Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 26 of 208
Found at i:10102479 original size:15 final size:16
Alignment explanation
Indices: 10102459--10102489 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10102449 TTTAAGTTTA
10102459 TATAATA-TTTTATAT
1 TATAATATTTTTATAT
10102474 TATAATATTTTTATAT
1 TATAATATTTTTATAT
10102490 ATTATGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATAATATTTTTATAT
Found at i:10102596 original size:28 final size:25
Alignment explanation
Indices: 10102565--10102631 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 25
10102555 AATATTAAAA
10102565 TAATATTAAAATACTATATGAAAATT-TT
1 TAATATTAAAATA-TATAT---AATTATT
*
10102593 TAATAAATAAAATATATATAATTATT
1 TAAT-ATTAAAATATATATAATTATT
*
10102619 AAATATTAAAATA
1 TAATATTAAAATA
10102632 AAATATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 12 0.35
26 5 0.15
28 9 0.26
29 8 0.24
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (25 bp):
TAATATTAAAATATATATAATTATT
Found at i:10102852 original size:14 final size:13
Alignment explanation
Indices: 10102817--10102850 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
10102807 CATGAGGATA
10102817 TTAAAAAATTACT
1 TTAAAAAATTACT
*
10102830 TTAAAAAATTCCT
1 TTAAAAAATTACT
10102843 TTAAAAAA
1 TTAAAAAA
10102851 ATGGATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (13 bp):
TTAAAAAATTACT
Found at i:10104756 original size:2 final size:2
Alignment explanation
Indices: 10104751--10104775 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10104741 GGATATAAAT
10104751 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
10104776 AGGTCCCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10107889 original size:17 final size:18
Alignment explanation
Indices: 10107860--10107899 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
10107850 AAAATATATG
10107860 ATTTTTCACATTTTCATA
1 ATTTTTCACATTTTCATA
10107878 ATTTTTCA-ATTTTCATA
1 ATTTTTCACATTTTCATA
10107895 ATTTT
1 ATTTT
10107900 CTTAGATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTTCACATTTTCATA
Found at i:10110062 original size:22 final size:22
Alignment explanation
Indices: 10110018--10110062 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10110008 CATATGATTA
*
10110018 TTTAAAATTAAAAAAATACAAT
1 TTTAAAATTAAAAAAATAAAAT
* * *
10110040 TTTAAATTTCAAAAACTAAAAT
1 TTTAAAATTAAAAAAATAAAAT
10110062 T
1 T
10110063 AACATAATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATTAAAAAAATAAAAT
Found at i:10110578 original size:17 final size:19
Alignment explanation
Indices: 10110558--10110595 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
10110548 TTAAAACTTT
*
10110558 TAAAAGA-AATTAT-TTTA
1 TAAAAGATAAATATATTTA
10110575 TAAAAGATAAATATATTTA
1 TAAAAGATAAATATATTTA
10110594 TA
1 TA
10110596 TATTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 5 0.28
19 6 0.33
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAAAGATAAATATATTTA
Found at i:10119203 original size:5 final size:5
Alignment explanation
Indices: 10119195--10119222 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
10119185 AATATATAAT
10119195 ATTTA ATTTA ATTTA ATTTA ATTTA ATT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATT
10119223 ATAGATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTTA
Found at i:10130945 original size:21 final size:21
Alignment explanation
Indices: 10130904--10130947 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10130894 ATTACATCTA
*
10130904 TATAAATATAAGTTTTAAATT
1 TATAAATATAAGTTTAAAATT
*
10130925 TATAAAT-TAGGTTTAATAATT
1 TATAAATATAAGTTTAA-AATT
10130946 TA
1 TA
10130948 ATTTAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (21 bp):
TATAAATATAAGTTTAAAATT
Found at i:10131427 original size:4 final size:4
Alignment explanation
Indices: 10131418--10131442 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
10131408 ATACTTGGCC
10131418 GAGG GAGG GAGG GAGG GAGG GAGG G
1 GAGG GAGG GAGG GAGG GAGG GAGG G
10131443 TCCCACCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.76, T:0.00
Consensus pattern (4 bp):
GAGG
Found at i:10138004 original size:6 final size:6
Alignment explanation
Indices: 10137993--10138017 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10137983 ATATATTTTG
10137993 CAAAAC CAAAAC CAAAAC CAAAAC C
1 CAAAAC CAAAAC CAAAAC CAAAAC C
10138018 GTCTTTGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAC
Found at i:10138052 original size:15 final size:16
Alignment explanation
Indices: 10138020--10138054 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
10138010 CCAAAACCGT
10138020 CTTTGCCTTTGCCTTC
1 CTTTGCCTTTGCCTTC
*
10138036 CTTTGCC-TTGTCTTC
1 CTTTGCCTTTGCCTTC
10138051 CTTT
1 CTTT
10138055 ACTTTTACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.00, C:0.34, G:0.11, T:0.54
Consensus pattern (16 bp):
CTTTGCCTTTGCCTTC
Found at i:10143792 original size:3 final size:3
Alignment explanation
Indices: 10143784--10143808 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10143774 GTGAATGTGT
10143784 CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC C
10143809 CATCTTGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CTC
Found at i:10145016 original size:16 final size:16
Alignment explanation
Indices: 10144983--10145016 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10144973 ATCGCATGTT
* *
10144983 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
10144999 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
10145015 AA
1 AA
10145017 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:10147836 original size:21 final size:21
Alignment explanation
Indices: 10147810--10147850 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10147800 AGACGAGCAA
* *
10147810 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
10147831 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
10147851 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:10149789 original size:16 final size:16
Alignment explanation
Indices: 10149756--10149789 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10149746 GGAGATTGTT
* *
10149756 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
10149772 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
10149788 AA
1 AA
10149790 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:10154904 original size:324 final size:324
Alignment explanation
Indices: 10154315--10154918 Score: 1208
Period size: 324 Copynumber: 1.9 Consensus size: 324
10154305 TTGCTAATGG
10154315 ACATTGCCTTCAAAGGCCAAACCAGATGAAACAAACTACTGTTTGATATTAAAATAACTTGGCAA
1 ACATTGCCTTCAAAGGCCAAACCAGATGAAACAAACTACTGTTTGATATTAAAATAACTTGGCAA
10154380 CTTGCTAGATAAAACCAATGATGGATAATTGCAATGCTAAACTTGAGAAATGATTAGTATTGTTT
66 CTTGCTAGATAAAACCAATGATGGATAATTGCAATGCTAAACTTGAGAAATGATTAGTATTGTTT
10154445 CATTAATTAATATTAATTTAAAGGTAAAGGGATGGCCTACTACTTTATCTTTAATTATACGACGT
131 CATTAATTAATATTAATTTAAAGGTAAAGGGATGGCCTACTACTTTATCTTTAATTATACGACGT
10154510 TCTAAGTTACTATTTTACTCTGGCTGTCCCTTATTATTGTTGCAATGGAACGTTTGGGGAGGGAG
196 TCTAAGTTACTATTTTACTCTGGCTGTCCCTTATTATTGTTGCAATGGAACGTTTGGGGAGGGAG
10154575 AAATGAAGGTTTAGCAAATCAGATGAAACAAACTACTGTTTGATATTAAAATAACGTTTGGGAA
261 AAATGAAGGTTTAGCAAATCAGATGAAACAAACTACTGTTTGATATTAAAATAACGTTTGGGAA
10154639 ACATTGCCTTCAAAGGCCAAACCAGATGAAACAAACTACTGTTTGATATTAAAATAACTTGGCAA
1 ACATTGCCTTCAAAGGCCAAACCAGATGAAACAAACTACTGTTTGATATTAAAATAACTTGGCAA
10154704 CTTGCTAGATAAAACCAATGATGGATAATTGCAATGCTAAACTTGAGAAATGATTAGTATTGTTT
66 CTTGCTAGATAAAACCAATGATGGATAATTGCAATGCTAAACTTGAGAAATGATTAGTATTGTTT
10154769 CATTAATTAATATTAATTTAAAGGTAAAGGGATGGCCTACTACTTTATCTTTAATTATACGACGT
131 CATTAATTAATATTAATTTAAAGGTAAAGGGATGGCCTACTACTTTATCTTTAATTATACGACGT
10154834 TCTAAGTTACTATTTTACTCTGGCTGTCCCTTATTATTGTTGCAATGGAACGTTTGGGGAGGGAG
196 TCTAAGTTACTATTTTACTCTGGCTGTCCCTTATTATTGTTGCAATGGAACGTTTGGGGAGGGAG
10154899 AAATGAAGGTTTAGCAAATC
261 AAATGAAGGTTTAGCAAATC
10154919 CCATCCGAAA
Statistics
Matches: 280, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
324 280 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (324 bp):
ACATTGCCTTCAAAGGCCAAACCAGATGAAACAAACTACTGTTTGATATTAAAATAACTTGGCAA
CTTGCTAGATAAAACCAATGATGGATAATTGCAATGCTAAACTTGAGAAATGATTAGTATTGTTT
CATTAATTAATATTAATTTAAAGGTAAAGGGATGGCCTACTACTTTATCTTTAATTATACGACGT
TCTAAGTTACTATTTTACTCTGGCTGTCCCTTATTATTGTTGCAATGGAACGTTTGGGGAGGGAG
AAATGAAGGTTTAGCAAATCAGATGAAACAAACTACTGTTTGATATTAAAATAACGTTTGGGAA
Found at i:10163990 original size:13 final size:13
Alignment explanation
Indices: 10163974--10163998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10163964 TTTATTAAAA
10163974 TAATAAATTATTT
1 TAATAAATTATTT
10163987 TAATAAATTATT
1 TAATAAATTATT
10163999 ATATCACTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATAAATTATTT
Found at i:10166522 original size:18 final size:18
Alignment explanation
Indices: 10166499--10166536 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
10166489 CTCACCTGCA
10166499 TATTCACAAGCCATATAG
1 TATTCACAAGCCATATAG
*
10166517 TATTCACAAGCCATGTAG
1 TATTCACAAGCCATATAG
10166535 TA
1 TA
