Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 48 of 240
Found at i:16466953 original size:33 final size:35
Alignment explanation
Indices: 16466857--16466954 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 35
16466847 GTTAATATTT
*
16466857 TAATATATGAAATATAAATTTTAAATATTT--TTAAG
1 TAATATAT-AAAT-TATATTTTAAATATTTAATTAAG
* *
16466892 TAATAAATATTAATTAT-TTATAAA-ATTTAATT-AG
1 TAAT--ATATAAATTATATTTTAAATATTTAATTAAG
16466926 -AATATATAAATTATATTTTAAATATTTAA
1 TAATATATAAATTATATTTTAAATATTTAA
16466955 ATATAACCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.19
32 6 0.12
33 13 0.25
34 8 0.15
35 8 0.15
36 3 0.06
37 4 0.08
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (35 bp):
TAATATATAAATTATATTTTAAATATTTAATTAAG
Found at i:16480712 original size:41 final size:41
Alignment explanation
Indices: 16480635--16480713 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
16480625 CCTGATTCAG
* *
16480635 TTCACTGGCATAAAGCCTGCTAGACATAAAGTCTGAAATAA
1 TTCACCGGCATAAAGCCTGCTAGACATAAAGCCTGAAATAA
* * * **
16480676 TTCACCGGCATTAATCCTGCTAGGCATCGAGCCTGAAA
1 TTCACCGGCATAAAGCCTGCTAGACATAAAGCCTGAAA
16480714 ATCACAAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (41 bp):
TTCACCGGCATAAAGCCTGCTAGACATAAAGCCTGAAATAA
Found at i:16489026 original size:15 final size:15
Alignment explanation
Indices: 16489006--16489036 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16488996 GTCATGTAAG
16489006 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
16489021 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
16489036 T
1 T
16489037 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:16489226 original size:17 final size:17
Alignment explanation
Indices: 16489193--16489231 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
16489183 TAAGCCTTTG
16489193 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
16489210 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
16489227 ATTTT
1 ATTTT
16489232 TCCACAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:16489998 original size:15 final size:15
Alignment explanation
Indices: 16489974--16490003 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16489964 TGGAGATCGA
*
16489974 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
16489989 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
16490004 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:16493385 original size:15 final size:15
Alignment explanation
Indices: 16493365--16493395 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16493355 GTCATGTAAG
16493365 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
16493380 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
16493395 T
1 T
16493396 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:16493585 original size:17 final size:17
Alignment explanation
Indices: 16493552--16493590 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
16493542 TAAGCTTTTG
16493552 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
16493569 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
16493586 ATTTT
1 ATTTT
16493591 TCCACATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:16503121 original size:6 final size:6
Alignment explanation
Indices: 16503112--16503153 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
16503102 CTAAAACCAC
* * *
16503112 ATAGCA ATAGTA ATAGGA ATAGGA ATAGGA ATAAGA ATAGGA
1 ATAGGA ATAGGA ATAGGA ATAGGA ATAGGA ATAGGA ATAGGA
16503154 TATCTTTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.52, C:0.02, G:0.26, T:0.19
Consensus pattern (6 bp):
ATAGGA
Found at i:16505844 original size:40 final size:40
Alignment explanation
Indices: 16505744--16505845 Score: 150
Period size: 40 Copynumber: 2.5 Consensus size: 40
16505734 TACTAATATG
* * *
16505744 GGCCTCGTGCCTAGCAGGCTATAAGGCGGTGGAATGTTTC
1 GGCCTTGTGCCTAGCAGGCTTTAAGCCGGTGGAATGTTTC
* *
16505784 GGCCTTGAGCCTAGCAGGCTTTAAGCCGGTGTAATGTTTC
1 GGCCTTGTGCCTAGCAGGCTTTAAGCCGGTGGAATGTTTC
*
16505824 GGCCTTGTGTCTAGCAGGCTTT
1 GGCCTTGTGCCTAGCAGGCTTT
16505846 GTGCTGGTGA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.16, C:0.23, G:0.32, T:0.29
Consensus pattern (40 bp):
GGCCTTGTGCCTAGCAGGCTTTAAGCCGGTGGAATGTTTC
Found at i:16507708 original size:27 final size:28
Alignment explanation
Indices: 16507678--16507735 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
16507668 TAGCTAACTT
*
16507678 CTTAACTGCTAACCAAC-TTAGTAACCA
1 CTTAACTGCTAACCAACTTTAGTAACAA
**
16507705 CTTAACTGCTAACTGACTTTAGTAACAA
1 CTTAACTGCTAACCAACTTTAGTAACAA
16507733 CTT
1 CTT
16507736 TGATCATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (28 bp):
CTTAACTGCTAACCAACTTTAGTAACAA
Found at i:16510230 original size:16 final size:16
Alignment explanation
Indices: 16510209--16510276 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
16510199 TTTGGTTCGC
16510209 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
16510225 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
16510241 TGTATTAGATTAAAGG
1 TGTATTGGATTAGAGG
*
16510257 TATATTGGATTAGAGG
1 TGTATTGGATTAGAGG
16510273 TGTA
1 TGTA
16510277 ATAGCAAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:16510532 original size:16 final size:16
Alignment explanation
Indices: 16510492--16510546 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
16510482 TTAATCATAT
*
16510492 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
16510508 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
16510523 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
16510541 -TAAAAT
1 TTAAAAT
16510547 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:16510539 original size:18 final size:17
Alignment explanation
Indices: 16510512--16510546 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16510502 TTTTTATTAA
*
16510512 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
16510530 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16510547 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16510659 original size:18 final size:17
Alignment explanation
Indices: 16510632--16510666 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16510622 TTACTATTAA
*
16510632 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
16510650 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16510667 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16510712 original size:61 final size:60
Alignment explanation
Indices: 16510527--16510717 Score: 155
Period size: 61 Copynumber: 3.2 Consensus size: 60
16510517 TTTTAATTAA
* *
16510527 AATATATAATTTAATAAAATTCTTAATAATT-AATATTCTTATATTAATTTACTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATAAATTTTCT-AAATCAT
* * * * * *
16510588 AATATATGATACT-GTAAAA-T-ATAA-ATTAACATAATTAC-TAT-TAAATATATT-TTAATTA
1 AATATATAAT-TTAATAAAATTCTTAATATTAA-AT-ATT-CTTATATAAAT-T-TTCTAAATCA
*
16510646 A
60 T
*
16510647 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCT-AAATCAT
16510708 AATATATAAT
1 AATATATAAT
16510718 ACTATGAAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 30
0.68 0.12 0.21
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 30 0.31
60 18 0.18
61 39 0.40
62 6 0.06
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCTAAATCAT
Found at i:16510795 original size:120 final size:120
Alignment explanation
Indices: 16510490--16510773 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
16510480 ATTTAATCAT
*
16510490 ATTTAAACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAT-
* * * *
16510555 ATT-AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATA
64 ATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
* *
16510611 AATTAACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
* *
16510676 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATGAAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
16510731 ATTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATA
16510774 TTTTCAATTA
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 133 0.89
121 3 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:16520794 original size:36 final size:36
Alignment explanation
Indices: 16520747--16520819 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
16520737 TCCTCACTAG
16520747 CCTTTCCTCGTCTTTTTCTTTTGTTTCTTTTTCTAA
1 CCTTTCCTCGTCTTTTTCTTTTGTTTCTTTTTCTAA
16520783 CCTTTCCTCGTCTTTTTCTTTTGTTTCTTTTTCTAA
1 CCTTTCCTCGTCTTTTTCTTTTGTTTCTTTTTCTAA
16520819 C
1 C
16520820 TCATTTTCTC
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:0.05, C:0.26, G:0.05, T:0.63
Consensus pattern (36 bp):
CCTTTCCTCGTCTTTTTCTTTTGTTTCTTTTTCTAA
Found at i:16520849 original size:23 final size:22
Alignment explanation
Indices: 16520798--16520849 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
16520788 CCTCGTCTTT
*
