Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 58 of 221
Found at i:16774616 original size:42 final size:41
Alignment explanation
Indices: 16774558--16774636 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
16774548 GTGGTCTAAA
*
16774558 AAATTCAACGCCCATATTGCAACAGTCAGATTCCAACGATC
1 AAATTCAACGACCATATTGCAACAGTCAGATTCCAACGATC
* ** *
16774599 AAATTCTAACGACCATATTGTAATTGTTAGATTCCAAC
1 AAATTC-AACGACCATATTGCAACAGTCAGATTCCAAC
16774637 AACCATATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 6 0.19
42 26 0.81
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (41 bp):
AAATTCAACGACCATATTGCAACAGTCAGATTCCAACGATC
Found at i:16779654 original size:27 final size:27
Alignment explanation
Indices: 16779624--16779801 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
16779614 ATATTGAGCC
* * *
16779624 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
16779651 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
16779678 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
16779706 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
16779733 CGCACACTTAGTGC-ATCATATTCAATT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
16779760 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AACT
16779787 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16779802 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:16779763 original size:82 final size:81
Alignment explanation
Indices: 16779645--16779800 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16779635 TGCTATATAA
* *
16779645 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16779710 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * * *
16779727 TCAATTCGCACACTTAGTGC-ATCATATTCAATTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16779791 CACTTAGTGC
65 CACTTAGTGC
16779801 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16787691 original size:27 final size:27
Alignment explanation
Indices: 16787661--16787838 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
16787651 ATATTGAGCC
* * *
16787661 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
16787688 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
16787715 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
16787743 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
16787770 CGCACACTTAGTGC-ATCATATTCAATT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
16787797 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AACT
16787824 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16787839 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:16787800 original size:82 final size:81
Alignment explanation
Indices: 16787682--16787837 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16787672 TGCTATATAA
* *
16787682 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16787747 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * * *
16787764 TCAATTCGCACACTTAGTGC-ATCATATTCAATTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16787828 CACTTAGTGC
65 CACTTAGTGC
16787838 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16791546 original size:22 final size:23
Alignment explanation
Indices: 16791520--16791566 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
16791510 TATTAGAATA
16791520 ATAAAATAT-A-ATTTTAAAATGT
1 ATAAAATATAATATTTTAAAA-GT
*
16791542 ATAAATTATAATATTTTAAAAGT
1 ATAAAATATAATATTTTAAAAGT
16791565 AT
1 AT
16791567 TATAATTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 5 0.23
24 9 0.41
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
ATAAAATATAATATTTTAAAAGT
Found at i:16797246 original size:9 final size:9
Alignment explanation
Indices: 16797232--16797275 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
16797222 GTTTTTGAAT
16797232 ATTTTTATAA
1 ATTTTTAT-A
16797242 ATTTTTATA
1 ATTTTTATA
*
16797251 ATTTTTGTA
1 ATTTTTATA
16797260 ATTTTCTATA
1 ATTTT-TATA
16797270 AGTTTT
1 A-TTTT
16797276 CGTATTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 14 0.47
10 12 0.40
11 4 0.13
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:16797254 original size:19 final size:19
Alignment explanation
Indices: 16797232--16797275 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
16797222 GTTTTTGAAT
16797232 ATTTTTATAAATTTT-TATA
1 ATTTTTAT-AATTTTCTATA
*
16797251 ATTTTTGTAATTTTCTATA
1 ATTTTTATAATTTTCTATA
16797270 AGTTTT
1 A-TTTT
16797276 CGTATTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 12 0.55
20 4 0.18
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (19 bp):
ATTTTTATAATTTTCTATA
Found at i:16797282 original size:19 final size:18
Alignment explanation
Indices: 16797241--16797284 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
16797231 TATTTTTATA
*
16797241 AATTTTTATAATTTTTGT
1 AATTTTTATAATTTTCGT
16797259 AATTTTCTATAAGTTTTCGT
1 AATTTT-TATAA-TTTTCGT
16797279 -ATTTTT
1 AATTTTT
16797285 GTCATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.30
19 10 0.43
20 6 0.26
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.64
Consensus pattern (18 bp):
AATTTTTATAATTTTCGT
Found at i:16797696 original size:44 final size:40
Alignment explanation
Indices: 16797646--16797732 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
16797636 TGGGCACATT
* *
16797646 TCATTTCCTTCTCTTTTTTTTTAAAGTTGATATTTCTTTTTGGG
1 TCATTTCC-T-TC-TTTTTCTT-AAGTTAATATTTCTTTTTGGG
*
16797690 TCATTTCCTTCTTTTTCTTAATTTAATATTTCTTTTTGGG
1 TCATTTCCTTCTTTTTCTTAAGTTAATATTTCTTTTTGGG
16797730 TCA
1 TCA
16797733 ATAAATCTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
40 22 0.55
41 7 0.17
42 2 0.05
43 1 0.03
44 8 0.20
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (40 bp):
TCATTTCCTTCTTTTTCTTAAGTTAATATTTCTTTTTGGG
Found at i:16799053 original size:30 final size:29
Alignment explanation
Indices: 16799000--16799058 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
16798990 AATTATATAA
16799000 ATTATTAAAATGATAAAAATATAAATAATT
1 ATTATTAAAATGATAAAAATATAAA-AATT
* *
16799030 ATTATTTAAAAT-ATTAAACTATAAAAATT
1 ATTA-TTAAAATGATAAAAATATAAAAATT
16799059 GTAGAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 15 0.58
31 7 0.27
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (29 bp):
ATTATTAAAATGATAAAAATATAAAAATT
Found at i:16799685 original size:11 final size:10
Alignment explanation
Indices: 16799640--16799683 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
16799630 TAATTTATGG
16799640 TTTTTAATAA
1 TTTTTAATAA
16799650 TTTTTAA-AA
1 TTTTTAATAA
16799659 -TTTTAATAA
1 TTTTTAATAA
*
16799668 CATTTTAATAA
1 -TTTTTAATAA
16799679 TTTTT
1 TTTTT
16799684 TATTTTTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
8 6 0.20
9 4 0.13
10 11 0.37
11 9 0.30
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:16799726 original size:18 final size:18
Alignment explanation
Indices: 16799705--16799754 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
16799695 AATCGTATAG
*
16799705 TTTTTCTATAATTTTT-A
1 TTTTTTTATAATTTTTAA
* *
16799722 TTTTTTTTTCATTTTTAA
1 TTTTTTTATAATTTTTAA
*
16799740 TATTTTTATAATTTT
1 TTTTTTTATAATTTT
16799755 CTAAAATTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTATAATTTTTAA
Found at i:16799776 original size:94 final size:93
Alignment explanation
Indices: 16799588--16799764 Score: 216
Period size: 94 Copynumber: 1.9 Consensus size: 93
16799578 TTTTTTTTAC
* **
16799588 TTTTTTTTTAATAATTCATATAATTTTTCTATAATTTTCTATTAATTTATGGTTTTTAATAATTT
1 TTTTTTTTTAATAAATCATATAATTTTTCTATAATTTTCTATTAATTTATCATTTTTAATAATTT
*
16799653 TTAAAATTTTAATAACATTTTAATAATT
66 TTAAAATTTTAATAAAATTTTAATAATT
* * * ** *
16799681 TTTTATTTTTAGTAAATCGTATAGTTTTTCTATAATTTT-TATTTTTTTTTCATTTTTAAT-ATT
1 TTTT-TTTTTAATAAATCATATAATTTTTCTATAATTTTCTATTAATTTATCATTTTTAATAATT
* *
16799744 TTTATAATTTT-CTAAAATTTT
65 TTTAAAATTTTAATAAAATTTT
16799765 CTATAACATT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
91 8 0.11
92 13 0.18
93 20 0.28
94 30 0.42
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (93 bp):
TTTTTTTTTAATAAATCATATAATTTTTCTATAATTTTCTATTAATTTATCATTTTTAATAATTT
TTAAAATTTTAATAAAATTTTAATAATT
Found at i:16799825 original size:38 final size:39
Alignment explanation
Indices: 16799734--16799825 Score: 100
Period size: 38 Copynumber: 2.4 Consensus size: 39
16799724 TTTTTTTCAT
** *
16799734 TTTTAATATTTTTATAATTTTCTAAAATTTTCTATAACA
1 TTTTAATAAATTTATAATTTTCCAAAATTTTCTATAACA
** *
16799773 TTTTAATAAA-TTATAATTTTCCATGATTTT-TATAA-T
1 TTTTAATAAATTTATAATTTTCCAAAATTTTCTATAACA
16799809 TTTCTAATAAATTTATA
1 TTT-TAATAAATTTATA
16799826 TTAAATTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
36 3 0.07
37 12 0.27
38 22 0.49
39 8 0.18
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.55
Consensus pattern (39 bp):
TTTTAATAAATTTATAATTTTCCAAAATTTTCTATAACA
Found at i:16799847 original size:48 final size:48
Alignment explanation
Indices: 16799734--16799851 Score: 134
Period size: 48 Copynumber: 2.4 Consensus size: 48
16799724 TTTTTTTCAT
*
16799734 TTTTAATATTTTTATAATTTTCTAAAATTTTCTATAACATTTTAATAAA
1 TTTT-ATATTTTTATGATTTTCTAAAATTTTCTATAACATTTTAATAAA
* * * *
16799783 TTATA-ATTTTCCATGATTTT-TATAATTTTCTAATAA-ATTTATATTAAA
1 TTTTATATTTT-TATGATTTTCTAAAATTTTCT-ATAACATTT-TAATAAA
16799831 TTTTATATTTTTATGATTTTC
1 TTTTATATTTTTATGATTTTC