10166537 CTCTGTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (18 bp):
TATTCACAAGCCATATAG
Found at i:10176362 original size:23 final size:23
Alignment explanation
Indices: 10176336--10176381 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
10176326 AATCCTAATA
10176336 CTAAACCATTAATAAACTAAAAG
1 CTAAACCATTAATAAACTAAAAG
10176359 CTAAACCATTAATAAACTAAAAG
1 CTAAACCATTAATAAACTAAAAG
10176382 ATTTAGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.17, G:0.04, T:0.22
Consensus pattern (23 bp):
CTAAACCATTAATAAACTAAAAG
Found at i:10180446 original size:23 final size:22
Alignment explanation
Indices: 10180419--10180467 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
10180409 ACTTTAGTCC
10180419 TTAGT-TTTGAATTGATTGTAAAT
1 TTAGTCTTTGAA-TG-TTGTAAAT
*
10180442 TTAGTCCTTTGAATGTTGTAATT
1 TTAGT-CTTTGAATGTTGTAAAT
10180465 TTA
1 TTA
10180468 ATGCGATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 15 0.65
24 2 0.09
25 6 0.26
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (22 bp):
TTAGTCTTTGAATGTTGTAAAT
Found at i:10180536 original size:24 final size:23
Alignment explanation
Indices: 10180490--10180536 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10180480 TTTATTATTC
* *
10180490 TTATTTTTTAGTATTTCATTTAA
1 TTATTTTTTAGTATTTAAATTAA
*
10180513 TTATTTTTTTGTACTTTAAATTAA
1 TTATTTTTTAGTA-TTTAAATTAA
10180537 GTTTCAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (23 bp):
TTATTTTTTAGTATTTAAATTAA
Found at i:10180853 original size:14 final size:16
Alignment explanation
Indices: 10180814--10180853 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
10180804 TCATATATAC
10180814 ATTCTTTAATATTTTT
1 ATTCTTTAATATTTTT
*
10180830 ATTCTATAATA-TTTT
1 ATTCTTTAATATTTTT
10180845 -TTCTTTAAT
1 ATTCTTTAAT
10180854 TTCACTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 8 0.36
15 4 0.18
16 10 0.45
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTCTTTAATATTTTT
Found at i:10186775 original size:121 final size:121
Alignment explanation
Indices: 10186561--10186803 Score: 468
Period size: 121 Copynumber: 2.0 Consensus size: 121
10186551 TTGAGTATCA
*
10186561 CATTTAAGTCTGATCACATTCAACCTTAATACACACACCTAGGTACATGCCATTTACTGAAACAA
1 CATTTAAGTCTGATCACATTCAACCTTAATACACACACCTAGATACATGCCATTTACTGAAACAA
10186626 CAGAAATTAATACTTTACCCCTTTCTCGGATCCACTGATGTGATGAGATGAGGTGC
66 CAGAAATTAATACTTTACCCCTTTCTCGGATCCACTGATGTGATGAGATGAGGTGC
*
10186682 CATTTAAGTCTGATCACATTTAACCTTAATACACACACCTAGATACATGCCATTTACTGAAACAA
1 CATTTAAGTCTGATCACATTCAACCTTAATACACACACCTAGATACATGCCATTTACTGAAACAA
10186747 CAGAAATTAATACTTTACCCCTTTCTCGGATCCACTGATGTGATGAGATGAGGTGC
66 CAGAAATTAATACTTTACCCCTTTCTCGGATCCACTGATGTGATGAGATGAGGTGC
10186803 C
1 C
10186804 TTCAATCTTC
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (121 bp):
CATTTAAGTCTGATCACATTCAACCTTAATACACACACCTAGATACATGCCATTTACTGAAACAA
CAGAAATTAATACTTTACCCCTTTCTCGGATCCACTGATGTGATGAGATGAGGTGC
Found at i:10188781 original size:31 final size:31
Alignment explanation
Indices: 10188743--10188805 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
10188733 AACACAATTT
10188743 ATAATTATTACCAATCACATACCATACATAC
1 ATAATTATTACCAATCACATACCATACATAC
*
10188774 ATAATTATTGCCAATCACATACCATACATAC
1 ATAATTATTACCAATCACATACCATACATAC
10188805 A
1 A
10188806 ATCAAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (31 bp):
ATAATTATTACCAATCACATACCATACATAC
Found at i:10191200 original size:17 final size:17
Alignment explanation
Indices: 10191162--10191203 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
10191152 CTACTTTCTC
10191162 TATT-TTATTATTTATG
1 TATTATTATTATTTATG
*
10191178 TTTTATTATTATTTAT-
1 TATTATTATTATTTATG
10191194 TAATTATTAT
1 T-ATTATTAT
10191204 AATTATATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TATTATTATTATTTATG
Found at i:10194597 original size:16 final size:17
Alignment explanation
Indices: 10194576--10194607 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10194566 AAATATGCAA
10194576 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
10194592 TCACATAACTTCATAT
1 TCACATAACTTCATAT
10194608 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:10194834 original size:43 final size:43
Alignment explanation
Indices: 10194768--10194937 Score: 163
Period size: 43 Copynumber: 4.0 Consensus size: 43
10194758 GACTCGTACA
* * *
10194768 ATGCCAACGTCCTAGAC-GTGGTCTTACATGTAATCACATATCA
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGTAATCACATATCG
* * *
10194811 ATGCCACTGTCCCAGGCAGGGTCTTACATG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCACATATCG
* * *
10194852 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCACATA-TCG
* *
10194895 ATGCCAATGTCCCAAAC-GTGGTCTTACACGATAA-CACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATG-TAATCACATATCG
10194938 GAAATCCTAT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
41 28 0.26
42 13 0.12
43 60 0.57
44 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCACATATCG
Found at i:10194918 original size:84 final size:84
Alignment explanation
Indices: 10194768--10194922 Score: 197
Period size: 84 Copynumber: 1.8 Consensus size: 84
10194758 GACTCGTACA
* * * * * **
10194768 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACATATCAATGCCACTGTCCCAGGCAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCAATGTCCCAAACAGGGT
10194833 CTTACATGAATCAAATACG
66 CTTACATGAATCAAATACG
* *
10194852 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAATGTCCCAAAC-GTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCAATGCCAATGTCCCAAACAG-G
10194915 GTCTTACA
64 GTCTTACA
10194923 CGATAACACA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
83 2 0.03
84 58 0.97
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCAATGTCCCAAACAGGGT
CTTACATGAATCAAATACG
Found at i:10197765 original size:57 final size:56
Alignment explanation
Indices: 10197648--10197795 Score: 145
Period size: 57 Copynumber: 2.5 Consensus size: 56
10197638 AATTGACGGT
10197648 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCTTGATATACCTCTCCCAAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTG-----ATCTTGATATACCTCTCCCAAAGAATATGTG-G
** *
10197711 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCC-CTTTCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATA-CCTCTCCCAAAGAATATGTGG
* * * *
10197767 AAAATGGATTTAGCCTGGACGGGTAATCT
1 AAAA-AGATCTAGCCCGGACGGGTGATCT
10197796 GAATTAGGGT
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
56 5 0.07
57 45 0.59
58 2 0.03
62 19 0.25
63 5 0.07
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (56 bp):
AAAAAGATCTAGCCCGGACGGGTGATCTTGATATACCTCTCCCAAAGAATATGTGG
Found at i:10199019 original size:18 final size:18
Alignment explanation
Indices: 10198977--10199013 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10198967 GAGTTAAGAT
10198977 ATAATTT-TATCATTTTA
1 ATAATTTATATCATTTTA
*
10198994 ATAATTTATATCCTTTTA
1 ATAATTTATATCATTTTA
10199012 AT
1 AT
10199014 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAATTTATATCATTTTA
Found at i:10199145 original size:46 final size:46
Alignment explanation
Indices: 10199078--10199172 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
10199068 CATATATTAA
10199078 TTTAAAATTTTATAAATTTTAATGAGACAAAAATGAAATTTCTCAT
1 TTTAAAATTTTATAAATTTTAATGAGACAAAAATGAAATTTCTCAT
10199124 TTTAAAATTTTATAAATTTTAATGAGACAAAAATGAAATTTCTCAT
1 TTTAAAATTTTATAAATTTTAATGAGACAAAAATGAAATTTCTCAT
10199170 TTT
1 TTT
10199173 GGGAGGGTAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (46 bp):
TTTAAAATTTTATAAATTTTAATGAGACAAAAATGAAATTTCTCAT
Found at i:10199918 original size:127 final size:128
Alignment explanation
Indices: 10199752--10200042 Score: 460
Period size: 128 Copynumber: 2.3 Consensus size: 128
10199742 TTCAACATTT
*
10199752 CCTATATATTTAGTGCCCCATGTG-CCTTAACCTACACCCACAAGTTGTATTGATCTCAAGCCTT
1 CCTATATATTTAGTGCCCTATGTGTCCTTAACCTACACCCACAAGTTGTATTGATCTCAAGCCTT
*
10199816 TT-TCGACCAAAACCACCTCTTATTCTCACACCTATCCACCTACGTAAACTTTTTCTACACTG
66 TTCTCGACCAAAACCACCTCCTATTCTCACACCTATCCACCTACGTAAACTTTTTCTACACTG
* *
10199878 CCTATATATTTAGTGCCCTATGTGTCCTTAACCTACACCCACAAGTTGTATTTATCTTAAGCCTT
1 CCTATATATTTAGTGCCCTATGTGTCCTTAACCTACACCCACAAGTTGTATTGATCTCAAGCCTT
* * * * * * *
10199943 TTCTCGATCAAAACCACTTCCTATTCTCACATCTATTCACCTACGTAAATTTTTTCTACATTT
66 TTCTCGACCAAAACCACCTCCTATTCTCACACCTATCCACCTACGTAAACTTTTTCTACACTG
*
10200006 CTTATATATTTAGTGCCCTATGTGTCCTTAACCTACA
1 CCTATATATTTAGTGCCCTATGTGTCCTTAACCTACA
10200043 ATACACCTAG
Statistics
Matches: 151, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
126 23 0.15
127 40 0.26
128 88 0.58
ACGTcount: A:0.26, C:0.29, G:0.08, T:0.37
Consensus pattern (128 bp):
CCTATATATTTAGTGCCCTATGTGTCCTTAACCTACACCCACAAGTTGTATTGATCTCAAGCCTT
TTCTCGACCAAAACCACCTCCTATTCTCACACCTATCCACCTACGTAAACTTTTTCTACACTG
Found at i:10201925 original size:18 final size:18
Alignment explanation
Indices: 10201891--10201949 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 18
10201881 AATTAAGTTT
10201891 ATTTAAAATACAAATATTAA
1 ATTTAAAAT--AAATATTAA
10201911 ATTTAAAATAAATA-TAA
1 ATTTAAAATAAATATTAA