16520798 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
16520820 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
16520843 TTCTTTT
1 TTCTTTT
16520850 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:16520864 original size:18 final size:18
Alignment explanation
Indices: 16520843--16520881 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16520833 TTTCTTCAAC
* *
16520843 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
16520861 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
16520879 TTC
1 TTC
16520882 ACTCGCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:16527232 original size:34 final size:35
Alignment explanation
Indices: 16527176--16527242 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
16527166 CAAACACCAG
* * *
16527176 AAAATATTTTTCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
16527211 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
16527243 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:16527370 original size:12 final size:12
Alignment explanation
Indices: 16527353--16527398 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
16527343 GACACCCTTC
16527353 TTTTACTTTTTT
1 TTTTACTTTTTT
16527365 TTTTACTTTTTT
1 TTTTACTTTTTT
* *
16527377 ATTAACTTTTGTT
1 TTTTACTTTT-TT
*
16527390 TTTTTCTTT
1 TTTTACTTT
16527399 AAATTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 20 0.71
13 8 0.29
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTACTTTTTT
Found at i:16527393 original size:30 final size:30
Alignment explanation
Indices: 16527359--16527427 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
16527349 CTTCTTTTAC
*
16527359 TTTTTTT-TTT-ACTTTTTTATTAACTTTTG
1 TTTTTTTCTTTAAATTTTTT-TTAACTTTTG
* *
16527388 TTTTTTTCTTTAAATTTTTTTTAAGTTTTA
1 TTTTTTTCTTTAAATTTTTTTTAACTTTTG
*
16527418 TATTTTTCTT
1 TTTTTTTCTT
16527428 ATTTTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.21
30 20 0.59
31 7 0.21
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (30 bp):
TTTTTTTCTTTAAATTTTTTTTAACTTTTG
Found at i:16527466 original size:23 final size:22
Alignment explanation
Indices: 16527426--16527472 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
16527416 TATATTTTTC
*
16527426 TTATTTTATTTTGTTTATTCAT
1 TTATTTTATTTTGTTTATTAAT
*
16527448 TTATTTTATTTTTTGTTATTAAT
1 TTATTTTATTTTGT-TTATTAAT
16527471 TT
1 TT
16527473 TAAAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.74
Consensus pattern (22 bp):
TTATTTTATTTTGTTTATTAAT
Found at i:16527582 original size:13 final size:13
Alignment explanation
Indices: 16527544--16527585 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
16527534 TTAATAACAA
16527544 AAAATAAAATAAAT
1 AAAATAAAA-AAAT
16527558 -AAATAAACAAAAT
1 AAAATAAA-AAAAT
16527571 AAAATAAGAAAAAT
1 AAAATAA-AAAAAT
16527585 A
1 A
16527586 TAAAACTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.44
14 13 0.52
15 1 0.04
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:16527613 original size:23 final size:23
Alignment explanation
Indices: 16527570--16527624 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
16527560 ATAAACAAAA
* * *
16527570 TAAAATAAGAAAAATATAAAACT
1 TAAAAAAAGAAAAAGACAAAACT
*
16527593 TAAAAAAAGAAAAAGACAAAAGT
1 TAAAAAAAGAAAAAGACAAAACT
16527616 TAATAAAAA
1 TAA-AAAAA
16527625 AGTAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.16
Consensus pattern (23 bp):
TAAAAAAAGAAAAAGACAAAACT
Found at i:16527638 original size:13 final size:13
Alignment explanation
Indices: 16527594--16527646 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
16527584 TATAAAACTT
16527594 AAAAAAAG-AAAA
1 AAAAAAAGTAAAA
* *
16527606 AGACAAAAGT-TAA
1 A-AAAAAAGTAAAA
*
16527619 TAAAAAAGTAAAA
1 AAAAAAAGTAAAA
16527632 AAAAAAAGTAAAA
1 AAAAAAAGTAAAA
16527645 AA
1 AA
16527647 GGGTGTGTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
12 8 0.25
13 24 0.75
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (13 bp):
AAAAAAAGTAAAA
Found at i:16528355 original size:35 final size:35
Alignment explanation
Indices: 16528315--16528388 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
16528305 AAGCAAGGAA
*
16528315 TCAACCATATAGTTTTGTGATAACAAGGCAGCAAT
1 TCAACCATATAATTTTGTGATAACAAGGCAGCAAT
16528350 TCAACCATATAATTTTGTGATAACAAGGCAGCAAT
1 TCAACCATATAATTTTGTGATAACAAGGCAGCAAT
16528385 TCAA
1 TCAA
16528389 ATAGCAAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (35 bp):
TCAACCATATAATTTTGTGATAACAAGGCAGCAAT
Found at i:16530527 original size:17 final size:18
Alignment explanation
Indices: 16530505--16530538 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16530495 AAATAATTAG
16530505 ATATAAT-GAAAATAAAA
1 ATATAATAGAAAATAAAA
*
16530522 ATATAATATAAAATAAA
1 ATATAATAGAAAATAAA
16530539 GAAAACTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
ATATAATAGAAAATAAAA
Found at i:16538639 original size:16 final size:16
Alignment explanation
Indices: 16538618--16538648 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16538608 ATTTCATTCC
*
16538618 ATATATATACACATAT
1 ATATATAAACACATAT
16538634 ATATATAAACACATA
1 ATATATAAACACATA
16538649 ACCAATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (16 bp):
ATATATAAACACATAT
Found at i:16538948 original size:14 final size:14
Alignment explanation
Indices: 16538929--16538960 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
16538919 AACAACATAC
16538929 ACACAGTAACCTAG
1 ACACAGTAACCTAG
16538943 ACACAGTAACCTAG
1 ACACAGTAACCTAG
16538957 ACAC
1 ACAC
16538961 TTAATTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.12
Consensus pattern (14 bp):
ACACAGTAACCTAG
Found at i:16539573 original size:43 final size:43
Alignment explanation
Indices: 16539485--16539608 Score: 121
Period size: 43 Copynumber: 2.9 Consensus size: 43
16539475 AGCTAGTACA
* * * * *
16539485 ATGCCAACG-CCCTAGACGTGGTCTTACATGTAATCACATA-CCG
1 ATGCCGACGTCCC-AGACGTGGTCTTACACGAAAACACA-AGTCG
16539528 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAAACACAAGTCG
1 ATGCCGAC-GTCCCAGAC-GTGGTCTTACACGAAAACACAAGTCG
* *
16539571 ATGCCGACGTCCCATACGTGGTCTTACATGAAAACACA
1 ATGCCGACGTCCCAGACGTGGTCTTACACGAAAACACA
16539609 TATTGGAGTC
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
42 4 0.06
43 59 0.86
44 6 0.09
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (43 bp):
ATGCCGACGTCCCAGACGTGGTCTTACACGAAAACACAAGTCG
Found at i:16542263 original size:28 final size:28
Alignment explanation
Indices: 16542193--16542269 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
16542183 AGGTGCAAGA
* *
16542193 ACCC-TAATATGCGAACCCTCTAGGTGTG
1 ACCCATAATGTGCGAACCC-CTAAGTGTG
* *
16542221 ATCCATAATGAGCGAACCCCTAAGTGTG
1 ACCCATAATGTGCGAACCCCTAAGTGTG
16542249 AACCCAT-ATGTGCGAACCCCT
1 -ACCCATAATGTGCGAACCCCT
16542270 GTGAGTGAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 24 0.59
29 17 0.41
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (28 bp):
ACCCATAATGTGCGAACCCCTAAGTGTG
Found at i:16542277 original size:28 final size:28
Alignment explanation
Indices: 16542223--16542294 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
16542213 TAGGTGTGAT
* *
16542223 CCATAATGAGCGAACCCCTAAGTGTGAAC
1 CCAT-ATGTGCGAACCCCTAAGAGTGAAC
**
16542252 CCATATGTGCGAACCCCTGTGAGTGAAC
1 CCATATGTGCGAACCCCTAAGAGTGAAC
**
16542280 CTTGTATGTGCGAAC
1 C-CATATGTGCGAAC
16542295 TCATCTATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 21 0.58
29 15 0.42
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (28 bp):
CCATATGTGCGAACCCCTAAGAGTGAAC
Found at i:16542306 original size:29 final size:28
Alignment explanation
Indices: 16542274--16542337 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
16542264 ACCCCTGTGA
* *
16542274 GTGAACCTTGTATG-TGCGAACTCATCTAT
1 GTGAACCTT-TA-GATGCAAACCCATCTAT
16542303 GTGAACC-TTAGATGCAAACCCATCTAT
1 GTGAACCTTTAGATGCAAACCCATCTAT
16542330 GTGAACCT
1 GTGAACCT
16542338 CTAGGTGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.03
27 22 0.71
28 1 0.03
29 7 0.23
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (28 bp):
GTGAACCTTTAGATGCAAACCCATCTAT
Found at i:16542370 original size:172 final size:172
Alignment explanation
Indices: 16542084--16542467 Score: 416
Period size: 172 Copynumber: 2.2 Consensus size: 172
16542074 TGGCAACTGC
* *** * *
16542084 ATGTGCGAACCCCTGTAAACAAACCTTGTATGTGCGAACTCATCTGTGTAAACCCTAAGTGCGAA
1 ATGTGCGAACCCCTGTGAGTGAACCTTGTATGTGCGAACTCATCTATGTAAACCCTAAGTGCAAA
* * * * * * *
16542149 CCTATTCGTGTGAACCCCTTGGTGTGCGAACCCTAGGTGCAAGAACCCTAATATGCGAACCCTCT
66 CCCATTCATGTGAACCCCTAGGTGTACGAACCATAGGTGCAAGAACCCTAATATGCAAACCC-CC
* * *
16542214 AGGTGTGATCCATAATGAGCGAACCCCTAAGTGT-GAACCCAT
130 AGGTGCGATCCATAACGAGCGAACCCCTAAGTGTAAAACCCAT
* *
16542256 ATGTGCGAACCCCTGTGAGTGAACCTTGTATGTGCGAACTCATCTATGTGAA-CCTTAGATGCAA
1 ATGTGCGAACCCCTGTGAGTGAACCTTGTATGTGCGAACTCATCTATGTAAACCCTAAG-TGCAA
