Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 78 of 106
Found at i:29703193 original size:15 final size:15
Alignment explanation
Indices: 29703173--29703201 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29703163 ACATTAAGAA
29703173 CAAGTACCATAAAAG
1 CAAGTACCATAAAAG
29703188 CAAGTACCATAAAA
1 CAAGTACCATAAAA
29703202 CCCTAAACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.21, G:0.10, T:0.14
Consensus pattern (15 bp):
CAAGTACCATAAAAG
Found at i:29707695 original size:22 final size:23
Alignment explanation
Indices: 29707669--29707724 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
29707659 TACCGGCCCA
29707669 ACGTCACGCAATACATA-ACAA-C
1 ACGTCACGCAATACATACA-AACC
29707691 ACGTCAC-CATATACATACAAACC
1 ACGTCACGCA-ATACATACAAACC
29707714 AC-TCACGCAAT
1 ACGTCACGCAAT
29707725 GTCTCAACAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 2 0.07
22 22 0.73
23 6 0.20
ACGTcount: A:0.43, C:0.34, G:0.07, T:0.16
Consensus pattern (23 bp):
ACGTCACGCAATACATACAAACC
Found at i:29708926 original size:40 final size:40
Alignment explanation
Indices: 29708868--29708947 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
29708858 CCACAAACAA
* * *
29708868 GTCACGCAATGCTTAACAAATATTCAGTCACATAATGCCT
1 GTCACGCAACGCTAAACAAATATTCAATCACATAATGCCT
* *
29708908 GTCACGCAACGCTAAACAAATATTCAATTACGTAATGCCT
1 GTCACGCAACGCTAAACAAATATTCAATCACATAATGCCT
29708948 ATAAACAAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.26
Consensus pattern (40 bp):
GTCACGCAACGCTAAACAAATATTCAATCACATAATGCCT
Found at i:29711341 original size:26 final size:26
Alignment explanation
Indices: 29711305--29711366 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
29711295 GCTTTCAAAA
* *
29711305 AGTTAAGTCTGTTGA-ACAAAACCAAT
1 AGTTATGTCTGTTGAGA-AAAACCAAG
*
29711331 AGTTGTGTCTGTTGAGAAAAACCAAG
1 AGTTATGTCTGTTGAGAAAAACCAAG
29711357 AGTTATGTCT
1 AGTTATGTCT
29711367 ATTTGAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 30 0.97
27 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (26 bp):
AGTTATGTCTGTTGAGAAAAACCAAG
Found at i:29716900 original size:66 final size:67
Alignment explanation
Indices: 29716794--29716926 Score: 207
Period size: 66 Copynumber: 2.0 Consensus size: 67
29716784 GAAGATAGCC
* *
29716794 CCTATTAGTTTCCTAGCTCTCACTTTAAAGCTTTGCTTCGTACACAAGAG-AAAGAGGTCAGTCA
1 CCTATTAGTTTCCTAACTCTCACTGTAAAGCTTTGCTTCGTACACAAGAGAAAAGAGGTCAGTCA
29716858 CT
66 CT
* *
29716860 CCTATTAGTTTCCTAACTCTCACTGTAGAGC-TTGTCTTCGTATACAAGAGAAAAGAGGTCAGTC
1 CCTATTAGTTTCCTAACTCTCACTGTAAAGCTTTG-CTTCGTACACAAGAGAAAAGAGGTCAGTC
29716924 ACT
65 ACT
29716927 AAGGTGTGTC
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
65 3 0.05
66 42 0.69
67 16 0.26
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (67 bp):
CCTATTAGTTTCCTAACTCTCACTGTAAAGCTTTGCTTCGTACACAAGAGAAAAGAGGTCAGTCA
CT
Found at i:29722966 original size:30 final size:31
Alignment explanation
Indices: 29722924--29722984 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
29722914 TTGATCAAAC
*
29722924 TTTTGTACTTTTATTTTGAATTAAATAAGTT
1 TTTTGTACTTTTATTTTAAATTAAATAAGTT
29722955 TTTTG-ACTTTTATTTTAAATTAAATAAGTT
1 TTTTGTACTTTTATTTTAAATTAAATAAGTT
29722985 CTTATAACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.57
Consensus pattern (31 bp):
TTTTGTACTTTTATTTTAAATTAAATAAGTT
Found at i:29723262 original size:28 final size:27
Alignment explanation
Indices: 29723230--29723295 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
29723220 TCATTAATTT
**
29723230 ATTTATTTATTTAAAATAAAAATATAAA
1 ATTTATTTAAATAAAATAAAAA-ATAAA
* *
29723258 ATTTAATTAAATATAATAAAAAATAAA
1 ATTTATTTAAATAAAATAAAAAATAAA
* *
29723285 AATTATATAAA
1 ATTTATTTAAA
29723296 AATGTTTTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 13 0.42
28 18 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
ATTTATTTAAATAAAATAAAAAATAAA
Found at i:29723322 original size:22 final size:23
Alignment explanation
Indices: 29723283--29723343 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 23
29723273 ATAAAAAATA
*
29723283 AAAATTATATAAAAATGTTTTTT
1 AAAATAATATAAAAATGTTTTTT
*
29723306 AAAATAAT-TAAACATGTTTTTT
1 AAAATAATATAAAAATGTTTTTT
*
29723328 AAATATTATATAAAAA
1 AAA-ATAATATAAAAA
29723344 ATATATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 16 0.50
23 11 0.34
24 5 0.16
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (23 bp):
AAAATAATATAAAAATGTTTTTT
Found at i:29747116 original size:3 final size:3
Alignment explanation
Indices: 29747108--29747136 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
29747098 GGAGGGAGAG
29747108 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
29747137 ATTAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:29747874 original size:6 final size:6
Alignment explanation
Indices: 29747863--29747893 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
29747853 CCTAGATATG
29747863 TCAGCC TCAGCC TCAGCC TCAGCC TCAGCC T
1 TCAGCC TCAGCC TCAGCC TCAGCC TCAGCC T
29747894 TGGGGATACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.48, G:0.16, T:0.19
Consensus pattern (6 bp):
TCAGCC
Found at i:29752809 original size:7 final size:8
Alignment explanation
Indices: 29752786--29752811 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
29752776 GAATAATAAT
29752786 AATGAAAA
1 AATGAAAA
29752794 AATGAAAA
1 AATGAAAA
29752802 AATGAAAA
1 AATGAAAA
29752810 AA
1 AA
29752812 AAAAAGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AATGAAAA
Found at i:29753169 original size:35 final size:34
Alignment explanation
Indices: 29753118--29753279 Score: 177
Period size: 34 Copynumber: 4.7 Consensus size: 34
29753108 GAATAGTGAA
*
29753118 AGCTGGGGGTGTTTGCCGCCGGTTAGGAGGAGTGAA-
1 AGCT-GGGGTGTTTGCCGCCGGTGA-GAGGAGT-AAT
* * * * *
29753154 AACTGGGGTCTTTGCCGTCGGTTAGGAGGAGCAAT
1 AGCTGGGGTGTTTGCCGCCGGTGA-GAGGAGTAAT
29753189 AGCTTGGGG-GTTTGCCGCCGGTGAGAGGAGTAAT
1 AGC-TGGGGTGTTTGCCGCCGGTGAGAGGAGTAAT
29753223 AGCTTGGGG-GTTTGCCGCCGGTGAGAGGAGTAAT
1 AGC-TGGGGTGTTTGCCGCCGGTGAGAGGAGTAAT
* *
29753257 ATCTGGAGTGTTTGCCGCCGGTG
1 AGCTGGGGTGTTTGCCGCCGGTG
29753280 GGGGGTGATT
Statistics
Matches: 112, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
33 4 0.04
34 61 0.54
35 39 0.35
36 8 0.07
ACGTcount: A:0.17, C:0.16, G:0.43, T:0.25
Consensus pattern (34 bp):
AGCTGGGGTGTTTGCCGCCGGTGAGAGGAGTAAT
Found at i:29754106 original size:10 final size:10
Alignment explanation
Indices: 29754091--29754120 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
29754081 GAGATAGATG
*
29754091 AATAAATGTA
1 AATAAATATA
29754101 AATAAATATA
1 AATAAATATA
29754111 AATAAATATA
1 AATAAATATA
29754121 TTATGTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (10 bp):
AATAAATATA
Found at i:29754436 original size:13 final size:13
Alignment explanation
Indices: 29754418--29754447 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
29754408 GATTATACAA
29754418 AAAATTACTTGAT
1 AAAATTACTTGAT
29754431 AAAATTACTTGAT
1 AAAATTACTTGAT
29754444 AAAA
1 AAAA
29754448 ATAAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (13 bp):
AAAATTACTTGAT
Found at i:29754467 original size:18 final size:18
Alignment explanation
Indices: 29754446--29754483 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
29754436 TACTTGATAA
29754446 AAATAAATAAT-AAGTAAT
1 AAAT-AATAATAAAGTAAT
29754464 AAATAATAATAAAGTAAT
1 AAATAATAATAAAGTAAT
29754482 AA
1 AA
29754484 CAATTCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
AAATAATAATAAAGTAAT
Found at i:29754547 original size:4 final size:4
Alignment explanation
Indices: 29754538--29754568 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
29754528 TACATGACAT
29754538 TAAA TAAA TAAA TAAA TAAA TAAA T-AA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
29754569 AATAACTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:29754754 original size:28 final size:30
Alignment explanation
Indices: 29754723--29754781 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
29754713 GAAAATGTGT
29754723 AAATAATAAAA-A-TATAA-AAAAATATATA
1 AAATAA-AAAATAGTATAATAAAAATATATA
29754751 AAATAAAAAATAGTATAATAAAAATATATA
1 AAATAAAAAATAGTATAATAAAAATATATA
29754781 A
1 A
29754782 TTTTTGCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 4 0.14
28 7 0.25
29 5 0.18
30 12 0.43
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (30 bp):
AAATAAAAAATAGTATAATAAAAATATATA
Found at i:29754758 original size:15 final size:15
Alignment explanation
Indices: 29754740--29754781 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
29754730 AAAAATATAA
29754740 AAAAATATATAAAAT
1 AAAAATATATAAAAT
*
29754755 AAAAA-ATAGTATAAT
1 AAAAATATA-TAAAAT