**
10201928 AAATAAAATTAAATATTTAA
1 ATTTAAAA-TAAATA-TTAA
10201948 AT
1 AT
10201950 ATTTTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 9 0.27
18 11 0.33
20 13 0.39
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTAAAATAAATATTAA
Found at i:10202223 original size:22 final size:22
Alignment explanation
Indices: 10202195--10202257 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
10202185 TTAGAATTAT
10202195 ATATTTTATAATTT-TATTAAAA
1 ATATTTTATAATTTCT-TTAAAA
*
10202217 ATATTTT-TAAATATTCTTTACAA
1 ATATTTTAT-AAT-TTCTTTAAAA
*
10202240 AT-TTTTATAATTTATTTA
1 ATATTTTATAATTTCTTTA
10202258 TATGTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
21 7 0.20
22 17 0.49
23 10 0.29
24 1 0.03
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATTTTATAATTTCTTTAAAA
Found at i:10207167 original size:3 final size:3
Alignment explanation
Indices: 10207159--10207205 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
10207149 GATTCAGTCC
10207159 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
10207206 GTGCTGAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:10207598 original size:39 final size:39
Alignment explanation
Indices: 10207452--10207598 Score: 94
Period size: 39 Copynumber: 3.8 Consensus size: 39
10207442 AAAAAACTAA
*
10207452 TATTATTATTATGGTTAGTTATTAGGATTAGTAAAAACCCT
1 TATTATTATT-TAGTTAGTTATTAGGATTAGT-AAAACCCT
* *** *
10207493 AATTATTATTTTAGTTAGTATGATT--G-TTAGTTTTTA-CAT
1 TATTATTA-TTTAGTTAGT-T-ATTAGGATTAG-TAAAACCCT
***
10207532 TA-TATTA-TT-GTTAGTTATTATTTTTAGTAAAACCCT
1 TATTATTATTTAGTTAGTTATTAGGATTAGTAAAACCCT
10207568 TATTATTATTGT-GTTAGTTATTAGGATTAGT
1 TATTATTATT-TAGTTAGTTATTAGGATTAGT
10207599 GGTTAAACGT
Statistics
Matches: 80, Mismatches: 15, Indels: 24
0.67 0.13 0.20
Matches are distributed among these distances:
33 3 0.04
34 1 0.01
35 8 0.10
36 10 0.12
37 5 0.06
38 6 0.08
39 20 0.25
40 5 0.06
41 16 0.20
42 3 0.04
43 3 0.04
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.52
Consensus pattern (39 bp):
TATTATTATTTAGTTAGTTATTAGGATTAGTAAAACCCT
Found at i:10212322 original size:156 final size:152
Alignment explanation
Indices: 10211757--10212662 Score: 1116
Period size: 158 Copynumber: 5.9 Consensus size: 152
10211747 TGCAACTTCA
* * * *
10211757 AAATAAATTTAGTAAAAAACCATTATTTCGGCCCTTTGTTCATATTTTTTTCCCGGATTTTATTA
1 AAATAAATTTA-AAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTT-CCGAATTTTATTA
* *
10211822 C-TTTAAAAAATATACTATTTT-TAAATTTTATTATTTTACATTGTTTTAGTACATTATATTTGA
64 CTTTTAAAAAATATACTATTTTCT-AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
10211885 AATGTATTAATTTA--GT-TTTTTT
128 AATGTATTAATTTAGTGTGTTTTTT
* * *
10211907 AAATAAATTTTAAAAAAACCCTTATTTCGGTCCTTTGTTCGTATTTTTTTCTCGGATTTTATTAC
1 AAATAAATTTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTC-CGAATTTTATTAC
* *
10211972 TTTCAATAAAA-ATA-TA---T-T-ATTTTATTATTTTACATTATTTTAGTAAATTATGTTTGAA
65 TTTTAA-AAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAA
10212030 ATGTATTAATTTA-T-TGTTTTTT
129 ATGTATTAATTTAGTGTGTTTTTT
** *
10212052 AAATAAATTT-AAAAAAACCCTTATTTCTTCCCTTTGTTCGTATTTTTTTTGCCGGATTTTATTA
1 AAATAAATTTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTTTT-CCGAATTTTATTA
10212116 C-TTTAAAAATATATATTCTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTT
64 CTTTTAAAAA-ATATA--CTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTT
10212180 GAAATGTATTAATTTAGTGTGTTTTTT
126 GAAATGTATTAATTTAGTGTGTTTTTT
* * *
10212207 AAATAAATTTCAAAAAATAACCCTTATTTCGACCATTTGTTCATATTTTTTTCCTGAATTTTATT
1 AAATAAATTT-AAAAAA-AACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCC-GAATTTTATT
* * *
10212272 ACTTTTTAAAAAATATACTATTTTCTAATTTTATTATTTTATATTATTTTAATACTTTATGTTTG
63 AC-TTTTAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTG
10212337 AAATGTATTAATTTAGTGTGTGTTTTT
127 AAATGTATTAATTTAGTGTGT-TTTTT
** *
10212364 AAATAAATTTAAAAAAATAACCCTTATTTCGGCCCTTTGTTCGTATTTTTCCCCAAATTTTATTA
1 AAATAAATTT-AAAAAA-AACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCGAATTTTATTA
* * *
10212429 CTTTCAATAAAAAAGATATTATTTTC-ATATTTTATTATTTTAGATTATTTTAGTACATTATGTT
64 CTTT---TAAAAAATATACTATTTTCTA-ATTTTATTATTTTACATTATTTTAGTACATTATGTT
*
10212493 TGAAATGTATTAATTTAGTGTGTGTTTT
125 TGAAATGTATTAATTTAGTGTGTTTTTT
* * ** *
10212521 AAATAAATTTAGTAAAAAACCCTTATTTCGG-CC-TTGTTCGTATTTTTTACCGAAGCCTCATT-
1 AAATAAATTTA-AAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCGAA-TTTTATTA
* * * *
10212583 GTTTCAAAAAATATATTATTTTCGT-ATTTTATTATTTTACGTTATTTTAGTACATTATGTTTGA
64 CTTTTAAAAAATATACTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
*
10212647 AATGCATTAATTTAGT
128 AATGTATTAATTTAGT
10212663 AAAAAACTCT
Statistics
Matches: 674, Mismatches: 48, Indels: 67
0.85 0.06 0.08
Matches are distributed among these distances:
143 3 0.00
144 85 0.13
145 39 0.06
146 3 0.00
148 3 0.00
149 50 0.07
150 17 0.03
151 74 0.11
152 1 0.00
153 52 0.08
154 22 0.03
155 27 0.04
156 94 0.14
157 95 0.14
158 101 0.15
159 8 0.01
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (152 bp):
AAATAAATTTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCGAATTTTATTACT
TTTAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
GTATTAATTTAGTGTGTTTTTT
Found at i:10212497 original size:314 final size:303
Alignment explanation
Indices: 10211757--10212662 Score: 1139
Period size: 309 Copynumber: 3.0 Consensus size: 303
10211747 TGCAACTTCA
* * *
10211757 AAATAAATTTAGTAAAAAACCATTATTTCGGCCCTTTGTTCATATTTTTTTCCCGGATTTTATTA
1 AAATAAATTTA-AAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTA
* * * * *
10211822 C-TT-TAAAAAATATACTATTTTTAAATTTTATTATTTTACATTGTTTTAGTACATTATATTTGA
65 CTTTATAAAAAATATATTATTTTCATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
* *
10211885 AATGTATTAATTTA--GT-TTTTTTAAATAAATTTTAAAAAAACCCTTATTTCGGTCCTTTGTTC
130 AATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAAACCCTTATTTC-GACCTTTGTTC
*
10211947 GTATTTTTTT-CTCGGATTTTATTACTTTCAATAAAA-ATATA---T-TATTTTATTATTTTACA
194 GTATTTTTTTCCT-GAATTTTATTACTTTCAA-AAAATATATATTTTCTATTTTATTATTTTACA
*
10212006 TTATTTTAGTAAATTATGTTTGAAATGTATTAATTTA-TTGTTTTTT
257 TTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTTGTTTTTT
** *
10212052 AAATAAATTT-AAAAAAACCCTTATTTCTTCCCTTTGTTCGTATTTTTTTTGCCGGATTTTATTA
1 AAATAAATTTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTTTTCCCGGATTTTATTA
*
10212116 CTTTA-AAAATATATATTCTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTT
65 CTTTATAAAAAATATA-T-TATTTTCAT-ATTTTATTATTTTACATTATTTTAGTACATTATGTT
10212179 TGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTCAAAAAATAACCCTTATTTCGACCATT
127 TGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTT-AAAAAA-AACCCTTATTTCGACC-TT
* *
10212244 TGTTCATATTTTTTTCCTGAATTTTATTACTTTTTAAAAAATATACTATTTTCTAATTTTATTAT
189 TGTTCGTATTTTTTTCCTGAATTTTATTAC-TTTCAAAAAATATA-TATTTTCT-ATTTTATTAT
* * *
10212309 TTTATATTATTTTAATACTTTATGTTTGAAATGTATTAATTTAGTGTGTGTTTTT
251 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGT-TGT-TTTTT
* **
10212364 AAATAAATTTAAAAAAATAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTTCCCCAAATTTTATT
1 AAATAAATTT-AAAAAA-AACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATT
* *
10212428 ACTTTCAATAAAAAAGATATTATTTTCATATTTTATTATTTTAGATTATTTTAGTACATTATGTT
64 ACTTT--ATAAAAAATATATTATTTTCATATTTTATTATTTTACATTATTTTAGTACATTATGTT
* * *
10212493 TGAAATGTATTAATTTAGTGTGTGTTTTAAATAAATTTAGTAAAAAACCCTTATTTCGGCC-TTG
127 TGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTA-AAAAAAACCCTTATTTCGACCTTTG
* ** * *
10212557 TTCGTATTTTTTACC-GAAGCCTCATT-GTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
191 TTCGTATTTTTTTCCTGAA-TTTTATTACTTTCAAAAAATATA-TATTTTC-TATTTTATTATTT
* *
10212620 TACGTTATTTTAGTACATTATGTTTGAAATGCATTAATTTAGT
253 TACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGT
10212663 AAAAAACTCT
Statistics
Matches: 531, Mismatches: 46, Indels: 54
0.84 0.07 0.09
Matches are distributed among these distances:
293 27 0.05
294 21 0.04
295 21 0.04
297 57 0.11
299 2 0.00
300 16 0.03
301 8 0.02
302 43 0.08
303 10 0.02
304 2 0.00
307 1 0.00
308 1 0.00
309 119 0.22
310 5 0.01
311 23 0.04
312 15 0.03
313 36 0.07
314 88 0.17
315 28 0.05
316 8 0.02
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (303 bp):
AAATAAATTTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTAC
TTTATAAAAAATATATTATTTTCATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAA
ATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAAACCCTTATTTCGACCTTTGTTCGT
ATTTTTTTCCTGAATTTTATTACTTTCAAAAAATATATATTTTCTATTTTATTATTTTACATTAT
TTTAGTACATTATGTTTGAAATGTATTAATTTAGTTGTTTTTT
Found at i:10212617 original size:16 final size:18
Alignment explanation
Indices: 10212596--10212631 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
10212586 TCAAAAAATA
10212596 TATTATTTT-CG-TATTT
1 TATTATTTTACGTTATTT
10212612 TATTATTTTACGTTATTT
1 TATTATTTTACGTTATTT
10212630 TA
1 TA
10212632 GTACATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (18 bp):
TATTATTTTACGTTATTT
Found at i:10213018 original size:20 final size:20
Alignment explanation