* * ** *
16542320 ACCCA-TCTATGTGAACCTCTAGGTGTATGAACCATAGGTGTGAGAACCCTAATGTGCAAACCCC
65 ACCCATTC-ATGTGAACCCCTAGGTGTACGAACCATAGGTGCAAGAACCCTAATATGCAAACCCC
* * *
16542384 CAGGTGCGATCCCTAACGATCGAACCCCTATGTGTACAAACCCAT
129 CAGGTGCGATCCATAACGAGCGAACCCCTAAGTGTA-AAACCCAT
** * * *
16542429 ATGTGC-AACCTTATATGTGTGACCCTTGTATGTGCGAAC
1 ATGTGCGAACC-CCTGTGAGTGAACCTTGTATGTGCGAAC
16542468 CCGACTTATA
Statistics
Matches: 176, Mismatches: 31, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
171 37 0.21
172 103 0.59
173 36 0.20
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (172 bp):
ATGTGCGAACCCCTGTGAGTGAACCTTGTATGTGCGAACTCATCTATGTAAACCCTAAGTGCAAA
CCCATTCATGTGAACCCCTAGGTGTACGAACCATAGGTGCAAGAACCCTAATATGCAAACCCCCA
GGTGCGATCCATAACGAGCGAACCCCTAAGTGTAAAACCCAT
Found at i:16543037 original size:27 final size:27
Alignment explanation
Indices: 16542981--16543043 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
16542971 AGTCTGTTAG
* *
16542981 GACATTAAAAATTGAGTAGCCCGTCGA
1 GACATTAAAAATTGAGTAGCCCGCCAA
*
16543008 GACATTAAAAATATG-GTAGTCCGCCAA
1 GACATTAAAAAT-TGAGTAGCCCGCCAA
*
16543035 GACGTTAAA
1 GACATTAAA
16543044 CATGGGATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (27 bp):
GACATTAAAAATTGAGTAGCCCGCCAA
Found at i:16544699 original size:70 final size:70
Alignment explanation
Indices: 16544581--16544720 Score: 253
Period size: 70 Copynumber: 2.0 Consensus size: 70
16544571 GATGCCCTTT
**
16544581 GGTCTTAAGAATGCAAGGGCAACATACCAGAGATTGGTTAATAGCATTTTTAGGAACATTGAGGT
1 GGTCTTAAGAATGCAAGGGCAACATACCAGAGATTGGCCAATAGCATTTTTAGGAACATTGAGGT
16544646 ATATG
66 ATATG
*
16544651 GGTCTTAAGAATGCAAGGGCAACATACCAGAGATTGGCCAATATCATTTTTAGGAACATTGAGGT
1 GGTCTTAAGAATGCAAGGGCAACATACCAGAGATTGGCCAATAGCATTTTTAGGAACATTGAGGT
16544716 ATATG
66 ATATG
16544721 TGGATGATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (70 bp):
GGTCTTAAGAATGCAAGGGCAACATACCAGAGATTGGCCAATAGCATTTTTAGGAACATTGAGGT
ATATG
Found at i:16545445 original size:39 final size:39
Alignment explanation
Indices: 16545402--16545482 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
16545392 AATTTTTTAC
* *
16545402 AAAGTT-ATGTTTCCAATAGGACATTGAGTATTTGGTTAG
1 AAAGTTGA-GTTTCCAACAGGACATTGAGTATTTGGCTAG
* ** *
16545441 AAAGTTGAGTTTTCAACAGGATTTTGAGTATTTTGCTAG
1 AAAGTTGAGTTTCCAACAGGACATTGAGTATTTGGCTAG
16545480 AAA
1 AAA
16545483 ATTGTATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 34 0.97
40 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.38
Consensus pattern (39 bp):
AAAGTTGAGTTTCCAACAGGACATTGAGTATTTGGCTAG
Found at i:16550178 original size:18 final size:18
Alignment explanation
Indices: 16550157--16550195 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16550147 GATTGAGAGT
* *
16550157 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
16550175 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
16550193 GAA
1 GAA
16550196 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:16550221 original size:23 final size:22
Alignment explanation
Indices: 16550195--16550237 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
16550185 TTGAAAAAGA
16550195 AGTT-GAAGAAAGAAGACAAAATG
1 AGTTAGAA-AAAGAA-ACAAAATG
16550218 AGTTAGAAAAAGAAACAAAA
1 AGTTAGAAAAAGAAACAAAA
16550238 GAAAAAGACG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 10 0.53
24 3 0.16
ACGTcount: A:0.63, C:0.05, G:0.21, T:0.12
Consensus pattern (22 bp):
AGTTAGAAAAAGAAACAAAATG
Found at i:16566950 original size:18 final size:18
Alignment explanation
Indices: 16566922--16566966 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
16566912 ACCTAAACTA
16566922 AAAATGAAAAGAAAAAAAG
1 AAAA-GAAAAGAAAAAAAG
*
16566941 AAAAGAAAAGAAAAATAG
1 AAAAGAAAAGAAAAAAAG
16566959 -AAAGAAAA
1 AAAAGAAAA
16566967 CCTAACCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.32
18 13 0.52
19 4 0.16
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (18 bp):
AAAAGAAAAGAAAAAAAG
Found at i:16578909 original size:21 final size:22
Alignment explanation
Indices: 16578879--16578923 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
16578869 ATGTCGAGAT
16578879 AATATTATTATATT-AAATATAA
1 AATATTATTAT-TTGAAATATAA
*
16578901 AATA-TATTATTTGTAATATAA
1 AATATTATTATTTGAAATATAA
16578922 AA
1 AA
16578924 GATTTCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 15 0.71
22 4 0.19
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
AATATTATTATTTGAAATATAA
Found at i:16583870 original size:30 final size:30
Alignment explanation
Indices: 16583834--16583891 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
16583824 CGCTTACATT
16583834 AATTTAT-T-TATATCTATATTTATCAATATA
1 AATTTATATCTATA-CT-TATTTATCAATATA
16583864 AATTTATATCTATACTTATTTATCAATA
1 AATTTATATCTATACTTATTTATCAATA
16583892 AAACATTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 19 0.73
31 3 0.12
32 4 0.15
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.52
Consensus pattern (30 bp):
AATTTATATCTATACTTATTTATCAATATA
Found at i:16587752 original size:13 final size:13
Alignment explanation
Indices: 16587727--16587763 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
16587717 GCTAAACACT
*
16587727 CAAA-TTTTAAAC
1 CAAACTTTTCAAC
16587739 CAAACTTTTCAAC
1 CAAACTTTTCAAC
16587752 CAAACTTTTCAA
1 CAAACTTTTCAA
16587764 AAGTACTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (13 bp):
CAAACTTTTCAAC
Found at i:16587771 original size:13 final size:13
Alignment explanation
Indices: 16587755--16587794 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
16587745 TTTCAACCAA
*
16587755 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
16587768 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
16587781 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
16587794 A
1 A
16587795 ATGAAGAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:16588503 original size:25 final size:24
Alignment explanation
Indices: 16588470--16588522 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
16588460 TTTTCTTGAA
**
16588470 AAAAATAAAATTAATTCTAAAAAAT
1 AAAAATAAAAGAAATT-TAAAAAAT
16588495 AAAAATAAAAGAAATTTAAAAAAT
1 AAAAATAAAAGAAATTTAAAAAAT
16588519 AAAA
1 AAAA
16588523 TGGTTTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (24 bp):
AAAAATAAAAGAAATTTAAAAAAT
Found at i:16591054 original size:18 final size:18
Alignment explanation
Indices: 16591033--16591068 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16591023 CTTTTAACTT
*
16591033 TTTTTTTGTTTTTATTAA
1 TTTTATTGTTTTTATTAA
*
16591051 TTTTATTGTTTTTTTTAA
1 TTTTATTGTTTTTATTAA
16591069 CATCTACCAA
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:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (18 bp):
TTTTATTGTTTTTATTAA
Found at i:16593543 original size:7 final size:7
Alignment explanation
Indices: 16593533--16593557 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16593523 CGTTTTTTAT
16593533 TAAAAAA
1 TAAAAAA
16593540 TAAAAAA
1 TAAAAAA
16593547 TAAAAAA
1 TAAAAAA
16593554 TAAA
1 TAAA
16593558 TAAAAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:16595290 original size:23 final size:24
Alignment explanation
Indices: 16595239--16595344 Score: 99
Period size: 26 Copynumber: 4.3 Consensus size: 24
16595229 AGTTTAAGCA
* **
16595239 AGCCATATCGGGAAGCTC-CAGCG
1 AGCCATATCAGGAAGCTCACAAAG
*
16595262 AACCATATCAGGAAGCTC-CAAAG
1 AGCCATATCAGGAAGCTCACAAAG
16595285 AGCCATTAATCAGGAAGCTCACAAAG
1 AGCCA-T-ATCAGGAAGCTCACAAAG
* * *
16595311 AGCCTTTAATCGGGAAGCTCACGAAG
1 AGCC-AT-ATCAGGAAGCTCACAAAG
16595337 AGCCATAT
1 AGCCATAT
16595345 ATTAGGACGC
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
23 23 0.33
24 3 0.04
25 13 0.19
26 31 0.44
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (24 bp):
AGCCATATCAGGAAGCTCACAAAG
Found at i:16595319 original size:26 final size:26
Alignment explanation
Indices: 16595268--16595342 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
16595258 AGCGAACCAT
16595268 ATCAGGAAGCTC-CAAAGAGCCATTA
1 ATCAGGAAGCTCACAAAGAGCCATTA
*
16595293 ATCAGGAAGCTCACAAAGAGCCTTTA
1 ATCAGGAAGCTCACAAAGAGCCATTA
* *
16595319 ATCGGGAAGCTCACGAAGAGCCAT
1 ATCAGGAAGCTCACAAAGAGCCAT
16595343 ATATTAGGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 12 0.27
26 33 0.73
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (26 bp):
ATCAGGAAGCTCACAAAGAGCCATTA
Found at i:16600383 original size:14 final size:14
Alignment explanation
Indices: 16600345--16600383 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
16600335 ATTTCAGCCT
*
16600345 TTTATTTTTTTAAA
1 TTTATTCTTTTAAA
*
16600359 TTTATCCTTTTAAA
1 TTTATTCTTTTAAA
*
16600373 TTTATTGTTTT
1 TTTATTCTTTT
16600384 TTCATTTCGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTATTCTTTTAAA
Found at i:16612545 original size:51 final size:51
