
Indices: 19160648--19160750 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 51
19160638 AAACTTCAAT
* *
19160648 GTGACACGTC-GGGTCCAGCTATAACGTCTGGGCCAGGTTTGGGGTGTTACA
1 GTGACACGTCAGAGTCCAGC-ATAACGTCTAGGCCAGGTTTGGGGTGTTACA
* * * * *
19160699 GTGACACGTCAGATTCGAGCCTAACTTCTAGGCCGGGTTTGGGGTGTTACA
1 GTGACACGTCAGAGTCCAGCATAACGTCTAGGCCAGGTTTGGGGTGTTACA
19160750 G
1 G
19160751 CTTGTACAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 38 0.86
52 6 0.14
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.26
Consensus pattern (51 bp):
GTGACACGTCAGAGTCCAGCATAACGTCTAGGCCAGGTTTGGGGTGTTACA
Found at i:19160825 original size:43 final size:42
Alignment explanation
Indices: 19160759--19160876 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
19160749 AGCTTGTACA
* * ** *
19160759 ATGCCAACGTCCCAGACGGGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAAACAAGGTCTTACACGTAATCAAATAT-G
* * * *
19160802 ATGCCACTGTCCCAAACAAGGTCTTACCCGAAATCATATATG
1 ATGCCAATGTCCCAAACAAGGTCTTACACGTAATCAAATATG
* * *
19160844 ATGCCAATGTCCCAGACATGGTTTTACACGTAA
1 ATGCCAATGTCCCAAACAAGGTCTTACACGTAA
19160877 ATCTCAAATC
Statistics
Matches: 60, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACAAGGTCTTACACGTAATCAAATATG
Found at i:19166433 original size:18 final size:17
Alignment explanation
Indices: 19166412--19166453 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
19166402 AACATTAGGT
19166412 AACTATATAACATAACC
1 AACTATATAACATAACC
*
19166429 AAACTATATAATATAACC
1 -AACTATATAACATAACC
19166447 AACTATA
1 AACTATA
19166454 CTTTTAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (17 bp):
AACTATATAACATAACC
Found at i:19167879 original size:43 final size:44
Alignment explanation
Indices: 19167832--19167983 Score: 136
Period size: 43 Copynumber: 3.5 Consensus size: 44
19167822 TCTCAAACGT
* * *
19167832 GGTCTTACATGTAATCAAATATCAATGCC-ACTATCCCAGACAG
1 GGTCTTACACGAAATCAAATATCAATGCCAACTGTCCCAGACAG
* * * * *
19167875 GGTCTTACACGAAATCATATA-CGATGCCGA-TGTTCCAGACAT
1 GGTCTTACACGAAATCAAATATCAATGCCAACTGTCCCAGACAG
* *
19167917 GGTCTTACATGTAAATCTCAA-ATCAATGCCAAC-GTCCCAGAC-G
1 GGTCTTACACG-AAATC-AAATATCAATGCCAACTGTCCCAGACAG
*
19167960 TGGTCTTACACGAAATCACATATC
1 -GGTCTTACACGAAATCAAATATC
19167984 GGAATCCTAT
Statistics
Matches: 85, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
42 26 0.31
43 33 0.39
44 26 0.31
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (44 bp):
GGTCTTACACGAAATCAAATATCAATGCCAACTGTCCCAGACAG
Found at i:19167915 original size:42 final size:44
Alignment explanation
Indices: 19167852--19167977 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 44
19167842 GTAATCAAAT
* *
19167852 ATCAATGCC-ACTATCCCAGACAGGGTCTTACACGAAATCAT-AT
1 ATCAATGCCAAC-GTCCCAGACAGGGTCTTACACGAAATCATCAA
* * * * * *
19167895 A-CGATGCCGATGTTCCAGACATGGTCTTACATGTAAATC-TCAA
1 ATCAATGCCAACGTCCCAGACAGGGTCTTACACG-AAATCATCAA
19167938 ATCAATGCCAACGTCCCAGAC-GTGGTCTTACACGAAATCA
1 ATCAATGCCAACGTCCCAGACAG-GGTCTTACACGAAATCA
19167978 CATATCGGAA
Statistics
Matches: 64, Mismatches: 13, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
42 25 0.39
43 14 0.22
44 25 0.39
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (44 bp):
ATCAATGCCAACGTCCCAGACAGGGTCTTACACGAAATCATCAA
Found at i:19170600 original size:23 final size:23
Alignment explanation
Indices: 19170564--19170698 Score: 139
Period size: 23 Copynumber: 5.9 Consensus size: 23
19170554 GGACTCACCA
*
19170564 TAGCTCGTATGAGCTTACTGATT