29754770 AAAAATATATAA
1 AAAAATATATAA
29754782 TTTTTGCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.13
15 17 0.74
16 3 0.13
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
AAAAATATATAAAAT
Found at i:29754761 original size:16 final size:16
Alignment explanation
Indices: 29754739--29754781 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
29754729 TAAAAATATA
29754739 AAAAAATATATAAAAT
1 AAAAAATATATAAAAT
29754755 AAAAAATAGTAT--AAT
1 AAAAAATA-TATAAAAT
29754770 -AAAAATATATAA
1 AAAAAATATATAA
29754782 TTTTTGCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.12
14 7 0.29
15 3 0.12
16 8 0.33
17 3 0.12
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (16 bp):
AAAAAATATATAAAAT
Found at i:29754937 original size:12 final size:13
Alignment explanation
Indices: 29754913--29754942 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
29754903 TAAGAATAGG
29754913 AAATATGATAATA
1 AAATATGATAATA
29754926 AAATAT-ATAATA
1 AAATATGATAATA
29754938 AAATA
1 AAATA
29754943 AAAAATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (13 bp):
AAATATGATAATA
Found at i:29754949 original size:19 final size:20
Alignment explanation
Indices: 29754920--29754974 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
29754910 AGGAAATATG
29754920 ATAATAAAATATATAAT-AAA
1 ATAA-AAAATATATAATGAAA
* *
29754940 ATAAAAAATAT-TGATGATA
1 ATAAAAAATATATAATGAAA
*
29754959 ATAAAAAATAAATAAT
1 ATAAAAAATATATAAT
29754975 TGTATTAGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 3 0.10
19 19 0.66
20 7 0.24
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (20 bp):
ATAAAAAATATATAATGAAA
Found at i:29758672 original size:72 final size:72
Alignment explanation
Indices: 29758555--29758697 Score: 268
Period size: 72 Copynumber: 2.0 Consensus size: 72
29758545 TTTAACAACA
29758555 ATTAATAACAATGTTAAGATTTTATCTTCTACTTAGATGAAAGAAGACATGACATTTTGATGATG
1 ATTAATAACAATGTTAAGATTTTATCTTCTACTTAGATGAAAGAAGACATGACATTTTGATGATG
29758620 ACTAACC
66 ACTAACC
* *
29758627 ATTAATAACAATGTTAAGATTTTATCTTTTACTTAGATGATAGAAGACATGACATTTTGATGATG
1 ATTAATAACAATGTTAAGATTTTATCTTCTACTTAGATGAAAGAAGACATGACATTTTGATGATG
29758692 ACTAAC
66 ACTAAC
29758698 ATATTGATGT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (72 bp):
ATTAATAACAATGTTAAGATTTTATCTTCTACTTAGATGAAAGAAGACATGACATTTTGATGATG
ACTAACC
Found at i:29761363 original size:21 final size:21
Alignment explanation
Indices: 29761339--29761379 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29761329 CATAATATTA
29761339 TAATAAAAAAAAAAAATTAAT
1 TAATAAAAAAAAAAAATTAAT
**
29761360 TAATAAAAATTAAAAATTAA
1 TAATAAAAAAAAAAAATTAA
29761380 AGAGACATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
TAATAAAAAAAAAAAATTAAT
Found at i:29761416 original size:3 final size:3
Alignment explanation
Indices: 29761403--29761442 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
29761393 GAAATTTAAA
*
29761403 AAT ACT AAT AAT AAT AAT AAT AA- AAT AAAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A
29761443 GTAANGATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:29764519 original size:22 final size:22
Alignment explanation
Indices: 29764494--29764575 Score: 155
Period size: 22 Copynumber: 3.7 Consensus size: 22
29764484 TAAATTTAAA
*
29764494 AAAATTATTAAAATAATTATTT
1 AAAATTATTTAAATAATTATTT
29764516 AAAATTATTTAAATAATTATTT
1 AAAATTATTTAAATAATTATTT
29764538 AAAATTATTTAAATAATTATTT
1 AAAATTATTTAAATAATTATTT
29764560 AAAATTATTTAAATAA
1 AAAATTATTTAAATAA
29764576 GACTAAAATA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 59 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAAATTATTTAAATAATTATTT
Found at i:29764569 original size:10 final size:10
Alignment explanation
Indices: 29764494--29764572 Score: 95
Period size: 10 Copynumber: 7.3 Consensus size: 10
29764484 TAAATTTAAA
*
29764494 AAAATTATTAA
1 AAAATTATT-T
29764505 AATAATTATTT
1 AA-AATTATTT
29764516 AAAATTATTT
1 AAAATTATTT
29764526 AAATAATTATTT
1 -AA-AATTATTT
29764538 AAAATTATTT
1 AAAATTATTT
29764548 AAATAATTATTT
1 -AA-AATTATTT
29764560 AAAATTATTT
1 AAAATTATTT
29764570 AAA
1 AAA
29764573 TAAGACTAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 11
0.84 0.01 0.15
Matches are distributed among these distances:
10 27 0.44
11 12 0.19
12 23 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
AAAATTATTT
Found at i:29764648 original size:17 final size:18
Alignment explanation
Indices: 29764626--29764664 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
29764616 GTATACATGT
* *
29764626 TTAAACATGAT-ATACGA
1 TTAAACACGATGACACGA
29764643 TTAAACACGATGACACGA
1 TTAAACACGATGACACGA
29764661 TTAA
1 TTAA
29764665 TTAAACGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (18 bp):
TTAAACACGATGACACGA
Found at i:29769767 original size:19 final size:19
Alignment explanation
Indices: 29769734--29769774 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
29769724 TTAATTAAAA
*
29769734 TTTTACTTTTATATATATAT
1 TTTTAATTTTATATATAT-T
29769754 TTTTAATTTT-TATATATT
1 TTTTAATTTTATATATATT
29769772 TTT
1 TTT
29769775 AATATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 7 0.35
20 9 0.45
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTAATTTTATATATATT
Found at i:29782369 original size:28 final size:28
Alignment explanation
Indices: 29782311--29782414 Score: 86
Period size: 28 Copynumber: 3.8 Consensus size: 28
29782301 TAGCGTTACA
* * * * *
29782311 CACTTGAAAATGTCATTTGTGGATCACG
1 CACTTGAAAACGTCACTTGTGCATTATG
*
29782339 CACTTGAAAATGTCACTTGTGCATTATG
1 CACTTGAAAACGTCACTTGTGCATTATG
* * * *
29782367 CACTT-ACGAACGTCACTTATACTTTATG
1 CACTTGA-AAACGTCACTTGTGCATTATG
*
29782395 CACTTG-GAACGTCACTTGTG
1 CACTTGAAAACGTCACTTGTG
29782415 TGTTACGTAC
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
27 13 0.21
28 50 0.79
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (28 bp):
CACTTGAAAACGTCACTTGTGCATTATG
Found at i:29782426 original size:27 final size:27
Alignment explanation
Indices: 29782396--29782463 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
29782386 TACTTTATGC
*
29782396 ACTTGGAACGTCACTTGTGTGTTACGT
1 ACTTGGAACGTCACTTGAGTGTTACGT
*
29782423 ACTTGAGAACATC-CTTGAGTGTTACGT
1 ACTTG-GAACGTCACTTGAGTGTTACGT
*
29782450 ATTTGGAACGTCAC
1 ACTTGGAACGTCAC
29782464 ATGTACAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 6 0.17
27 23 0.66
28 6 0.17
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (27 bp):
ACTTGGAACGTCACTTGAGTGTTACGT
Found at i:29782534 original size:16 final size:17
Alignment explanation
Indices: 29782509--29782546 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
29782499 ATGCATTATA
*
29782509 CACTTCGGAATGTCA-C
1 CACTTCGGAATGCCACC
*
29782525 CACTTTGGAATGCCACC
1 CACTTCGGAATGCCACC
29782542 CACTT
1 CACTT
29782547 AGAGCGTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (17 bp):
CACTTCGGAATGCCACC
Found at i:29782659 original size:28 final size:28
Alignment explanation
Indices: 29782599--29782661 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
29782589 TGGGAATTTC
* * *
29782599 ACTTATGAGTTACGCACTTCAGAACATT
1 ACTTGTGAATTACGAACTTCAGAACATT
* *
29782627 ACTTGTGAATTACGAACTTGAGAACGTT
1 ACTTGTGAATTACGAACTTCAGAACATT
29782655 ACTTGTG
1 ACTTGTG
29782662 CGTTATGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (28 bp):
ACTTGTGAATTACGAACTTCAGAACATT
Found at i:29782733 original size:27 final size:27
Alignment explanation
Indices: 29782701--29782764 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
29782691 CTTGGAAATG
*
29782701 TCACTTGTGTATTACACATTTGGAACA
1 TCACTTGTGTATTACACACTTGGAACA
* * **
29782728 TCACTTATGCATTATGCACTTGGAACA
1 TCACTTGTGTATTACACACTTGGAACA
*
29782755 TCACCTGTGT
1 TCACTTGTGT
29782765 GTATAGACCT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (27 bp):
TCACTTGTGTATTACACACTTGGAACA
Found at i:29786999 original size:21 final size:20
Alignment explanation
Indices: 29786948--29786990 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
29786938 GGTTGATAGG
29786948 GCATGCGTGACTGGTGTTAA
1 GCATGCGTGACTGGTGTTAA
*
29786968 GCATGTCGTGACTGGTTTTAA
1 GCATG-CGTGACTGGTGTTAA
29786989 GC
1 GC
29786991 TTTGCGTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (20 bp):
GCATGCGTGACTGGTGTTAA
Found at i:29787055 original size:22 final size:22
Alignment explanation
Indices: 29787027--29787096 Score: 104
Period size: 22 Copynumber: 3.2 Consensus size: 22
29787017 GGATGATTGG
* *
29787027 TTTTTGTCATTGTGTGATTAGA
1 TTTTTGTCATTGCGTGATTACA
29787049 TTTTTGTCATTGCGTGATTACA
1 TTTTTGTCATTGCGTGATTACA
* *
29787071 TTTTAGTCATTGCGTGATTGCA
1 TTTTTGTCATTGCGTGATTACA
29787093 TTTT
1 TTTT