16799852 GATAAGTTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
47 19 0.33
48 30 0.53
49 8 0.14
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (48 bp):
TTTTATATTTTTATGATTTTCTAAAATTTTCTATAACATTTTAATAAA
Found at i:16799979 original size:16 final size:17
Alignment explanation
Indices: 16799946--16799980 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16799936 TTTTCTACAA
*
16799946 ATTTTAATATTTTTTAT
1 ATTTTAATATTATTTAT
16799963 ATTTTAA-ATTATTTAT
1 ATTTTAATATTATTTAT
16799979 AT
1 AT
16799981 ATATTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTAATATTATTTAT
Found at i:16801392 original size:2 final size:2
Alignment explanation
Indices: 16801381--16801410 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
16801371 CAAATCAGTG
16801381 TA TA -A 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 T
16801411 GTGGTTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16802977 original size:16 final size:16
Alignment explanation
Indices: 16802958--16802997 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
16802948 GGCTAAACTG
*
16802958 TAAATAAATAAATGAA
1 TAAATAAATAAAGGAA
* *
16802974 TAAATAAATAGAGGAC
1 TAAATAAATAAAGGAA
16802990 TAAATAAA
1 TAAATAAA
16802998 AATTTAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.65, C:0.03, G:0.10, T:0.23
Consensus pattern (16 bp):
TAAATAAATAAAGGAA
Found at i:16805874 original size:25 final size:25
Alignment explanation
Indices: 16805837--16805910 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
16805827 AGCTCTCTCT
* * *
16805837 TGAGCCATATAACGAGAAGCTTATG
1 TGAGCCTTGTAACGAGAAGCTCATG
*
16805862 TGAGTCTTGTAACGAGAAGCTCATG
1 TGAGCCTTGTAACGAGAAGCTCATG
*
16805887 TGAGCCTTGTAACGGGAAGCTCAT
1 TGAGCCTTGTAACGAGAAGCTCAT
16805911 TCGAGCTGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (25 bp):
TGAGCCTTGTAACGAGAAGCTCATG
Found at i:16805916 original size:25 final size:24
Alignment explanation
Indices: 16805846--16805935 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 24
16805836 TTGAGCCATA
* *
16805846 TAACGAGAAGCTTATGTGAGTCTTG
1 TAACGGGAAGCTCATGTGAG-CTTG
*
16805871 TAACGAGAAGCTCATGTGAGCCTTG
1 TAACGGGAAGCTCATGTGAG-CTTG
*
16805896 TAACGGGAAGCTCAT-TCGAGCTGTA
1 TAACGGGAAGCTCATGT-GAGCT-TG
*
16805921 TAACAGGAAGCTCAT
1 TAACGGGAAGCTCAT
16805936 AAGAGCCATA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
24 3 0.05
25 55 0.95
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (24 bp):
TAACGGGAAGCTCATGTGAGCTTG
Found at i:16807556 original size:45 final size:45
Alignment explanation
Indices: 16807420--16807713 Score: 201
Period size: 44 Copynumber: 6.6 Consensus size: 45
16807410 TCATTCTAAC
* * * * **
16807420 CCACCGCAACTTCA-GAGGTATAGGATTTGTAAT-TTCAATCTATT
1 CCACTGCAACTTCAGGAAG-ATAAGATTTGTTATCTTCAATCTGCT
* * * * * * *
16807464 CCGCTACAACCTCAGGGAGATTAGATTTG-TAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTCAATCTGCT
* *
16807508 CCACTGCAACTTCAGGAAGATAATATTTGTTATCTTCAATCTACT
1 CCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTCAATCTGCT
* * * *
16807553 CCACTACAACTTTAGGGAA-ATAAGATTTG-TAGCTTCAATATGCT
1 CCACTGCAACTTCA-GGAAGATAAGATTTGTTATCTTCAATCTGCT
* * * *
16807597 CTACTGCAACTTTA-GAGAGATAAGATTTGCTATCTTCAATTTGCT
1 CCACTGCAACTTCAGGA-AGATAAGATTTGTTATCTTCAATCTGCT
* * * * * *
16807642 TCATTGCAATTTCAGAGAA-ATAAGATTTGTAAT-TTTAATATGCT
1 CCACTGCAACTTCAG-GAAGATAAGATTTGTTATCTTCAATCTGCT
* *
16807686 ACACTGCAACTTCAATG-AGATAAGATTT
1 CCACTGCAACTTC-AGGAAGATAAGATTT
16807714 ATGGTTAACT
Statistics
Matches: 194, Mismatches: 45, Indels: 22
0.74 0.17 0.08
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 112 0.58
45 70 0.36
46 5 0.03
47 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (45 bp):
CCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTCAATCTGCT
Found at i:16807579 original size:89 final size:89
Alignment explanation
Indices: 16807420--16807713 Score: 301
Period size: 89 Copynumber: 3.3 Consensus size: 89
16807410 TCATTCTAAC
* * * * * * * *
16807420 CCACCGCAACTTCAGAG-GTATAGGATTTGTAAT-TTCAATCTATTCCGCTACAACCTCAGGGAG
1 CCACTGCAACTTCAGAGAG-ATAAGATTTGTTATCTTCAATCTACTCCACTACAACTTTAGGGAA
* *
16807483 ATTAGATTTGTAGCTTTAATCTGCT
65 ATAAGATTTGTAGCTTTAATATGCT
*
16807508 CCACTGCAACTTCAG-GAAGATAATATTTGTTATCTTCAATCTACTCCACTACAACTTTAGGGAA
1 CCACTGCAACTTCAGAG-AGATAAGATTTGTTATCTTCAATCTACTCCACTACAACTTTAGGGAA
*
16807572 ATAAGATTTGTAGCTTCAATATGCT
65 ATAAGATTTGTAGCTTTAATATGCT
* * * * * * * * *
16807597 CTACTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATTTGCTTCATTGCAA-TTTCAGAGAA
1 CCACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTACTCCACTACAACTTT-AGGGAA
**
16807661 ATAAGATTTGTAATTTTAATATGCT
65 ATAAGATTTGTAGCTTTAATATGCT
*
16807686 ACACTGCAACTTCA-ATGAGATAAGATTT
1 CCACTGCAACTTCAGA-GAGATAAGATTT
16807714 ATGGTTAACT
Statistics
Matches: 172, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
87 1 0.01
88 29 0.17
89 141 0.82
90 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (89 bp):
CCACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTACTCCACTACAACTTTAGGGAAA
TAAGATTTGTAGCTTTAATATGCT
Found at i:16810298 original size:52 final size:53
Alignment explanation
Indices: 16810199--16810422 Score: 312
Period size: 53 Copynumber: 4.2 Consensus size: 53
16810189 CTTTAGTGCC
* *
16810199 GGCCATTGACATGCCAGCACAAAAAA-ATTT-ACTTTTTTTTGGGTACTT-GTGGT
1 GGCCATTGACAGGCCAACACAAAAAATATTTGA-TTTTTTTT--GTACTTGGTGGT
16810252 GGCCATTGACAGGCCAACACAAAAAATATTTGATTTTTTTTGTACTTGGTGGT
1 GGCCATTGACAGGCCAACACAAAAAATATTTGATTTTTTTTGTACTTGGTGGT
**
16810305 GGCCATTGACAGGCCAACATTAAAAATATTTGATTTTTTTTGTACTTGGTGGT
1 GGCCATTGACAGGCCAACACAAAAAATATTTGATTTTTTTTGTACTTGGTGGT
* * * *
16810358 GGCCATTGACAGGCTAGCACAAAAAAAATTTGATTTTTTTTGTACTTAGTGGT
1 GGCCATTGACAGGCCAACACAAAAAATATTTGATTTTTTTTGTACTTGGTGGT
*
16810411 GG-TATTGACAGG
1 GGCCATTGACAGG
16810423 AGAGCACCAA
Statistics
Matches: 157, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
52 15 0.10
53 129 0.82
54 12 0.08
55 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (53 bp):
GGCCATTGACAGGCCAACACAAAAAATATTTGATTTTTTTTGTACTTGGTGGT
Found at i:16814082 original size:24 final size:23
Alignment explanation
Indices: 16814033--16814087 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
16814023 TGTTGGATTC
* ** *
16814033 TTTTTAATAATTTCATAATATTA
1 TTTTTAAAAATTAAATAATATAA
16814056 TTTTTAAAAATTAAATAATTATAA
1 TTTTTAAAAATTAAATAA-TATAA
16814080 -TTTTAAAA
1 TTTTTAAAA
16814088 TATCGGTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTTTAAAAATTAAATAATATAA
Found at i:16815727 original size:13 final size:13
Alignment explanation
Indices: 16815702--16815734 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16815692 AAAAATCAGC
16815702 TCAATTG-AGAGG
1 TCAATTGAAGAGG
16815714 TCAATTGAAGAGG
1 TCAATTGAAGAGG
*
16815727 TTAATTGA
1 TCAATTGA
16815735 GTAGGGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.30
Consensus pattern (13 bp):
TCAATTGAAGAGG
Found at i:16838412 original size:25 final size:25
Alignment explanation
Indices: 16838390--16838491 Score: 132
Period size: 25 Copynumber: 4.1 Consensus size: 25
16838380 GTATGCTCTC
*
16838390 ACGAGCTGTGAATCGAGAAGCTCAT
1 ACGAGCTGTAAATCGAGAAGCTCAT
** * * *
16838415 ACGAGCTACAAATTGGGAACCTCAT
1 ACGAGCTGTAAATCGAGAAGCTCAT
* *
16838440 ACGAGCTGTAAATAGAAAAGCTCAT
1 ACGAGCTGTAAATCGAGAAGCTCAT
16838465 ACGAGCTGTAAATCGAGAAGCTCAT
1 ACGAGCTGTAAATCGAGAAGCTCAT
16838490 AC
1 AC
16838492 AAGTTGTGGT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (25 bp):
ACGAGCTGTAAATCGAGAAGCTCAT
Found at i:16842929 original size:26 final size:27
Alignment explanation
Indices: 16842877--16842940 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
16842867 TTTAAAATAC
* * *
16842877 TTTTAAAATGATTTTTTTATTTTTTTAT
1 TTTTAAAAT-AATTTTTTATATGTTTAT
16842905 TTTTAAAATAATTTTTTA-ATGTTTAT
1 TTTTAAAATAATTTTTTATATGTTTAT
*
16842931 TTTAAAAATA
1 TTTTAAAATA
16842941 GGCCGGGTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 15 0.47
27 8 0.25
28 9 0.28
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTTAAAATAATTTTTTATATGTTTAT
Found at i:16842934 original size:39 final size:41
Alignment explanation
Indices: 16842848--16842934 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 41
16842838 ATATATTATT
*
16842848 TTTATTTT-TATTTTTTAATTTTAAAATACTTTTAAAATGA
1 TTTATTTTATATTTTTTAATTTTAAAATAATTTTAAAATGA
* **
16842888 TTT-TTTTAT-TTTTTTATTTTTAAAATAATTTTTTAATG-
1 TTTATTTTATATTTTTTAATTTTAAAATAATTTTAAAATGA
16842926 TTTATTTTA
1 TTTATTTTA
16842935 AAAATAGGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 3 0.07
39 34 0.83
40 4 0.10
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (41 bp):
TTTATTTTATATTTTTTAATTTTAAAATAATTTTAAAATGA
Found at i:16844306 original size:27 final size:27
Alignment explanation
Indices: 16844236--16844308 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
16844226 TACACGTCAG
*
16844236 GAAAGAAAAGCCTTTGCGGCATAATAT
1 GAAAGAAAAGCCTTTGTGGCATAATAT
*
16844263 GAAAGAAAAGCCTTTGTGGCGTAATAT
1 GAAAGAAAAGCCTTTGTGGCATAATAT
* *
16844290 GAAGGAAAATCCTTTGTGG
1 GAAAGAAAAGCCTTTGTGG
16844309 TAGAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGCATAATAT
Found at i:16857867 original size:17 final size:18
Alignment explanation