1 TAGCTCGTAAGAGCTTACTGATT
*
19170587 TAGCTCGCAAGAGCTTACT-ATT
1 TAGCTCGTAAGAGCTTACTGATT
** * *
19170609 TCAAATCATTAGAGCTTACTGATT
1 T-AGCTCGTAAGAGCTTACTGATT
*
19170633 CAGCTCGTAAGAGCTTACTG-TT
1 TAGCTCGTAAGAGCTTACTGATT
* * *
19170655 TCAGTTCATTAGAGCTTACTGATT
1 T-AGCTCGTAAGAGCTTACTGATT
*
19170679 TAGCTCGCAAGAGCTTACTG
1 TAGCTCGTAAGAGCTTACTG
19170699 TTTCAACTTA
Statistics
Matches: 88, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
22 6 0.07
23 76 0.86
24 6 0.07
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (23 bp):
TAGCTCGTAAGAGCTTACTGATT
Found at i:19170645 original size:46 final size:46
Alignment explanation
Indices: 19170574--19170790 Score: 258
Period size: 46 Copynumber: 4.7 Consensus size: 46
19170564 TAGCTCGTAT
* *
19170574 GAGCTTACTGATTTAGCTCGCAAGAGCTTACTATTTCAAATCATTA
1 GAGCTTACTGATTTAGCTCGCAAGAGCTTACTGTTTCAACTCATTA
* * **
19170620 GAGCTTACTGATTCAGCTCGTAAGAGCTTACTGTTTCAGTTCATTA
1 GAGCTTACTGATTTAGCTCGCAAGAGCTTACTGTTTCAACTCATTA
* *
19170666 GAGCTTACTGATTTAGCTCGCAAGAGCTTACTGTTTCAACTTATTG
1 GAGCTTACTGATTTAGCTCGCAAGAGCTTACTGTTTCAACTCATTA
* * * *
19170712 GAGCTTACTGATTCATCTTG-ATAGAGCTTACTG-TTCAACTCAATA
1 GAGCTTACTGATTTAGCTCGCA-AGAGCTTACTGTTTCAACTCATTA
* * ***
19170757 GAGCTTACCGTTTTAGCTCATTAGAGCTTACTGT
1 GAGCTTACTGATTTAGCTCGCAAGAGCTTACTGT
19170791 CCATCAATTC
Statistics
Matches: 144, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
45 35 0.24
46 109 0.76
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (46 bp):
GAGCTTACTGATTTAGCTCGCAAGAGCTTACTGTTTCAACTCATTA
Found at i:19170715 original size:23 final size:23
Alignment explanation
Indices: 19170596--19170790 Score: 162
Period size: 23 Copynumber: 8.5 Consensus size: 23
19170586 TTAGCTCGCA
* *
19170596 AGAGCTTACTATTTCAAATCATT
1 AGAGCTTACTGTTTCAACTCATT
* * * *
19170619 AGAGCTTACTGATTCAGCTCGTA
1 AGAGCTTACTGTTTCAACTCATT
**
19170642 AGAGCTTACTGTTTCAGTTCATT
1 AGAGCTTACTGTTTCAACTCATT
* ***
19170665 AGAGCTTACTGATTT-AGCTCGCA
1 AGAGCTTACTG-TTTCAACTCATT
*
19170688 AGAGCTTACTGTTTCAACTTATT
1 AGAGCTTACTGTTTCAACTCATT
* * * *
19170711 GGAGCTTACTGATTCATCTTGA-T
1 AGAGCTTACTGTTTCAAC-TCATT
*
19170734 AGAGCTTACTG-TTCAACTCAAT
1 AGAGCTTACTGTTTCAACTCATT
* * *
19170756 AGAGCTTACCGTTTTAGCTCATT
1 AGAGCTTACTGTTTCAACTCATT
19170779 AGAGCTTACTGT
1 AGAGCTTACTGT
19170791 CCATCAATTC
Statistics
Matches: 136, Mismatches: 31, Indels: 10
0.77 0.18 0.06
Matches are distributed among these distances:
21 2 0.01
22 19 0.14
23 110 0.81
24 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAACTCATT
Found at i:19171812 original size:40 final size:40
Alignment explanation
Indices: 19171768--19171847 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
19171758 ATAATTAACA
*
19171768 TAATACTATAACCTAACATAATAATTCACAATAAATGGGT
1 TAATACTATAACCTAACATAATAATTCACAAGAAATGGGT
*
19171808 TAATACTATACCCTAACATAATAATTCACAAGAAATGGGT
1 TAATACTATAACCTAACATAATAATTCACAAGAAATGGGT
19171848 GAGTTTGTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (40 bp):
TAATACTATAACCTAACATAATAATTCACAAGAAATGGGT
Found at i:19172089 original size:20 final size:18
Alignment explanation
Indices: 19172018--19172111 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 18
19172008 GTGATCACAT
19172018 CAGGGAGCACCATAGTGCAGAA
1 CAGGG-GCACCA-AGTGC--AA
* *
19172040 CAAGGGCACAGAAGTGCATA
1 CAGGGGCAC-CAAGTGCA-A
19172060 CAGGGGCACCTAAGTGCAA
1 CAGGGGCACC-AAGTGCAA
19172079 GCAGGGGCACCACAGTGCAA
1 -CAGGGGCACCA-AGTGCAA
*