29787097 AGGGAATTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.17, C:0.10, G:0.20, T:0.53
Consensus pattern (22 bp):
TTTTTGTCATTGCGTGATTACA
Found at i:29787097 original size:22 final size:22
Alignment explanation
Indices: 29787027--29787113 Score: 95
Period size: 22 Copynumber: 3.9 Consensus size: 22
29787017 GGATGATTGG
* *
29787027 TTTTTGTCATTGTGTGATTAG-A
1 TTTTAGTCATTGCGTGATT-GCA
* *
29787049 TTTTTGTCATTGCGTGATTACA
1 TTTTAGTCATTGCGTGATTGCA
29787071 TTTTAGTCATTGCGTGATTGCA
1 TTTTAGTCATTGCGTGATTGCA
**
29787093 TTTTAGGGAATTGCGTGATTG
1 TTTTA-GTCATTGCGTGATTG
29787114 GGTTTAAGGC
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
22 44 0.77
23 13 0.23
ACGTcount: A:0.18, C:0.09, G:0.24, T:0.48
Consensus pattern (22 bp):
TTTTAGTCATTGCGTGATTGCA
Found at i:29787119 original size:22 final size:23
Alignment explanation
Indices: 29787057--29787128 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 23
29787047 GATTTTTGTC
* * **
29787057 ATTGCGTGATTACA-TTTTAGTC
1 ATTGCGTGATTGCAGTTTAAGGA
* *
29787079 ATTGCGTGATTGCATTTTAGGGA
1 ATTGCGTGATTGCAGTTTAAGGA
* *
29787102 ATTGCGTGATTG-GGTTTAAGGC
1 ATTGCGTGATTGCAGTTTAAGGA
29787124 ATTGC
1 ATTGC
29787129 ATGACTACAT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 24 0.60
23 16 0.40
ACGTcount: A:0.21, C:0.11, G:0.28, T:0.40
Consensus pattern (23 bp):
ATTGCGTGATTGCAGTTTAAGGA
Found at i:29789174 original size:54 final size:54
Alignment explanation
Indices: 29789096--29789256 Score: 224
Period size: 50 Copynumber: 3.0 Consensus size: 54
29789086 TTATTTAGAT
* * *
29789096 TAAATGTCTTAAGTAAATGAAGAGTAAAAAGTAAAGAAGACATTTACTTAAATGA
1 TAAATATCTTAAGTAAATGGAGAGTAAAAAGTAAAGAGGACATTTA-TTAAATGA
29789151 TAAATATCTT-AGTAAATGGAGAGTAAAAAGTAAAGAGGAC----ATTAAATGA
1 TAAATATCTTAAGTAAATGGAGAGTAAAAAGTAAAGAGGACATTTATTAAATGA
* *
29789200 TAAATATCTTAAGTAAATTGAGAGTAAAAAGTAAAGAGGATATTTAATTAAATGA
1 TAAATATCTTAAGTAAATGGAGAGTAAAAAGTAAAGAGGACATTT-ATTAAATGA
29789255 TA
1 TA
29789257 TTTAATGTAA
Statistics
Matches: 95, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
49 18 0.19
50 29 0.31
54 28 0.29
55 20 0.21
ACGTcount: A:0.51, C:0.04, G:0.17, T:0.28
Consensus pattern (54 bp):
TAAATATCTTAAGTAAATGGAGAGTAAAAAGTAAAGAGGACATTTATTAAATGA
Found at i:29789258 original size:15 final size:16
Alignment explanation
Indices: 29789238--29789268 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
29789228 AAGTAAAGAG
29789238 GATATTTAAT-TAAAT
1 GATATTTAATGTAAAT
29789253 GATATTTAATGTAAAT
1 GATATTTAATGTAAAT
29789269 AAGCTGGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (16 bp):
GATATTTAATGTAAAT
Found at i:29790466 original size:68 final size:68
Alignment explanation
Indices: 29790324--29790454 Score: 208
Period size: 68 Copynumber: 1.9 Consensus size: 68
29790314 TAGTCCACTC
* * * * *
29790324 GAGATGATTGAGAAAGTGTGAAGAATGCCATTAGATTGTGTATATGATATATATTTCATATACTA
1 GAGATGATTGAGAAAGTATGAAGAATGCCATGAGATTGTGTATATAATATAAATTCCATATACTA
29790389 CAT
66 CAT
*
29790392 GAGATGATTGAGAAAGTATGAAGAATGCCATGAGATTGTGTATATAATGTAAATTCCATATAC
1 GAGATGATTGAGAAAGTATGAAGAATGCCATGAGATTGTGTATATAATATAAATTCCATATAC
29790455 CTTATGAGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (68 bp):
GAGATGATTGAGAAAGTATGAAGAATGCCATGAGATTGTGTATATAATATAAATTCCATATACTA
CAT
Found at i:29790479 original size:68 final size:68
Alignment explanation
Indices: 29790324--29790471 Score: 181
Period size: 68 Copynumber: 2.2 Consensus size: 68
29790314 TAGTCCACTC
* * * * * * *
29790324 GAGATGATTGAGAAAGTGTGAAGAATGCCATTAGATTGTGTATATGATATATATTTCATATACTA
1 GAGATGAGTAAGAAAGTATGAAGAATGCCATGAGATTGTGTATATAATATAAATTCCATATACTA
29790389 CAT
66 CAT
* * *
29790392 GAGATGATTGAGAAAGTATGAAGAATGCCATGAGATTGTGTATATAATGTAAATTCCATATACCT
1 GAGATGAGTAAGAAAGTATGAAGAATGCCATGAGATTGTGTATATAATATAAATTCCATATA-CT
*
29790457 -TAT
65 ACAT
29790460 GAGATGAGTAAG
1 GAGATGAGTAAG
29790472 CGTGTATGTG
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
68 68 0.97
69 2 0.03
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.32
Consensus pattern (68 bp):
GAGATGAGTAAGAAAGTATGAAGAATGCCATGAGATTGTGTATATAATATAAATTCCATATACTA
CAT
Found at i:29791583 original size:2 final size:2
Alignment explanation
Indices: 29791576--29791610 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
29791566 GGCACTTTTC
*
29791576 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
29791611 CCAAATGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:29796864 original size:21 final size:21
Alignment explanation
Indices: 29796838--29796882 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
29796828 TAACTATTTT
29796838 TAAAG-TAAATTAAAGCAAAAA
1 TAAAGTTAAATTAAA-CAAAAA
*
29796859 TAAAGTTAAATTAAACTAAAA
1 TAAAGTTAAATTAAACAAAAA
29796880 TAA
1 TAA
29796883 CTTATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.24
Consensus pattern (21 bp):
TAAAGTTAAATTAAACAAAAA
Found at i:29800863 original size:43 final size:43
Alignment explanation
Indices: 29800790--29800876 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
29800780 CCCGCCACAC
*
29800790 TCAGCTCAAGTGCACTCCCACATCGCACATAGCTAGGTCATCA
1 TCAGCTCAAGTGCACTCCCACACCGCACATAGCTAGGTCATCA
* * * * *
29800833 TCAGCTCATGTGCACTCTCACACCGTACATAGCTGGGTCCTCA
1 TCAGCTCAAGTGCACTCCCACACCGCACATAGCTAGGTCATCA
29800876 T
1 T
29800877 TATCACACAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.24
Consensus pattern (43 bp):
TCAGCTCAAGTGCACTCCCACACCGCACATAGCTAGGTCATCA
Found at i:29805844 original size:21 final size:21
Alignment explanation
Indices: 29805818--29805861 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
29805808 TAACTATTCT
29805818 TAAAGT-AAATTAAAGCAAAAA
1 TAAAGTAAAATTAAA-CAAAAA
*
29805839 TAAAGTAAAATTAAACTAAAA
1 TAAAGTAAAATTAAACAAAAA
29805860 TA
1 TA
29805862 GCTTAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.23
Consensus pattern (21 bp):
TAAAGTAAAATTAAACAAAAA
Found at i:29805848 original size:11 final size:11
Alignment explanation
Indices: 29805817--29805860 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
29805807 ATAACTATTC
29805817 TTAAAGT-AAA
1 TTAAAGTAAAA
*
29805827 TTAAAGCAAAA
1 TTAAAGTAAAA
*
29805838 ATAAAGTAAAA
1 TTAAAGTAAAA
*
29805849 TTAAACTAAAA
1 TTAAAGTAAAA
29805860 T
1 T
29805861 AGCTTAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 6 0.21
11 22 0.79
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (11 bp):
TTAAAGTAAAA
Found at i:29809464 original size:15 final size:16
Alignment explanation
Indices: 29809433--29809466 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
29809423 ATAAAATATT
*
29809433 ATGTTTTCTAATTAAA
1 ATGTTTTCTAATAAAA
29809449 ATGTTTT-TAATAAAA
1 ATGTTTTCTAATAAAA
29809464 ATG
1 ATG
29809467 AGATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (16 bp):
ATGTTTTCTAATAAAA
Found at i:29827706 original size:21 final size:20
Alignment explanation
Indices: 29827682--29827729 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
29827672 TCTTACCTTT
*
29827682 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
29827703 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
29827724 TTTTTC
1 TTTTTC
29827730 CACCTAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:29827729 original size:22 final size:22
Alignment explanation
Indices: 29827687--29827727 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
29827677 CCTTTTTTTT
*
29827687 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
29827709 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
29827728 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:29827773 original size:11 final size:11
Alignment explanation
Indices: 29827739--29827774 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
29827729 CCACCTAGGG
29827739 TTTGTTCTTCC
1 TTTGTTCTTCC
29827750 TTT-TTCTTCC
1 TTTGTTCTTCC
*
29827760 TTTGTTCTTGC
1 TTTGTTCTTCC
29827771 TTTG
1 TTTG
29827775 GCTGGCCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.00, C:0.22, G:0.11, T:0.67
Consensus pattern (11 bp):
TTTGTTCTTCC
Found at i:29829718 original size:14 final size:12
Alignment explanation
Indices: 29829699--29829732 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 12
29829689 GCACCATTTT
29829699 CATAAACATAATA
1 CATAAACATAA-A
29829712 CCATAAACATAAA
1 -CATAAACATAAA
29829725 CATAAACA
1 CATAAACA
29829733 ACAACGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 1 0.05
14 11 0.55
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.18
Consensus pattern (12 bp):
CATAAACATAAA
Found at i:29829722 original size:6 final size:6
Alignment explanation
Indices: 29829699--29829732 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
29829689 GCACCATTTT