Indices: 16857841--16857883 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
16857831 TTACCTTTCA
*
16857841 AATAAAAATATAAA-CAT
1 AATAACAATATAAAGCAT
16857858 AATAACAATATAAAGCAT
1 AATAACAATATAAAGCAT
16857876 AATCAACA
1 AAT-AACA
16857884 CCTCTTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.57
18 6 0.26
19 4 0.17
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.21
Consensus pattern (18 bp):
AATAACAATATAAAGCAT
Found at i:16862328 original size:30 final size:30
Alignment explanation
Indices: 16862294--16862354 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
16862284 CTTGATTATA
16862294 ATCAAGTACAGATTTCCATGTGATCCTTCT
1 ATCAAGTACAGATTTCCATGTGATCCTTCT
16862324 ATCAAGTACAGATTTCCATGTGATCCTTCT
1 ATCAAGTACAGATTTCCATGTGATCCTTCT
16862354 A
1 A
16862355 ACCGTTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (30 bp):
ATCAAGTACAGATTTCCATGTGATCCTTCT
Found at i:16865555 original size:14 final size:14
Alignment explanation
Indices: 16865515--16865561 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
16865505 TATTTTTTAT
16865515 TTTTTAATTTTAAAA
1 TTTTTAA-TTTAAAA
*
16865530 TACTTT--TTTAAAA
1 T-TTTTAATTTAAAA
16865543 TTTTTAATTTAAAA
1 TTTTTAATTTAAAA
16865557 TTTTT
1 TTTTT
16865562 TAAAATACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
12 3 0.11
13 8 0.30
14 12 0.44
15 1 0.04
16 3 0.11
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTAATTTAAAA
Found at i:16865574 original size:27 final size:27
Alignment explanation
Indices: 16865515--16865566 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
16865505 TATTTTTTAT
*
16865515 TTTTTAATTTTAAAATACTTTTTTAAAA
1 TTTTTAATTTTAAAATA-TTTTTAAAAA
16865543 TTTTTAA-TTTAAAAT-TTTTTAAAA
1 TTTTTAATTTTAAAATATTTTTAAAA
16865567 TACTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
27 8 0.35
28 7 0.30
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTTAATTTTAAAATATTTTTAAAAA
Found at i:16865585 original size:38 final size:37
Alignment explanation
Indices: 16865522--16865641 Score: 176
Period size: 38 Copynumber: 3.3 Consensus size: 37
16865512 TATTTTTTAA
16865522 TTTTAAAATACTTTTTTAAAATTTTTAATTTAAAATT
1 TTTTAAAATACTTTTTTAAAATTTTTAATTTAAAATT
*
16865559 TTTTAAAATACTTTTTTTAAATTTTTTAATTTTAAAATAT
1 TTTTAAAATAC-TTTTTTAAAATTTTTAA-TTTAAAAT-T
16865599 TTTTAAAATAC-TTTTTAAAATTTTTAATTT--AA-T
1 TTTTAAAATACTTTTTTAAAATTTTTAATTTAAAATT
16865632 TTTTAAAATA
1 TTTTAAAATA
16865642 AATTTTTGGT
Statistics
Matches: 78, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
33 11 0.14
35 2 0.03
37 14 0.18
38 31 0.40
39 8 0.10
40 12 0.15
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (37 bp):
TTTTAAAATACTTTTTTAAAATTTTTAATTTAAAATT
Found at i:16865613 original size:29 final size:28
Alignment explanation
Indices: 16865513--16865628 Score: 76
Period size: 27 Copynumber: 4.4 Consensus size: 28
16865503 TTTATTTTTT
16865513 ATTTTTTAATTTTAAAATACTTTTTTAAA
1 ATTTTTTAATTTTAAAATAC-TTTTTAAA
16865542 A-TTTTTAA-TTTAAAAT--TTTTTAAA
1 ATTTTTTAATTTTAAAATACTTTTTAAA
**
16865566 ATACTTT--TTTT-AAAT--TTTTT--A
1 ATTTTTTAATTTTAAAATACTTTTTAAA
* *
16865587 ATTTTAAAATATTTTTAAAATACTTTTTAAA
1 ATTTT---TTAATTTTAAAATACTTTTTAAA
16865618 A-TTTTTAATTT
1 ATTTTTTAATTT
16865629 AATTTTTAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 26
0.67 0.07 0.26
Matches are distributed among these distances:
21 4 0.06
23 9 0.13
24 13 0.19
25 3 0.04
26 4 0.06
27 17 0.25
28 7 0.10
29 6 0.09
30 3 0.04
31 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTTTTTAATTTTAAAATACTTTTTAAA
Found at i:16865647 original size:12 final size:12
Alignment explanation
Indices: 16865588--16865648 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
16865578 AATTTTTTAA
16865588 TTTTAAAAT-AT
1 TTTTAAAATAAT
*
16865599 TTTTAAAATACT
1 TTTTAAAATAAT
16865611 TTTT--AA-AAT
1 TTTTAAAATAAT
**
16865620 TTTTAATTTAAT
1 TTTTAAAATAAT
16865632 TTTTAAAATAAAT
1 TTTTAAAAT-AAT
16865645 TTTT
1 TTTT
16865649 GGTATTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 6 0.15
10 2 0.05
11 9 0.23
12 15 0.38
13 7 0.18
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:16878198 original size:23 final size:24
Alignment explanation
Indices: 16878172--16878224 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
16878162 AATAAGAAAA
16878172 CAAGAAT-ACATAA-AACGTGCTAC
1 CAAGAATAACA-AAGAACGTGCTAC
16878195 CAAGAATAGACAAAGAACGTGCTAC
1 CAAGAATA-ACAAAGAACGTGCTAC
16878220 CAAGA
1 CAAGA
16878225 GCAGACATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.26
24 2 0.07
25 18 0.67
ACGTcount: A:0.49, C:0.21, G:0.17, T:0.13
Consensus pattern (24 bp):
CAAGAATAACAAAGAACGTGCTAC
Found at i:16878600 original size:24 final size:24
Alignment explanation
Indices: 16878573--16878624 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
16878563 AATCAAAGTC
* *
16878573 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
16878597 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
16878621 AAAT
1 AAAT
16878625 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:16887598 original size:22 final size:22
Alignment explanation
Indices: 16887573--16887621 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
16887563 TGTTTTCTCC
16887573 TTATTTTGCTACCATTTTATTA
1 TTATTTTGCTACCATTTTATTA
* * * * *
16887595 TTATGTTGTTACTATTTTGTTG
1 TTATTTTGCTACCATTTTATTA
16887617 TTATT
1 TTATT
16887622 GTTTGGATAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.08, G:0.10, T:0.63
Consensus pattern (22 bp):
TTATTTTGCTACCATTTTATTA
Found at i:16888957 original size:21 final size:21
Alignment explanation
Indices: 16888909--16888959 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
16888899 ATATAAAAGA
16888909 TATAAAATAATAAAAATACTT
1 TATAAAATAATAAAAATACTT
**
16888930 T-TAAAATAATATAATTTA-TT
1 TATAAAATAATA-AAAATACTT
16888950 TATAAAATAA
1 TATAAAATAA
16888960 GAATAACCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TATAAAATAATAAAAATACTT
Found at i:16896959 original size:29 final size:29
Alignment explanation
Indices: 16896902--16896958 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
16896892 AATCTTTATA
16896902 AAAATATTTAAATAAAAATTAAATATTTT
1 AAAATATTTAAATAAAAATTAAATATTTT
* *
16896931 AAAATATTTAAATAAGAGTT-AATATTTT
1 AAAATATTTAAATAAAAATTAAATATTTT
16896959 TGAAAGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (29 bp):
AAAATATTTAAATAAAAATTAAATATTTT
Found at i:16898155 original size:19 final size:19
Alignment explanation
Indices: 16898115--16898157 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
16898105 AAAAATATTT
16898115 TTTATATTTTATAATTAAA
1 TTTATATTTTATAATTAAA
16898134 TTTA-ATTTTAATAA-TAATA
1 TTTATATTTT-ATAATTAA-A
16898153 TTTAT
1 TTTAT
16898158 TATCTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTATATTTTATAATTAAA
Found at i:16898628 original size:24 final size:25
Alignment explanation
Indices: 16898595--16898645 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
16898585 AAATTTTAAT
*
16898595 ATACCATGT-AATTTTTTTTTCAAA
1 ATACCATGTAAATTTTTTGTTCAAA
*
16898619 ATACCTTGTAAATTTTTTGTTCAAA
1 ATACCATGTAAATTTTTTGTTCAAA
16898644 AT
1 AT
16898646 GCTCTATGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (25 bp):
ATACCATGTAAATTTTTTGTTCAAA
Found at i:16898726 original size:16 final size:15
Alignment explanation
Indices: 16898703--16898732 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16898693 TCACTATGGG
16898703 ATTTTTTTAATATAA
1 ATTTTTTTAATATAA
16898718 ATTTATTTTAATATA
1 ATTT-TTTTAATATA
16898733 GTATACTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTTTTTAATATAA
Found at i:16903831 original size:45 final size:45
Alignment explanation
Indices: 16903767--16903856 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
16903757 AAGAAGTAAG
16903767 AGAATGGTCTGCTAAGAGAGATGAAATTGCACAAACTATATGGAC
1 AGAATGGTCTGCTAAGAGAGATGAAATTGCACAAACTATATGGAC
* *
16903812 AGAATGGTCTGCTAAGAGAGATGAAATTTCACAAACTATGTGGAC
1 AGAATGGTCTGCTAAGAGAGATGAAATTGCACAAACTATATGGAC
16903857 TAATTATATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.23
Consensus pattern (45 bp):
AGAATGGTCTGCTAAGAGAGATGAAATTGCACAAACTATATGGAC
Found at i:16904038 original size:27 final size:27
Alignment explanation
Indices: 16904008--16904080 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
16903998 TGTCTTGAAT
16904008 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
*
16904035 TTGTTAGATACTGAATTTATTATGTTTTAAGC
1 TTGTTAG--A-T--ATTGATTATGTTTTAAGC
*
16904067 TTGTTGGATATTGA
1 TTGTTAGATATTGA
16904081 AATGATTGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
27 11 0.29
29 2 0.05
30 2 0.05
32 23 0.61
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:16904060 original size:32 final size:32
Alignment explanation
Indices: 16904021--16904081 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
16904011 TTAGATATTG
16904021 ATTATGTTTTAAGCTTGTTAGATACTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATACTGAATTT
* *
16904053 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATACTGAA
16904082 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATACTGAATTT
Found at i:16905377 original size:18 final size:18
Alignment explanation
Indices: 16905333--16905369 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
16905323 AAACAATTTA
16905333 AAATATAAATTTATTAAT