19172099 CCAAGGGCACCAA
1 -CAGGGGCACCAA
19172112 TGTGTAAGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.07
20 43 0.70
21 9 0.15
22 5 0.08
ACGTcount: A:0.35, C:0.27, G:0.31, T:0.07
Consensus pattern (18 bp):
CAGGGGCACCAAGTGCAA
Found at i:19174873 original size:40 final size:39
Alignment explanation
Indices: 19174836--19175013 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
19174826 ATATCCGGAC
19174836 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
19174876 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
19174916 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
19174956 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
19174995 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
19175014 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:19174926 original size:80 final size:79
Alignment explanation
Indices: 19174842--19175013 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
19174832 GGACTAAGAT
*
19174842 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
19174906 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
19174922 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
19174987 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
19175001 CCGAAGGCATTTG
1 CCGAAGGCATTTG
19175014 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:19175031 original size:79 final size:80
Alignment explanation
Indices: 19174869--19175046 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
19174859 AGATACAAAT
* * * *
19174869 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
19174934 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
19174949 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
19175013 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
19175028 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
19175047 TACGTGTTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:19177516 original size:54 final size:54
Alignment explanation
Indices: 19177400--19177516 Score: 148
Period size: 56 Copynumber: 2.1 Consensus size: 54
19177390 CAAGTCAGGT
* *
19177400 AGTTACACGGCCTAGCACACGACCTGCCACACAGGGGTGTGAGGCCATTTTTCGAG
1 AGTTACACGGCCTAGCACACGACCTG-CACACAGGGGTCTGAGGCCA-TTTCCGAG
* *
19177456 AGTTACACGGCCTAGTACACGGCCTG-ACACATGGGCGTCTGAGGCCA-TTCCGAG
1 AGTTACACGGCCTAGCACACGACCTGCACACA-GGG-GTCTGAGGCCATTTCCGAG
19177510 AGTTACA
1 AGTTACA
19177517 TAGCCTGACA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
54 18 0.33
55 3 0.05
56 34 0.62
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.20
Consensus pattern (54 bp):
AGTTACACGGCCTAGCACACGACCTGCACACAGGGGTCTGAGGCCATTTCCGAG
Found at i:19180379 original size:39 final size:39
Alignment explanation
Indices: 19180336--19180413 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
19180326 CCAAACTTAG
19180336 TTTGCTATATATACCGAAGAGTCCGAGGGATAGTGTGAT
1 TTTGCTATATATACCGAAGAGTCCGAGGGATAGTGTGAT
19180375 TTTGCTATATATACCGAAGAGTCCGAGGGATAGTGTGAT
1 TTTGCTATATATACCGAAGAGTCCGAGGGATAGTGTGAT
19180414 GTAGCTCTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (39 bp):
TTTGCTATATATACCGAAGAGTCCGAGGGATAGTGTGAT
Found at i:19180915 original size:25 final size:25
Alignment explanation
Indices: 19180880--19180933 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
19180870 AGTTCAGAAT
19180880 GCTCTTACAAGCACATA-AATGGAAA
1 GCTCTTACAAGC-CATATAATGGAAA
* * *
19180905 GCTCTTTCAAGCTATATAATGGGAA
1 GCTCTTACAAGCCATATAATGGAAA
19180930 GCTC
1 GCTC