29829699 CATAAA CATAATA CCATAAA CATAAA CATAAA CA
1 CATAAA CATAA-A -CATAAA CATAAA CATAAA CA
29829733 ACAACGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.73
7 2 0.08
8 5 0.19
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.18
Consensus pattern (6 bp):
CATAAA
Found at i:29838143 original size:655 final size:653
Alignment explanation
Indices: 29837179--29838482 Score: 2464
Period size: 655 Copynumber: 2.0 Consensus size: 653
29837169 ACAGAGTAGA
*
29837179 CAATCACACCAGAATTTATAGTGGTTTGGTCCAAGACCTACATCCACTTCTTTGATTGTTCGACC
1 CAATCACACCAGAATTTATAGTGGTTTGGTCCAAGACCTACATCCACTTCCTTGATTGTTCGACC
**
29837244 AAGGATTTTCTAAACCAATCCACTATGAACGGTGAAATTCACAAACTTTCACTAAGCTTTTACAA
66 AAGGATTTTCTAAACCAATCCACTATGAACAATGAAATTCACAAACTTTCACTAAGCTTTTACAA
* *
29837309 TAGCTTTTACCAAGCTTAGTCAAAACCTTCACAATGGTTTTTACCGGGATCAACCAAAACCCAAC
131 TAGCTTTTACCAAGCTCAGTCAAAACCTTCACAATGGTTTTTACCGAGATCAACCAAAACCCAAC
*
29837374 AACTAACTTTTTTAGGCTAAGTTAGAACTTATACACTCAATCAAGCAATTTAAGCTTAAATAAAT
196 AACTAACTTTTTTAGGCTAAGTTAGAACCTATACACTCAATCAAGCAATTTAAGCTTAAATAAAT
*
29837439 CCCTTAGAGTGTCTCGCACACTCTAAGTATATAAAGAAAAGATAAATAAAGGTGTACCTATGATC
261 CCCTTAGAGTGTCTCGCACACTCTAAGTATATAAAGAAAAGACAAATAAAGGTGTACCTATGATC
29837504 ACTGACTTGATCTTAGTGGTACAAAGTGAAGTGCTTGAATCTTTTACAAAGATAGGAGTGAAGTG
326 ACTGACTTGATCTTAGTGGTACAAAGTGAAGTGCTTGAATCTTTTACAAAGATAGGAGTGAAGTG
29837569 CAGTAAGAGTGCAGAGAGTTGTTGCTGGTTTTTGAGTTCTTTTAGTTCTTGGAAGCCTTCATTAC
391 CAGTAAGAGTGCAGAGAGTTGTTGCTGGTTTTTGAGTTCTTTTAGTTCTTGGAAGCCTTCATTAC
*
29837634 TTTTCTAGCAGTTGGAAGCCTTTTAAATACTTGAAAAATCAACTTTGATAGGTGTTAGGCAATTT
456 TTTTCTAGCAGTTGGAAGCCTTTTAAATACTTGAAAAATCAACTCTGATAGGTGTTAGGCAATTT
29837699 TTAACCATTGGAAACAGTTTGGTAGCAATTCTGGCCATTCATTTGTCTTCTAGTGCTCAATTTAA
521 TTAACCATTGGAAACAGTTTGGTAGCAATTCTGGCCATTCATTTGTCTTCTAGTGCTCAATTTAA
*
29837764 ATTTTCTGTCAGAATGATTTTAGTTGACTAACTGCGCTCTTAGTCGATTAAGTTGTTTTTGTCTC
586 ATTTTCTGTCAGAATGATTTTAGTTGACTAACTGCGCTCTTAGTCGACTAAGTTGTTTTTGTCTC
29837829 AAC
651 AAC
29837832 CAATCCACACCAGAATTTATAGTGGTTTGGTCCAAGACCTACATCCACTTCCTTGATTGTTCGAC
1 CAAT-CACACCAGAATTTATAGTGGTTTGGTCCAAGACCTACATCCACTTCCTTGATTGTTCGAC
29837897 CAAGGATTTTCTAAACCAATCCACTATGAACAATGAAATTCACAAACTTTCACTAAGCTTTTACA
65 CAAGGATTTTCTAAACCAATCCACTATGAACAATGAAATTCACAAACTTTCACTAAGCTTTTACA
29837962 ATAGCTTTTACCAAGCTCAGTCAAAACCTTTCACAATGGTTTTTACCGAGATCAACCAAAACCCA
130 ATAGCTTTTACCAAGCTCAGTCAAAACC-TTCACAATGGTTTTTACCGAGATCAACCAAAACCCA
*
29838027 ACAACTACCTTTTTTAGGCTAAGTTAGAACCTATACACTCAATCAAGCAATTTAAGCTTAAATAA
194 ACAACTAACTTTTTTAGGCTAAGTTAGAACCTATACACTCAATCAAGCAATTTAAGCTTAAATAA
29838092 ATCCCTTAGAGTGTCTCGCACACTCTAAGTATATAAAGAAAAGACAAATAAAGGTGTACCTATGA
259 ATCCCTTAGAGTGTCTCGCACACTCTAAGTATATAAAGAAAAGACAAATAAAGGTGTACCTATGA
29838157 TCACTGACTTGATCTTAGTGGTACAAAGTGAAGTGCTTGAATCTTTTACAAAGATAGGAGTGAAG
324 TCACTGACTTGATCTTAGTGGTACAAAGTGAAGTGCTTGAATCTTTTACAAAGATAGGAGTGAAG
29838222 TGCAGTAAGAGTGCAGAGAGTTGTTGCTGGTTTTTGAGTTCTTTTAGTTCTTGGAAGCCTTCATT
389 TGCAGTAAGAGTGCAGAGAGTTGTTGCTGGTTTTTGAGTTCTTTTAGTTCTTGGAAGCCTTCATT
*
29838287 ACTTTTCTAGTAGTTGGAAGCCTTTTAAATACTTGAAAAATCAACTCTGATAGGTGTTAGGCAAT
454 ACTTTTCTAGCAGTTGGAAGCCTTTTAAATACTTGAAAAATCAACTCTGATAGGTGTTAGGCAAT
* * *
29838352 TTTTAATCGTTGGAAACAGTTTGGTAGCAATTCTGGCCGTTCATTTGTCTTCTAGTGCTCAATTT
519 TTTTAACCATTGGAAACAGTTTGGTAGCAATTCTGGCCATTCATTTGTCTTCTAGTGCTCAATTT
29838417 AAATTTTCTGTCAGAATGATTTTAGTTGACTAACTGCGCTCTTAGTCGACTAAGTTGTTTTTGTC
584 AAATTTTCTGTCAGAATGATTTTAGTTGACTAACTGCGCTCTTAGTCGACTAAGTTGTTTTTGTC
29838482 T
649 T
29838483 TCTGATCCCA
Statistics
Matches: 635, Mismatches: 14, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
653 4 0.01
654 149 0.23
655 482 0.76
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (653 bp):
CAATCACACCAGAATTTATAGTGGTTTGGTCCAAGACCTACATCCACTTCCTTGATTGTTCGACC
AAGGATTTTCTAAACCAATCCACTATGAACAATGAAATTCACAAACTTTCACTAAGCTTTTACAA
TAGCTTTTACCAAGCTCAGTCAAAACCTTCACAATGGTTTTTACCGAGATCAACCAAAACCCAAC
AACTAACTTTTTTAGGCTAAGTTAGAACCTATACACTCAATCAAGCAATTTAAGCTTAAATAAAT
CCCTTAGAGTGTCTCGCACACTCTAAGTATATAAAGAAAAGACAAATAAAGGTGTACCTATGATC
ACTGACTTGATCTTAGTGGTACAAAGTGAAGTGCTTGAATCTTTTACAAAGATAGGAGTGAAGTG
CAGTAAGAGTGCAGAGAGTTGTTGCTGGTTTTTGAGTTCTTTTAGTTCTTGGAAGCCTTCATTAC
TTTTCTAGCAGTTGGAAGCCTTTTAAATACTTGAAAAATCAACTCTGATAGGTGTTAGGCAATTT
TTAACCATTGGAAACAGTTTGGTAGCAATTCTGGCCATTCATTTGTCTTCTAGTGCTCAATTTAA
ATTTTCTGTCAGAATGATTTTAGTTGACTAACTGCGCTCTTAGTCGACTAAGTTGTTTTTGTCTC
AAC
Found at i:29838570 original size:73 final size:73
Alignment explanation
Indices: 29838438--29838630 Score: 218
Period size: 73 Copynumber: 2.7 Consensus size: 73
29838428 CAGAATGATT
* * * *
29838438 TTAGTTGACTAACTGCGC-TCTTAGTCGACTAAGTTGTTTTTGTCTTCTGATCCCAATTTTTGGC
1 TTAGTCGACTAACTTC-CTTCTTAGTCGACTAAGTTGTTTCTGTCTTCTGATCCAAATTTTTGGC
29838502 AGTAAGCAC
65 AGTAAGCAC
*
29838511 TTAGTCGACTAACTTCCTTCTTAGTCGATTAAGTTGTTTCTGTC-T-TGAAGT-CAAGATTTTTG
1 TTAGTCGACTAACTTCCTTCTTAGTCGACTAAGTTGTTTCTGTCTTCTG-A-TCCAA-ATTTTTG
* *
29838573 GCAGTAGGCTC
63 GCAGTAAGCAC
* *
29838584 TTAGTCGACTAACTTACTTCTTGGTCGACTAAGTT-TTCTCTGT-TTCT
1 TTAGTCGACTAACTTCCTTCTTAGTCGACTAAGTTGTT-TCTGTCTTCT
29838631 CAAACCTCTT
Statistics
Matches: 103, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
71 2 0.02
72 7 0.07
73 93 0.90
74 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.42
Consensus pattern (73 bp):
TTAGTCGACTAACTTCCTTCTTAGTCGACTAAGTTGTTTCTGTCTTCTGATCCAAATTTTTGGCA
GTAAGCAC
Found at i:29841377 original size:2 final size:2
Alignment explanation
Indices: 29841370--29841408 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
29841360 ATTTTCTTAT
29841370 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29841409 TAAATATTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:29856058 original size:32 final size:32
Alignment explanation
Indices: 29856021--29856082 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
29856011 CTGAAGTTAT
29856021 ATTTTCTTGCTTCACCTGCCTGTTTTATGCGA
1 ATTTTCTTGCTTCACCTGCCTGTTTTATGCGA
* *
29856053 ATTTTCTTGCTTCGCTTGCCTGTTTTATGC
1 ATTTTCTTGCTTCACCTGCCTGTTTTATGC
29856083 TATTGTTGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.10, C:0.24, G:0.16, T:0.50
Consensus pattern (32 bp):
ATTTTCTTGCTTCACCTGCCTGTTTTATGCGA
Found at i:29857246 original size:2 final size:2
Alignment explanation
Indices: 29857241--29857272 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
29857231 CAGCCCCCTC
29857241 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
29857273 TGCTTCCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:29866005 original size:2 final size:2
Alignment explanation
Indices: 29865992--29866044 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
29865982 TGAAATCATA
*
29865992 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29866034 AT AT AT AT AT A
1 AT AT AT AT AT A
29866045 AATGTATGGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:29877741 original size:43 final size:43
Alignment explanation
Indices: 29877682--29877786 Score: 185
Period size: 43 Copynumber: 2.4 Consensus size: 43
29877672 TTGTGTGATA
*
29877682 ATGATGACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
29877725 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
29877768 ATGATGACCC-GACTATGTG
1 ATGATGACCCAG-CTATGTG
29877787 TGAGTACGGA
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
42 1 0.02
43 59 0.98
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.24
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
Found at i:29877891 original size:2 final size:2
Alignment explanation
Indices: 29877884--29877912 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
29877874 GATGTATGTG
29877884 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29877913 GTTATAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29883793 original size:22 final size:22
Alignment explanation
Indices: 29883765--29883808 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
29883755 CTTGGTGGCA
29883765 ACATGTAAA-TGAGAATAGTGTT
1 ACATGTAAACTGAGAA-AGTGTT
*
29883787 ACATGTAAACTTAGAAAGTGTT
1 ACATGTAAACTGAGAAAGTGTT
29883809 TGACGGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (22 bp):
ACATGTAAACTGAGAAAGTGTT
Found at i:29884559 original size:41 final size:41
Alignment explanation
Indices: 29884500--29884706 Score: 323
Period size: 41 Copynumber: 5.1 Consensus size: 41
29884490 CGGAAGTGTG
29884500 GATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACAC
1 GATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACAC
*
29884541 GATGATGATATTGTTTGTGCACGATGTGGGGGGATGCACAC
1 GATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACAC
* * * *