Indices: 10212989--10213027 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10212979 TTTTTTACAC
*
10212989 AAATATTACAAAAAAAATTT
1 AAATAATACAAAAAAAATTT
*
10213009 AAATAATACAAAAAGAATT
1 AAATAATACAAAAAAAATT
10213028 ACCTTTACTT
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:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
AAATAATACAAAAAAAATTT
Found at i:10213099 original size:10 final size:10
Alignment explanation
Indices: 10213080--10213141 Score: 61
Period size: 10 Copynumber: 5.7 Consensus size: 10
10213070 TCTTCTTCTC
*
10213080 CTTTCCTTTT
1 CTTTCTTTTT
10213090 CTTTCTTTTT
1 CTTTCTTTTT
10213100 CTTTCTTCTCCTTT
1 CTTTC-T-T--TTT
*
10213114 CCTTTCCTTTT
1 -CTTTCTTTTT
10213125 CTTTCTTTTT
1 CTTTCTTTTT
10213135 CTTTCTT
1 CTTTCTT
10213142 CTCCTTCTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 30 0.68
11 4 0.09
12 1 0.02
13 1 0.02
14 3 0.07
15 5 0.11
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:10213117 original size:35 final size:36
Alignment explanation
Indices: 10213067--10213149 Score: 150
Period size: 35 Copynumber: 2.3 Consensus size: 36
10213057 CTTCCCTCCC
*
10213067 TCTTCTTCTTCTCCTTTCCTTTTCTTTCTTTTTCTT
1 TCTTCTCCTTCTCCTTTCCTTTTCTTTCTTTTTCTT
10213103 TCTTCTCCTT-TCCTTTCCTTTTCTTTCTTTTTCTT
1 TCTTCTCCTTCTCCTTTCCTTTTCTTTCTTTTTCTT
10213138 TCTTCTCCTTCT
1 TCTTCTCCTTCT
10213150 TTCTTCCCCT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
35 35 0.78
36 10 0.22
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (36 bp):
TCTTCTCCTTCTCCTTTCCTTTTCTTTCTTTTTCTT
Found at i:10213118 original size:25 final size:25
Alignment explanation
Indices: 10213083--10213155 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
10213073 TCTTCTCCTT
* *
10213083 TCCTTTTCTTTCTTTTTCTTTCTTC
1 TCCTTTCCTTTCCTTTTCTTTCTTC
*
10213108 TCCTTTCCTTTCCTTTTCTTTCTTT
1 TCCTTTCCTTTCCTTTTCTTTCTTC
*
10213133 TTCTTT-CTTCTCC--TTCTTTCTTC
1 TCCTTTCCTT-TCCTTTTCTTTCTTC
10213156 CCCTCCAGCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 9 0.21
24 3 0.07
25 30 0.71
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (25 bp):
TCCTTTCCTTTCCTTTTCTTTCTTC
Found at i:10213153 original size:10 final size:10
Alignment explanation
Indices: 10213087--10213153 Score: 52
Period size: 10 Copynumber: 6.9 Consensus size: 10
10213077 CTCCTTTCCT
*
10213087 TTTCTTTCTT
1 TTTCTTTCTC
10213097 TTTCTTTCT-
1 TTTCTTTCTC
*
10213106 TCTCCTTTC-C
1 T-TTCTTTCTC
10213116 TTTCCTTT-TC
1 TTT-CTTTCTC
*
10213126 TTTCTTTTTC
1 TTTCTTTCTC
10213136 TTTC-TTCTC
1 TTTCTTTCTC
*
10213145 CTTCTTTCT
1 TTTCTTTCT
10213154 TCCCCTCCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
9 13 0.28
10 34 0.72
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTCTTTCTC
Found at i:10217264 original size:11 final size:10
Alignment explanation
Indices: 10217234--10217275 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
10217224 AATTTTTTTG
10217234 TATATTATTT
1 TATATTATTT
* *
10217244 TGGTATTTTTT
1 T-ATATTATTT
10217255 TAT-TTATTT
1 TATATTATTT
10217264 TATATTATTT
1 TATATTATTT
10217274 TA
1 TA
10217276 GTAAAAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.31
10 10 0.38
11 8 0.31
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (10 bp):
TATATTATTT
Found at i:10217269 original size:19 final size:21
Alignment explanation
Indices: 10217227--10217275 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
10217217 GTAAATAAAT
*
10217227 TTTTTTGTATATTATTTTGGTA
1 TTTTTT-TATATTATTTTGATA
10217249 TTTTTTTAT-TTATTTT-ATA
1 TTTTTTTATATTATTTTGATA
*
10217268 TTATTTTA
1 TTTTTTTA
10217276 GTAAAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.36
20 7 0.28
21 3 0.12
22 6 0.24
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.73
Consensus pattern (21 bp):
TTTTTTTATATTATTTTGATA
Found at i:10221137 original size:15 final size:16
Alignment explanation
Indices: 10221117--10221146 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10221107 AGAAATGGGA
10221117 AATTT-AATTAGAAAG
1 AATTTAAATTAGAAAG
10221132 AATTTAAATTAGAAA
1 AATTTAAATTAGAAA
10221147 AGTTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (16 bp):
AATTTAAATTAGAAAG
Found at i:10222823 original size:26 final size:27
Alignment explanation
Indices: 10222793--10222846 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 27
10222783 ATCCAACTTA
10222793 TTAGTAA-TTATTTTATAAAAAAA-ATT
1 TTAGTAAGTT-TTTTATAAAAAAATATT
10222819 TTAGTAAGTTTTTTATAAAAAAATATT
1 TTAGTAAGTTTTTTATAAAAAAATATT
10222846 T
1 T
10222847 CAAAGAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (27 bp):
TTAGTAAGTTTTTTATAAAAAAATATT
Found at i:10227720 original size:8 final size:8
Alignment explanation
Indices: 10227707--10227737 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
10227697 TAAAATATTT
10227707 AAGTTAAA
1 AAGTTAAA
10227715 AAGTTAAA
1 AAGTTAAA
*
10227723 AATTTAAA
1 AAGTTAAA
10227731 AAGTTAA
1 AAGTTAA
10227738 GAGTAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (8 bp):
AAGTTAAA
Found at i:10227847 original size:25 final size:25
Alignment explanation
Indices: 10227813--10227864 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
10227803 TTTTTTTAAG
*
10227813 AATTGATTGTTTGTAATTAAATTCA
1 AATTAATTGTTTGTAATTAAATTCA
10227838 AATTAATTGTTTGTAATTAAATTCA
1 AATTAATTGTTTGTAATTAAATTCA
10227863 AA
1 AA
10227865 CAAGTAATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (25 bp):
AATTAATTGTTTGTAATTAAATTCA
Found at i:10229085 original size:66 final size:66
Alignment explanation
Indices: 10228979--10229118 Score: 253
Period size: 66 Copynumber: 2.1 Consensus size: 66
10228969 ACACTTTACC
*
10228979 AATATCCAAATATGAAAATCAGGTGTAAAACCAAAACTATCCCATAATGGGTTATTGAAAATTAT
1 AATATCCAAATATGAAAATCAGCTGTAAAACCAAAACTATCCCATAATGGGTTATTGAAAATTAT
10229044 G
66 G
* *
10229045 AATATCTAAATATGAAAATCAGCTGTAAAACCAAAACTATCCGATAATGGGTTATTGAAAATTAT
1 AATATCCAAATATGAAAATCAGCTGTAAAACCAAAACTATCCCATAATGGGTTATTGAAAATTAT
10229110 G
66 G
10229111 AATATCCA
1 AATATCCA
10229119 TGTATTTCGG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.28
Consensus pattern (66 bp):
AATATCCAAATATGAAAATCAGCTGTAAAACCAAAACTATCCCATAATGGGTTATTGAAAATTAT
G
Found at i:10241580 original size:75 final size:75
Alignment explanation
Indices: 10241491--10241640 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
10241481 CACGCGGGTA
10241491 TGATCCCATAGCAAGCAACATCATCAATCTTCAAGCATGTGGAAATGAAAGAATAATATATATTC
1 TGATCCCATAGCAAGCAACATCATCAATCTTCAAGCATGTGGAAATGAAAGAATAATATATATTC
10241556 CTTGAATTTG
66 CTTGAATTTG
10241566 TGATCCCATAGCAAGCAACATCATCAATCTTCAAGCATGTGGAAATGAAAGAATAATATATATTC
1 TGATCCCATAGCAAGCAACATCATCAATCTTCAAGCATGTGGAAATGAAAGAATAATATATATTC
10241631 CTTGAATTTG
66 CTTGAATTTG
10241641 ATCATTTTCA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (75 bp):
TGATCCCATAGCAAGCAACATCATCAATCTTCAAGCATGTGGAAATGAAAGAATAATATATATTC
CTTGAATTTG
Found at i:10260978 original size:4 final size:4
Alignment explanation
Indices: 10260969--10260997 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
10260959 CGGGATCAAC
10260969 ACGT ACGT ACGT ACGT ACGT ACGT ACGT A
1 ACGT ACGT ACGT ACGT ACGT ACGT ACGT A
10260998 TGTATGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (4 bp):
ACGT
Found at i:10261231 original size:18 final size:18
Alignment explanation
Indices: 10261196--10261231 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10261186 CTCTTGACAA
*
10261196 GCAAAACAAGTTAAATTC
1 GCAAAACAAGTCAAATTC
*
10261214 GCAAAACAAGTCATATTC
1 GCAAAACAAGTCAAATTC
10261232 TGATTATAGT
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:0.47, C:0.19, G:0.11, T:0.22
Consensus pattern (18 bp):
GCAAAACAAGTCAAATTC
Found at i:10261248 original size:17 final size:17
Alignment explanation
Indices: 10261222--10261256 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10261212 TCGCAAAACA
*
10261222 AGTCATATTCTGATTAT
1 AGTCAGATTCTGATTAT
10261239 AGTCAGATTCTGATTAT
1 AGTCAGATTCTGATTAT
10261256 A
1 A
10261257 CGACTCGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (17 bp):
AGTCAGATTCTGATTAT
Found at i:10278012 original size:4 final size:4
Alignment explanation
Indices: 10278003--10278038 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
10277993 GGTAATTATT
10278003 CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
10278039 TATATATAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:10279835 original size:30 final size:30
Alignment explanation
Indices: 10279799--10279865 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
10279789 ATGTGTCATA
10279799 ATTTGTTGTAATTCTTTCTATAACTTTGAT
1 ATTTGTTGTAATTCTTTCTATAACTTTGAT
10279829 ATTTGTTGTAATTCTTTCTATAACTTTGAT
1 ATTTGTTGTAATTCTTTCTATAACTTTGAT
10279859 ATTTGTT
1 ATTTGTT
10279866 ATTTTTCAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.22, C:0.09, G:0.10, T:0.58
Consensus pattern (30 bp):
ATTTGTTGTAATTCTTTCTATAACTTTGAT
Found at i:10297359 original size:51 final size:52
Alignment explanation
Indices: 10297259--10297364 Score: 160
Period size: 52 Copynumber: 2.0 Consensus size: 52
10297249 GGTTTTATTT
* *
10297259 AATTTATTTGTATATTAAATTATATACACCTATATTATTCGTCCAAAAAAAA