Alignment explanation
Indices: 16612473--16612641 Score: 172
Period size: 51 Copynumber: 3.4 Consensus size: 51
16612463 GTCACCGTAG
* *
16612473 CAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTATAAGTTA
* * * * *
16612524 CAAATTTTATCTCCCTGAAGTT-ACATTAGAGCAGATTGAAG--AT-AG--A
1 CAAATCTTATCTCCCTGAAGTTGA-AGTGGAACAGATTAAAGCTATAAGTTA
* * * *
16612570 -AAATCTTATTTCCCTAAAGTTGAAGTGGAACAAATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTATAAGTTA
*
16612620 CAAATCTTAACTCCCTGAAGTT
1 CAAATCTTATCTCCCTGAAGTT
16612642 ACAATGGAGT
Statistics
Matches: 91, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
45 30 0.33
46 2 0.02
47 1 0.01
48 4 0.04
49 2 0.02
50 1 0.01
51 51 0.56
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (51 bp):
CAAATCTTATCTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTATAAGTTA
Found at i:16612591 original size:96 final size:95
Alignment explanation
Indices: 16612474--16612710 Score: 321
Period size: 96 Copynumber: 2.5 Consensus size: 95
16612464 TCACCGTAGC
* * * *
16612474 AAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAGTTACAAATTTTATCTCCC
1 AAATCTTATTTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTAACTCCC
*
16612539 TGAAGTTACATTAGAGCAGATTGAAGATAGA
66 TGAAGTTACAATAGAGCAGATTGAAGATA-A
* *
16612570 AAATCTTATTTCCCTAAAGTTGAAGTGGAACAAATTAAAGCTACAAGTTACAAATCTTAACTCCC
1 AAATCTTATTTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTAACTCCC
* * * *
16612635 TGAAGTTACAATGGAGTAGATTGAAGCTAC
66 TGAAGTTACAATAGAGCAGATTGAAGATAA
* * * * *
16612665 AAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGCTACAA
1 AAATCTTATTTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTACAA
16612711 ATCTTACGTT
Statistics
Matches: 123, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
95 39 0.32
96 84 0.68
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (95 bp):
AAATCTTATTTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTAACTCCC
TGAAGTTACAATAGAGCAGATTGAAGATAA
Found at i:16612662 original size:51 final size:51
Alignment explanation
Indices: 16612473--16612710 Score: 171
Period size: 51 Copynumber: 4.9 Consensus size: 51
16612463 GTCACCGTAG
* ** *
16612473 CAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAGTTA
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCTACAAGTTA
* * * * * *
16612524 CAAATTTTATCTCCCTGAAGTTACATTAGAGCAGATTGAAG--A-TAG--A
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCTACAAGTTA
* * *
16612570 -AAATCTTATTTCCCTAAAGTTGA-AGTGGAACAAATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTT-ACAGTGGAACAGATTAAAGCTACAAGTTA
* * ** *
16612620 CAAATCTTAACTCCCTGAAGTTACAATGGAGTAGATT---G----AAGCTA
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCTACAAGTTA
* * * *
16612664 CAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGCTACAA
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCTACAA
16612711 ATCTTACGTT
Statistics
Matches: 141, Mismatches: 31, Indels: 30
0.70 0.15 0.15
Matches are distributed among these distances:
44 37 0.26
45 30 0.21
46 2 0.01
47 2 0.01
48 5 0.04
49 1 0.01
50 2 0.01
51 62 0.44
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (51 bp):
CAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCTACAAGTTA
Found at i:16612667 original size:44 final size:44
Alignment explanation
Indices: 16612618--16612776 Score: 205
Period size: 44 Copynumber: 3.6 Consensus size: 44
16612608 AGCTACAAGT
* *
16612618 TACAAATCTTAACTCCCTGAAGTTACAATGGAGTAGATTGAAGC
1 TACAAATCTTAACTCCCTGAAGTTGCAATGGAGCAGATTGAAGC
* * *
16612662 TACAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGC
1 TACAAATCTTAACTCCCTGAAGTTGCAATGGAGCAGATTGAAGC
**
16612706 TACAAATCTT-ACGTTGCTGAAGTTGCAATGGAGCAGATTGAAGC
1 TACAAATCTTAAC-TCCCTGAAGTTGCAATGGAGCAGATTGAAGC
* *
16612750 GACAAATCTTATAC-CTCTGAAGTTGCA
1 TACAAATCTTA-ACTCCCTGAAGTTGCA
16612777 GTAGGTCGGG
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.01
44 96 0.97
46 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
TACAAATCTTAACTCCCTGAAGTTGCAATGGAGCAGATTGAAGC
Found at i:16612890 original size:50 final size:50
Alignment explanation
Indices: 16612788--16612896 Score: 128
Period size: 50 Copynumber: 2.2 Consensus size: 50
16612778 TAGGTCGGGC
* * * *** *
16612788 TAAATCTACCATAGCGAGTCTTATTTCCTTGAATTTGAAGTGGGTCGGAT
1 TAAATCTACCATAGCGAGTCTTATTTCCCTAAAGTTGAAGTGAAACAGAT
* *
16612838 TAAATCTACCATAGCGAGTCTTATTTCCCTAAAGTTGTAGTGAAACATAT
1 TAAATCTACCATAGCGAGTCTTATTTCCCTAAAGTTGAAGTGAAACAGAT
*
16612888 TAAAGCTAC
1 TAAATCTAC
16612897 AAGTTACAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (50 bp):
TAAATCTACCATAGCGAGTCTTATTTCCCTAAAGTTGAAGTGAAACAGAT
Found at i:16616710 original size:40 final size:40
Alignment explanation
Indices: 16616655--16616750 Score: 183
Period size: 40 Copynumber: 2.4 Consensus size: 40
16616645 CGGTACTTTA
*
16616655 CAGCTTGTGTGAGCAGCACCGTTAGCTACGTCTTGACTGT
1 CAGCTTGTGTAAGCAGCACCGTTAGCTACGTCTTGACTGT
16616695 CAGCTTGTGTAAGCAGCACCGTTAGCTACGTCTTGACTGT
1 CAGCTTGTGTAAGCAGCACCGTTAGCTACGTCTTGACTGT
16616735 CAGCTTGTGTAAGCAG
1 CAGCTTGTGTAAGCAG
16616751 ACCTAATGAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (40 bp):
CAGCTTGTGTAAGCAGCACCGTTAGCTACGTCTTGACTGT
Found at i:16620455 original size:3 final size:3
Alignment explanation
Indices: 16620449--16620479 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
16620439 ATCATCATCA
16620449 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
16620480 TCTAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:16621962 original size:24 final size:24
Alignment explanation
Indices: 16621941--16621996 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
16621931 AAGATTTAGT
*
16621941 ATTTATTAGTATAATATATTTAAC
1 ATTTATTAGCATAATATATTTAAC
*
16621965 ATTTATTAGCATAATATATTTGAC
1 ATTTATTAGCATAATATATTTAAC
*
16621989 ATTGATTA
1 ATTTATTA
16621997 AAATTAGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.48
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAAC
Found at i:16628060 original size:16 final size:16
Alignment explanation
Indices: 16628011--16628060 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
16628001 AAATATTTAA
*
16628011 AAAAATTAAAAATGATT
1 AAAAATTAAAAAT-TTT
*
16628028 AAAAATTAAAATTTTT
1 AAAAATTAAAAATTTT
16628044 AAAAA-TAACAAATTTT
1 AAAAATTAA-AAATTTT
16628060 A
1 A
16628061 TTATAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 3 0.10
16 14 0.48
17 12 0.41
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (16 bp):
AAAAATTAAAAATTTT
Found at i:16628212 original size:15 final size:16
Alignment explanation
Indices: 16628192--16628222 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16628182 ATGATTAACA
16628192 TATAAAAAA-ATTTAT
1 TATAAAAAATATTTAT
16628207 TATAAAAAATATTTAT
1 TATAAAAAATATTTAT
16628223 GATTTTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAAAAAATATTTAT
Found at i:16629772 original size:11 final size:12
Alignment explanation
Indices: 16629752--16629816 Score: 68
Period size: 11 Copynumber: 5.8 Consensus size: 12
16629742 AACTAATCCT
16629752 CTCTCAAATTTC
1 CTCTCAAATTTC
16629764 CTC-CAAATTTC
1 CTCTCAAATTTC
*
16629775 CTCTC-AATTTG
1 CTCTCAAATTTC
16629786 CTCTCAAA-TTC
1 CTCTCAAATTTC
*
16629797 CT-TCTAAAATT-
1 CTCTC-AAATTTC
16629808 CTCTCAAAT
1 CTCTCAAAT
16629817 CCATATTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
10 2 0.04
11 33 0.73
12 10 0.22
ACGTcount: A:0.28, C:0.31, G:0.02, T:0.40
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:16629836 original size:51 final size:51
Alignment explanation
Indices: 16629776--16629875 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
16629766 CCAAATTTCC
*
16629776 TCTCAATTTGCTCTCAAATTCCT-TCTAAAATTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCATCT-TAAAATTCTCTCAAATCCATATTTAA
* * * *
16629827 TCTCAATTTGCTCTCAAGTTCATCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCATCTTAAAATTCTCTCAAATCCATATTT
16629876 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.44
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCATCTTAAAATTCTCTCAAATCCATATTTAA
Found at i:16630063 original size:14 final size:15
Alignment explanation
Indices: 16630032--16630062 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16630022 TTTTTAAATA
16630032 TTATTTAAGAATTTT
1 TTATTTAAGAATTTT
*
16630047 TTATTTAAGCATTTT
1 TTATTTAAGAATTTT
16630062 T
1 T
16630063 AGATAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.61
Consensus pattern (15 bp):
TTATTTAAGAATTTT
Found at i:16632272 original size:14 final size:14
Alignment explanation
Indices: 16632255--16632303 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
16632245 TTAATTGAAA
16632255 AACCTTAAACCCTT
1 AACCTTAAACCCTT
*
16632269 AACCTAAAAACCC-T
1 AACCT-TAAACCCTT
16632283 AACCTT-AA-CCTT
1 AACCTTAAACCCTT
16632295 AACCCTTAA