19180934 ATGTGAGCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (25 bp):
GCTCTTACAAGCCATATAATGGAAA
Found at i:19180990 original size:24 final size:25
Alignment explanation
Indices: 19180921--19180990 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
19180911 TCAAGCTATA
*
19180921 TAATGGGAAGCTCATGTGAGCCATG
1 TAATGGGAAGCTCATATGAGCCATG
* *
19180946 TAATGGGAAGCAC-TAGAGAGCCAT-
1 TAATGGGAAGCTCATA-TGAGCCATG
*
19180970 TAATTGGAAGCTCATATGAGC
1 TAATGGGAAGCTCATATGAGC
19180991 TAATATAGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
24 16 0.43
25 21 0.57
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (25 bp):
TAATGGGAAGCTCATATGAGCCATG
Found at i:19192458 original size:53 final size:53
Alignment explanation
Indices: 19192378--19192484 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
19192368 GTCCAATCCT
19192378 ACAAGCAATAATATACAACATTCATACCAAAATTTCCAACCAATTCCATGCTC
1 ACAAGCAATAATATACAACATTCATACCAAAATTTCCAACCAATTCCATGCTC
19192431 ACAAGCAATAATATACAACATTCATACCAAAATTTCCAACCAATTCCATGCTC
1 ACAAGCAATAATATACAACATTCATACCAAAATTTCCAACCAATTCCATGCTC
19192484 A
1 A
19192485 AAACATACTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.44, C:0.28, G:0.04, T:0.24
Consensus pattern (53 bp):
ACAAGCAATAATATACAACATTCATACCAAAATTTCCAACCAATTCCATGCTC
Found at i:19197315 original size:13 final size:13
Alignment explanation
Indices: 19197307--19197331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19197297 CGAAATTAAT
19197307 AATAAAAATAAAA
1 AATAAAAATAAAA
19197320 AATAAAAATAAA
1 AATAAAAATAAA
19197332 CTTTATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:19203594 original size:13 final size:13
Alignment explanation
Indices: 19203576--19203601 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19203566 GCTCGACAGG
19203576 GACACGCCCGTGT
1 GACACGCCCGTGT
19203589 GACACGCCCGTGT
1 GACACGCCCGTGT
19203602 TTGATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:19204020 original size:20 final size:20
Alignment explanation
Indices: 19203995--19204034 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
19203985 ATGACATTTT
19203995 TCACCAAACAGATAGTGACG
1 TCACCAAACAGATAGTGACG
19204015 TCACCAAACAGATAGTGACG
1 TCACCAAACAGATAGTGACG
19204035 CCAAATCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (20 bp):
TCACCAAACAGATAGTGACG
Found at i:19216980 original size:42 final size:42
Alignment explanation
Indices: 19216867--19217039 Score: 197
Period size: 43 Copynumber: 4.0 Consensus size: 42
19216857 AGAAAGGTTG
* * *
19216867 TACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAA
* *
19216909 TATCAATACC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAA
1 TA-CAATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAA
*
19216952 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACG-AAA--TCAAA
* ** *
19216997 TA-GATGCCAACGTCCCAGATGTGGTCTTACACAAAATCAAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAA
19217038 TA
1 TA
19217040 TCGAAAATCC
Statistics
Matches: 112, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
41 7 0.06
42 31 0.28
43 41 0.37
44 26 0.23
45 7 0.06
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (42 bp):
TACAATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAA
Found at i:19221977 original size:43 final size:43
Alignment explanation
Indices: 19221929--19222051 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 43
19221919 ATTGAGATGT
* * *
19221929 GATTACATGTAAAACCATGTCTGGGACATTGGCATTGTCTTGA