1 AAATATAAATTTATTAAT
16905351 AAATATAAATTTATTAAT
1 AAATATAAATTTATTAAT
16905369 A
1 A
16905370 TATGTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATAAATTTATTAAT
Found at i:16911200 original size:17 final size:19
Alignment explanation
Indices: 16911178--16911214 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
16911168 TGAAATTGTA
*
16911178 ATATG-TATTCGG-AATTG
1 ATATGTTATGCGGTAATTG
16911195 ATATGTTATGCGGTAATTG
1 ATATGTTATGCGGTAATTG
16911214 A
1 A
16911215 ATATTGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 6 0.35
19 6 0.35
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (19 bp):
ATATGTTATGCGGTAATTG
Found at i:16914341 original size:25 final size:25
Alignment explanation
Indices: 16914306--16914374 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
16914296 GGACACACCA
*
16914306 CAGCTCTTATGAGTTTCCCGATACT
1 CAGCTCGTATGAGTTTCCCGATACT
* * *
16914331 CAGCTCGTATGAGCTTCCCGTTATT
1 CAGCTCGTATGAGTTTCCCGATACT
*
16914356 CAGCTCGCATGAGCTTTCC
1 CAGCTCGTATGAG-TTTCC
16914375 GTTATTCAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.17, C:0.30, G:0.19, T:0.33
Consensus pattern (25 bp):
CAGCTCGTATGAGTTTCCCGATACT
Found at i:16914376 original size:25 final size:25
Alignment explanation
Indices: 16914314--16914382 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
16914304 CACAGCTCTT
* * * *
16914314 ATGAGTTTCCCGATACTCAGCTCGT
1 ATGAGCTTCCCGTTATTCAGCTCGC
16914339 ATGAGCTTCCCGTTATTCAGCTCGC
1 ATGAGCTTCCCGTTATTCAGCTCGC
*
16914364 ATGAGCTTTCCGTTATTCA
1 ATGAGCTTCCCGTTATTCA
16914383 ACTCAGAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCGC
Found at i:16933079 original size:23 final size:24
Alignment explanation
Indices: 16933052--16933096 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
16933042 TATATGTTAA
16933052 AAATGA-AATTAAAA-ATAAAAATT
1 AAATGATAA-TAAAACATAAAAATT
16933075 AAATGATAATAAAACATAAAAA
1 AAATGATAATAAAACATAAAAA
16933097 CAAAAGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (24 bp):
AAATGATAATAAAACATAAAAATT
Found at i:16944414 original size:51 final size:50
Alignment explanation
Indices: 16944355--16944538 Score: 192
Period size: 51 Copynumber: 3.6 Consensus size: 50
16944345 AAAGGTCGCA
* * *
16944355 TGTGTAGTACCATGTACAGGCTACTATGCGTACCAGATAGCTTCGATCACG
1 TGTGTAGTACTATGTACAGGCTACTATGTGTACCAGATAG-TTTGATCACG
* * *
16944406 TGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATA-TTAATGGTCACG
1 TGTGTAGTACTATGTACAGGCTACTATGTGTACCAGATAGTT--TGATCACG
** * * * * *
16944457 TGTGTAGTACTATGTGTAGACTACTACGTGAACCGGAAAGTTTGATCACG
1 TGTGTAGTACTATGTACAGGCTACTATGTGTACCAGATAGTTTGATCACG
*
16944507 TGTGTAGTACTATGTGA-AGGCTACTACGTGTA
1 TGTGTAGTACTATGT-ACAGGCTACTATGTGTA
16944539 TCGAATGATA
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
49 2 0.02
50 35 0.31
51 73 0.65
52 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTACAGGCTACTATGTGTACCAGATAGTTTGATCACG
Found at i:16944427 original size:101 final size:100
Alignment explanation
Indices: 16944302--16944546 Score: 303
Period size: 101 Copynumber: 2.4 Consensus size: 100
16944292 AGTGATGGTT
* * *
16944302 ACGTGTGTAGTACTATGTGTAGGCTACTACATGTATCAGAATGAAAGGTCGCATGTGTAGTACCA
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGAAAGGTCACATGTGTAGTACCA
* * * *
16944367 TGTACAGGCTACTATGCGTACCAGATAGCTTCGATC
66 TGTACAGACTACTACGCGAACCAGAAAG-TTCGATC
* * * * * *
16944403 ACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATATTAATGGTCACGTGTGTAGTACT
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGA-ATGAAAGGTCACATGTGTAGTACC
** * * *
16944468 ATGTGTAGACTACTACGTGAACCGGAAAGTTTGATC
65 ATGTACAGACTACTACGCGAACCAGAAAGTTCGATC
16944504 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGA
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGA
16944547 TAATAGTTAA
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
99 3 0.02
100 2 0.02
101 78 0.63
102 40 0.33
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (100 bp):
ACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGAAAGGTCACATGTGTAGTACCA
TGTACAGACTACTACGCGAACCAGAAAGTTCGATC
Found at i:16945763 original size:39 final size:38
Alignment explanation
Indices: 16945633--16945769 Score: 98
Period size: 40 Copynumber: 3.5 Consensus size: 38
16945623 GGCGATTGGA
* *
16945633 CCAAAAATGCCGCTAAAAATCGAACATTAGCGGCGCTTTAT
1 CCAAAAACGCCGCTAAAAAT-GAGCATTAGCGGCG-TTT-T
* * * * * * *
16945674 -GAAAATCGCCACTAAAGATTTAGCAATAGCGACAGTTTT
1 CCAAAAACGCCGCTAAA-AATGAGCATTAGCGGC-GTTTT
* *
16945713 -AAAAAATGCCGCTAAAAATGAGCATTAGCGGCGTTTT
1 CCAAAAACGCCGCTAAAAATGAGCATTAGCGGCGTTTT
*
16945750 CCAAAAAGCGCCGCAAAAAA
1 CCAAAAA-CGCCGCTAAAAA
16945770 CCTAATCCCA
Statistics
Matches: 72, Mismatches: 20, Indels: 10
0.71 0.20 0.10
Matches are distributed among these distances:
37 5 0.07
38 17 0.24
39 23 0.32
40 24 0.33
41 3 0.04
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.20
Consensus pattern (38 bp):
CCAAAAACGCCGCTAAAAATGAGCATTAGCGGCGTTTT
Found at i:16945863 original size:41 final size:41
Alignment explanation
Indices: 16945804--16946171 Score: 468
Period size: 41 Copynumber: 9.0 Consensus size: 41
16945794 AGGCCTTTCG
* * * *
16945804 TGGTCTTTAACGGTGTTTTTAGAAAAGCGCCTCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* * *
16945845 TGGTCTTCAGTGGCGTTTTTAGAAAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*
16945886 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGTCGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* *
16945927 TGGTATTTAGCGGCGTTTTTGGAAAAGCGCCGCGAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* * *
16945968 TGGTCTTTAGCGGCGTTTTTGGCAAAGCGCTGCTAATGGTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* ** *
16946009 TGGTCTTTAGCGGCATTTTTGGAAATTTC-CCGTTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAA-AGCGCCGCTAATGCTC
* **
16946050 TGGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* ** *
16946091 TGGCCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCTGGTGCTA
1 TGGTCTTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTC
* * *
16946133 TGATCTTTAGCTGCGTTTTTGCAAAAGCGCCGCTAATGC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
16946172 AAAATACTAT
Statistics
Matches: 282, Mismatches: 42, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
40 1 0.00
41 247 0.88
42 34 0.12
ACGTcount: A:0.18, C:0.21, G:0.27, T:0.33
Consensus pattern (41 bp):
TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
Found at i:16946428 original size:22 final size:21
Alignment explanation
Indices: 16946387--16946436 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
16946377 GAGTTACTAT
*
16946387 TTTAAGGTTTAGGGAGTATGAA
1 TTTAAGGATTAGGGAGTATG-A
* * *
16946409 TTTAAGGATTATGGATTATGG
1 TTTAAGGATTAGGGAGTATGA
16946430 TTTAAGG
1 TTTAAGG
16946437 GTAGGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (21 bp):
TTTAAGGATTAGGGAGTATGA
Found at i:16946506 original size:22 final size:22
Alignment explanation
Indices: 16946457--16946499 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16946447 AAGGTTTAGG
* *
16946457 GGTTAGCGGTTAAGGGTTTAAA
1 GGTTAGAGGTTAAGGGGTTAAA
*
16946479 GGTTAGAGGTTATGGGGTTAA
1 GGTTAGAGGTTAAGGGGTTAA
16946500 GAGTTAGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.02, G:0.40, T:0.33
Consensus pattern (22 bp):
GGTTAGAGGTTAAGGGGTTAAA
Found at i:16946873 original size:301 final size:290
Alignment explanation
Indices: 16946326--16946912 Score: 754
Period size: 294 Copynumber: 2.0 Consensus size: 290
16946316 TTAGGGTTTT
* * *
16946326 GGGTTTTTGGTTTAGTGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTACTATTTTA
1 GGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAGGAGTTACTATTTTA
*
16946391 AGGTTTAGGGAGTATGAATTTAAGGATTATGGATTATGGTTTAAGGGTAGGAATTTAAGGTTTAG
66 AGGTTTAGGGAGTATGAATTTAAGGATTATAGATTATGGTTTAAGGGTAGGAATTTAAGGTTTAG
* * *
16946456 GGGTTAGCGGTTAAGGGTTTAAAGGTTAGAGGTTATGGGGTTAAGAGTTAGGGATTTAAGGGTCG
131 GGGTTAGCGGTTAAGGGTTTAAAGGTTAGAAGTTATGGGGTTAAGAGTTAGGGACTCAAGGGTCG
*
16946521 GTTAGGTTTTTGGGTGTAGATTAATTAGTTTTTTTAATTTATATTTTAAATATGTTCTTATATAT
196 GTTAGGGTTTTGGGTGTAGATTAATTAGTTTTTTTAATTTATATTTTAAATATGTTC---T-TAT
16946586 ATAATTGTAAAAGAAATAATAATAAATTTATTTA
257 ATAATTGTAAAAGAAATAATAATAAATTTATTTA
16946620 GGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAGGAGTTACTATTTTA
1 GGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAGGAGTTACTATTTTA
* * * *
16946685 AGGTTTAGGGAGTATGGATTTAGGGATTATAGATTAAGGAACATGGTTTAAGGGTTGGGATTTAA
66 AGGTTTAGGGAGTATGAATTTAAGGATTATAGATT-------ATGGTTTAAGGGTAGGAATTTAA
* * * *** * *
16946750 GGTTTAGGGGTTTTGGGGTT-AGATGTTTTGGGGTTA-ATAGTTA-GGGATTTTAG-GTTTA-GG
124 GGTTTAGGGG-TTAGCGGTTAAG-GGTTTAAAGGTTAGA-AGTTATGGG-GTTAAGAG-TTAGGG
* * * *
16946810 CCTCAGGGGTCGGGTTGGGGTTTTGGGTTTAGATTAATTAG-TTTTTTAATTTATATTTTAAATA
184 ACTCAAGGGTC-GGTTAGGGTTTTGGGTGTAGATTAATTAGTTTTTTTAATTTATATTTTAAATA
*
16946874 TGTTCTTATATAATTGTAAAAGAGATAATAATAAATTTA
248 TGTTCTTATATAATTGTAAAAGAAATAATAATAAATTTA
16946913 ATATATTGAA
Statistics
Matches: 255, Mismatches: 25, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
294 94 0.37
297 32 0.13
298 1 0.00
301 75 0.29
302 53 0.21
ACGTcount: A:0.29, C:0.03, G:0.27, T:0.42
Consensus pattern (290 bp):
GGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAGGAGTTACTATTTTA
AGGTTTAGGGAGTATGAATTTAAGGATTATAGATTATGGTTTAAGGGTAGGAATTTAAGGTTTAG
GGGTTAGCGGTTAAGGGTTTAAAGGTTAGAAGTTATGGGGTTAAGAGTTAGGGACTCAAGGGTCG
GTTAGGGTTTTGGGTGTAGATTAATTAGTTTTTTTAATTTATATTTTAAATATGTTCTTATATAA
TTGTAAAAGAAATAATAATAAATTTATTTA
Found at i:16947230 original size:19 final size:19
Alignment explanation
Indices: 16947206--16947253 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
16947196 AAATTATAAG
* *
16947206 AAATAAAATTAAAATACAA
1 AAATAAAAATAAAATAAAA
* *
16947225 AAATAAAAATGAATTAAAA
1 AAATAAAAATAAAATAAAA
16947244 AAATAAAAAT
1 AAATAAAAAT
16947254 TATAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (19 bp):
AAATAAAAATAAAATAAAA
Found at i:16948863 original size:19 final size:18
Alignment explanation
Indices: 16948839--16948892 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
16948829 TAATGTTTAC
*
16948839 TATATTATTATTTTAATAT
1 TATATTATTA-TTTAATAA
16948858 TATATTA-TATTTAATAA
1 TATATTATTATTTAATAA
*
16948875 TACTTTTATTATTTAATA
1 TA-TATTATTATTTAATA
16948893 CATTAGCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 9 0.29
18 6 0.19
19 16 0.52
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATTATTATTTAATAA
Found at i:16951178 original size:27 final size:26
Alignment explanation
Indices: 16951148--16951204 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
16951138 AATTTCGAGG
*
16951148 TTTACAATTTT-TAATTTTTATTAATTA
1 TTTAC-ATTTTATAAGTTTTATTAA-TA
* *
16951175 TTTACGTTTTATCAGTTTTATTAATA
1 TTTACATTTTATAAGTTTTATTAATA
16951201 TTTA
1 TTTA
16951205 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTACATTTTATAAGTTTTATTAATA
Found at i:16951541 original size:43 final size:43
Alignment explanation
Indices: 16951391--16951533 Score: 157
Period size: 43 Copynumber: 3.4 Consensus size: 43
16951381 ATGATATGTT
* ** * * * **
16951391 TTTAGCGGCGTTTTTGCGAGAAGCGTCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGAGC
* * *
16951433 TATAGCGGCGTTTGTAACAAAAGCGCCGCTAAAGGTCATGAGC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGAGC
16951476 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATG-GTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGAG-C
16951519 TTTAG-GGCGTTTGTG
1 TTTAGCGGCGTTTGTG
16951534 GGTAAAAGGG
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 40 0.47
43 46 0.53
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGAGC
Found at i:16953862 original size:36 final size:36
Alignment explanation
Indices: 16953815--16953887 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
16953805 AGAAAGAGAG
16953815 ATATTGGATAGTTCTAAAAACTACTTAGATTATGCA
1 ATATTGGATAGTTCTAAAAACTACTTAGATTATGCA
16953851 ATATTGGATAGTTCTAAAAACTACTTAGATTATGCA
1 ATATTGGATAGTTCTAAAAACTACTTAGATTATGCA
16953887 A
1 A
16953888 GTTACTATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.36
Consensus pattern (36 bp):
ATATTGGATAGTTCTAAAAACTACTTAGATTATGCA
Found at i:16955994 original size:11 final size:11
Alignment explanation
Indices: 16955978--16956006 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
16955968 TTAGTGAAAA
16955978 AGAAAAAAATG
1 AGAAAAAAATG
16955989 AGAAAAAAATG
1 AGAAAAAAATG
16956000 AGAAAAA
1 AGAAAAA
16956007 GTGAGAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (11 bp):
AGAAAAAAATG
Found at i:16955996 original size:10 final size:10
Alignment explanation
Indices: 16955981--16956014 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
16955971 GTGAAAAAGA
16955981 AAAAAATGAG
1 AAAAAATGAG
16955991 AAAAAAATGAG
1 -AAAAAATGAG
*
16956002 AAAAAGTGAG
1 AAAAAATGAG
16956012 AAA
1 AAA
16956015 TTTCCCGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.09
Consensus pattern (10 bp):
AAAAAATGAG
Found at i:16956011 original size:21 final size:19
Alignment explanation
Indices: 16955974--16956014 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
16955964 TTGATTAGTG
16955974 AAAAAGAAAAAAATGAGAA
1 AAAAAGAAAAAAATGAGAA
*
16955993 AAAAATGAGAAAAAGTGAGAA
1 AAAAA-GA-AAAAAATGAGAA
16956014 A
1 A
16956015 TTTCCCGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (19 bp):
AAAAAGAAAAAAATGAGAA
Found at i:16956245 original size:101 final size:100
Alignment explanation
Indices: 16956125--16956371 Score: 298
Period size: 101 Copynumber: 2.5 Consensus size: 100
16956115 AAAGTGATGG
* * * *
16956125 TCACGTGTGTATTACTATGTGTAGGATACTACATGTATCAGAATGAAAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCAGAATGAAAGGTCACATGTGTAGTAC
* * * * *
16956190 TATGTTCAGGCTACTATGCGTACCAGATAGCTTCGA
66 TATGTGCAGACTACTACGCGAACCAGAAAG-TTCGA
* * * * *
16956226 TCACGTGTGTAGTAGTATGTGCAGGCTACTACATGTATCAGATATTAATGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCAGA-ATGAAAGGTCACATGTGTAGTA
* * *
16956291 CTATGTGCAGACTACTACGTGAACCGGAAAGTTTGA
65 CTATGTGCAGACTACTACGCGAACCAGAAAGTTCGA
* *
16956327 TCACGTGTGCAGTACTATGTGAAGGCTACTACGTGTATC-GAATGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCAGAATGA
16956372 TAATAGTTAA
Statistics
Matches: 124, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 3 0.02
100 2 0.02
101 77 0.62
102 42 0.34
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCAGAATGAAAGGTCACATGTGTAGTAC
TATGTGCAGACTACTACGCGAACCAGAAAGTTCGA
Found at i:16956268 original size:51 final size:50
Alignment explanation
Indices: 16956180--16956363 Score: 208
Period size: 51 Copynumber: 3.6 Consensus size: 50
16956170 AAAGGTCGCA
* * * *
16956180 TGTGTAGTACTATGTTCAGGCTACTATGCGTACCAGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-TTTGATCACG
* * * *
16956231 TGTGTAGTAGTATGTGCAGGCTACTACATGTATCAGATA-TTAATGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTT--TGATCACG
* * * *
16956282 TGTGTAGTACTATGTGCAGACTACTACGTGAACCGGAAAGTTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTTTGATCACG
* *
16956332 TGTGCAGTACTATGTGAAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTA
16956364 TCGAATGATA
Statistics
Matches: 110, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
49 2 0.02
50 35 0.32
51 71 0.65
52 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTTTGATCACG
Found at i:16958560 original size:17 final size:17
Alignment explanation
Indices: 16958538--16958570 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16958528 ATTTGATTAC
16958538 CCAATTAAATTAATTCT
1 CCAATTAAATTAATTCT
*
16958555 CCAATTAATTTAATTC
1 CCAATTAAATTAATTC
16958571 ATGTGACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (17 bp):
CCAATTAAATTAATTCT
Found at i:16978368 original size:17 final size:17
Alignment explanation
Indices: 16978346--16978386 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
16978336 TTAATACTTA
16978346 AAAAAATGAAAA-AAAAG
1 AAAAAA-GAAAAGAAAAG
16978363 AAAAAAGAAAAGAAAAG
1 AAAAAAGAAAAGAAAAG
16978380 AAGAAAA
1 AA-AAAA
16978387 AAGTATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 13 0.59
18 4 0.18
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAAGAAAAG
Found at i:16978398 original size:20 final size:19
Alignment explanation
Indices: 16978345--16978401 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
16978335 ATTAATACTT
*
16978345 AAAAAA-ATGAAAAAAAAG
1 AAAAAAGATGAAAAAGAAG
**
16978363 AAAAAAGAAAAGAAAAGAAG
1 AAAAAAGATGA-AAAAGAAG
16978383 AAAAAAGTATGAAAAAGAA
1 AAAAAAG-ATGAAAAAGAA
16978402 TTTGAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 6 0.19
19 2 0.06
20 21 0.68
21 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (19 bp):
AAAAAAGATGAAAAAGAAG
Found at i:16981228 original size:30 final size:30
Alignment explanation
Indices: 16981194--16981274 Score: 135
Period size: 30 Copynumber: 2.7 Consensus size: 30
16981184 TTTACGAGCC
16981194 TAGGGGCAAAATTGTAATTTTGTGAAACTT
1 TAGGGGCAAAATTGTAATTTTGTGAAACTT
16981224 TAGGGGCAAAATTGTAATTTTGTGAAACTT
1 TAGGGGCAAAATTGTAATTTTGTGAAACTT
* **
16981254 TAGGGGAAAAATCATAATTTT
1 TAGGGGCAAAATTGTAATTTT
16981275 TCCAAAGTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (30 bp):
TAGGGGCAAAATTGTAATTTTGTGAAACTT
Found at i:16981653 original size:45 final size:45
Alignment explanation
Indices: 16981597--16981691 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
16981587 TACTATTTGA
* *
16981597 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
16981642 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
16981687 ACCGA
1 ACCGA
16981692 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:16986056 original size:29 final size:29
Alignment explanation
Indices: 16986004--16986157 Score: 150
Period size: 29 Copynumber: 5.3 Consensus size: 29
16985994 TTTTTGTAGT
* * * *
16986004 TATCTCTATTCAATGGATGCCTTTATGGC
1 TATCTCTATTAAAAGGAAGTCTTTATGGC
* *
16986033 TATCTTTATTAAAAGGAAGTCTTTGTGGC
1 TATCTCTATTAAAAGGAAGTCTTTATGGC
*
16986062 TATCTCTATTAAAAGAAAGTCATTT-TGGC
1 TATCTCTATTAAAAGGAAGTC-TTTATGGC
* *
16986091 TATCTCTGTGAAAAGGAAG-CTTTTATGGC
1 TATCTCTATTAAAAGGAAGTC-TTTATGGC
** * *
16986120 TATCTCTGCTAAAAGGAAGCCTTTGTGGC
1 TATCTCTATTAAAAGGAAGTCTTTATGGC
*
16986149 AATCTCTAT
1 TATCTCTAT
16986158 CAAAGGATTC
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
28 4 0.04
29 96 0.92
30 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (29 bp):
TATCTCTATTAAAAGGAAGTCTTTATGGC
Found at i:16987992 original size:33 final size:30
Alignment explanation
Indices: 16987930--16988053 Score: 136