1 AA-CCTTAA
16632304 CTTAAAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 2 0.07
12 5 0.17
13 4 0.14
14 12 0.41
15 6 0.21
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCTTAAACCCTT
Found at i:16632319 original size:33 final size:35
Alignment explanation
Indices: 16632255--16632324 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 35
16632245 TTAATTGAAA
16632255 AACCTTAAACCCTTAACCTAAAAACCCTAA-CCTT
1 AACCTTAAACCCTTAACCTAAAAACCCTAACCCTT
* * *
16632289 AACCTT-AACCCTTAACTTAAAAATCGTAACCCTT
1 AACCTTAAACCCTTAACCTAAAAACCCTAACCCTT
16632323 AA
1 AA
16632325 ATTAAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 20 0.62
34 12 0.38
ACGTcount: A:0.41, C:0.31, G:0.01, T:0.26
Consensus pattern (35 bp):
AACCTTAAACCCTTAACCTAAAAACCCTAACCCTT
Found at i:16632320 original size:21 final size:21
Alignment explanation
Indices: 16632289--16632415 Score: 137
Period size: 21 Copynumber: 6.0 Consensus size: 21
16632279 CCCTAACCTT
*
16632289 AACCTTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
16632310 AATCGTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
16632331 AAACTTAAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* * *
16632353 AACCGTAACCCTTAAATAAAA
1 AACCCTAACCCTTAACTTAAA
* *
16632374 AACCCTAACACTTAAGTTAAA
1 AACCCTAACCCTTAACTTAAA
16632395 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
16632416 TATAATTTGA
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
21 70 0.80
22 17 0.20
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.26
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:16632374 original size:42 final size:43
Alignment explanation
Indices: 16632289--16632415 Score: 159
Period size: 43 Copynumber: 3.0 Consensus size: 43
16632279 CCCTAACCTT
* *
16632289 AACCTTAACCCTTAACTTAAAAATCGTAACCCTTAAATTAAAA
1 AACCCTAACCCTTAACTTAAAAACCGTAACCCTTAAATTAAAA
* *
16632332 AA-CTTAAACCCTTAACTTTAAAACCGTAACCCTTAAA-TAAAA
1 AACCCT-AACCCTTAACTTAAAAACCGTAACCCTTAAATTAAAA
* * * *
16632374 AACCCTAACACTTAAGTTAAAAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCGTAACCCTTAAATTAAA
16632416 TATAATTTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 36 0.49
43 37 0.51
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.26
Consensus pattern (43 bp):
AACCCTAACCCTTAACTTAAAAACCGTAACCCTTAAATTAAAA
Found at i:16635066 original size:9 final size:9
Alignment explanation
Indices: 16635052--16635079 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
16635042 TATAGTTTGA
16635052 TATTCGAAT
1 TATTCGAAT
16635061 TATTCGAAT
1 TATTCGAAT
16635070 TATTCGAAT
1 TATTCGAAT
16635079 T
1 T
16635080 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:16635148 original size:9 final size:9
Alignment explanation
Indices: 16635131--16635170 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
16635121 TTGAGTTGAT
16635131 TCGAATAAC
1 TCGAATAAC
*
16635140 TCGATTAAC
1 TCGAATAAC
16635149 TCGAATAAC
1 TCGAATAAC
16635158 TCGAATAAC
1 TCGAATAAC
16635167 TCGA
1 TCGA
16635171 TTCGTTTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (9 bp):
TCGAATAAC
Found at i:16636856 original size:126 final size:125
Alignment explanation
Indices: 16636510--16637039 Score: 834
Period size: 126 Copynumber: 4.2 Consensus size: 125
16636500 CCCAAACATG
* * * *
16636510 CTACTGTAGCAAAAGTGCATCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
16636575 TAGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* *
16636634 CTACTGTAGCAAAAGCGCGTCTACGAAGGCGC-AGTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCCTG
* * *
16636698 CTTGAAGCGTTTTTTTAAATTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGAC
65 CTTGAAGCG-TTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
16636761 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
16636826 TTGAAGCGTTTTTTAAACTATTTGCCCAGAAATGTCAACTCGAAATTATTTCTTCCAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
16636887 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
* *
16636951 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAATTCGAAATTATTTTTCCAAGAC
65 CTTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
*
16637012 CTACTGTAGCAAAAGCGCGTACAC-AGGG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGG
16637040 GTGCGACTTC
Statistics
Matches: 377, Mismatches: 23, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
123 1 0.00
124 68 0.18
125 31 0.08
126 197 0.52
127 79 0.21
128 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
Found at i:16637015 original size:251 final size:251
Alignment explanation
Indices: 16636510--16637039 Score: 836
Period size: 251 Copynumber: 2.1 Consensus size: 251
16636500 CCCAAACATG
* * * *
16636510 CTACTGTAGCAAAAGTGCATCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
16636575 TAGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACCTACTG
66 TAGAAGCGTTTTTAAACTATTTGCCCAGAAACGTCAACTCGAAATTATTTTTCCAAGACCTACTG
*
16636640 TAGCAAAAGCGCGTCTACGAAGGCGCAGTTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAG
131 TAGCAAAAGCGCGTCCACGAAGGCGCAGTTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAG
* *
16636705 CGTTTTTTTAAATTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGAC
196 CGTTTTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAAGAC
16636761 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
16636826 TTGAAGCGTTTTTTAAACTATTTGCCCAGAAATGTCAACTCGAAATTATTTCTTCCAGGACCTAC
66 TAGAAGCG-TTTTTAAACTATTTGCCCAGAAACGTCAACTCGAAATTATTT-TTCCAAGACCTAC
*
16636891 TGTAGCAAAAGCGCGTCCACGAGGGCGC-GATTTCACAAATTCTTCTCATAA-AGCATCCTGCTT
129 TGTAGCAAAAGCGCGTCCACGAAGGCGCAG-TTTCACAAATTCTTCTCA-AATAGCATCCTGCTT
* * *
16636954 GAAGCG-TTTTTTATACTATTTGCTCAGAAACGTCAATTCGAAATTATTT-TTCCAAGAC
192 GAAGCGTTTTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAAGAC
*
16637012 CTACTGTAGCAAAAGCGCGTACAC-AGGG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGG
16637040 GTGCGACTTC
Statistics
Matches: 258, Mismatches: 17, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
250 4 0.02
251 99 0.38
252 79 0.31
253 74 0.29
254 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (251 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGTTTTTAAACTATTTGCCCAGAAACGTCAACTCGAAATTATTTTTCCAAGACCTACTG
TAGCAAAAGCGCGTCCACGAAGGCGCAGTTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAG
CGTTTTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAAGAC
Found at i:16637245 original size:16 final size:16
Alignment explanation
Indices: 16637190--16637247 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
16637180 TAATTTTTTC
* *
16637190 TCCAAAACCCTAAAAA
1 TCCAAAAACCTTAAAA
16637206 TCCTAAAAATCC-T-AAA
1 TCC-AAAAA-CCTTAAAA
*
16637222 TCC-TAAACCTTAAAA
1 TCCAAAAACCTTAAAA
16637237 TCCAAAAACCT
1 TCCAAAAACCT
16637248 AACGTGTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
13 2 0.06
14 4 0.12
15 6 0.18
16 15 0.45
17 4 0.12
18 2 0.06
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (16 bp):
TCCAAAAACCTTAAAA
Found at i:16637596 original size:16 final size:17
Alignment explanation
Indices: 16637553--16637602 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 17
16637543 TAAATATTTA
* **
16637553 AAAAATTAAAAATGATT
1 AAAAACTAAAAATTTTT
16637570 AAAAACT-AAAATTTTT
1 AAAAACTAAAAATTTTT
*
16637586 AAAAA-TAAAAAGTTTT
1 AAAAACTAAAAATTTTT
16637602 A
1 A
16637603 TTATAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 1 0.04
16 21 0.75
17 6 0.21
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (17 bp):
AAAAACTAAAAATTTTT
Found at i:16637630 original size:13 final size:13
Alignment explanation
Indices: 16637612--16637636 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16637602 ATTATAATAA
16637612 TATTTATTCTATC
1 TATTTATTCTATC
16637625 TATTTATTCTAT
1 TATTTATTCTAT
16637637 ACCTATATTA
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:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTATTCTATC
Found at i:16640850 original size:45 final size:45
Alignment explanation
Indices: 16640797--16640883 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
16640787 ACATAAGGAA
* *
16640797 GGGCTGAAGTAGGGATGACATCGCGACATGGAGTCCTTTGATATG
1 GGGCTGAAGCAGGGACGACATCGCGACATGGAGTCCTTTGATATG
* *
16640842 GGGCTGAAGCAGGGACGACATTGCGACGTGGAGTCCTTTGAT
1 GGGCTGAAGCAGGGACGACATCGCGACATGGAGTCCTTTGAT
16640884 GTGGCGACGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.23
Consensus pattern (45 bp):
GGGCTGAAGCAGGGACGACATCGCGACATGGAGTCCTTTGATATG
Found at i:16643740 original size:27 final size:30
Alignment explanation
Indices: 16643704--16643785 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 30
16643694 GAATACGAAG
16643704 GGGGTTGCTAAGTGCTGATTCCC-C-CA-A
1 GGGGTTGCTAAGTGCTGATTCCCACTCATA
*
16643731 GGGGTTGCTAAGTGCTGATTCTCCGACTCATT
1 GGGGTTGCTAAGTGCTGATTC-CC-ACTCATA
16643763 GGTGGTTGCTAAGTGCTGATTCC