1 GATTACGTGTAAAACCATGTCTGGGACATTGGCATCGTATTGA
* * *
19221972 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATTGT
1 GATTACGTGTAAAACCATGTCTGGGACATTGGCATCGTATTGA
* * * * *
19222015 GATTTCGTGTAAAACCCTGTTTGGGATAGTGGCATCG
1 GATTACGTGTAAAACCATGTCTGGGACATTGGCATCG
19222052 ATATGTATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAAACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:19225172 original size:13 final size:13
Alignment explanation
Indices: 19225154--19225178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19225144 ACAAACGATA
19225154 AAATTTTCACACG
1 AAATTTTCACACG
19225167 AAATTTTCACAC
1 AAATTTTCACAC
19225179 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:19231109 original size:43 final size:43
Alignment explanation
Indices: 19231061--19231183 Score: 183
Period size: 43 Copynumber: 2.9 Consensus size: 43
19231051 ATTGAGATGT
* * *
19231061 GATTACTTGTAAGACCATGTTTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
*
19231104 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * *
19231147 GATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCG
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG
19231184 ATATGTATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:19231201 original size:43 final size:43
Alignment explanation
Indices: 19231057--19231207 Score: 175
Period size: 43 Copynumber: 3.5 Consensus size: 43
19231047 GGTTATTGAG
* * *
19231057 ATGTGA-TTACTTGTAAGACCATGTTTGGGACATTGGCATTGT
1 ATGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
*
19231099 AT-TGAGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
1 ATGTGA-TTTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
* *
19231142 ATTGTGATTT-CGTGTAAGACCCTGTCTGGGACAATGGCATCGAT
1 A-TGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG-T
* *
19231186 ATGT-ATTTACATGTAAAACCAT
1 ATGTGATTTACGTGTAAGACCAT
19231208 ACCTATGATA
Statistics
Matches: 94, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
41 3 0.03
42 6 0.06
43 77 0.82
44 5 0.05
45 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
ATGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:19234487 original size:24 final size:24
Alignment explanation
Indices: 19234460--19234544 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 24
19234450 ATCACAACCA
*
19234460 AATGAGATGCTCCGAAGAGCTATT
1 AATGAGAAGCTCCGAAGAGCTATT
* *
19234484 AATGGGAAGCT-CGCAAGAACTATAT
1 AATGAGAAGCTCCG-AAGAGCTAT-T
* ** *
19234509 AATGGGAAGCTCATAAGAGCTAAT
1 AATGAGAAGCTCCGAAGAGCTATT
* *
19234533 AACGAGATGCTC
1 AATGAGAAGCTC
19234545 TTTCAAGTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
23 2 0.04
24 27 0.56
25 19 0.40
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (24 bp):
AATGAGAAGCTCCGAAGAGCTATT
Found at i:19234526 original size:25 final size:25
Alignment explanation
Indices: 19234474--19234534 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
19234464 AGATGCTCCG
*
19234474 AAGAGCTAT-TAATGGGAAGCTCGC
1 AAGAGCTATATAATGGGAAGCTCAC
* *
19234498 AAGAACTATATAATGGGAAGCTCAT
1 AAGAGCTATATAATGGGAAGCTCAC
19234523 AAGAGCTA-ATAA
1 AAGAGCTATATAA
19234535 CGAGATGCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 12 0.38
25 20 0.62
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (25 bp):
AAGAGCTATATAATGGGAAGCTCAC
Found at i:19241806 original size:79 final size:77
Alignment explanation
Indices: 19241723--19242022 Score: 244
Period size: 79 Copynumber: 3.8 Consensus size: 77