1 AATTTATTTATATATTAAATTATATACACCCATATTATTCGTCCAAAAAAAA
* *
10297311 AATTTA-TTATATATTAATTTATATAACACCCATATTATTCGTTCAAAAAAAA
1 AATTTATTTATATATTAAATTATAT-ACACCCATATTATTCGTCCAAAAAAAA
10297363 AA
1 AA
10297365 AGAAGCACCC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
51 16 0.33
52 33 0.67
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (52 bp):
AATTTATTTATATATTAAATTATATACACCCATATTATTCGTCCAAAAAAAA
Found at i:10297759 original size:21 final size:20
Alignment explanation
Indices: 10297721--10297759 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10297711 GAATGTGTTT
* *
10297721 CTTTTTTTTTAATCTAAATG
1 CTTTTCTTTTAATATAAATG
10297741 CTTTTCTTTTATATATAAA
1 CTTTTCTTTTA-ATATAAA
10297760 ATGCCTACTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (20 bp):
CTTTTCTTTTAATATAAATG
Found at i:10304325 original size:81 final size:80
Alignment explanation
Indices: 10304096--10304392 Score: 275
Period size: 81 Copynumber: 3.7 Consensus size: 80
10304086 TCATTATTCT
* * * * * *
10304096 TTGATGATGGTC-GTATTGGGGGAGGATGCACTGAGCTCTGTATTGGTGGAATTGCCT-TCTCGG
1 TTGATGATGG-CATTATTGGAGGAGGATGCACTGAACTCTGTATTGATGGAACTG-CTGGCT-GG
10304159 GAGATGCATGTAATGAGG
63 GAGATGCATGTAATGAGG
*** ** *
10304177 TTGATGATGGCACCGTTGGAGGAGGATGCA-T--TTTCTGTTTTGATGGAACTGCTGG-TGTAGG
1 TTGATGATGGCATTATTGGAGGAGGATGCACTGAACTCTGTATTGATGGAACTGCTGGCTG--GG
*
10304238 AGATGCATGGAATGAGG
64 AGATGCATGTAATGAGG
* * *
10304255 TTGGTTATGGCATTATTGGAGGAGGATGCACTGAACTCTGTATTGATGGAACCGCTGGCATGGGA
1 TTGATGATGGCATTATTGGAGGAGGATGCACTGAACTCTGTATTGATGGAACTGCTGGC-TGGGA
*
10304320 AATGCATGTAATGAGG
65 GATGCATGTAATGAGG
* * * *
10304336 TCGATGATGGCATTGTTAGAGGAGGATGCACTGAGATCTCTGT-TCTGGTGGAACTGC
1 TTGATGATGGCATTATTGGAGGAGGATGCACTGA-A-CTCTGTAT-TGATGGAACTGC
10304393 CGCTGTAGGC
Statistics
Matches: 175, Mismatches: 29, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
76 1 0.01
77 3 0.02
78 58 0.33
79 1 0.01
80 2 0.01
81 90 0.51
82 2 0.01
83 18 0.10
ACGTcount: A:0.22, C:0.12, G:0.35, T:0.30
Consensus pattern (80 bp):
TTGATGATGGCATTATTGGAGGAGGATGCACTGAACTCTGTATTGATGGAACTGCTGGCTGGGAG
ATGCATGTAATGAGG
Found at i:10306403 original size:228 final size:227
Alignment explanation
Indices: 10305960--10306559 Score: 905
Period size: 228 Copynumber: 2.6 Consensus size: 227
10305950 AAATTTGCTG
* *
10305960 GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTTTTGGGTAAGGATGCACTAAACTCTGT
1 GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCA-TTTTGGGGAAGGATGCACTAAGCTCTGT
* *
10306025 ATGGGTGGAGATGCTGGAATAGGCGGCAACAACATGGCTCTTGGTGCTGGTAGTGTAGGAGGTAA
65 ATGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCTCTT-G-G-TGGTAGTGTAGGAGGTAA
* * *
10306090 AATTAAATTTGATGAATGTATCATTATCTGATCGCATGGTTTTGCAGTTTCATCATTTTGATCAC
127 AATTAAATTTGATGAAGGTATCATTAACTGATCGCATGGTTTTGCACTTTCATCATTTTGATCAC
10306155 TTTTTCGGATTACTTGTTGCTGCTCAATTGTTTCTA
192 TTTTTCGGATTACTTGTTGCTGCTCAATTGTTTCTA
* * *
10306191 GGAGGGGAGTTGCATGTGGGGTGGTTGATGATGGCATTTTCGGGGAAGGATGCAATAAGCTCTCT
1 GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTTT-GGGGAAGGATGCACTAAGCTCTGT
*
10306256 ATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCTTGGTGGTAGTGTAGGAGGTAAAAT
65 ATGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCTCTTGGTGGTAGTGTAGGAGGTAAAAT
* *
10306321 TAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCACTTTCATCGTTTTGATCA-TTT
130 TAAATTTGATGAAGGTATCATTAACTGATCGCATGGTTTTGCACTTTCATCATTTTGATCACTTT
* *
10306385 TTGCGGTTTACTTGTTGCTGCTCAATTGTTTCTG
195 TT-CGGATTACTTGTTGCTGCTCAATTGTTTCTA
* * *
10306419 GGAGGAGAGTTGCATGTAGGGTGGTTGGTGATGGCATTATTGGGGAAGGGTGCACTAAGCTCTGT
1 GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATT-TTGGGGAAGGATGCACTAAGCTCTGT
* * * *
10306484 ATGGGTGGACATTCTGAAATAGGCGGCAACAGCATGGCTCCTGGTGCTGGTAGTGTAGAAGGTAA
65 ATGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCT-CT--TGGTGGTAGTGTAGGAGGTAA
10306549 AATTAAATTTG
127 AATTAAATTTG
10306560 TAGAAGAGAC
Statistics
Matches: 337, Mismatches: 26, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
227 5 0.01
228 198 0.59
229 5 0.01
230 5 0.01
231 124 0.37
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.33
Consensus pattern (227 bp):
GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTTTGGGGAAGGATGCACTAAGCTCTGTA
TGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCTCTTGGTGGTAGTGTAGGAGGTAAAATT
AAATTTGATGAAGGTATCATTAACTGATCGCATGGTTTTGCACTTTCATCATTTTGATCACTTTT
TCGGATTACTTGTTGCTGCTCAATTGTTTCTA
Found at i:10307084 original size:3 final size:3
Alignment explanation
Indices: 10307067--10307139 Score: 62
Period size: 3 Copynumber: 24.7 Consensus size: 3
10307057 TATACATAAA
* * * **
10307067 TAT TA- TAT ATAT TAT TAT TAT TAT AAT TAT TAAC CAT TAT TAT GGT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
10307113 T-T TA- TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10307140 AATAAAGTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
2 6 0.11
3 46 0.82
4 4 0.07
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:10307601 original size:10 final size:10
Alignment explanation
Indices: 10307583--10307629 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
10307573 AACATAAAGT
*
10307583 AAATAAAATA
1 AAATGAAATA
10307593 AAATGAAATA
1 AAATGAAATA
**
10307603 AAA-GAAAGC
1 AAATGAAATA
10307612 AAATGAAATA
1 AAATGAAATA
*
10307622 AAAAGAAA
1 AAATGAAA
10307630 GAAAGAAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (10 bp):
AAATGAAATA
Found at i:10307604 original size:19 final size:19
Alignment explanation
Indices: 10307592--10307633 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
10307582 TAAATAAAAT
10307592 AAAATGAAATAAAAGAAAG
1 AAAATGAAATAAAAGAAAG
*
10307611 CAAATGAAATAAAAAGAAAG
1 AAAATGAAAT-AAAAGAAAG
10307631 AAA
1 AAA
10307634 GAAACAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.10
Consensus pattern (19 bp):
AAAATGAAATAAAAGAAAG
Found at i:10307615 original size:24 final size:24
Alignment explanation
Indices: 10307588--10307634 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10307578 AAAGTAAATA
*
10307588 AAATAAAATGAAATA-AAAGAAAGC
1 AAATAAAAT-AAAAAGAAAGAAAGC
*
10307612 AAATGAAATAAAAAGAAAGAAAG
1 AAATAAAATAAAAAGAAAGAAAG
10307635 AAACAGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.72, C:0.02, G:0.15, T:0.11
Consensus pattern (24 bp):
AAATAAAATAAAAAGAAAGAAAGC
Found at i:10315254 original size:24 final size:24
Alignment explanation
Indices: 10315227--10315272 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10315217 GCCTATAACA
10315227 GGTAGCTCCAAAGAGCAATTAATG
1 GGTAGCTCCAAAGAGCAATTAATG
**
10315251 GGTAGCTCTTAAGAGCAATTAA
1 GGTAGCTCCAAAGAGCAATTAA
10315273 CGGGAAGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (24 bp):
GGTAGCTCCAAAGAGCAATTAATG
Found at i:10317742 original size:19 final size:20
Alignment explanation
Indices: 10317711--10317753 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
10317701 AAAAGTCAAC
10317711 TTTTAAATGTTTT-TTATAAT
1 TTTTAAATGTTTTATT-TAAT
10317731 TTTTAAAT-TTTTATTTAAT
1 TTTTAAATGTTTTATTTAAT
10317750 TTTT
1 TTTT
10317754 TATAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTAAATGTTTTATTTAAT
Found at i:10317754 original size:20 final size:20
Alignment explanation
Indices: 10317711--10317777 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
10317701 AAAAGTCAAC
10317711 TTTTAAATGTTTT-TTATAA-T
1 TTTTAAAT-TTTTATT-TAATT
10317731 TTTTAAATTTTTATTTAATT
1 TTTTAAATTTTTATTTAATT
* * *
10317751 TTTTATAAATTTTA-ATAATG
1 TTTTA-AATTTTTATTTAATT
10317771 TTTTAAA
1 TTTTAAA
10317778 AAATTACAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 9 0.22
20 25 0.61
21 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTAAATTTTTATTTAATT
Found at i:10317806 original size:16 final size:16
Alignment explanation
Indices: 10317764--10317810 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
10317754 TATAAATTTT
10317764 AATAATGTTTT-AAAAA
1 AATAA-GTTTTAAAAAA
* *
10317780 ATTACAATTTTAAAAAA
1 AATA-AGTTTTAAAAAA
10317797 AATAAGTTTTAAAA
1 AATAAGTTTTAAAA
10317811 GTTTTAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (16 bp):
AATAAGTTTTAAAAAA
Found at i:10321749 original size:21 final size:21
Alignment explanation
Indices: 10321725--10321764 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10321715 CTTTCCTGAT
*
10321725 ATATTT-TTTTTATCATTTTAA
1 ATATTTATATTTAT-ATTTTAA
10321746 ATATTTATATTTATATTTT
1 ATATTTATATTTATATTTT
10321765 TGATTGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (21 bp):
ATATTTATATTTATATTTTAA
Found at i:10325260 original size:10 final size:10
Alignment explanation
Indices: 10325241--10325270 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
10325231 AGTCAACACA
*
10325241 TAAAATTTAT
1 TAAAAATTAT
10325251 TAAAAATTAT
1 TAAAAATTAT
10325261 TAAAAATTAT
1 TAAAAATTAT
10325271 ATATAAGAAA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:10328703 original size:23 final size:23
Alignment explanation
Indices: 10328674--10328819 Score: 134
Period size: 23 Copynumber: 6.3 Consensus size: 23
10328664 AATACCATGT