1 GG-GGTTGCTAAGTGCTGATTCC
16643786 ACCGTATCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
27 21 0.44
28 2 0.04
30 1 0.02
31 2 0.04
32 3 0.06
33 19 0.40
ACGTcount: A:0.16, C:0.22, G:0.30, T:0.32
Consensus pattern (30 bp):
GGGGTTGCTAAGTGCTGATTCCCACTCATA
Found at i:16643842 original size:104 final size:103
Alignment explanation
Indices: 16643701--16643933 Score: 369
Period size: 104 Copynumber: 2.3 Consensus size: 103
16643691 ATTGAATACG
*
16643701 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCTCCGACTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
16643766 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGAATATAA
66 GGTTGCTAAATGCTGATCCCACCGTAT-CTTAAATATAA
16643805 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
16643870 GGTTGCTAAATGCTGATCCCACTGTATCTTAAATGTGA
66 GGTTGCTAAATGCTGATCCCACCGTATCTTAAATATAA
* *
16643908 AA-GGGGTTTCTAAGTGTTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
16643934 GAATTACTGG
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
102 22 0.18
103 10 0.08
104 88 0.73
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (103 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
GGTTGCTAAATGCTGATCCCACCGTATCTTAAATATAA
Found at i:16643959 original size:33 final size:33
Alignment explanation
Indices: 16643912--16644027 Score: 160
Period size: 33 Copynumber: 3.4 Consensus size: 33
16643902 ATGTGAAAGG
*
16643912 GGTTTCTAAGTGTTGATTCCCCGAATTACTGGT
1 GGTTGCTAAGTGTTGATTCCCCGAATTACTGGT
*
16643945 GGTTGCTAAGTGTTGATTCCCCGAATTACTAGTGAAGG
1 GGTTGCTAAGTGTTGATTCCCCGAATTAC---TG--GT
*
16643983 GGTTGCTAAGTGTTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGTTGATTCCCCGAATTACTGGT
16644016 GGTTGCTAAGTG
1 GGTTGCTAAGTG
16644028 CTGAATCCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
33 41 0.55
35 2 0.03
36 2 0.03
38 29 0.39
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.34
Consensus pattern (33 bp):
GGTTGCTAAGTGTTGATTCCCCGAATTACTGGT
Found at i:16644003 original size:71 final size:75
Alignment explanation
Indices: 16643833--16644031 Score: 257
Period size: 71 Copynumber: 2.7 Consensus size: 75
16643823 TGATTCCCCC
* * * * *
16643833 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAATGCTGATCCCACTGTATC
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATCCCACTGTATA
16643898 TTAAATGTGA
66 TTAAATGTGA
* * *
16643908 AAGGGGTTTCTAAGTGTTGATTCCCCGAATTACTGGTGGTTGCTAAGTGTTGATTCCC-C-G-A-
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGA-TCCCACTGTAT
*
16643969 ATT-ACTAGTG-
65 ATTAAAT-GTGA
16643979 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGA
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGA
16644032 ATCCACCGAT
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
71 52 0.47
72 5 0.05
73 1 0.01
74 1 0.01
75 47 0.43
76 4 0.04
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATCCCACTGTATA
TTAAATGTGA
Found at i:16645806 original size:21 final size:21
Alignment explanation
Indices: 16645760--16645832 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
16645750 CATCGTTTCA
* * *
16645760 CATAAGTGTTAAACAGAAACC
1 CATAAGGGTTGAACGGAAACC
* * * *
16645781 GATAAGGGTTGAATGGAAGCT
1 CATAAGGGTTGAACGGAAACC
* *
16645802 CATAAGAGCTGAACGGAAACC
1 CATAAGGGTTGAACGGAAACC
16645823 CATAAGGGTT
1 CATAAGGGTT
16645833 AAACTAAAGC
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (21 bp):
CATAAGGGTTGAACGGAAACC
Found at i:16645843 original size:42 final size:43
Alignment explanation
Indices: 16645775--16645887 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 43
16645765 GTGTTAAACA
* * * *
16645775 GAAACCGATAAGGGTTGAA-TGGAAGCTCATAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACTGAAAGCTCAAAAGAGCTGAACG
*
16645817 GAAACCCATAAGGGTTAAACT-AAAGCTGAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACTGAAAGCTCAAAAGAGCTGAACG
* *
16645859 GAAACCCATTAGGGTTAAACAGAAA-CTCA
1 GAAACCCATAAGGGTTAAACTGAAAGCTCA
16645888 TATGAGTTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 57 0.93
43 4 0.07
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.16
Consensus pattern (43 bp):
GAAACCCATAAGGGTTAAACTGAAAGCTCAAAAGAGCTGAACG
Found at i:16654681 original size:16 final size:16
Alignment explanation
Indices: 16654660--16654715 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 16
16654650 TAATTTTGAA
16654660 TTGTTCTAAATGTAAG
1 TTGTTCTAAATGTAAG
*
16654676 TTGTTCTAAAT-AAAG
1 TTGTTCTAAATGTAAG
* *
16654691 TTGTTTTCAATGTAGAAG
1 TTGTTCTAAATGT--AAG
16654709 TTGTTCT
1 TTGTTCT
16654716 GAATAAGAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 12 0.38
16 11 0.34
18 9 0.28
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (16 bp):
TTGTTCTAAATGTAAG
Found at i:16654728 original size:16 final size:16
Alignment explanation
Indices: 16654660--16654730 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
16654650 TAATTTTGAA
*
16654660 TTGTTCTAAATGTA-AG
1 TTGTTCTAAAT-AAGAG
16654676 TTGTTCTAAATAA-AG
1 TTGTTCTAAATAAGAG
* * *
16654691 TTGTTTTCAATGTAGAAG
1 TTGTTCTAAAT-AAG-AG
*
16654709 TTGTTCTGAATAAGAG
1 TTGTTCTAAATAAGAG
16654725 TTGTTC
1 TTGTTC
16654731 AGTGGTGATA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
15 12 0.27
16 20 0.44
17 2 0.04
18 11 0.24
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.44
Consensus pattern (16 bp):
TTGTTCTAAATAAGAG
Found at i:16660630 original size:74 final size:74
Alignment explanation
Indices: 16660509--16660656 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
16660499 CAAATTATGG
16660509 TAGGATTTCGTATAACAACCATGTCCTGGGTCGCCATCTACAAATACATTAGAAGGTGATAGGCA
1 TAGGATTTCGTATAACAACCATGTCCTGGGTCGCCATCTACAAATACATTAGAAGGTGATAGGCA
16660574 TCGATGCAA
66 TCGATGCAA
16660583 TAGGATTTCGTATAACAACCATGTCCTGGGTCGCCATCTACAAATACATTAGAAGGTGATAGGCA
1 TAGGATTTCGTATAACAACCATGTCCTGGGTCGCCATCTACAAATACATTAGAAGGTGATAGGCA
16660648 TCGATGCAA
66 TCGATGCAA
16660657 ACATCGAAGA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (74 bp):
TAGGATTTCGTATAACAACCATGTCCTGGGTCGCCATCTACAAATACATTAGAAGGTGATAGGCA
TCGATGCAA
Found at i:16663219 original size:24 final size:24
Alignment explanation
Indices: 16663192--16663238 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
16663182 CAAAGTCAAA
*
16663192 TATATTATGCTAATAAATACTAAT
1 TATATTATACTAATAAATACTAAT
*
16663216 TATATTATACTCATAAATACTAA
1 TATATTATACTAATAAATACTAA
16663239 ATCTTCTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (24 bp):
TATATTATACTAATAAATACTAAT
Found at i:16664474 original size:13 final size:14
Alignment explanation
Indices: 16664450--16664514 Score: 52
Period size: 13 Copynumber: 5.0 Consensus size: 14
16664440 AAAAATATTT
16664450 ATAAATATTAAATA
1 ATAAATATTAAATA
16664464 ATAAA-ATT--A-A
1 ATAAATATTAAATA
*
16664474 ATAAATTTTAAAT-
1 ATAAATATTAAATA
*
16664487 ATAAAATATTAATTA
1 AT-AAATATTAAATA
*
16664502 AT-AATATAAAATA
1 ATAAATATTAAATA
16664515 TTATTTAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 13
0.69 0.09 0.22
Matches are distributed among these distances:
10 6 0.15
11 3 0.08
13 15 0.38
14 14 0.35
15 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAAATATTAAATA
Found at i:16664507 original size:20 final size:20
Alignment explanation
Indices: 16664484--16664522 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16664474 ATAAATTTTA
16664484 AATATAAAATATTAATTAAT
1 AATATAAAATATTAATTAAT
*
16664504 AATATAAAATATTATTTAA
1 AATATAAAATATTAATTAA
16664523 CAAGCTTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATATAAAATATTAATTAAT
Found at i:16665846 original size:16 final size:16
Alignment explanation
Indices: 16665828--16665892 Score: 94
Period size: 16 Copynumber: 4.1 Consensus size: 16
16665818 TTCGCTATAT
* *
16665828 TGGATTAGAGGTGTAT
1 TGGAATAGAGGTGTAA
*
16665844 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
*
16665860 TGGAATAGAGGTATAA
1 TGGAATAGAGGTGTAA
16665876 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
16665892 T
1 T
16665893 AGCAAATCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.34, C:0.00, G:0.35, T:0.31
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:16666146 original size:18 final size:17
Alignment explanation
Indices: 16666125--16666159 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16666115 TTATTATTAA
*
16666125 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
16666143 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16666160 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16666266 original size:18 final size:17
Alignment explanation
Indices: 16666245--16666279 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16666235 TTATTATTAA
*
16666245 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
16666263 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16666280 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16666277 original size:59 final size:57