29884582 AATGATGATATTGCTTGTGCACGATATGAGGGGATGCACAT
1 GATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACAC
*
29884623 AATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACAC
1 GATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACAC
29884664 GATG--G-TATTAGC-TGTGCACGATGTGGGGGGATGCACAC
1 GATGATGATATT-GCTTGTGCACGATGTGGGGGGATGCACAC
29884702 GATGA
1 GATGA
29884707 CTCTAGCTAT
Statistics
Matches: 154, Mismatches: 10, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
38 34 0.22
39 3 0.02
41 117 0.76
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.27
Consensus pattern (41 bp):
GATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACAC
Found at i:29886022 original size:18 final size:17
Alignment explanation
Indices: 29885999--29886058 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
29885989 CGAGCCTTGC
29885999 CTTCCTTTCTATCTTTTT
1 CTTCCTTTCT-TCTTTTT
29886017 CTTCCTTTCTTTCTTTCTT
1 CTTCCTTTC-TTCTTT-TT
29886036 -TTCCTTT-TTC-TTTT
1 CTTCCTTTCTTCTTTTT
29886050 CTT-CTTTCT
1 CTTCCTTTCT
29886059 CTCATTTCCT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
14 6 0.16
15 5 0.13
16 3 0.08
18 21 0.55
19 3 0.08
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (17 bp):
CTTCCTTTCTTCTTTTT
Found at i:29886046 original size:28 final size:28
Alignment explanation
Indices: 29886011--29886083 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
29886001 TCCTTTCTAT
* *
29886011 CTTTTTCTTC-CTTTCTTTCTTTCTTTTC
1 CTTTTTCTTCTC-TTCTTTCTCTCATTTC
*
29886039 CTTTTTCTTTTCTTCTTTCTCTCATTTC
1 CTTTTTCTTCTCTTCTTTCTCTCATTTC
* *
29886067 CTTTCTCTTTTCTTCTT
1 CTTTTTCTTCTCTTCTT
29886084 GGTTATGGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (28 bp):
CTTTTTCTTCTCTTCTTTCTCTCATTTC
Found at i:29886080 original size:33 final size:33
Alignment explanation
Indices: 29886013--29886077 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
29886003 CTTTCTATCT
* *
29886013 TTTTCTTCCTTTCTTTCTTTCTTTTCCTTTTTC
1 TTTTCTTCCTTTCTCTCTTTCCTTTCCTTTTTC
29886046 TTTTCTT-CTTTCTCTCATTTCCTTTCTCTTTT
1 TTTTCTTCCTTTCTCTC-TTTCCTTTC-CTTTT
29886078 CTTCTTGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 8 0.29
33 15 0.54
34 5 0.18
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.71
Consensus pattern (33 bp):
TTTTCTTCCTTTCTCTCTTTCCTTTCCTTTTTC
Found at i:29897038 original size:18 final size:18
Alignment explanation
Indices: 29896996--29897038 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
29896986 TATGACCTTC
*
29896996 TTTTTCATCAACTCCTCA
1 TTTTTCATCAACTCCCCA
*
29897014 TTCTTCATCAA-TCCCCAA
1 TTTTTCATCAACTCCCC-A
29897032 TTTTTCA
1 TTTTTCA
29897039 AGTAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTTTCATCAACTCCCCA
Found at i:29898787 original size:29 final size:29
Alignment explanation
Indices: 29898575--29898859 Score: 316
Period size: 28 Copynumber: 10.0 Consensus size: 29
29898565 TTTAAGATAA
* * *
29898575 TTCTTGTCTTTAATTAAGATAAAATATGTT
1 TTCTTGTC-TAAATTAAGACAAAACATGTT
* * * * * *
29898605 ATCTTGACAAAACTGAGAC-AAATATGTT
1 TTCTTGTCTAAATTAAGACAAAACATGTT
* *
29898633 TTCTTGTCTAGATTAAGACAAAACATATTT
1 TTCTTGTCTAAATTAAGACAAAACAT-GTT
29898663 TTCTTGTCTTAAATTAAGAC-AAACATGTT
1 TTCTTGTC-TAAATTAAGACAAAACATGTT
*
29898692 TTCTTGTCTAAATTAAG--ATAACATGTT
1 TTCTTGTCTAAATTAAGACAAAACATGTT
* *
29898719 TTCTTGTCTAAATTAAGA-TAAACATATT
1 TTCTTGTCTAAATTAAGACAAAACATGTT
* *
29898747 TTCTTATTTAAATTAAGACAAAACATGTT
1 TTCTTGTCTAAATTAAGACAAAACATGTT
*
29898776 TTTTTGTCTAAATTAAGACAAAACATGTT
1 TTCTTGTCTAAATTAAGACAAAACATGTT
29898805 TT-TTAG-CTAAATTAAGAC-AAACATGTT
1 TTCTT-GTCTAAATTAAGACAAAACATGTT
*
29898832 TTCCTGTCTAAATTAAGACAAAACATGT
1 TTCTTGTCTAAATTAAGACAAAACATGT
29898860 AAAAGCTGTC
Statistics
Matches: 216, Mismatches: 29, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
27 37 0.17
28 81 0.38
29 66 0.31
30 22 0.10
31 10 0.05
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (29 bp):
TTCTTGTCTAAATTAAGACAAAACATGTT
Found at i:29898844 original size:85 final size:84
Alignment explanation
Indices: 29898575--29898859 Score: 324
Period size: 85 Copynumber: 3.3 Consensus size: 84
29898565 TTTAAGATAA
* * * * * * * * *
29898575 TTCTTGTCTTTAATTAAGATAAAATATGTTATCTTGACAAAACTGAGACAAATATGTTTTCTTGT
1 TTCTTGTC-TAAATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGA-AAACATGTTTTCTTGT
*
29898640 CTAGATTAAGACAAAACATATTT
64 CTAAATTAAGAC-AAACATA-TT
*
29898663 TTCTTGTCTTAAATTAAGAC-AAACATGTTTTCTTGTCTAAATTAAGATAACATGTTTTCTTGTC
1 TTCTTGTC-TAAATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGAAAACATGTTTTCTTGTC
*
29898727 TAAATTAAGATAAACATATT
65 TAAATTAAGACAAACATATT
* * *
29898747 TTCTTATTTAAATTAAGACAAAACATGTTTTTTTGTCTAAATTAAGACAAAACATGTTTT-TTAG
1 TTCTTGTCTAAATTAAGACAAAACATGTTTTCTTGTCTAAATTAAG--AAAACATGTTTTCTT-G
*
29898811 -CTAAATTAAGACAAACATGTT
63 TCTAAATTAAGACAAACATATT
*
29898832 TTCCTGTCTAAATTAAGACAAAACATGT
1 TTCTTGTCTAAATTAAGACAAAACATGT
29898860 AAAAGCTGTC
Statistics
Matches: 172, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
83 11 0.06
84 33 0.19
85 53 0.31
86 36 0.21
87 21 0.12
88 18 0.10
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (84 bp):
TTCTTGTCTAAATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGAAAACATGTTTTCTTGTCT
AAATTAAGACAAACATATT
Found at i:29898850 original size:56 final size:58
Alignment explanation
Indices: 29898586--29898859 Score: 296
Period size: 57 Copynumber: 4.8 Consensus size: 58
29898576 TCTTGTCTTT
* * * * * * * *
29898586 AATTAAGATAAAATATGTTATCTTGACAAAACTGAGAC-AAATATGTTTTCTT-GTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAAACATGTTTTCTTAG-CTA
* *
29898643 GATTAAGACAAAACATATTTTTCTTGTCTTAAATTAAGAC-AAACATGTTTTCTT-GTCTA
1 AATTAAGACAAAACAT-GTTTTCTTGTC-TAAATTAAGACAAAACATGTTTTCTTAG-CTA
* * * **
29898702 AATTAAG--ATAACATGTTTTCTTGTCTAAATTAAGA-TAAACATATTTTCTTATTTA
1 AATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAAACATGTTTTCTTAGCTA
*
29898757 AATTAAGACAAAACATGTTTTTTTGTCTAAATTAAGACAAAACATGTTTT-TTAGCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAAACATGTTTTCTTAGCTA
*
29898814 AATTAAGAC-AAACATGTTTTCCTGTCTAAATTAAGACAAAACATGT
1 AATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAAACATGT
29898860 AAAAGCTGTC
Statistics
Matches: 186, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
55 32 0.17
56 45 0.24
57 59 0.32
58 18 0.10
59 32 0.17
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (58 bp):
AATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAAACATGTTTTCTTAGCTA
Found at i:29905318 original size:60 final size:60
Alignment explanation
Indices: 29905248--29905414 Score: 228
Period size: 60 Copynumber: 2.8 Consensus size: 60
29905238 TAGGAGACCA
* * * * *
29905248 AAACAGAAAGTTTTTCGCTGCAGTGAGATTCGATCTCGCTGCAGCTAAATTGTTACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAGATTCGATCTCGCTGCAGCGAAATCGCTACCCAG
* * *
29905308 AAACAAAAAGTTTCTCGCTGCAGCGAAATTCAATCTCGCTGCAGCGAAATCGCTACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAGATTCGATCTCGCTGCAGCGAAATCGCTACCCAG
* *
29905368 AAACAGAAAGTTTCTCGCTGCAGCGAGAAT-GTATTTCGCTGCAGCGA
1 AAACAGAAAGTTTCTCGCTGCAGCGAGATTCG-ATCTCGCTGCAGCGA
29905415 GAAGCTACAG
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
60 93 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (60 bp):
AAACAGAAAGTTTCTCGCTGCAGCGAGATTCGATCTCGCTGCAGCGAAATCGCTACCCAG
Found at i:29915575 original size:32 final size:32
Alignment explanation
Indices: 29915535--29915610 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
29915525 AGTACCTAGC
*
29915535 AGCACACAACAATGCCTTGTGTGTTGTCCAAT
1 AGCACACAACAATGCCTTGTGTGCTGTCCAAT
29915567 AGCACACAACAATGCCTTGTGTGCTGTCCAAT
1 AGCACACAACAATGCCTTGTGTGCTGTCCAAT
29915599 AGCACACAACAA
1 AGCACACAACAA
29915611 AGGGCTATGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (32 bp):
AGCACACAACAATGCCTTGTGTGCTGTCCAAT
Found at i:29915759 original size:36 final size:36
Alignment explanation
Indices: 29915712--29915788 Score: 95
Period size: 35 Copynumber: 2.1 Consensus size: 36
29915702 TTAATATAAG
* *
29915712 AAAAACTCTTTTCCTTAAAAA-AAATTTGAT-ACCAT
1 AAAAACTCTTTTCC-TAAAAAGAAAATTAATAACCAT
*
29915747 AAAAACTCCTTTTTCTAAAAAGAAAATTAATAACCAT
1 AAAAACT-CTTTTCCTAAAAAGAAAATTAATAACCAT
29915784 AAAAA
1 AAAAA
29915789 AATAAATAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 13 0.36
36 13 0.36
37 10 0.28
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.30
Consensus pattern (36 bp):
AAAAACTCTTTTCCTAAAAAGAAAATTAATAACCAT
Found at i:29917099 original size:28 final size:28
Alignment explanation
Indices: 29917033--29917101 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
29917023 TCTCGTCTTT