10328674 TTGGACAGCTTTTATACACCAAA
1 TTGGACAGCTTTTATACACCAAA
*
10328697 TTCGACAGCATTTT-TACACCAAAA
1 TTGGACAGC-TTTTATACACC-AAA
* * *
10328721 TTGGACAGCATATAGACACCAAA
1 TTGGACAGCTTTTATACACCAAA
* * * *
10328744 TTGGGCAGCATATATATACCAAA
1 TTGGACAGCTTTTATACACCAAA
10328767 TTGGACAGCATTTT-TACACCCAAA
1 TTGGACAGC-TTTTATACA-CCAAA
* * * *
10328791 TTGGACAGCATATAGACACCGAA
1 TTGGACAGCTTTTATACACCAAA
10328814 TTGGAC
1 TTGGAC
10328820 TTGAATCGAA
Statistics
Matches: 101, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
23 62 0.61
24 39 0.39
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (23 bp):
TTGGACAGCTTTTATACACCAAA
Found at i:10328728 original size:47 final size:46
Alignment explanation
Indices: 10328674--10328819 Score: 168
Period size: 47 Copynumber: 3.1 Consensus size: 46
10328664 AATACCATGT
* * *
10328674 TTGGACAGCTTTTATACACCAAATTCGACAGCATTTTTACACCAAAA
1 TTGGACAGCTTTTATACACCAAATTGGACAGCATATATACACC-AAA
* * * * *
10328721 TTGGACAGCATATAGACACCAAATTGGGCAGCATATATATACCAAA
1 TTGGACAGCTTTTATACACCAAATTGGACAGCATATATACACCAAA
* *
10328767 TTGGACAGCATTTT-TACACCCAAATTGGACAGCATATAGACACCGAA
1 TTGGACAGC-TTTTATACA-CCAAATTGGACAGCATATATACACCAAA
10328814 TTGGAC
1 TTGGAC
10328820 TTGAATCGAA
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
46 15 0.18
47 67 0.82
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (46 bp):
TTGGACAGCTTTTATACACCAAATTGGACAGCATATATACACCAAA
Found at i:10328774 original size:70 final size:70
Alignment explanation
Indices: 10328686--10328817 Score: 228
Period size: 70 Copynumber: 1.9 Consensus size: 70
10328676 GGACAGCTTT
10328686 TATACACCAAATTCGACAGCATTTTTACACCAAAATTGGACAGCATATAGACACCAAATTGGGCA
1 TATACACCAAATTCGACAGCATTTTTACACCAAAATTGGACAGCATATAGACACCAAATTGGGCA
10328751 GCATA
66 GCATA
* * * *
10328756 TATATACCAAATTGGACAGCATTTTTACACCCAAATTGGACAGCATATAGACACCGAATTGG
1 TATACACCAAATTCGACAGCATTTTTACACCAAAATTGGACAGCATATAGACACCAAATTGG
10328818 ACTTGAATCG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 58 1.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (70 bp):
TATACACCAAATTCGACAGCATTTTTACACCAAAATTGGACAGCATATAGACACCAAATTGGGCA
GCATA
Found at i:10329678 original size:40 final size:41
Alignment explanation
Indices: 10329581--10329678 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
10329571 TGATCTCGAT
* * * * *
10329581 TTCGCACACTTAGTGCCCGTTATTTAACATCATTATTTAGT
1 TTCGCACACTTAGTGCTCATTATTCAACATCATCATTTAGA
* *
10329622 TTCGCACACTTAGTGCTTATTATTCAACCTCATCATTTA-A
1 TTCGCACACTTAGTGCTCATTATTCAACATCATCATTTAGA
*
10329662 TTCGTACACTTAGTGCT
1 TTCGCACACTTAGTGCT
10329679 AATCATTTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 16 0.33
41 33 0.67
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.41
Consensus pattern (41 bp):
TTCGCACACTTAGTGCTCATTATTCAACATCATCATTTAGA
Found at i:10344185 original size:18 final size:17
Alignment explanation
Indices: 10344164--10344197 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10344154 TTCTCTCTTT
*
10344164 ATTTTTTTTTCATTTTAC
1 ATTTTTTCTTC-TTTTAC
10344182 ATTTTTTCTTCTTTTA
1 ATTTTTTCTTCTTTTA
10344198 TAATATATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTTCTTCTTTTAC
Found at i:10346166 original size:32 final size:32
Alignment explanation
Indices: 10346125--10346189 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
10346115 ATCATTAACC
* * *
10346125 CATCAGTCTTACTTTGTCTGTATACTTCCTTT
1 CATCAGTCTTACTTTGCCTATATACTTCATTT
10346157 CATCAGTCTTACTTTGCCTATATACTTCATTT
1 CATCAGTCTTACTTTGCCTATATACTTCATTT
10346189 C
1 C
10346190 CTTCCCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.18, C:0.26, G:0.08, T:0.48
Consensus pattern (32 bp):
CATCAGTCTTACTTTGCCTATATACTTCATTT
Found at i:10350607 original size:13 final size:13
Alignment explanation
Indices: 10350589--10350613 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10350579 AAATTATCCA
10350589 ACCCAACCCAATT
1 ACCCAACCCAATT
10350602 ACCCAACCCAAT
1 ACCCAACCCAAT
10350614 AAAACTAAAA
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:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:10350652 original size:38 final size:41
Alignment explanation
Indices: 10350594--10350674 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
10350584 ATCCAACCCA
*
10350594 ACCCAATTACCCAACCCAAT-AAA-ACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAATAATAAAACTAAAGTCT
10350633 ACCCAATTA-CCAACCCAATAAAAATAATAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAAT-AAAATAATAAAACTAAAGTCT
10350674 A
1 A
10350675 ACCCTTAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
38 10 0.26
39 9 0.24
40 3 0.08
41 16 0.42
ACGTcount: A:0.52, C:0.27, G:0.02, T:0.19
Consensus pattern (41 bp):
ACCCAATTACCCAACCCAATAAAATAATAAAACTAAAGTCT
Found at i:10350850 original size:37 final size:37
Alignment explanation
Indices: 10350804--10350878 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
10350794 TGTTAATTTC
* *
10350804 AAGAATTATGTAATGTTTTTAATTATATAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATACAGTGATTCA
* *
10350841 AAGACTTATGTAATATTTTTAATTATGCAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATACAGTGATTCA
10350878 A
1 A
10350879 TTCGGGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.44
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATACAGTGATTCA
Found at i:10353371 original size:83 final size:83
Alignment explanation
Indices: 10353232--10353425 Score: 361
Period size: 83 Copynumber: 2.3 Consensus size: 83
10353222 TTGTGGCTTT
*
10353232 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGG
1 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGA
*
10353297 GTATTTAATTACTTGATA
66 GTATTTAACTACTTGATA
10353315 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGA
1 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGA
*
10353380 GTATTTAACTACTTGATG
66 GTATTTAACTACTTGATA
10353398 GAACTTGTAACATTGTGTTTCTCATTCT
1 GAACTTGTAACATTGTGTTTCTCATTCT
10353426 AGTATAGTCA
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 108 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (83 bp):
GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGA
GTATTTAACTACTTGATA
Found at i:10363019 original size:9 final size:9
Alignment explanation
Indices: 10363005--10363080 Score: 66
Period size: 9 Copynumber: 8.4 Consensus size: 9
10362995 TTTGGTTAAA
10363005 AATTAACCG
1 AATTAACCG
**
10363014 AATTAACAA
1 AATTAACCG
*
10363023 AATTATCCG
1 AATTAACCG
*
10363032 AATTACCCG
1 AATTAACCG
10363041 AATTAACC-
1 AATTAACCG
*
10363049 AATTTACCCG
1 AA-TTAACCG
10363059 AATT-ACTCG
1 AATTAAC-CG
*
10363068 AATTACCCG
1 AATTAACCG
10363077 AATT
1 AATT
10363081 GAATCCCTAC
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
8 3 0.06
9 47 0.89
10 3 0.06
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:10363043 original size:27 final size:27
Alignment explanation
Indices: 10363005--10363072 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
10362995 TTTGGTTAAA
* *
10363005 AATTAACCGAATTAACAAAATTATCCG
1 AATTACCCGAATTAACAAAATTACCCG
* *
10363032 AATTACCCGAATTAACCAATTTACCCG
1 AATTACCCGAATTAACAAAATTACCCG
*
10363059 AATTACTCGAATTA
1 AATTACCCGAATTA
10363073 CCCGAATTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCCGAATTAACAAAATTACCCG
Found at i:10363044 original size:18 final size:17
Alignment explanation
Indices: 10363023--10363080 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 17
10363013 GAATTAACAA
10363023 AATTATCCGAATTACCCG
1 AATTA-CCGAATTACCCG
10363041 AATTAACC-AATTTACCCG
1 AATT-ACCGAA-TTACCCG
10363059 AATTACTCGAATTACCCG
1 AATTAC-CGAATTACCCG
10363077 AATT
1 AATT
10363081 GAATCCCTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.11
18 29 0.81
19 3 0.08
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.29
Consensus pattern (17 bp):
AATTACCGAATTACCCG
Found at i:10363236 original size:29 final size:28
Alignment explanation
Indices: 10363183--10363238 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
10363173 TATGATTGGG
*
10363183 TTGGGTTAGGTTGGGTTGGGTTGAATAC
1 TTGGGTTAGGTTGGGTTAGGTTGAATAC
*
10363211 TTGGGTTTGGATTGGGTTTAGG-TGAATA
1 TTGGGTTAGG-TTGGG-TTAGGTTGAATA
10363239 GTGGGCCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 11 0.46
30 4 0.17
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (28 bp):
TTGGGTTAGGTTGGGTTAGGTTGAATAC
Found at i:10367820 original size:10 final size:10
Alignment explanation
Indices: 10367786--10367906 Score: 58
Period size: 11 Copynumber: 11.9 Consensus size: 10
10367776 ATTTTTTTAA
10367786 TTTTAAAATAT
1 TTTTAAAAT-T
* *
10367797 TTTTACATACT
1 TTTTA-AAATT
10367808 TTTT-AAATT
1 TTTTAAAATT
10367817 TTTTAAAA--
1 TTTTAAAATT
10367825 TTTTAAAATAT
1 TTTTAAAAT-T
*
10367836 TTTAAAAATACTT
1 TTT-TAAA-A-TT
*
10367849 TTTTTAAATT
1 TTTTAAAATT
10367859 TTTT--AA--
1 TTTTAAAATT
10367865 TTTTAAAATAT
1 TTTTAAAAT-T
*
10367876 TTTAAAAATACT
1 TTTTAAAAT--T
*
10367888 TTTTTAAATT
1 TTTTAAAATT
10367898 TTTTAAAAT
1 TTTTAAAAT
10367907 AAAAATGGGC
Statistics
Matches: 84, Mismatches: 12, Indels: 29
0.67 0.10 0.23
Matches are distributed among these distances:
6 4 0.05
8 12 0.14
9 7 0.08
10 18 0.21
11 22 0.26
12 15 0.18
13 5 0.06
14 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:10367845 original size:11 final size:10
Alignment explanation
Indices: 10367785--10367907 Score: 60
Period size: 10 Copynumber: 12.1 Consensus size: 10
10367775 TATTTTTTTA
10367785 ATTTTAAAAT
1 ATTTTAAAAT
* *
10367795 ATTTTTACAT
1 ATTTTAAAAT
*
10367805 ACTTTTTAAAT
1 A-TTTTAAAAT
*
10367816 -TTTTTAAA-
1 ATTTTAAAAT
10367824 ATTTTAAAAT
1 ATTTTAAAAT
10367834 ATTTTAAAAAT
1 ATTTT-AAAAT
*
10367845 ACTTTTTTTAAAT
1 A---TTTTAAAAT
*
10367858 -TTTT--TA-
1 ATTTTAAAAT
10367864 ATTTTAAAAT
1 ATTTTAAAAT
10367874 ATTTTAAAAAT
1 ATTTT-AAAAT
*
10367885 ACTTTTTTAAAT
1 A--TTTTAAAAT
*
10367897 TTTTTAAAAT
1 ATTTTAAAAT
10367907 A
1 A
10367908 AAAATGGGCC
Statistics
Matches: 88, Mismatches: 11, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
7 5 0.06
9 20 0.23
10 27 0.31
11 20 0.23
12 4 0.05
13 8 0.09
14 4 0.05
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:10367867 original size:40 final size:39
Alignment explanation
Indices: 10367778--10367903 Score: 193
Period size: 39 Copynumber: 3.2 Consensus size: 39
10367768 ATATATTTAT
* *
10367778 TTTTTTAATTTTAAAATATTTT-TACATAC-TTTTTAAA
1 TTTTTTAATTTTAAAATATTTTAAAAATACTTTTTTAAA
10367815 TTTTTTAAAATTTTAAAATATTTTAAAAATACTTTTTTTAAA
1 TTTTTT--AATTTTAAAATATTTTAAAAATAC-TTTTTTAAA
10367857 TTTTTTAATTTTAAAATATTTTAAAAATACTTTTTTAAA
1 TTTTTTAATTTTAAAATATTTTAAAAATACTTTTTTAAA
10367896 TTTTTTAA
1 TTTTTTAA
10367904 AATAAAAATG
Statistics
Matches: 82, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
37 6 0.07
39 33 0.40
40 29 0.35
42 14 0.17
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (39 bp):
TTTTTTAATTTTAAAATATTTTAAAAATACTTTTTTAAA
Found at i:10371060 original size:40 final size:42
Alignment explanation
Indices: 10371016--10371097 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 42
10371006 GATAAAGCAG
10371016 GAAAACGCTTCCTCAAGGAAGCGC-TT-TGTCCACGTGGACA
1 GAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGACA
** **
10371056 GAAAACGCTTCCTTGAGGGCGCGCTTTGTGTCCACGTGGACA
1 GAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGACA
10371098 AAGCGCTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 20 0.56
41 2 0.06
42 14 0.39
ACGTcount: A:0.23, C:0.27, G:0.28, T:0.22
Consensus pattern (42 bp):
GAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGACA
Found at i:10371263 original size:22 final size:22
Alignment explanation
Indices: 10371238--10371294 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 22
10371228 TTAGGGTTTC
10371238 TTAATTAAATTAATTATAAATT-
1 TTAA-TAAATTAATTATAAATTA
10371260 TTAA-AAA--AATTATAAATTA
1 TTAATAAATTAATTATAAATTA
* *
10371279 TTTATAAATTATTTAT
1 TTAATAAATTAATTAT
10371295 TAAGTCTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 11 0.38
19 3 0.10
20 6 0.21
22 9 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAATAAATTAATTATAAATTA
Found at i:10371814 original size:17 final size:18
Alignment explanation
Indices: 10371783--10371816 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10371773 TTCTTTTAAT
10371783 AAATTTAATTTTTACTAA
1 AAATTTAATTTTTACTAA
10371801 AAATTTAA-TTTTACTA
1 AAATTTAATTTTTACTA
10371817 GTTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATTTAATTTTTACTAA
Found at i:10372039 original size:95 final size:96
Alignment explanation
Indices: 10371865--10372174 Score: 347
Period size: 95 Copynumber: 3.3 Consensus size: 96
10371855 AACAACTAGT
* * *
10371865 TTTATTTGATTTTTTC-TTAAAAACTCTAAATACTAAACCCCAATCTAAATTTTTTAAAATTTAT
1 TTTATTTGATTTTTTCTTTAAAAACCCTAAACACTAAACCCTAATCT-AATTTTTTAAAATTTAT
10371929 AATTAATTTAATCAAGTAACTCTAAACCCTAA
65 AATTAATTTAATCAAGTAACTCTAAACCCTAA
* *
10371961 TTTATTT-ATTTTTTCTTTAAAAACCCTAAACACTAAACCCTAATCTATTTTTTTAAAGTTTATA
1 TTTATTTGATTTTTTCTTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTATA
* * *
10372025 ATTAATTTACTCAAGTAACCCTAAACTC-AA
66 ATTAATTTAATCAAGTAACTCTAAACCCTAA
* * * *
10372055 TTTATTTGATTTTTTTTCTTGAAAA---T---CA-TAAACACTAATCTAATTTTTTAAAATTTGT
1 TTTATTTGATTTTTTCT-TTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTAT
* * *
10372113 AATTAATTTAATTAAG-AAATCCTAAACCCTTA
65 AATTAATTTAATCAAGTAACT-CTAAACCCTAA
* * *
10372145 TTTATTTAATTGTTTCCTT-AAAACCCTAAA
1 TTTATTTGATTTTTTCTTTAAAAACCCTAAA
10372175 ATCTAAAAAC
Statistics
Matches: 179, Mismatches: 24, Indels: 24
0.79 0.11 0.11
Matches are distributed among these distances:
88 6 0.03
89 49 0.27
90 16 0.09
91 1 0.01
93 1 0.01
94 9 0.05
95 57 0.32
96 40 0.22
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (96 bp):
TTTATTTGATTTTTTCTTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTATA
ATTAATTTAATCAAGTAACTCTAAACCCTAA
Found at i:10373353 original size:22 final size:23
Alignment explanation
Indices: 10373305--10373352 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
10373295 ATTAAATTTT
*
10373305 AAAATTTGAAATATAAAAAATTA
1 AAAATTTGAAATATAAAAAATAA
*
10373328 AAAATTTTAAA-AT-AAAAATAA
1 AAAATTTGAAATATAAAAAATAA
10373349 AAAA
1 AAAA
10373353 AAAGAGGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 2 0.09
23 10 0.43
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATTTGAAATATAAAAAATAA
Found at i:10373353 original size:23 final size:23
Alignment explanation
Indices: 10373305--10373354 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
10373295 ATTAAATTTT
**
10373305 AAAATTTGAAATATAAAAAATTA
1 AAAATTTGAAATATAAAAAAAAA
*
10373328 AAAATTTTAAA-ATAAAAATAAAA
1 AAAATTTGAAATATAAAAA-AAAA
10373351 AAAA
1 AAAA
10373355 AGAGGTAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (23 bp):
AAAATTTGAAATATAAAAAAAAA
Found at i:10379920 original size:24 final size:24
Alignment explanation
Indices: 10379887--10379951 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
10379877 CTCTCTGTTA
10379887 AAGTGCTATTCGGAGCTTCCTATT
1 AAGTGCTATTCGGAGCTTCCTATT
* * *
10379911 AAGTGTTATTCGGAGCTTTCTGTT
1 AAGTGCTATTCGGAGCTTCCTATT
*
10379935 AAGTGCTCTTCGGAGCT
1 AAGTGCTATTCGGAGCT
10379952 ACCCAATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (24 bp):
AAGTGCTATTCGGAGCTTCCTATT
Found at i:10388720 original size:25 final size:25
Alignment explanation
Indices: 10388671--10388721 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
10388661 TCTTCCAAGT
* **
10388671 TGAATAATGAGAAGCTCATGCGAGC
1 TGAATAACGAGAAGCTCATAAGAGC
*
10388696 TGAATAACGGGAAGCTCATAAGAGC
1 TGAATAACGAGAAGCTCATAAGAGC
10388721 T
1 T
10388722 ATGGTGTGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (25 bp):
TGAATAACGAGAAGCTCATAAGAGC
Found at i:10391108 original size:18 final size:17
Alignment explanation
Indices: 10391082--10391115 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10391072 TCTTATGTTG
10391082 TCTTGAAAAAAATTATTT
1 TCTTG-AAAAAATTATTT
*
10391100 TCTTTAAAAAATTATT
1 TCTTGAAAAAATTATT
10391116 ATTATAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (17 bp):
TCTTGAAAAAATTATTT
Found at i:10416938 original size:47 final size:47
Alignment explanation
Indices: 10416869--10416962 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
10416859 GCCCTCCTAA
10416869 TTTCTGAGAATACCAAGCTGAAATGTTATCGTATGGCCAGAACATGT
1 TTTCTGAGAATACCAAGCTGAAATGTTATCGTATGGCCAGAACATGT
10416916 TTTCTGAGAATACCAAGCTGAAATGTTATCGTATGGCCAGAACATGT
1 TTTCTGAGAATACCAAGCTGAAATGTTATCGTATGGCCAGAACATGT
10416963 AAAACCGGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (47 bp):
TTTCTGAGAATACCAAGCTGAAATGTTATCGTATGGCCAGAACATGT
Found at i:10420484 original size:9 final size:9
Alignment explanation
Indices: 10420467--10420496 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
10420457 AACGTACGGG
10420467 AAATCAAGA
1 AAATCAAGA
*
10420476 AAATGAAGA
1 AAATCAAGA
10420485 AAATCAAGA
1 AAATCAAGA
10420494 AAA
1 AAA
10420497 AGGTTTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.70, C:0.07, G:0.13, T:0.10
Consensus pattern (9 bp):
AAATCAAGA
Found at i:10431428 original size:31 final size:31
Alignment explanation
Indices: 10431390--10431451 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
10431380 TAAATAATCA
*
10431390 ATGATGATTTTATACATTTTTGTCCTTATTT
1 ATGATGATTTTATACATTTTTGTACTTATTT
10431421 ATGATGATTTTATACATTTTTGTACTTATTT
1 ATGATGATTTTATACATTTTTGTACTTATTT
10431452 TCTCTCTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.58
Consensus pattern (31 bp):
ATGATGATTTTATACATTTTTGTACTTATTT
Found at i:10447522 original size:10 final size:10
Alignment explanation
Indices: 10447507--10447531 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10447497 TTATTAACAT
10447507 ATCAACATTA
1 ATCAACATTA
10447517 ATCAACATTA
1 ATCAACATTA
10447527 ATCAA
1 ATCAA
10447532 GAACCCCCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (10 bp):
ATCAACATTA
Found at i:10448554 original size:13 final size:13
Alignment explanation
Indices: 10448536--10448563 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10448526 ACTGTCAAAC
10448536 TTTCTTTCTGTCT
1 TTTCTTTCTGTCT
10448549 TTTCTTTCTGTCT
1 TTTCTTTCTGTCT
10448562 TT
1 TT
10448564 ACAATTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.07, T:0.71