Alignment explanation
Indices: 16666105--16666400 Score: 197
Period size: 59 Copynumber: 5.0 Consensus size: 57
16666095 TTAATCATAT
* *
16666105 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTA
* * * * ** ** * *
16666162 TTAATAATCA-ATATTCTTATATGAATTTACTAAAACCATAATATATGATACT-ATAAAATATAA
1 TT--TAA-CATA-ATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TTAATAAAAT-T-A
* *
16666225 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTA
* * * * ** * * *
16666282 TTAATAATCA-ATATTCTTATATGAATTTACTAAAATCATAATATATGATACT-ATAAAATATAA
1 TT--TAA-CATA-ATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TTAATAAAAT-T-A
16666345 TTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
16666401 CTTAATAATC
Statistics
Matches: 174, Mismatches: 44, Indels: 41
0.67 0.17 0.16
Matches are distributed among these distances:
57 4 0.02
58 4 0.02
59 62 0.36
60 35 0.20
61 59 0.34
62 6 0.03
63 4 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (57 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTA
Found at i:16666322 original size:120 final size:120
Alignment explanation
Indices: 16666105--16666437 Score: 632
Period size: 120 Copynumber: 2.8 Consensus size: 120
16666095 TTAATCATAT
16666105 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
16666170 CAATATTCTTATATGAATTTACTAAAACCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
16666225 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
16666290 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
*
16666345 TTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAA
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
16666409 TCAATATTCTTATATGAATTTACTAAAAT
65 TCAATATTCTTATATGAATTTACTAAAAT
16666438 ATATGATACT
Statistics
Matches: 210, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
120 208 0.99
121 2 0.01
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:16666386 original size:18 final size:17
Alignment explanation
Indices: 16666363--16666399 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
16666353 AATTATTATT
16666363 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
16666379 AAATATATGATTTAATA
1 AAATATATGATTTAATA
16666396 AAAT
1 AAAT
16666400 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:16666442 original size:18 final size:19
Alignment explanation
Indices: 16666419--16666456 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
16666409 TCAATATTCT
16666419 TATATGA-A-TTTACTAAAA
1 TATATGATACTTTA-TAAAA
16666437 TATATGATACTTTATAAAA
1 TATATGATACTTTATAAAA
16666456 T
1 T
16666457 TAAAATTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 7 0.39
20 4 0.22
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (19 bp):
TATATGATACTTTATAAAA
Found at i:16677476 original size:21 final size:21
Alignment explanation
Indices: 16677450--16677497 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
16677440 CCATGTGACC
16677450 GCACCTTAGATCTTCCAACCT
1 GCACCTTAGATCTTCCAACCT
*
16677471 GCACCTTAGATCTTCTAACCT
1 GCACCTTAGATCTTCCAACCT
16677492 GCACCT
1 GCACCT
16677498 GTTTAAGACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.38, G:0.10, T:0.29
Consensus pattern (21 bp):
GCACCTTAGATCTTCCAACCT
Found at i:16679334 original size:29 final size:24
Alignment explanation
Indices: 16679276--16679321 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
16679266 CATTTTTTTA
16679276 AAACCAAACTGATCACAAACATTT
1 AAACCAAACTGATCACAAACATTT
16679300 AAACCAAACTGATCACAAACAT
1 AAACCAAACTGATCACAAACAT
16679322 GGAAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.26, G:0.04, T:0.17
Consensus pattern (24 bp):
AAACCAAACTGATCACAAACATTT
Found at i:16680205 original size:41 final size:41
Alignment explanation
Indices: 16680027--16680197 Score: 252
Period size: 41 Copynumber: 4.2 Consensus size: 41
16680017 AGCACTTCAT
* * * * *
16680027 CTGCTAGGTTTAAAGTCTAATTCAGTTCACTGGCACTTAGC
1 CTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGC
16680068 CTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGC
1 CTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGC
* *
16680109 CTGCTAGGCTTATAACCTGATTCAATTCACCGGCACTTAGC
1 CTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGC
* * *
16680150 CTACTAGGCTTATAGCCTGATTCGGTTCATCGGCACTTAGC
1 CTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGC
16680191 CTGCTAG
1 CTGCTAG
16680198 ACATATAGTC
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 117 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (41 bp):
CTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGC
Found at i:16681986 original size:13 final size:13
Alignment explanation
Indices: 16681968--16681992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16681958 ACCAACGATA
16681968 AAATTTTCACACG
1 AAATTTTCACACG
16681981 AAATTTTCACAC
1 AAATTTTCACAC
16681993 ATATAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:16685125 original size:30 final size:30
Alignment explanation
Indices: 16685090--16685147 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16685080 CCTCGACTCT
*
16685090 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
* *
16685120 AACTTTTGCATAATTACATTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCC
16685148 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTA
Found at i:16692198 original size:49 final size:50
Alignment explanation
Indices: 16692085--16692325 Score: 360
Period size: 49 Copynumber: 4.8 Consensus size: 50
16692075 GATCATAAGA
* ** *
16692085 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* *
16692136 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
16692185 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
16692235 TGCC-ATGCCATGTCCCAGACATGGTCTTACAAGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
16692284 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
16692326 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
49 81 0.48
50 60 0.35
51 29 0.17
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:16692295 original size:99 final size:99
Alignment explanation
Indices: 16692085--16692325 Score: 376
Period size: 99 Copynumber: 2.4 Consensus size: 99
16692075 GATCATAAGA
** *
16692085 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGGTGCCCATGCCATGT
* *
16692150 CCCAGACATGGTCTTACGGGGACCTCTCATCTCGG
65 CCCAGACATGGTCTTACAGGGACCTATCATCTCGG
* * *
16692185 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTTGGTG-CCATGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGTC
16692249 CCAGACATGGTCTTACAAGGGACCTATCATCTCGG
66 CCAGACATGGTCTTAC-AGGGACCTATCATCTCGG
*
16692284 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
16692326 TTACCCAAAT
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
98 28 0.22
99 66 0.51
100 36 0.28
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (99 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGTC
CCAGACATGGTCTTACAGGGACCTATCATCTCGG
Found at i:16692697 original size:30 final size:30
Alignment explanation
Indices: 16692662--16692719 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
16692652 CCTCGACTCT
*
16692662 AACTTTTTCAAAATTACGA-TTTTGCCCCTA
1 AACTTTTACAAAATTAC-ATTTTTGCCCCTA
*
16692692 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACATTTTTGCCCC
16692720 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTTTTGCCCCTA
Found at i:16696819 original size:19 final size:19
Alignment explanation
Indices: 16696759--16696819 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 19
16696749 TATTAGTTTC
16696759 AATACATGCATCTAATA-ATA
1 AATACATGCATCT--TAGATA
*
16696779 AAT--ATGTATC-TAG-TA
1 AATACATGCATCTTAGATA
*
16696794 CATACATGCATCTTAGATA
1 AATACATGCATCTTAGATA
16696813 AATACAT
1 AATACAT
16696820 TCATGCATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
15 6 0.19
17 6 0.19
18 9 0.28
19 8 0.25
20 3 0.09
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (19 bp):
AATACATGCATCTTAGATA
Found at i:16706089 original size:11 final size:11
Alignment explanation
Indices: 16706073--16706105 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
16706063 TGTCAAGAAT
16706073 TTCTTCATTTC
1 TTCTTCATTTC
16706084 TTCTTCATTTC
1 TTCTTCATTTC
16706095 TTCTTCATTTC
1 TTCTTCATTTC
16706106 CATGCTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTTCATTTC
Found at i:16706419 original size:23 final size:23
Alignment explanation
Indices: 16706393--16706436 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
16706383 TTACCATCTT
*
16706393 TCTAAATAAAATATTAATAAACA
1 TCTAAACAAAATATTAATAAACA
*
16706416 TCTAAGCAAAATATTAATAAA
1 TCTAAACAAAATATTAATAAA
16706437 ATAATACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (23 bp):
TCTAAACAAAATATTAATAAACA