19241713 AAGAAATGAA
*
19241723 AAAAATTGAAATGAAATGAAATAAAAAAA-GAAGTGAAACTAAAAATTGAAATGAAATAAATTCA
1 AAAAATTGAAATGAAATGAAATAAAAAAATGAAATGAAACTAAAAATTGAAATGAAATAAA-T-A
19241787 AAAGGAAATTAAATG
64 AAAGGAAA-TAAATG
* *
19241802 AAAAATTGAAATTAAATGAAATAAATTAAAAAATGAAATGAAACTAAAAATTGAAATTAAATTAA
1 AAAAATTGAAATGAAATGAAAT--A--AAAAAATGAAATGAAACTAAAAATTGAAATGAAA-TAA
* * *
19241867 ATGAAATGAAATAAATT
61 ATAAAAGGAAATAAATG
* * *
19241884 AAAAA-TGAAATGAAATGAACAAAAAATTGAAATGAAAT-AAA-TAAAAATTGAAATGAAATGAG
1 AAAAATTGAAATGAAATGAA-ATAAAA---AAATGAAATGAAACTAAAAATTGAAATGAAATAAA
*
19241946 T----TGATAATGAAATG
62 TAAAAGGA-AAT-AAATG
* * * * *
19241960 AAAATTTCAAATGAAATGAAATGAAATAAAT-TAA--AAATTAAAAATTGAAATGAAATGAAATA
1 AAAAATTGAAATGAAATGAAAT-AAAAAAATGAAATGAAACTAAAAATTGAAATGAAAT-AAATA
19242022 A
64 A
19242023 TTTAAAAGTT
Statistics
Matches: 184, Mismatches: 19, Indels: 39
0.76 0.08 0.16
Matches are distributed among these distances:
72 3 0.02
73 20 0.11
74 9 0.05
75 3 0.02
76 9 0.05
77 16 0.09
78 6 0.03
79 37 0.20
80 4 0.02
81 23 0.12
82 11 0.06
83 13 0.07
84 26 0.14
85 4 0.02
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.24
Consensus pattern (77 bp):
AAAAATTGAAATGAAATGAAATAAAAAAATGAAATGAAACTAAAAATTGAAATGAAATAAATAAA
AGGAAATAAATG
Found at i:19241814 original size:45 final size:45
Alignment explanation
Indices: 19241725--19241873 Score: 152
Period size: 45 Copynumber: 3.4 Consensus size: 45
19241715 GAAATGAAAA
* *
19241725 AAATTGAAATGAAATGAAA-TAAAAAAAGAAGTGAAACTAAAAATTG
1 AAATT-AAATGAAAT-AAATTAAAAAAGGAAATGAAACTAAAAATTG
* *
19241771 -----AAATGAAATAAATT-CAAAAGGAAATTAAA-TGAAAAATTG
1 AAATTAAATGAAATAAATTAAAAAAGGAAATGAAACT-AAAAATTG
*
19241810 AAATTAAATGAAATAAATTAAAAAATGAAATGAAACTAAAAATTG
1 AAATTAAATGAAATAAATTAAAAAAGGAAATGAAACTAAAAATTG
*
19241855 AAATTAAATTAAATGAAAT
1 AAATTAAATGAAAT-AAAT
19241874 GAAATAAATT
Statistics
Matches: 85, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
38 1 0.01
39 22 0.26
40 10 0.12
44 14 0.16
45 33 0.39
46 5 0.06
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.23
Consensus pattern (45 bp):
AAATTAAATGAAATAAATTAAAAAAGGAAATGAAACTAAAAATTG
Found at i:19241832 original size:27 final size:27
Alignment explanation
Indices: 19241791--19242052 Score: 143
Period size: 27 Copynumber: 9.4 Consensus size: 27
19241781 AATTCAAAAG
* *
19241791 GAAATTAAATGAAAAATTGAAATTAAAT
1 GAAA-TAAATTAAAAATTGAAATGAAAT
*
19241819 GAAATAAATTAAAAAATGAAATGAAACT
1 GAAATAAATTAAAAATTGAAATGAAA-T
*
19241847 AAAAATTGAAATT--AAATT-AAATGAAAT
1 -GAAA-T-AAATTAAAAATTGAAATGAAAT
19241874 GAAATAAATTAAAAA-TGAAATGAAAT
1 GAAATAAATTAAAAATTGAAATGAAAT
*
19241900 G--A-ACA--AAAAATTGAAATGAAAT
1 GAAATAAATTAAAAATTGAAATGAAAT
* **
19241922 -AAATAAAAATT-GAAA-TGAAATGAGTT
1 GAAAT--AAATTAAAAATTGAAATGAAAT
* *
19241948 GATAATGAAATGAAAATTTCAAATGAAATGAAAT
1 GA-AAT-AAAT-TAAA----AATTGAAATGAAAT
19241982 GAAATAAATTAAAAATTAAAAATTGAAATGAAAT
1 GAAATAAATT----A---AAAATTGAAATGAAAT
* *
19242016 GAAATAATTTAAAAGTTGAAATGAAAT
1 GAAATAAATTAAAAATTGAAATGAAAT
19242043 GAAATAAATT
1 GAAATAAATT
19242053 TATTATTTAA
Statistics
Matches: 182, Mismatches: 21, Indels: 63
0.68 0.08 0.24
Matches are distributed among these distances:
21 5 0.03
22 11 0.06
23 3 0.02
24 6 0.03
25 2 0.01
26 27 0.15
27 52 0.29
28 16 0.09
29 8 0.04
30 2 0.01
31 5 0.03
32 4 0.02
33 5 0.03
34 33 0.18
35 1 0.01
38 2 0.01
ACGTcount: A:0.61, C:0.01, G:0.12, T:0.26
Consensus pattern (27 bp):
GAAATAAATTAAAAATTGAAATGAAAT
Done.