29917033 AATTAAGACAAAACATGTTATTTTATCTA
1 AATTAAGAC-AAACATGTTATTTTATCTA
** *
29917062 AATTGCGACAAATATGTT-TTCTTATCTA
1 AATTAAGACAAACATGTTATT-TTATCTA
*
29917090 GATTAAGACAAA
1 AATTAAGACAAA
29917102 ACTTATTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 2 0.06
28 24 0.73
29 7 0.21
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (28 bp):
AATTAAGACAAACATGTTATTTTATCTA
Found at i:29955438 original size:35 final size:35
Alignment explanation
Indices: 29955395--29955461 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
29955385 TGATATTACT
* *
29955395 TGTGCGAGTAGGGAGTGCACACGATGATATTGAAA
1 TGTGCGAGTAAGGAATGCACACGATGATATTGAAA
*
29955430 TGTGCGAGTAAGGAATGCACATGATGATATTG
1 TGTGCGAGTAAGGAATGCACACGATGATATTG
29955462 CCTTATCCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.25
Consensus pattern (35 bp):
TGTGCGAGTAAGGAATGCACACGATGATATTGAAA
Found at i:29955484 original size:35 final size:35
Alignment explanation
Indices: 29955399--29955486 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
29955389 ATTACTTGTG
* * *
29955399 CGAGTAGGGAGTGCACACGATGATATTGAAATGTG
1 CGAGTAGGGAGTGCACATGATGATATTGAAATATC
* * ***
29955434 CGAGTAAGGAATGCACATGATGATATTGCCTTATC
1 CGAGTAGGGAGTGCACATGATGATATTGAAATATC
*
29955469 CGTGTAGGGAGTGCACAT
1 CGAGTAGGGAGTGCACAT
29955487 TGGCTGATTG
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.25
Consensus pattern (35 bp):
CGAGTAGGGAGTGCACATGATGATATTGAAATATC
Found at i:29955879 original size:21 final size:21
Alignment explanation
Indices: 29955853--29955892 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
29955843 AATCTGTGCT
* *
29955853 ATGAATTTCGTTGCAGCGAAA
1 ATGAATCTCGCTGCAGCGAAA
29955874 ATGAATCTCGCTGCAGCGA
1 ATGAATCTCGCTGCAGCGA
29955893 GAAACCCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (21 bp):
ATGAATCTCGCTGCAGCGAAA
Found at i:29968484 original size:3 final size:3
Alignment explanation
Indices: 29968476--29968501 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
29968466 TTTCTTTCGG
29968476 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
29968502 CTTAAGCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:29974081 original size:12 final size:12
Alignment explanation
Indices: 29974064--29974089 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29974054 TAAATATAGT
29974064 TATTACTACTAC
1 TATTACTACTAC
29974076 TATTACTACTAC
1 TATTACTACTAC
29974088 TA
1 TA
29974090 CTAGAGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (12 bp):
TATTACTACTAC
Found at i:29976862 original size:18 final size:18
Alignment explanation
Indices: 29976836--29976879 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
29976826 ATCAATATTA
*
29976836 AAAATAAAAGAAGAAAA-G
1 AAAAGAAAAGAA-AAAACG
*
29976854 AAAAGAAAAGAAAAAACT
1 AAAAGAAAAGAAAAAACG
29976872 AAAAGAAA
1 AAAAGAAA
29976880 TATTGAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAGAAAAAACG
Found at i:29987911 original size:2 final size:2
Alignment explanation
Indices: 29987906--29987933 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
29987896 ATATATCTGC
29987906 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29987934 TGAATGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29988022 original size:17 final size:17
Alignment explanation
Indices: 29988000--29988034 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
29987990 AGTAAAATAT
29988000 GCACACACTTAGGGGGA
1 GCACACACTTAGGGGGA
29988017 GCACACACTTAGGGGGA
1 GCACACACTTAGGGGGA
29988034 G
1 G
29988035 AATTCCTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.37, T:0.11
Consensus pattern (17 bp):
GCACACACTTAGGGGGA
Found at i:29988402 original size:20 final size:20
Alignment explanation
Indices: 29988379--29988422 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
29988369 TTTGAGAAAC
29988379 AGAAAAGACTTAGTCGACCA
1 AGAAAAGACTTAGTCGACCA
* ** *
29988399 AGAAATGGGTTAGTCGACTA
1 AGAAAAGACTTAGTCGACCA
29988419 AGAA
1 AGAA
29988423 GCTACTGCCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.18
Consensus pattern (20 bp):
AGAAAAGACTTAGTCGACCA
Found at i:30003731 original size:20 final size:20
Alignment explanation
Indices: 30003706--30003746 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
30003696 ATAAGCCTTG
*
30003706 TTGATTTTTATGAAATAAAA
1 TTGATTTATATGAAATAAAA
*
30003726 TTGATTTATATGAAATGAAA
1 TTGATTTATATGAAATAAAA
30003746 T
1 T
30003747 GAGATTCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (20 bp):
TTGATTTATATGAAATAAAA
Found at i:30004137 original size:12 final size:12
Alignment explanation
Indices: 30004120--30004146 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30004110 AAGAAAATAG
30004120 AATATTTTATTT
1 AATATTTTATTT
30004132 AATATTTTATTT
1 AATATTTTATTT
30004144 AAT
1 AAT
30004147 TTGAATAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
AATATTTTATTT
Found at i:30023753 original size:20 final size:20
Alignment explanation
Indices: 30023728--30023768 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
30023718 ATAAGCCTTG
* *
30023728 TTGATTTTTTTGAAATAAAA
1 TTGATTTATATGAAATAAAA
*
30023748 TTGATTTATATGAAATGAAA
1 TTGATTTATATGAAATAAAA
30023768 T
1 T
30023769 GAGATTCGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (20 bp):
TTGATTTATATGAAATAAAA
Found at i:30029190 original size:20 final size:20
Alignment explanation
Indices: 30029165--30029206 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
30029155 CATAAGCCTT
*
30029165 ATTGATTTTTATGAAATAAA
1 ATTGATTTATATGAAATAAA
*
30029185 ATTGATTTATATGAAATGAA
1 ATTGATTTATATGAAATAAA
30029205 AT
1 AT
30029207 GAGATTCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (20 bp):
ATTGATTTATATGAAATAAA
Found at i:30030289 original size:35 final size:35
Alignment explanation
Indices: 30030204--30030291 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 35
30030194 AGTGCCTTGA
*
30030204 TAAAGGCTACGCCTGATGTTGCAAAAGGCATGTTG
1 TAAAGGCTACGCCTGATCTTGCAAAAGGCATGTTG
* *
30030239 TAGAGGTTACGCCTGATCTTGC-AAAGGCCATGTTG
1 TAAAGGCTACGCCTGATCTTGCAAAAGG-CATGTTG
* *
30030274 TAAATGCTACACCTGATC
1 TAAAGGCTACGCCTGATC
30030292 CTGTTGAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 5 0.11
35 40 0.89
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (35 bp):
TAAAGGCTACGCCTGATCTTGCAAAAGGCATGTTG
Found at i:30031722 original size:21 final size:20
Alignment explanation
Indices: 30031683--30031722 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30031673 AAGTGAGTCA
* *
30031683 TTTTAATTTTATGTTATTTC
1 TTTTAATTTGATATTATTTC
30031703 TTTTAATTTGATTATTATTT
1 TTTTAATTTGA-TATTATTT
30031723 ATTACTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTTAATTTGATATTATTTC
Found at i:30038629 original size:9 final size:9
Alignment explanation
Indices: 30038615--30038665 Score: 70
Period size: 9 Copynumber: 5.9 Consensus size: 9
30038605 GTAATTGGTT
30038615 TCAAAAAAA
1 TCAAAAAAA
*
30038624 TCAAAAAGA
1 TCAAAAAAA
*
30038633 TCACAAAAA
1 TCAAAAAAA
30038642 T-AAAAAAA
1 TCAAAAAAA
30038650 TCAAAAAAA
1 TCAAAAAAA
30038659 T-AAAAAA
1 TCAAAAAA
30038666 TTATGCTCCG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
8 13 0.35
9 24 0.65
ACGTcount: A:0.76, C:0.10, G:0.02, T:0.12
Consensus pattern (9 bp):
TCAAAAAAA
Found at i:30038646 original size:17 final size:17
Alignment explanation
Indices: 30038615--30038665 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 17
30038605 GTAATTGGTT
*
30038615 TCAAAAAAATCAAAAAGA
1 TCAAAAAAAT-AAAAAAA
*
30038633 TCACAAAAATAAAAAAA
1 TCAAAAAAATAAAAAAA
30038650 TCAAAAAAATAAAAAA
1 TCAAAAAAATAAAAAA
30038666 TTATGCTCCG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 21 0.70
18 9 0.30
ACGTcount: A:0.76, C:0.10, G:0.02, T:0.12
Consensus pattern (17 bp):
TCAAAAAAATAAAAAAA
Found at i:30040946 original size:20 final size:22
Alignment explanation
Indices: 30040910--30040955 Score: 78
Period size: 20 Copynumber: 2.2 Consensus size: 22
30040900 AATTTTGTTG
30040910 ATTTATTTGTCTTGCATGTTTT
1 ATTTATTTGTCTTGCATGTTTT
30040932 ATTTATTT-T-TTGCATGTTTT
1 ATTTATTTGTCTTGCATGTTTT
30040952 ATTT
1 ATTT
30040956 GTGTTCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 15 0.62
21 1 0.04
22 8 0.33
ACGTcount: A:0.15, C:0.07, G:0.11, T:0.67
Consensus pattern (22 bp):
ATTTATTTGTCTTGCATGTTTT
Found at i:30042258 original size:20 final size:20
Alignment explanation
Indices: 30042230--30042277 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
30042220 TTATAATTAG
*
30042230 TTTATTTTTAAGTGA-TTCAT
1 TTTAATTTTAAGTGATTTC-T
* *
30042250 TTTAATTTTATGTTATTTCT
1 TTTAATTTTAAGTGATTTCT
30042270 TTTAATTT
1 TTTAATTT
30042278 GGTTATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.67