Period size: 28 Copynumber: 4.2 Consensus size: 30
16987920 CAACATGCAG
* *
16987930 TAACAGTCTGGGCCTGAGCCCTAAT-CAGTAA
1 TAACAGTGTGGGCCTTAGCCC-AATACAG-AA
*
16987961 TAGCACAGTGTGGGCCTTAGCCCGATACAG--
1 TA--ACAGTGTGGGCCTTAGCCCAATACAGAA
16987991 TAACAGTGTGGGCCTTAGCCCAATAC--AA
1 TAACAGTGTGGGCCTTAGCCCAATACAGAA
16988019 TAACAGTGTGGGCCTTAGCCCAATACAG--
1 TAACAGTGTGGGCCTTAGCCCAATACAGAA
16988047 TAACAGT
1 TAACAGT
16988054 ATAGTGCAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 17
0.80 0.04 0.17
Matches are distributed among these distances:
28 56 0.68
30 2 0.02
31 2 0.02
32 2 0.02
33 20 0.24
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (30 bp):
TAACAGTGTGGGCCTTAGCCCAATACAGAA
Found at i:16988005 original size:28 final size:28
Alignment explanation
Indices: 16987965--16988053 Score: 160
Period size: 28 Copynumber: 3.2 Consensus size: 28
16987955 CAGTAATAGC
*
16987965 ACAGTGTGGGCCTTAGCCCGATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
16987993 ACAGTGTGGGCCTTAGCCCAATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
16988021 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
16988049 ACAGT
1 ACAGT
16988054 ATAGTGCAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:16988045 original size:56 final size:60
Alignment explanation
Indices: 16987927--16988053 Score: 181
Period size: 56 Copynumber: 2.2 Consensus size: 60
16987917 ATACAACATG
* *
16987927 CAGTAACAGTCTGGGCCTGAGCCCTAATCAGTAATAGCACAGTGTGGGCCTTAGCCCGATA
1 CAGTAACAGTCTGGGCCTGAGCCCTAATCAGCAATA-CACAGTGTGGGCCTTAGCCCAATA
* *
16987988 CAGTAACAGTGTGGGCCTTAGCCC-AAT-A-CAATA-ACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTCTGGGCCTGAGCCCTAATCAGCAATACACAGTGTGGGCCTTAGCCCAATA
16988044 CAGTAACAGT
1 CAGTAACAGT
16988054 ATAGTGCAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
56 32 0.52
58 4 0.06
59 1 0.02
60 3 0.05
61 22 0.35
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.21
Consensus pattern (60 bp):
CAGTAACAGTCTGGGCCTGAGCCCTAATCAGCAATACACAGTGTGGGCCTTAGCCCAATA
Found at i:16988164 original size:26 final size:26
Alignment explanation
Indices: 16988141--16988241 Score: 148
Period size: 26 Copynumber: 3.9 Consensus size: 26
16988131 CCAATATCGT
*
16988141 AGCAAAGCTGCCAGTAACAGTATCAT
1 AGCAAAGCTGCCAGTAACAGTATCAC
*
16988167 AACAAAGCTGCCAGTAACAGTATCAC
1 AGCAAAGCTGCCAGTAACAGTATCAC
* * *
16988193 AGCAAAGTTGCCAATAACAGTATCGC
1 AGCAAAGCTGCCAGTAACAGTATCAC
*
16988219 AGCAAAGCTGCCAGTAATAGTAT
1 AGCAAAGCTGCCAGTAACAGTAT
16988242 ACTTCCTCTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 66 1.00
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.19
Consensus pattern (26 bp):
AGCAAAGCTGCCAGTAACAGTATCAC
Found at i:16988428 original size:27 final size:27
Alignment explanation
Indices: 16988398--16988458 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
16988388 ACAGTTATTT
16988398 TACCC-TATGGGGGTATTTCAGGCATTC
1 TACCCTTA-GGGGGTATTTCAGGCATTC
* * *
16988425 TACCCTTAGGGTGTATTTCAGTCATTT
1 TACCCTTAGGGGGTATTTCAGGCATTC
16988452 TACCCTT
1 TACCCTT
16988459 CGGAGGTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (27 bp):
TACCCTTAGGGGGTATTTCAGGCATTC
Found at i:16988483 original size:54 final size:52
Alignment explanation
Indices: 16988420--16988613 Score: 167
Period size: 54 Copynumber: 3.6 Consensus size: 52
16988410 GTATTTCAGG
* *
16988420 CATTCTACCCTTAGGGTGTATTTCAGTCATTTTACCCTTCGGAGGTAACTCGAT
1 CATTTTACCCTTAGGG-GTAATTCAGTCATTTTACCCTTCGGAGGTAA-TCGAT
* **
16988474 CATTTTACCCTTCGGGGGTAATTC-GATCATTTTACCCTTC-GAGGGTAATTAAGT
1 CATTTTACCCTT-AGGGGTAATTCAG-TCATTTTACCCTTCGGA-GGTAATCGA-T
* * * * * *
16988528 CATTTTACCCTCCAAGGGTAATTCTGTCATTTCACCCTTCGAAGGTAATTCGGT
1 CATTTTACCCT-TAGGGGTAATTCAGTCATTTTACCCTTCGGAGGTAA-TCGAT
* * *
16988582 CATTTTACCCATCGAGGGTATTTCAGTCATTT
1 CATTTTACCCTTAG-GGGTAATTCAGTCATTT
16988614 GCCTATAATT
Statistics
Matches: 112, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
53 5 0.04
54 101 0.90
55 6 0.05
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (52 bp):
CATTTTACCCTTAGGGGTAATTCAGTCATTTTACCCTTCGGAGGTAATCGAT
Found at i:16988529 original size:81 final size:81
Alignment explanation
Indices: 16988444--16988613 Score: 218
Period size: 81 Copynumber: 2.1 Consensus size: 81
16988434 GGTGTATTTC
* * * **
16988444 AGTCATTTTACCCTTC-GGAGGTAACTC-GATCATTTTACCCTTCGGGGGTAATTCGATCATTTT
1 AGTCATTTTACCCTCCAAG-GGTAACTCTG-TCATTTCACCCTTCGAAGGTAATTCGATCATTTT
*
16988507 ACCCTTCGAGGGTAATTA
64 ACCCATCGAGGGTAATTA
* *
16988525 AGTCATTTTACCCTCCAAGGGTAATTCTGTCATTTCACCCTTCGAAGGTAATTCGGTCATTTTAC
1 AGTCATTTTACCCTCCAAGGGTAACTCTGTCATTTCACCCTTCGAAGGTAATTCGATCATTTTAC
* *
16988590 CCATCGAGGGTATTTC
66 CCATCGAGGGTAATTA
16988606 AGTCATTT
1 AGTCATTT
16988614 GCCTATAATT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
81 75 0.97
82 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.36
Consensus pattern (81 bp):
AGTCATTTTACCCTCCAAGGGTAACTCTGTCATTTCACCCTTCGAAGGTAATTCGATCATTTTAC
CCATCGAGGGTAATTA
Found at i:16988596 original size:27 final size:27
Alignment explanation
Indices: 16988445--16988613 Score: 178
Period size: 27 Copynumber: 6.3 Consensus size: 27
16988435 GTGTATTTCA
* *
16988445 GTCATTTTACCCTTCGGAGGTAACTCG
1 GTCATTTTACCCTTCGAAGGTAATTCG
* **
16988472 ATCATTTTACCCTTCGGGGGTAATTCG
1 GTCATTTTACCCTTCGAAGGTAATTCG
* * **
16988499 ATCATTTTACCCTTCGAGGGTAATTAA
1 GTCATTTTACCCTTCGAAGGTAATTCG
* *
16988526 GTCATTTTACCC-TCCAAGGGTAATTCT
1 GTCATTTTACCCTTCGAA-GGTAATTCG
*
16988553 GTCATTTCACCCTTCGAAGGTAATTCG
1 GTCATTTTACCCTTCGAAGGTAATTCG
* * * *
16988580 GTCATTTTACCCATCGAGGGTATTTCA
1 GTCATTTTACCCTTCGAAGGTAATTCG
16988607 GTCATTT
1 GTCATTT
16988614 GCCTATAATT
Statistics
Matches: 121, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.02
27 114 0.94
28 4 0.03
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAAGGTAATTCG
Found at i:16991022 original size:18 final size:18
Alignment explanation
Indices: 16990999--16991033 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16990989 TGGTTGATTC
16990999 TAATGAGAATAATAATGT
1 TAATGAGAATAATAATGT
*
16991017 TAATGAGCATAATAATG
1 TAATGAGAATAATAATG
16991034 CACAAATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.31
Consensus pattern (18 bp):
TAATGAGAATAATAATGT
Found at i:16992739 original size:34 final size:34
Alignment explanation
Indices: 16992696--16992765 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
16992686 TTTTCAACAG
16992696 TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
1 TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
16992730 TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
1 TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
16992764 TA
1 TA
16992766 CTTTGTTTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (34 bp):
TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
Found at i:16992980 original size:31 final size:31
Alignment explanation
Indices: 16992942--16993002 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
16992932 TTGCGAGCAT
* * *
16992942 AGCTCCCTATGCTAGTTCTCTGTGATAAGTA
1 AGCTCCCTATGCGAGCTCTCTATGATAAGTA
16992973 AGCTCCCTATGCGAGCTCTCTATGATAAGT
1 AGCTCCCTATGCGAGCTCTCTATGATAAGT
16993003 CTCTGTGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (31 bp):
AGCTCCCTATGCGAGCTCTCTATGATAAGTA
Found at i:16998755 original size:18 final size:17
Alignment explanation
Indices: 16998724--16998757 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16998714 TATTTATGGA
*
16998724 TATTTTATATTTTTTTC
1 TATTTTATAATTTTTTC
16998741 TATTTCTATAATTTTTT
1 TATTT-TATAATTTTTT
16998758 TATATATTTG
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:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTATAATTTTTTC
Found at i:16998949 original size:17 final size:17
Alignment explanation
Indices: 16998891--16998954 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 17
16998881 TATATTTTTC
* *
16998891 TTTCTATTTTTTCT-TT
1 TTTCTATTTTATATATT
*
16998907 TTTCTTTTTTATATATT
1 TTTCTATTTTATATATT
* **
16998924 TATGGATTTTATATATT
1 TTTCTATTTTATATATT
16998941 TTTCTATTTT-TATA
1 TTTCTATTTTATATA
16998955 AATTTCAAAT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
16 15 0.41
17 22 0.59
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTCTATTTTATATATT
Found at i:16999084 original size:21 final size:22
Alignment explanation
Indices: 16999046--16999091 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
16999036 TTTCTATTAT
*
16999046 TATTATTATTATTTAAAATTTA
1 TATTATTATTATTTAAAATGTA
16999068 TATT-TTATT-TTTAAAAATGTA
1 TATTATTATTATTT-AAAATGTA
16999089 TAT
1 TAT
16999092 ACATTTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 15 0.68
22 4 0.18
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTATTATTATTTAAAATGTA
Found at i:17002585 original size:16 final size:16
Alignment explanation
Indices: 17002564--17002595 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17002554 TGACATGTGG
*
17002564 CAATTTTTTGTTCAAC
1 CAATTTTTTGTCCAAC
17002580 CAATTTTTTGTCCAAC
1 CAATTTTTTGTCCAAC
17002596 ATCAAATAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (16 bp):
CAATTTTTTGTCCAAC
Found at i:17004861 original size:27 final size:27
Alignment explanation
Indices: 17004810--17004862 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