Consensus pattern (13 bp):
TTTCTTTCTGTCT
Found at i:10448653 original size:3 final size:3
Alignment explanation
Indices: 10448645--10448682 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10448635 AACATAATGC
10448645 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10448683 AGAAAAGGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10454577 original size:36 final size:30
Alignment explanation
Indices: 10454511--10454572 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
10454501 TTGAACATGC
10454511 ATATACATATATATATTGAATGATGTTGGG
1 ATATACATATATATATTGAATGATGTTGGG
10454541 ATATACATATATATATTGAATGATGTTGGG
1 ATATACATATATATATTGAATGATGTTGGG
10454571 AT
1 AT
10454573 TGGGAATGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.40
Consensus pattern (30 bp):
ATATACATATATATATTGAATGATGTTGGG
Found at i:10457497 original size:9 final size:9
Alignment explanation
Indices: 10457483--10457508 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10457473 GCTCAAGCAA
10457483 GCTTAATTG
1 GCTTAATTG
10457492 GCTTAATTG
1 GCTTAATTG
10457501 GCTTAATT
1 GCTTAATT
10457509 AGGTATGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (9 bp):
GCTTAATTG
Found at i:10457947 original size:21 final size:21
Alignment explanation
Indices: 10457923--10457962 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10457913 TTCTACGATG
*
10457923 TGAATTGGATTGAATTGAGTA
1 TGAATTGGATTAAATTGAGTA
*
10457944 TGAATTGTATTAAATTGAG
1 TGAATTGGATTAAATTGAG
10457963 CTAAATTTAC
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:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (21 bp):
TGAATTGGATTAAATTGAGTA
Found at i:10458441 original size:26 final size:26
Alignment explanation
Indices: 10458412--10458526 Score: 82
Period size: 26 Copynumber: 4.6 Consensus size: 26
10458402 CTTATGAGTG
10458412 TCCTGATATATGGCTCTTCGTGAGCT
1 TCCTGATATATGGCTCTTCGTGAGCT
* *
10458438 TCCTGAT-TAAAGGCTCTTTGTGAGCT
1 TCCTGATAT-ATGGCTCTTCGTGAGCT
*
10458464 TCTTGAT-TAATGGCT-TTCCG-GAGCT
1 TCCTGATAT-ATGGCTCTT-CGTGAGCT
* * * *
10458489 TCCCG--ATATGGCTC-ACTTGAACT
1 TCCTGATATATGGCTCTTCGTGAGCT
*
10458512 TCCTAATATATGGCT
1 TCCTGATATATGGCT
10458527 ATCCCGAGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 15
0.72 0.12 0.15
Matches are distributed among these distances:
22 1 0.01
23 13 0.19
24 1 0.01
25 19 0.27
26 36 0.51
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
TCCTGATATATGGCTCTTCGTGAGCT
Found at i:10458545 original size:73 final size:73
Alignment explanation
Indices: 10458459--10458599 Score: 176
Period size: 73 Copynumber: 1.9 Consensus size: 73
10458449 GGCTCTTTGT
** * * *
10458459 GAGCTTCTTGATTAATGGCTTTCCGGAGCTTCCCGATA-TGGCTCACTTGAACTTCCTAATATAT
1 GAGCTTCCCGATTAATGGCTTTCCAGAGCTACCCGATATTGGCTCACGTGAACTTCCTAAT-TAT
10458523 GGCTATCCC
65 GGCTATCCC
* * * * *
10458532 GAGCTTCCCGATTAATGGCTTTTCAGAGCTACCCGTTATTGGCTCGCGTGAGCTTCTTAATTATG
1 GAGCTTCCCGATTAATGGCTTTCCAGAGCTACCCGATATTGGCTCACGTGAACTTCCTAATTATG
10458597 GCT
66 GCT
10458600 CTTATGAGTT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
73 39 0.68
74 18 0.32
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (73 bp):
GAGCTTCCCGATTAATGGCTTTCCAGAGCTACCCGATATTGGCTCACGTGAACTTCCTAATTATG
GCTATCCC
Found at i:10465716 original size:27 final size:27
Alignment explanation
Indices: 10465662--10465715 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
10465652 CTTACTTAGT
*
10465662 TCCTCCATATTCCTCAATTCAAAAAAA
1 TCCTCCATATACCTCAATTCAAAAAAA
10465689 TCCTCCATTATACCTCAATTCAAAAAA
1 TCCTCCA-TATACCTCAATTCAAAAAA
10465716 TTAGTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.30
Consensus pattern (27 bp):
TCCTCCATATACCTCAATTCAAAAAAA
Found at i:10467390 original size:17 final size:15
Alignment explanation
Indices: 10467358--10467398 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
10467348 TTGTAAGTTT
10467358 AATATTTTTATTCAA
1 AATATTTTTATTCAA
*
10467373 ACTATTTTATATTTCAA
1 AATATTTT-TA-TTCAA
10467390 AATATTTTT
1 AATATTTTT
10467399 TTAACTTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 7 0.32
16 3 0.14
17 12 0.55
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (15 bp):
AATATTTTTATTCAA
Found at i:10478001 original size:3 final size:3
Alignment explanation
Indices: 10477993--10478022 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10477983 CTTTAACTTT
10477993 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
10478023 TTGTAAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10481028 original size:3 final size:3
Alignment explanation
Indices: 10481020--10481044 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10481010 CAAACTCACC
10481020 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
10481045 CTAAGTTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10481529 original size:31 final size:30
Alignment explanation
Indices: 10481478--10481541 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
10481468 ACTGAGTTTA
* * *
10481478 TATTATTTTTGTTTATAAAAATATAGTTAT
1 TATTATTTTTGTATATAAAAATAAAATTAT
*
10481508 TATTTTTTATTGTATATAAAAATAAAATTAT
1 TATTATTT-TTGTATATAAAAATAAAATTAT
10481539 TAT
1 TAT
10481542 AAGCGATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (30 bp):
TATTATTTTTGTATATAAAAATAAAATTAT
Found at i:10487853 original size:21 final size:22
Alignment explanation
Indices: 10487829--10487880 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
10487819 TAGCCAGTAC
*
10487829 AAATAACAA-AAACAATAGC-AA
1 AAATAACAACAAA-AACAGCAAA
10487850 AAATAACAACAAAAACAGCAGAA
1 AAATAACAACAAAAACAGCA-AA
10487873 AAATAACA
1 AAATAACA
10487881 GCACCAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 14 0.52
22 3 0.11
23 10 0.37
ACGTcount: A:0.71, C:0.15, G:0.06, T:0.08
Consensus pattern (22 bp):
AAATAACAACAAAAACAGCAAA
Found at i:10487874 original size:23 final size:24
Alignment explanation
Indices: 10487833--10487880 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
10487823 CAGTACAAAT
*
10487833 AACAAAAACAATAGCAAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
*
10487857 AACAAAAACAGCAG-AAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
10487880 A
1 A
10487881 GCACCAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.71, C:0.17, G:0.06, T:0.06
Consensus pattern (24 bp):
AACAAAAACAACAGCAAAAATAAC
Found at i:10495065 original size:46 final size:46
Alignment explanation
Indices: 10494998--10495136 Score: 242
Period size: 46 Copynumber: 3.0 Consensus size: 46
10494988 CATGGCAAAA
*
10494998 TGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
*
10495044 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGATT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
* *
10495090 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
10495136 T
1 T
10495137 ATAGTATTGT
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 88 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
Found at i:10495572 original size:33 final size:33
Alignment explanation
Indices: 10495535--10495642 Score: 105
Period size: 33 Copynumber: 3.3 Consensus size: 33
10495525 TGGCCCTACC
*
10495535 ATGGTCTTACATTTGTCGTGCCATAACCTAGTT
1 ATGGTCTTACATTTGTCGTGCCATAACCCAGTT
* * *
10495568 ATGGTCTT--A-TTATCAGAATGCCATAGCCCAGCT
1 ATGGTCTTACATTTGTC-G--TGCCATAACCCAGTT
* * *
10495601 ATGGTCTTACATTTGTAGTGTCATAACCCAATT
1 ATGGTCTTACATTTGTCGTGCCATAACCCAGTT
10495634 ATGGTCTTA
1 ATGGTCTTA
10495643 TCATCAGAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
30 4 0.07
31 2 0.03
33 48 0.81
35 2 0.03
36 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (33 bp):
ATGGTCTTACATTTGTCGTGCCATAACCCAGTT
Found at i:10495612 original size:66 final size:66
Alignment explanation
Indices: 10495535--10495676 Score: 221
Period size: 66 Copynumber: 2.2 Consensus size: 66
10495525 TGGCCCTACC
* * * * *
10495535 ATGGTCTTACATTTGTCGTGCCATAACCTAGTTATGGTCTTATTATCAGAATGCCATAGCCCAGC
1 ATGGTCTTACATTTGTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAAC
10495600 T
66 T
* *
10495601 ATGGTCTTACATTTGTAGTGTCATAACCCAATTATGGTCTTATCATCAGAATGTCATAGCCCAAC
1 ATGGTCTTACATTTGTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAAC
10495666 T
66 T
10495667 ATGGTCTTAC
1 ATGGTCTTAC
10495677 TAGCCCAACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (66 bp):
ATGGTCTTACATTTGTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAAC
T
Found at i:10495656 original size:33 final size:33
Alignment explanation
Indices: 10495567--10495675 Score: 121
Period size: 33 Copynumber: 3.3 Consensus size: 33
10495557 ATAACCTAGT
* * * *
10495567 TATGGTCTTATTATCAGAATGCCATAGCCCAGC
1 TATGGTCTTATCATCAGAATGTCATAACCCAAC
** * *
10495600 TATGGTCTTA-CATTTGTAGTGTCATAACCCAAT
1 TATGGTCTTATCATCAG-AATGTCATAACCCAAC
*
10495633 TATGGTCTTATCATCAGAATGTCATAGCCCAAC
1 TATGGTCTTATCATCAGAATGTCATAACCCAAC
10495666 TATGGTCTTA
1 TATGGTCTTA
10495676 CTAGCCCAAC
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
32 3 0.05
33 54 0.89
34 4 0.07
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (33 bp):
TATGGTCTTATCATCAGAATGTCATAACCCAAC
Done.