Consensus pattern (20 bp):
TTTAATTTTAAGTGATTTCT
Found at i:30045723 original size:20 final size:17
Alignment explanation
Indices: 30045685--30045739 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
30045675 AAATTAAAAG
* *
30045685 AAATAAATATAAAATTA
1 AAATAATTATAAAAATA
30045702 AAATAACTTACTTAAAAATA
1 AAATAA-TTA--TAAAAATA
*
30045722 AACTAATTATAAAAATA
1 AAATAATTATAAAAATA
30045739 A
1 A
30045740 CAAAAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 15 0.47
18 2 0.06
19 3 0.09
20 12 0.38
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATAATTATAAAAATA
Found at i:30046889 original size:26 final size:26
Alignment explanation
Indices: 30046860--30046917 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
30046850 ACCATATACC
*
30046860 CATCATCATCATGCACACCATCCCAT
1 CATCATCATCATACACACCATCCCAT
30046886 CATCATCATCATACACACCATCCCAT
1 CATCATCATCATACACACCATCCCAT
*
30046912 TATCAT
1 CATCAT
30046918 TATTCCCAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.33, C:0.40, G:0.02, T:0.26
Consensus pattern (26 bp):
CATCATCATCATACACACCATCCCAT
Found at i:30046991 original size:43 final size:43
Alignment explanation
Indices: 30046929--30047041 Score: 147
Period size: 43 Copynumber: 2.6 Consensus size: 43
30046919 ATTCCCAGCT
* **
30046929 CATGCGCACTCCCTACTCGCACATGGCTAGGTCATCATT-GGGT
1 CATGCGCACTCCCTACTCGCACATAGCTAGGTCATC-TTCGGCC
* * * *
30046972 TATGCGCATTCCCTACTCGCACATATCTGGGTCATCTTCGGCC
1 CATGCGCACTCCCTACTCGCACATAGCTAGGTCATCTTCGGCC
30047015 CATGCGCACTCCCTACTCGCACATAGC
1 CATGCGCACTCCCTACTCGCACATAGC
30047042 CGAGTCAATG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 2 0.03
43 57 0.97
ACGTcount: A:0.19, C:0.36, G:0.19, T:0.26
Consensus pattern (43 bp):
CATGCGCACTCCCTACTCGCACATAGCTAGGTCATCTTCGGCC
Found at i:30047078 original size:2 final size:2
Alignment explanation
Indices: 30047073--30047099 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30047063 TAATATATTC
30047073 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
30047100 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30052122 original size:2 final size:2
Alignment explanation
Indices: 30052117--30052144 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30052107 CAGTGTGTTG
30052117 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30052145 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30052247 original size:42 final size:42
Alignment explanation
Indices: 30052181--30052334 Score: 193
Period size: 42 Copynumber: 3.7 Consensus size: 42
30052171 GTAATGATAT
30052181 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
1 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
* * *
30052223 TGACCCGGCTATGTGAGAGGGGGAGTGTGCATAAGCCGATGC
1 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
* ** * * *
30052265 TAACTTGGCTATGTGCGAGTAGGAGTGCCCATAAGTCGATGC
1 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
* *
30052307 TGA-CCGAGCCATGTGCTAGTGGGAGTGC
1 TGACCCG-GCTATGTGCGAGTGGGAGTGC
30052335 ATATGTGCTG
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 1 0.01
42 92 0.99
ACGTcount: A:0.21, C:0.21, G:0.37, T:0.21
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
Found at i:30052380 original size:2 final size:2
Alignment explanation
Indices: 30052375--30052407 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30052365 ATGGTGATGG
30052375 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30052408 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30054923 original size:19 final size:20
Alignment explanation
Indices: 30054889--30054926 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
30054879 GAAGAAAACC
30054889 AGCTGCTGGAAAATTCAAGA
1 AGCTGCTGGAAAATTCAAGA
30054909 AGCTGCTGG-AAATTCAAG
1 AGCTGCTGGAAAATTCAAG
30054927 GCATTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (20 bp):
AGCTGCTGGAAAATTCAAGA
Found at i:30059138 original size:43 final size:43
Alignment explanation
Indices: 30059068--30059186 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
30059058 GTAATTATAT
* *
30059068 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
30059111 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
30059154 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
30059187 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:30059196 original size:43 final size:43
Alignment explanation
Indices: 30059078--30059199 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
30059068 TGACTCGGCT
* **
30059078 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
30059121 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
30059164 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
30059200 TGATGATGGG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:30059614 original size:21 final size:21
Alignment explanation
Indices: 30059590--30059629 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30059580 TTCTGGGTCG
*
30059590 CAATTTCGCTACAGCGAGATT
1 CAATCTCGCTACAGCGAGATT
**
30059611 CAATCTCGCTGTAGCGAGA
1 CAATCTCGCTACAGCGAGA
30059630 AACATTCTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (21 bp):
CAATCTCGCTACAGCGAGATT
Found at i:30059701 original size:60 final size:60
Alignment explanation
Indices: 30059553--30059701 Score: 165
Period size: 60 Copynumber: 2.5 Consensus size: 60
30059543 TAAAATGCAT
* *
30059553 TCTCGCTGCAAC-AAGAAACTTTCTGTTTTCTGGGTCGCAATTTCGCTACAGCGAGATTCAA
1 TCTCGCTGCAGCGAA-AAACTTTCTG-TTTCTGGGTCGAAATTTCGCTACAGCGAGATTCAA
* * * * * ** *
30059614 TCTCGCTGTAGCGAGAAACATTCTGTTTCTGGGTTGAAATTTTGCTGTAGCGAGATTGAA
1 TCTCGCTGCAGCGAAAAACTTTCTGTTTCTGGGTCGAAATTTCGCTACAGCGAGATTCAA
* *
30059674 TCTCGCTGCAGTGAAAAACTTTTTGTTT
1 TCTCGCTGCAGCGAAAAACTTTCTGTTT
30059702 TGGTCTCCTA
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
60 52 0.72
61 19 0.26
62 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (60 bp):
TCTCGCTGCAGCGAAAAACTTTCTGTTTCTGGGTCGAAATTTCGCTACAGCGAGATTCAA
Found at i:30061396 original size:20 final size:20
Alignment explanation
Indices: 30061371--30061408 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
30061361 TTTTGGCCCC
*
30061371 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATGGGAGTATA
30061391 ATTTGACTTATGGGAGTA
1 ATTTGACTTATGGGAGTA
30061409 GGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.42
Consensus pattern (20 bp):
ATTTGACTTATGGGAGTATA
Found at i:30061414 original size:20 final size:20
Alignment explanation
Indices: 30061371--30061416 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
30061361 TTTTGGCCCC
* *
30061371 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATGGGAGTAGA
*
30061391 ATTTGACTTATGGGAGTAGG
1 ATTTGACTTATGGGAGTAGA
30061411 ATTTGA
1 ATTTGA
30061417 GGTTTAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.41
Consensus pattern (20 bp):
ATTTGACTTATGGGAGTAGA
Found at i:30070005 original size:15 final size:14
Alignment explanation
Indices: 30069985--30070035 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 14
30069975 TTCTTAAAAC
30069985 AACTTTAAAATCGAA
1 AACTTTAAAATC-AA
30070000 AACTTTAAAATCCAA
1 AACTTTAAAAT-CAA
*
30070015 AGCTTTAAAATCAA
1 AACTTTAAAATCAA
30070029 AATCTTT
1 AA-CTTT
30070036 GATTTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 4 0.12
15 27 0.84
16 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (14 bp):
AACTTTAAAATCAA
Found at i:30074588 original size:18 final size:19
Alignment explanation
Indices: 30074560--30074607 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
30074550 GTGACGAGCA
*
30074560 AAAAGAATATTTTA-GAAT
1 AAAATAATATTTTATGAAT
*
30074578 GAAATAATATTTTATGAAT
1 AAAATAATATTTTATGAAT
30074597 AAAATAATATT
1 AAAATAATATT
30074608 AAAATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (19 bp):
AAAATAATATTTTATGAAT
Found at i:30075568 original size:4 final size:4
Alignment explanation
Indices: 30075559--30075612 Score: 58
Period size: 4 Copynumber: 13.5 Consensus size: 4
30075549 GAGAAAGGGG
* *
30075559 AAGA AAGA AAG- AAGA AA-A GAGA AAGGA AAGGA AAAA AAGA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA-GA AA-GA AAGA AAGA AAGA AAGA
30075607 AAGA AA
1 AAGA AA
30075613 AAGAGAGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
3 5 0.12
4 29 0.67
5 9 0.21
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:30075581 original size:18 final size:17
Alignment explanation
Indices: 30075559--30075622 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 17
30075549 GAGAAAGGGG
30075559 AAGAAAGAAAGAAGAAA
1 AAGAAAGAAAGAAGAAA
30075576 AGAGAAAGGAAAGGAA-AAA
1 A-AGAAA-GAAA-GAAGAAA
30075595 AAGAAAGAAAGAAAGAAA
1 AAGAAAGAAAG-AAGAAA
*