17004800 AGTTGTGTCG
* * *
17004810 GCCAATTGGTTTGGCGAGCTGGGGTTT
1 GCCAATTGGTTTGGCAAACTAGGGTTT
*
17004837 GCCAGTTGGTTTGGCAAACTAGGGTT
1 GCCAATTGGTTTGGCAAACTAGGGTT
17004863 CACCATTCAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.32
Consensus pattern (27 bp):
GCCAATTGGTTTGGCAAACTAGGGTTT
Found at i:17006934 original size:27 final size:27
Alignment explanation
Indices: 17006885--17006972 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
17006875 GACAAACCCT
*
17006885 AAAGGAACTCATTTATGGCGCAATATG
1 AAAGGAACTCCTTTATGGCGCAATATG
* * *
17006912 AAAGGAATTCCTTTCTGGGGCAATATG
1 AAAGGAACTCCTTTATGGCGCAATATG
* *
17006939 AAAGGAACGCCTTTATGGCACAATATG
1 AAAGGAACTCCTTTATGGCGCAATATG
17006966 AAAGGAA
1 AAAGGAA
17006973 TGCCTCTGTG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (27 bp):
AAAGGAACTCCTTTATGGCGCAATATG
Found at i:17006977 original size:27 final size:27
Alignment explanation
Indices: 17006896--17006996 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
17006886 AAGGAACTCA
* *
17006896 TTTATGGCGCAATATGAAAGGAATTCC
1 TTTATGGCACAATATGAAAGGAATGCC
* ** *
17006923 TTTCTGGGGCAATATGAAAGGAACGCC
1 TTTATGGCACAATATGAAAGGAATGCC
17006950 TTTATGGCACAATATGAAAGGAATGCC
1 TTTATGGCACAATATGAAAGGAATGCC
* *
17006977 TCTGTGGCA-AAGTATGAAAG
1 TTTATGGCACAA-TATGAAAG
17006997 AGCAGTCTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.03
27 61 0.97
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (27 bp):
TTTATGGCACAATATGAAAGGAATGCC
Found at i:17006993 original size:54 final size:53
Alignment explanation
Indices: 17006885--17006996 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 53
17006875 GACAAACCCT
* * *
17006885 AAAGGAACTCATTTATGGCGCAATATGAAAGGAATTCCTTTCTGGGGCAATATG
1 AAAGGAACGCATTTATGGCACAATATGAAAGGAATGCC-TTCTGGGGCAATATG
* *
17006939 AAAGGAACGCCTTTATGGCACAATATGAAAGGAATGCC-TCTGTGGCAAAGTATG
1 AAAGGAACGCATTTATGGCACAATATGAAAGGAATGCCTTCTGGGGC-AA-TATG
17006993 AAAG
1 AAAG
17006997 AGCAGTCTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
52 7 0.14
53 2 0.04
54 42 0.82
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (53 bp):
AAAGGAACGCATTTATGGCACAATATGAAAGGAATGCCTTCTGGGGCAATATG
Found at i:17009703 original size:20 final size:20
Alignment explanation
Indices: 17009678--17009716 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
17009668 TTACTTCTTC
17009678 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
17009698 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
17009717 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:17009978 original size:49 final size:49
Alignment explanation
Indices: 17009916--17010159 Score: 152
Period size: 50 Copynumber: 4.8 Consensus size: 49
17009906 CTGATAATAA
* *
17009916 CATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTA-
1 CATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-G-TTCCTATAT
* * * * *
17009966 C-TGCCAATGCCATATCTCAAATATGGTCTTACATGGGAGTTCTTATAT
1 CATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCCTATAT
* * ** ** *
17010014 CGATGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCT-CTCATCT
1 C-ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCCT-ATAT
* * ** * *
17010064 CAATGCCAAAGCCATGTCCCAGACATGTTCTTATGTGGGACCTCCCATAACCTCAAT
1 C-ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCC-T-A--T--AT
* * *
17010121 AATCCCAATGCCATGTCCCACACATGGTCTTACATGGGA
1 CATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
17010160 TCTCATCCCC
Statistics
Matches: 146, Mismatches: 37, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
47 6 0.04
48 2 0.01
49 33 0.23
50 67 0.46
51 1 0.01
52 1 0.01
53 2 0.01
55 1 0.01
56 32 0.22
57 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (49 bp):
CATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCCTATAT
Found at i:17010309 original size:22 final size:21
Alignment explanation
Indices: 17010265--17010309 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
17010255 TCAACATTAA
**
17010265 ATAATTTCATAAAATAAGTAC
1 ATAATTTCATAAAATAACAAC
*
17010286 ATAATTTCTTGAAAATAACAAC
1 ATAATTTCAT-AAAATAACAAC
17010308 AT
1 AT
17010310 TAATAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.33
Consensus pattern (21 bp):
ATAATTTCATAAAATAACAAC
Found at i:17010891 original size:10 final size:11
Alignment explanation
Indices: 17010868--17010892 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17010858 CGAGGACTCC
17010868 AAAAACATTAA
1 AAAAACATTAA
17010879 AAAAACATTAA
1 AAAAACATTAA
17010890 AAA
1 AAA
17010893 CGAGGCTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAACATTAA
Found at i:17016089 original size:55 final size:55
Alignment explanation
Indices: 17016021--17016137 Score: 225
Period size: 55 Copynumber: 2.1 Consensus size: 55
17016011 CCAACAACTA
17016021 TGTCAAAATAACAAACTAGTTACCCTTAATTGCACTTACGCTTCATGATTTGTGG
1 TGTCAAAATAACAAACTAGTTACCCTTAATTGCACTTACGCTTCATGATTTGTGG
*
17016076 TTTCAAAATAACAAACTAGTTACCCTTAATTGCACTTACGCTTCATGATTTGTGG
1 TGTCAAAATAACAAACTAGTTACCCTTAATTGCACTTACGCTTCATGATTTGTGG
17016131 TGTCAAA
1 TGTCAAA
17016138 TGACCAATCA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.35
Consensus pattern (55 bp):
TGTCAAAATAACAAACTAGTTACCCTTAATTGCACTTACGCTTCATGATTTGTGG
Found at i:17022249 original size:27 final size:27
Alignment explanation
Indices: 17022218--17022357 Score: 165
Period size: 27 Copynumber: 5.1 Consensus size: 27
17022208 GTGAACCCTG
*
17022218 AAAGGAACACCTTTGTGGCATAATATA
1 AAAGGAACACCTTTGTGGCGTAATATA
* *
17022245 AAAGGAACACCTTTATGGCGTAAAATA
1 AAAGGAACACCTTTGTGGCGTAATATA
* *
17022272 AAAGGAACACCTTTGTGGCGCAATATG
1 AAAGGAACACCTTTGTGGCGTAATATA
** *
17022299 AAA-GAACCACCTTTGTGATGTAATATG
1 AAAGGAA-CACCTTTGTGGCGTAATATA
* *
17022326 AAGGGAACACCTTTGTGGCGAAATATGA
1 AAAGGAACACCTTTGTGGCGTAATAT-A
17022354 AAAG
1 AAAG
17022358 TAGCTTTTGT
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.03
27 85 0.90
28 6 0.06
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (27 bp):
AAAGGAACACCTTTGTGGCGTAATATA
Found at i:17022370 original size:26 final size:27
Alignment explanation
Indices: 17022335--17022414 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
17022325 GAAGGGAACA
17022335 CCTTTGTGGCGAAATATGAAA-AGTAG
1 CCTTTGTGGCGAAATATGAAAGAGTAG
*
17022361 CTTTTGTGGCGAAATATGAAAGAGTAG
1 CCTTTGTGGCGAAATATGAAAGAGTAG
* *
17022388 CCTTTATGGCGAAATATGAAATAGTAG
1 CCTTTGTGGCGAAATATGAAAGAGTAG
17022415 TGTAGCATCC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 20 0.41
27 29 0.59
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (27 bp):
CCTTTGTGGCGAAATATGAAAGAGTAG
Found at i:17023912 original size:27 final size:27
Alignment explanation
Indices: 17023869--17023935 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
17023859 TATGAAATAG
* *
17023869 AAGCCTTT-TCGGTGTATTTGTAAAGAA
1 AAGCCTTTGT-GGCGTATCTGTAAAGAA
17023896 AAGCCTTTGTGGCGTATCTGTAAAGAA
1 AAGCCTTTGTGGCGTATCTGTAAAGAA
* *
17023923 AAACTTTTGTGGC
1 AAGCCTTTGTGGC
17023936 AAGCCTCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.34
Consensus pattern (27 bp):
AAGCCTTTGTGGCGTATCTGTAAAGAA
Found at i:17025503 original size:26 final size:26
Alignment explanation
Indices: 17025465--17025514 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
17025455 GCATTACAAT
17025465 TAGCCTCTGTGGAGAAATATGAAAAG
1 TAGCCTCTGTGGAGAAATATGAAAAG
* * *
17025491 TAGCCTTTTTGGATAAATATGAAA
1 TAGCCTCTGTGGAGAAATATGAAA
17025515 TGTAACACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (26 bp):
TAGCCTCTGTGGAGAAATATGAAAAG
Found at i:17026734 original size:21 final size:21
Alignment explanation
Indices: 17026674--17026738 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
17026664 AGGCTGTACA
* *
17026674 GAAGCACATAAGTGCTAAATC
1 GAAGCACATAAGAGCTGAATC
* * * * *
17026695 GAAACCCATAAGGGTTGAATG
1 GAAGCACATAAGAGCTGAATC
*
17026716 GAAGCTCATAAGAGCTGAA-C
1 GAAGCACATAAGAGCTGAATC
17026736 GAA
1 GAA
17026739 AACCCAGAAG
Statistics
Matches: 33, Mismatches: 11, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
GAAGCACATAAGAGCTGAATC
Found at i:17026763 original size:42 final size:43
Alignment explanation
Indices: 17026695--17026809 Score: 109
Period size: 42 Copynumber: 2.7 Consensus size: 43
17026685 GTGCTAAATC
* * *
17026695 GAAACCCAT-AAGGGTTGAA-TGGAAGCTCATAAGAGCTGAAC-
1 GAAACCCATGAA-GGTTAAACTGAAAGCTCATAACAGCTGAACT
17026736 GAAAACCCA-GAAGGGTTAAACT-AAAGCTCGA-AACAGCTGAACT
1 G-AAACCCATGAA-GGTTAAACTGAAAGCTC-ATAACAGCTGAACT
*
17026779 GAAACCCATTAAGGTTAAACTGAAA-CTCATA
1 GAAACCCATGAAGGTTAAACTGAAAGCTCATA
17026810 TGAGTTAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
41 2 0.03
42 52 0.84
43 8 0.13
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (43 bp):
GAAACCCATGAAGGTTAAACTGAAAGCTCATAACAGCTGAACT
Found at i:17028270 original size:26 final size:27
Alignment explanation
Indices: 17028234--17028387 Score: 163
Period size: 27 Copynumber: 5.8 Consensus size: 27
17028224 GGGCTGTTAC
17028234 ATGAAA-AGTAGCCTTTGTGGCAAAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
* * **
17028260 ATGAAA-AGTAGCCCTTGTAGTGAAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
* *
17028286 ATGAAAGAATAACCTTTGTGGCAAAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
* *