Found at i:16707629 original size:22 final size:22
Alignment explanation
Indices: 16707587--16707629 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
16707577 TTAATTTACC
* *
16707587 AAATTATCAATTTGTCCTTTAA
1 AAATTATCAAATTGTCATTTAA
16707609 AAATTATCCAAATT-TCATTTA
1 AAATTAT-CAAATTGTCATTTA
16707630 TTTAATCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATTATCAAATTGTCATTTAA
Found at i:16712406 original size:34 final size:34
Alignment explanation
Indices: 16712361--16712428 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
16712351 TTGCATCTAA
* *
16712361 ATGTTGTTTTAATATTGTAGAAAAATGTATTATT
1 ATGTTGATTTAAAATTGTAGAAAAATGTATTATT
** *
16712395 ATGTTGATTTAAAATTGTTTAGAAATGTATTATT
1 ATGTTGATTTAAAATTGTAGAAAAATGTATTATT
16712429 CTGTGATGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (34 bp):
ATGTTGATTTAAAATTGTAGAAAAATGTATTATT
Found at i:16724229 original size:52 final size:52
Alignment explanation
Indices: 16724153--16724351 Score: 239
Period size: 52 Copynumber: 3.9 Consensus size: 52
16724143 CCATGGCAGC
* * *
16724153 ATGTGAAATGTGATTTCCGTATAAGATCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
*
16724206 ATGTGATTTGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * * * *
16724258 ATGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATC--AG--
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * *
16724306 -TGTGATATGTG-ATCCGTATAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGG
16724352 TATGTGATAT
Statistics
Matches: 127, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
46 26 0.20
47 11 0.09
50 2 0.02
52 78 0.61
53 10 0.08
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
Found at i:16726608 original size:13 final size:13
Alignment explanation
Indices: 16726590--16726624 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
16726580 ACGTATTATT
16726590 TTTAAACTTAATA
1 TTTAAACTTAATA
16726603 TTTAAACTTAATA
1 TTTAAACTTAATA
16726616 TTTAAACTT
1 TTTAAACTT
16726625 TTTGTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (13 bp):
TTTAAACTTAATA
Found at i:16730854 original size:30 final size:31
Alignment explanation
Indices: 16730772--16730866 Score: 102
Period size: 30 Copynumber: 3.1 Consensus size: 31
16730762 TGAATTCAAA
* * * * *
16730772 TGTATATGTTTTAAATATTGTCGAATTTATT
1 TGTATATGATATATATATTGCCGAATTGATT
* * *
16730803 TATATGTAGATATATACATTGCCGAATTGATT
1 TGTATAT-GATATATATATTGCCGAATTGATT
16730835 TGTATATG-TATATATATTGCCGAATTGATT
1 TGTATATGATATATATATTGCCGAATTGATT
16730865 TG
1 TG
16730867 AGATCCCGTA
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
30 23 0.44
31 6 0.12
32 23 0.44
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.47
Consensus pattern (31 bp):
TGTATATGATATATATATTGCCGAATTGATT
Found at i:16730932 original size:48 final size:48
Alignment explanation
Indices: 16730858--16731052 Score: 255
Period size: 48 Copynumber: 3.9 Consensus size: 48
16730848 ATATTGCCGA
*
16730858 ATTGATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGC
1 ATTGATTTGAGATCCCGTATAAGACCATATCTAGGATATGGCATCGGC
* * *
16730906 ATCGATTTGAGATCTCGTATAAGACCATATCTGGGATATGGCATTGGCATTGGC
1 ATTGATTTGAGATCCCGTATAAGACCATATCTAGGATATGGCA-T--C---GGC
* * *
16730960 ATTGATTTGAGATCCCATATAAAACCATATCTAGGATATGGTATCGGC
1 ATTGATTTGAGATCCCGTATAAGACCATATCTAGGATATGGCATCGGC
**
16731008 ATTGATTTGAGATTTCGTATAAGACCATATCTAGGATATGGCATC
1 ATTGATTTGAGATCCCGTATAAGACCATATCTAGGATATGGCATC
16731053 AATATGAGAC
Statistics
Matches: 128, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
48 84 0.66
49 1 0.01
51 2 0.02
53 1 0.01
54 40 0.31
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (48 bp):
ATTGATTTGAGATCCCGTATAAGACCATATCTAGGATATGGCATCGGC
Found at i:16731034 original size:102 final size:102
Alignment explanation
Indices: 16730858--16731051 Score: 325
Period size: 102 Copynumber: 1.9 Consensus size: 102
16730848 ATATTGCCGA
* * *
16730858 ATTGATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATTTGAGATCTCG
1 ATTGATTTGAGATCCCATATAAAACCATATCTAGGATATGGCATCGGCATCGATTTGAGATCTCG
*
16730923 TATAAGACCATATCTGGGATATGGCATTGGCATTGGC
66 TATAAGACCATATCTAGGATATGGCATTGGCATTGGC
* * *
16730960 ATTGATTTGAGATCCCATATAAAACCATATCTAGGATATGGTATCGGCATTGATTTGAGATTTCG
1 ATTGATTTGAGATCCCATATAAAACCATATCTAGGATATGGCATCGGCATCGATTTGAGATCTCG
16731025 TATAAGACCATATCTAGGATATGGCAT
66 TATAAGACCATATCTAGGATATGGCAT
16731052 CAATATGAGA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 85 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (102 bp):
ATTGATTTGAGATCCCATATAAAACCATATCTAGGATATGGCATCGGCATCGATTTGAGATCTCG
TATAAGACCATATCTAGGATATGGCATTGGCATTGGC
Found at i:16737711 original size:6 final size:6
Alignment explanation
Indices: 16737685--16737740 Score: 69
Period size: 6 Copynumber: 9.3 Consensus size: 6
16737675 ATAATAATAA
* *
16737685 AATATAT AATTTT AA-ATT AATATT AATATT AATATT AATATT ACTATT
1 AATAT-T AATATT AATATT AATATT AATATT AATATT AATATT AATATT
*
16737733 AACATT AA
1 AATATT AA
16737741 AATGTATAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
5 4 0.09
6 35 0.81
7 4 0.09
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (6 bp):
AATATT
Found at i:16737825 original size:8 final size:8
Alignment explanation
Indices: 16737802--16737845 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
16737792 ATAAAATAAA
*
16737802 ATAATTAT
1 ATAATTTT
16737810 ATAATTTT
1 ATAATTTT
*
16737818 ATAGTTTT
1 ATAATTTT
16737826 ATATATTTT
1 ATA-ATTTT
*
16737835 ACAATTTT
1 ATAATTTT
16737843 ATA
1 ATA
16737846 TTAAATATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
8 24 0.80
9 6 0.20
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (8 bp):
ATAATTTT
Found at i:16737835 original size:17 final size:18
Alignment explanation
Indices: 16737806--16737846 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
16737796 AATAAAATAA
* *
16737806 TTATATAATTTTATAGTT
1 TTATATAATTTTACAATT
16737824 TTATAT-ATTTTACAATT
1 TTATATAATTTTACAATT
16737841 TTATAT
1 TTATAT
16737847 TAAATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
TTATATAATTTTACAATT
Found at i:16738293 original size:11 final size:11
Alignment explanation
Indices: 16738277--16738301 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16738267 TTTTCTAACA
16738277 AATTAAAAAAC
1 AATTAAAAAAC
16738288 AATTAAAAAAC
1 AATTAAAAAAC
16738299 AAT
1 AAT
16738302 ATGTATATTT
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:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (11 bp):
AATTAAAAAAC
Found at i:16738621 original size:43 final size:43
Alignment explanation
Indices: 16738565--16738729 Score: 251
Period size: 43 Copynumber: 3.8 Consensus size: 43
16738555 TTTTTATAAT
*
16738565 AAACGCCGCTATAGACCAAGGTCTTTAGCGGCGCTTATCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
*
16738608 AAACGCCGCTATAGACCATGGTCTTTAGTGGCGCTTATCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* * *
16738651 AAACGCCGCTATAGAACATGGTCTTTAGCGGCGCTTAACCAAC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* *
16738694 AAACGCCGCTATAG-CTCATGGTTTTTAGCAGCGCTT
1 AAACGCCGCTATAGAC-CATGGTCTTTAGCGGCGCTT
16738730 TTAAAAAAAC
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 112 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
Found at i:16739110 original size:21 final size:21
Alignment explanation
Indices: 16739044--16739113 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
16739034 TTTAAGCTGT
16739044 TCTGCTTCCCTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCC
*
16739065 TCTACTTCCCTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCC
* * *
16739086 TCTGCTTCTCTCGCTGCCGCA
1 TCTGCTTCCCTCGCTGCAGCC
16739107 TCTGCTT
1 TCTGCTT
16739114 TAAGCTGTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.06, C:0.44, G:0.17, T:0.33
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCC
Found at i:16739174 original size:87 final size:87
Alignment explanation
Indices: 16739069--16739266 Score: 290
Period size: 87 Copynumber: 2.3 Consensus size: 87
16739059 GCAGCCTCTA
* * * *
16739069 CTTCCCTCGCTGCAGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTTGCTGGAGTTGT
1 CTTCTCTCGCTGCTGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCT
16739134 TCATA-CTTTCGTTGAACCTCAG
66 TCATATCTTT-GTTGAACCTCAG
* *
16739156 CTTCTCTCGCTGCTGCCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCT
1 CTTCTCTCGCTGCTGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCT
*
16739221 TCATATCTTTTTTGAACCTCAG
66 TCATATCTTTGTTGAACCTCAG
* * *
16739243 CTTCTCTCGATGTTGCCTCCGCTT
1 CTTCTCTCGCTGCTGCCTCTGCTT
16739267 TAAGTTGTGT
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 96 0.96
88 4 0.04
ACGTcount: A:0.11, C:0.31, G:0.19, T:0.39
Consensus pattern (87 bp):
CTTCTCTCGCTGCTGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCT
TCATATCTTTGTTGAACCTCAG
Done.