30075613 AAGAGAGAAA
1 AAGAAAGAAA
30075623 AGAGGGAAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
16 1 0.02
17 7 0.17
18 22 0.54
19 8 0.20
20 3 0.07
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (17 bp):
AAGAAAGAAAGAAGAAA
Found at i:30075592 original size:28 final size:29
Alignment explanation
Indices: 30075546--30075604 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
30075536 GACAAAGAGG
* *
30075546 AAAGAGAAAGGGGAAGAAAGAAAG-AAGA
1 AAAGAGAAAGGGAAAGAAAAAAAGAAAGA
30075574 AAAGAGAAA-GGAAAGGAAAAAAAGAAAGA
1 AAAGAGAAAGGGAAA-GAAAAAAAGAAAGA
30075603 AA
1 AA
30075605 GAAAGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 4 0.15
28 17 0.63
29 6 0.22
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (29 bp):
AAAGAGAAAGGGAAAGAAAAAAAGAAAGA
Found at i:30075605 original size:28 final size:27
Alignment explanation
Indices: 30075539--30075606 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
30075529 GCCCATAGAC
* * *
30075539 AAAGAGGAAAGAGAAAGGGGAAGAAAG
1 AAAGAAGAAAGAGAAAGGGAAAGAAAA
30075566 AAAGAAGAAAAGAGAAA-GGAAAGGAAAA
1 AAAGAAG-AAAGAGAAAGGGAAA-GAAAA
30075594 AAAGAAAGAAAGA
1 AAAG-AAGAAAGA
30075607 AAGAAAAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 10 0.29
28 22 0.63
29 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (27 bp):
AAAGAAGAAAGAGAAAGGGAAAGAAAA
Found at i:30075610 original size:32 final size:34
Alignment explanation
Indices: 30075539--30075618 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 34
30075529 GCCCATAGAC
* *
30075539 AAAGAGGAAAGAGAAAGGGGAAGAAAGAAAGAAGA
1 AAAGA-GAAAGAGAAAGGGAAAAAAAGAAAGAAGA
30075574 AAAGAGAAAG-GAAA-GGAAAAAAAGAAAGAA-A
1 AAAGAGAAAGAGAAAGGGAAAAAAAGAAAGAAGA
*
30075605 GAAAGAAAAAGAGA
1 -AAAGAGAAAGAGA
30075619 GAAAAGAGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 1 0.03
32 23 0.57
33 6 0.15
34 5 0.12
35 5 0.12
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (34 bp):
AAAGAGAAAGAGAAAGGGAAAAAAAGAAAGAAGA
Found at i:30078583 original size:164 final size:165
Alignment explanation
Indices: 30078303--30078633 Score: 592
Period size: 164 Copynumber: 2.0 Consensus size: 165
30078293 CACTTAGAGA
*
30078303 TTAGGTGATTTGATTAGTATTTAGGATAGAAATATACCTAAATACCACATGCAGCCAAATTTAGA
1 TTAGATGATTTGATTAGTATTTAGGATAGAAATATACC---ATACCACATGCAGCCAAATTTAGA
30078368 GCAACAGCTTAGTGAACCTACCTTAATTAATTTACATAGACATATGAAAAATTAATTATGATAGG
63 GCAACAGCTTAGTGAACCTACCTTAATTAATTTACATAGACATATGAAAAATTAATTATGATAGG
30078433 TATGTTTACAATATCATTACAGAGACTTGTAAATGAAT
128 TATGTTTACAATATCATTACAGAGACTTGTAAATGAAT
*
30078471 TTAGATGATTTGATTAGTATTTAGGATAGAAATATACC-TACCACATGTAGCCAAATTTAGAGCA
1 TTAGATGATTTGATTAGTATTTAGGATAGAAATATACCATACCACATGCAGCCAAATTTAGAGCA
*
30078535 ATAGCTTAGTGAACCTACCTTAATTAATTTACATAGACATATGAAAAATTAATTATGATAGGTAT
66 ACAGCTTAGTGAACCTACCTTAATTAATTTACATAGACATATGAAAAATTAATTATGATAGGTAT
*
30078600 GTTTACATTATCATTACAGAGACTTGTAAATGAA
131 GTTTACAATATCATTACAGAGACTTGTAAATGAA
30078634 CTTGGGCTCT
Statistics
Matches: 159, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
164 122 0.77
168 37 0.23
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.34
Consensus pattern (165 bp):
TTAGATGATTTGATTAGTATTTAGGATAGAAATATACCATACCACATGCAGCCAAATTTAGAGCA
ACAGCTTAGTGAACCTACCTTAATTAATTTACATAGACATATGAAAAATTAATTATGATAGGTAT
GTTTACAATATCATTACAGAGACTTGTAAATGAAT
Found at i:30088459 original size:38 final size:40
Alignment explanation
Indices: 30088417--30088519 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 40
30088407 ATAGTGCCCG
* *
30088417 TGTGCACGATGTAGGGGGATGTACACGATGG-CATTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGTCATGGATA
* ** *
30088455 TGTGCACGATGTGGGGGGATGCACACGATGGTGGTGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGTCATGGATA
30088495 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
30088520 TGAGCCGGGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 29 0.52
39 3 0.05
40 24 0.43
ACGTcount: A:0.20, C:0.14, G:0.42, T:0.24
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGTCATGGATA
Found at i:30088481 original size:19 final size:19
Alignment explanation
Indices: 30088459--30088515 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
30088449 ATTGATTGTG
30088459 CACGATGTGGGGGGATGCA
1 CACGATGTGGGGGGATGCA
** **
30088478 CACGATGGTGGTGGCTATGTG
1 CACGAT-GTGG-GGGGATGCA
30088499 CACGATGTGGGGGGATG
1 CACGATGTGGGGGGATG
30088516 TACATGAGCC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 11 0.37
20 8 0.27
21 11 0.37
ACGTcount: A:0.18, C:0.14, G:0.47, T:0.21
Consensus pattern (19 bp):
CACGATGTGGGGGGATGCA
Found at i:30090450 original size:25 final size:25
Alignment explanation
Indices: 30090422--30090504 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
30090412 ATGTGCATCT
30090422 CATCCAGCTCATGTGCATCCCACCA
1 CATCCAGCTCATGTGCATCCCACCA
** * * * *
30090447 CATCGTGCACATAGCCAGACATCCCATCT
1 CATCCAGCTCAT-G--TG-CATCCCACCA
*
30090476 CACCCAGCTCATGTGCATCCCACCA
1 CATCCAGCTCATGTGCATCCCACCA
30090501 CATC
1 CATC
30090505 GTGCACATAA
Statistics
Matches: 40, Mismatches: 14, Indels: 8
0.65 0.23 0.13
Matches are distributed among these distances:
25 20 0.50
26 2 0.05
28 2 0.05
29 16 0.40
ACGTcount: A:0.25, C:0.43, G:0.12, T:0.19
Consensus pattern (25 bp):
CATCCAGCTCATGTGCATCCCACCA
Found at i:30090499 original size:54 final size:54
Alignment explanation
Indices: 30090417--30090575 Score: 246
Period size: 54 Copynumber: 2.9 Consensus size: 54
30090407 TCATTATGTG
*
30090417 CATCTCATCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCAGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCAGACATCC
* **
30090471 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAACTGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCAGACATCC
* * * *
30090525 GATCTCACCCAGCTTATGTGCATCCTACCACATCATGCACATAGCCAGACA
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCAGACA
30090576 GTATCACCAT
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.27, C:0.39, G:0.13, T:0.21
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCAGACATCC
Found at i:30093401 original size:279 final size:276
Alignment explanation
Indices: 30092851--30093408 Score: 816
Period size: 279 Copynumber: 2.0 Consensus size: 276
30092841 TTGATTGAAC
* **
30092851 TTAATGAGCTTTGAAAATGATTGAAAGATATTTTTAAATATAAAAAAACTCAAAGGAGTGTTAAA
1 TTAATAAGCTTTGAAAATGAACGAAAGATATTTTTAAATATAAAAAAACTCAAAGGAGTGTTAAA
*
30092916 GCTTAACTTAAAAAAAAAGATATATTAAAATCCTTTAATTGTTTAAAAATGTTTTGAATATGAAT
66 GCTCAACTTAAAAAAAAAGATATATTAAAATCCTTTAATTGTTTAAAAATGTTTTGAATATGAAT
* * * *
30092981 AATTATGTTCTTGAACTTAAAGAAATATCTCTTAATTTTCTCAAAGATCTTTTGTTTTCAAAATT
131 AATCATGCTCTTAAACTTAAAGAAATATCTCTTAATTTTCTCAAAGATCTCTTGTTTTCAAAATT
* * ** *
30093046 CAAAGTGTCAGCATAAGAACTAAGTTCTCAGCAGAAATGACTTGATTCTTTAATGAAAGAAAGCA
196 CAAAGTGCCAACATAAGAACTAAGTTCTCAAAAGAAATGACTTGATTCTTCAATGAAAGAAAGCA
*
30093111 AAATTTATTTCTCTAA
261 AAATCTATTTCTCTAA
* *
30093127 TTAATAAGCTTTGAAAATGAACGAAAGATATTTTTGAATATGAAAAAAAATCCTCAAATGAGTGT
1 TTAATAAGCTTTGAAAATGAACGAAAGATATTTTTAAATAT--AAAAAAA--CTCAAAGGAGTGT
* * * * *
30093192 TAAAGCTCAA-TTTAAAAGAAAGATATATTAAAATGCTTTGATTGTTTAAACATGTTTTGAATAT
62 TAAAGCTCAACTTAAAAAAAAAGATATATTAAAATCCTTTAATTGTTTAAAAATGTTTTGAATAT
*
30093256 GAATAATCATGCTCTTAAACTTAAAGAAATATCTTTTAATTTTCTCAAAGATCTCTTG-TTTCAA
127 GAATAATCATGCTCTTAAACTTAAAGAAATATCTCTTAATTTTCTCAAAGATCTCTTGTTTTCAA
30093320 AATTCAAAGTGCCAACATAAGAA-TCAAGTTCTCAAAAGAAATGACTTGATTCTTCAATGAAAAG
192 AATTCAAAGTGCCAACATAAGAACT-AAGTTCTCAAAAGAAATGACTTGATTCTTCAATG-AAAG
* * *
30093384 AACGTAAAATCTATTTCTCTTA
255 AAAGCAAAATCTATTTCTCTAA
30093406 TTA
1 TTA
30093409 CAGGAAGAAT
Statistics
Matches: 251, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
276 37 0.15
277 1 0.00
278 65 0.26
279 127 0.51
280 21 0.08
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (276 bp):
TTAATAAGCTTTGAAAATGAACGAAAGATATTTTTAAATATAAAAAAACTCAAAGGAGTGTTAAA
GCTCAACTTAAAAAAAAAGATATATTAAAATCCTTTAATTGTTTAAAAATGTTTTGAATATGAAT
AATCATGCTCTTAAACTTAAAGAAATATCTCTTAATTTTCTCAAAGATCTCTTGTTTTCAAAATT
CAAAGTGCCAACATAAGAACTAAGTTCTCAAAAGAAATGACTTGATTCTTCAATGAAAGAAAGCA
AAATCTATTTCTCTAA
Found at i:30114911 original size:24 final size:26
Alignment explanation
Indices: 30114884--30114931 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
30114874 AAAAAGAAAA
*
30114884 AAGAGAAGATCTT-CATTC-CAAGAG
1 AAGAGAAAATCTTCCATTCTCAAGAG
30114908 AAGAGAAAATCTTCCATTCTCAAG
1 AAGAGAAAATCTTCCATTCTCAAG
30114932 TTCACACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.57
25 5 0.24
26 4 0.19
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.23
Consensus pattern (26 bp):
AAGAGAAAATCTTCCATTCTCAAGAG
Done.