17028313 ATGAAAGAATACCCTTTGTGGC-AAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
** *
17028339 ATGAAAGAGTAGCCTTTAAGGCAAAAC
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
*
17028366 ATGAAAGA-TAAGCTTTTGTGGC
1 ATGAAAGAGT-AGCCTTTGTGGC
17028388 GACTTTAAAG
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
26 51 0.48
27 55 0.52
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (27 bp):
ATGAAAGAGTAGCCTTTGTGGCAAAAT
Found at i:17028313 original size:53 final size:53
Alignment explanation
Indices: 17028245--17028373 Score: 156
Period size: 53 Copynumber: 2.4 Consensus size: 53
17028235 TGAAAAGTAG
*
17028245 CCTTTGTGGCAAAATATGAAA-AGTAGCCC-TTGTAGTG-AAATATGAAAGAATAA
1 CCTTTGTGGCAAAATATGAAAGAATA-CCCTTTGT-G-GCAAATATGAAAGAATAA
* *
17028298 CCTTTGTGGCAAAATATGAAAGAATACCCTTTGTGGCAAATATGAAAGAGTAG
1 CCTTTGTGGCAAAATATGAAAGAATACCCTTTGTGGCAAATATGAAAGAATAA
** *
17028351 CCTTTAAGGCAAAACATGAAAGA
1 CCTTTGTGGCAAAATATGAAAGA
17028374 TAAGCTTTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
52 1 0.01
53 59 0.88
54 7 0.10
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (53 bp):
CCTTTGTGGCAAAATATGAAAGAATACCCTTTGTGGCAAATATGAAAGAATAA
Found at i:17031742 original size:267 final size:269
Alignment explanation
Indices: 17031225--17031767 Score: 928
Period size: 267 Copynumber: 2.0 Consensus size: 269
17031215 TGACTTAGCC
* *
17031225 AATTAATACAGTTTATTCCTTAAAGTATCCCCTGTTTCACAGCTCGACAGGTCTCACCTCTTGGC
1 AATTAATACAGTTTATTCATTAAAATATCCCCTGTTTCACAGCTCGACAGGTCTCACCTCTTGGC
*
17031290 ACTAAAAATAAATTATCTCATTGCACAGAATTCATATAAGGTTATTGTTTGTTTGTTTTTTTTTT
66 ACTAAAAATAAATTATCTCATTGCACAGAATTCATATAAGGTTA---TTTGTTTG-TTTTCTTTT
17031355 GAAAATAGATTCACTAATAAATCTATACATATAAATTATGACCCATAATTCTTTCTCTAAAATTT
127 GAAAATAGATTCACTAATAAATCTATACATATAAATTATGACCCATAATTCTTTCTCTAAAATTT
* *
17031420 ATAATGATTTTCCAAAGTCAGAACAGGGGACTTCAAAAACCATTCTGACCCTGTCTCACTAAAAT
192 ATAATGATTTTCCAAAGTCAAAACAGGGGACTTCAAAAACCATTCTGAACCTGTCTCACTAAAAT
17031485 TCAAATATCTCAA
257 TCAAATATCTCAA
* *
17031498 AATTAGTACAGTTTATTCATTAAAATATCCCCTGTTTCACAGCTCGACAGGTCTGACCTCTTGGC
1 AATTAATACAGTTTATTCATTAAAATATCCCCTGTTTCACAGCTCGACAGGTCTCACCTCTTGGC
17031563 ACTAAAAATAAATTATCTCATTGCACAGAATTCATATAAGGTTA-TTGTTTG-TTTCTTTTGAAA
66 ACTAAAAATAAATTATCTCATTGCACAGAATTCATATAAGGTTATTTGTTTGTTTTCTTTTGAAA
* * * *
17031626 ATATATTCTCTAATAAATCTATACATATAAATTATGACCCATAATTCTTTCTGTACAATTTATAA
131 ATAGATTCACTAATAAATCTATACATATAAATTATGACCCATAATTCTTTCTCTAAAATTTATAA
*
17031691 TGATTTTCCAAAGTCAAAACAGGGGACTTCAAAAACCATTTTGAACCTGTCTCACTAAAATTCAA
196 TGATTTTCCAAAGTCAAAACAGGGGACTTCAAAAACCATTCTGAACCTGTCTCACTAAAATTCAA
17031756 ATATCTCAA
261 ATATCTCAA
17031765 AAT
1 AAT
17031768 ACAGAAAGCC
Statistics
Matches: 258, Mismatches: 12, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
267 146 0.57
269 7 0.03
273 105 0.41
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (269 bp):
AATTAATACAGTTTATTCATTAAAATATCCCCTGTTTCACAGCTCGACAGGTCTCACCTCTTGGC
ACTAAAAATAAATTATCTCATTGCACAGAATTCATATAAGGTTATTTGTTTGTTTTCTTTTGAAA
ATAGATTCACTAATAAATCTATACATATAAATTATGACCCATAATTCTTTCTCTAAAATTTATAA
TGATTTTCCAAAGTCAAAACAGGGGACTTCAAAAACCATTCTGAACCTGTCTCACTAAAATTCAA
ATATCTCAA
Found at i:17032485 original size:23 final size:23
Alignment explanation
Indices: 17032459--17032534 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
17032449 ATAAGTGCAA
17032459 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
17032482 CACTGTTATGTAGCCGAAGCTAT
1 CACTGATATGTAGCCGAAGCTAC
* *
17032505 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
17032528 CACTGAT
1 CACTGAT
17032535 CAATAACACT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:17039823 original size:23 final size:23
Alignment explanation
Indices: 17039797--17039895 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
17039787 ATAAGTGCAA
17039797 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
17039820 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
17039843 CACTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
17039866 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
17039889 CACTGAT
1 CACTGAT
17039896 CAATAACACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:17042461 original size:47 final size:47
Alignment explanation
Indices: 17042404--17042707 Score: 425
Period size: 47 Copynumber: 6.4 Consensus size: 47
17042394 ATTGATGTAC
* * *
17042404 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
17042451 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
17042500 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
17042547 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
17042594 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
17042641 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
17042688 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
17042708 TCCCGAAGGG
Statistics
Matches: 239, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 197 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:17042585 original size:22 final size:22
Alignment explanation
Indices: 17042558--17042679 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
17042548 CATGTGTATG
17042558 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
17042580 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
17042605 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
17042627 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
17042652 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
17042674 TGTGAT
1 TGTGAT
17042680 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:17047071 original size:27 final size:27
Alignment explanation
Indices: 17047026--17047086 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
17047016 GGGGTAAAGT
*
17047026 AGTCA-TTTACCTTCTAGGGGCATTAC
1 AGTCATTTTACCTTCTAGGGGCACTAC
*
17047052 GGTCATTTTACCTTAC-AGGGGCACTAC
1 AGTCATTTTACCTT-CTAGGGGCACTAC
17047079 AGTCATTT
1 AGTCATTT
17047087 AACAACCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 4 0.13
27 25 0.83
28 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (27 bp):
AGTCATTTTACCTTCTAGGGGCACTAC
Found at i:17050029 original size:20 final size:20
Alignment explanation
Indices: 17049979--17050038 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
17049969 GAGAATTTAA
* *
17049979 TGATTATCTTAATAGT-ATT
1 TGATTATCTTAATACTAAAT
*
17049998 TTATTAAT-TTAATACTAAAT
1 TGATT-ATCTTAATACTAAAT
*
17050018 TGATTATCTTAATATTAAAT
1 TGATTATCTTAATACTAAAT
17050038 T
1 T
17050039 TAATTTAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 13 0.39
20 20 0.61
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (20 bp):
TGATTATCTTAATACTAAAT
Found at i:17054922 original size:20 final size:20
Alignment explanation
Indices: 17054899--17054939 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17054889 CACTTTGGTT
17054899 CCTCTATGTGCACTTCAGTG
1 CCTCTATGTGCACTTCAGTG
* * *
17054919 CCTCTTTTTGCACTTCGGTG
1 CCTCTATGTGCACTTCAGTG
17054939 C
1 C
17054940 TTCTGTATAC
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:0.10, C:0.32, G:0.20, T:0.39
Consensus pattern (20 bp):
CCTCTATGTGCACTTCAGTG
Found at i:17058608 original size:20 final size:20
Alignment explanation
Indices: 17058572--17058614 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
17058562 TTATGCTAAA
*
17058572 TAAATGGAATGGAAAGTAAG
1 TAAATGGAATAGAAAGTAAG
*
17058592 TAAATGGAA-AGACAAGTATG
1 TAAATGGAATAGA-AAGTAAG
17058612 TAA
1 TAA
17058615 GTAAGTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.51, C:0.02, G:0.26, T:0.21
Consensus pattern (20 bp):
TAAATGGAATAGAAAGTAAG
Found at i:17066795 original size:23 final size:24
Alignment explanation
Indices: 17066756--17066816 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 24
17066746 TTTCTAGGAA
17066756 ACCAAACAAAAACCCCTC-A-AACAAC
1 ACCAAA-AAAAA-CCCTCGAGAA-AAC
17066781 ACCAAAAAAAACCCTCGAGAAAAC
1 ACCAAAAAAAACCCTCGAGAAAAC
17066805 A--AAAAAAAACCC
1 ACCAAAAAAAACCC
17066817 GAAATTTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.32
23 5 0.15
24 10 0.29
25 8 0.24
ACGTcount: A:0.61, C:0.33, G:0.03, T:0.03
Consensus pattern (24 bp):
ACCAAAAAAAACCCTCGAGAAAAC
Found at i:17068333 original size:26 final size:26
Alignment explanation
Indices: 17068304--17068353 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
17068294 TAAAAATTGT
17068304 TTTTGA-AAAGTGCTGTAGAAAAGTAC
1 TTTTGAGAAA-TGCTGTAGAAAAGTAC
* *
17068330 TTTTGAGAAATGCTTTTGAAAAGT
1 TTTTGAGAAATGCTGTAGAAAAGT
17068354 TTGGTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (26 bp):
TTTTGAGAAATGCTGTAGAAAAGTAC
Found at i:17075825 original size:29 final size:29
Alignment explanation
Indices: 17075782--17075890 Score: 89
Period size: 29 Copynumber: 3.8 Consensus size: 29
17075772 CCTTTACTGG
*
17075782 GATTTCCACAGAGGCCTTCCTTTGATAAA
1 GATTTCCACAAAGGCCTTCCTTTGATAAA
* * *
17075811 GATTCCCACAAAGGCGTTTCC-TTG-TAGA
1 GATTTCCACAAAGGC-CTTCCTTTGATAAA
* * *
17075839 GATTTTCCACAAAGGCATT-CTTTAACAAA
1 GA-TTTCCACAAAGGCCTTCCTTTGATAAA
* * *
17075868 GGTTGCCACAAAGGCCTACCTTT
1 GATTTCCACAAAGGCCTTCCTTT
17075891 CCAAAGTTTT
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
27 1 0.02
28 22 0.35
29 35 0.56
30 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (29 bp):
GATTTCCACAAAGGCCTTCCTTTGATAAA
Done.