Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 38 of 325
Found at i:14081632 original size:17 final size:16
Alignment explanation
Indices: 14081612--14081643 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
14081602 AATTTTAAAA
14081612 TTTTAAAAATATATAAT
1 TTTTAAAAAT-TATAAT
14081629 TTTTAAAAATTATAA
1 TTTTAAAAATTATAA
14081644 AAAAATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTTAAAAATTATAAT
Found at i:14081635 original size:25 final size:25
Alignment explanation
Indices: 14081597--14081654 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
14081587 GTCAGTATTT
* *
14081597 AATTAAATTTT-AAAATTTTAAAAA
1 AATTAATTTTTAAAAATTATAAAAA
*
14081621 TATATAATTTTTAAAAATTATAAAAA
1 AAT-TAATTTTTAAAAATTATAAAAA
14081647 AATTAATT
1 AATTAATT
14081655 AAATGATAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 2 0.07
25 12 0.43
26 14 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
AATTAATTTTTAAAAATTATAAAAA
Found at i:14082052 original size:35 final size:35
Alignment explanation
Indices: 14082011--14082082 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
14082001 CTTAGTACCA
*
14082011 TTGTTCAACCAGATATGTCAATAAATTACCATTCT
1 TTGTTCAACCAAATATGTCAATAAATTACCATTCT
14082046 TTGTTCAACCAAATATGTCAATAAATTACCATTCT
1 TTGTTCAACCAAATATGTCAATAAATTACCATTCT
14082081 TT
1 TT
14082083 CGATCTCCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (35 bp):
TTGTTCAACCAAATATGTCAATAAATTACCATTCT
Found at i:14087374 original size:29 final size:30
Alignment explanation
Indices: 14087327--14087394 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
14087317 TGGCCCAAGA
* *
14087327 GTAAATACTCAAAATTTGAAGGATTAA-AGC
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGC
* *
14087357 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGC
14087387 GTAAATAT
1 GTAAATAT
14087395 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGC
Found at i:14090226 original size:27 final size:25
Alignment explanation
Indices: 14090190--14090257 Score: 68
Period size: 27 Copynumber: 2.7 Consensus size: 25
14090180 AAAAAGTGTC
* *
14090190 AAATTCAAATATCAAATTGAGATAAAA
1 AAATTTAAATATCAAATT-A-AGAAAA
*
14090217 AAATTTAAATACCAAATTAAGAAAA
1 AAATTTAAATATCAAATTAAGAAAA
*
14090242 ATA-TTAAA-ATCAAATT
1 AAATTTAAATATCAAATT
14090258 TAAATACTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 7 0.19
24 5 0.14
25 7 0.19
26 1 0.03
27 16 0.44
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.28
Consensus pattern (25 bp):
AAATTTAAATATCAAATTAAGAAAA
Found at i:14100860 original size:13 final size:13
Alignment explanation
Indices: 14100842--14100866 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14100832 ATAGAACTAA
14100842 AAAAATAAAAAAT
1 AAAAATAAAAAAT
14100855 AAAAATAAAAAA
1 AAAAATAAAAAA
14100867 CCTATTCGAT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:14103380 original size:36 final size:35
Alignment explanation
Indices: 14103339--14103427 Score: 98
Period size: 30 Copynumber: 2.6 Consensus size: 35
14103329 TTAAAATTTT
14103339 AAATTAATAAAAATAAATTTATATTTTAATCTTCTA
1 AAATTAATAAAAATAAATTTATATTTT-ATCTTCTA
* *
14103375 AAATTAAT---AA-AAATTT-TATTTTATTTTTTA
1 AAATTAATAAAAATAAATTTATATTTTATCTTCTA
*
14103405 AAATTTATAAAAATAAATATTAT
1 AAATTAATAAAAATAAAT-TTAT
14103428 TAAAATAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
30 13 0.30
31 6 0.14
32 6 0.14
33 4 0.09
34 4 0.09
35 2 0.05
36 9 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (35 bp):
AAATTAATAAAAATAAATTTATATTTTATCTTCTA
Found at i:14103616 original size:15 final size:16
Alignment explanation
Indices: 14103590--14103619 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14103580 ACTTTTTTAT
14103590 TTTATAATAAATAAAA
1 TTTATAATAAATAAAA
14103606 TTTAT-ATAAATAAA
1 TTTATAATAAATAAA
14103620 TTAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTATAATAAATAAAA
Found at i:14103643 original size:23 final size:23
Alignment explanation
Indices: 14103599--14103661 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
14103589 TTTTATAATA
* *
14103599 AATAAAATTT-ATATAAATAAATT
1 AATAAAATTTCAAATATATAAA-T
14103622 AATAAAATTTCAAATATA-AAAT
1 AATAAAATTTCAAATATATAAAT
* *
14103644 AGTAAAATATACAAATAT
1 AATAAAAT-TTCAAATAT
14103662 GAGGCACACG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 8 0.24
23 21 0.62
24 5 0.15
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (23 bp):
AATAAAATTTCAAATATATAAAT
Found at i:14103649 original size:22 final size:23
Alignment explanation
Indices: 14103615--14103661 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
14103605 ATTTATATAA
* *
14103615 ATAAATTAATAAAAT-TTCAAAT
1 ATAAAATAATAAAATATACAAAT
*
14103637 ATAAAATAGTAAAATATACAAAT
1 ATAAAATAATAAAATATACAAAT
14103660 AT
1 AT
14103662 GAGGCACACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAAAATAATAAAATATACAAAT
Found at i:14105095 original size:19 final size:18
Alignment explanation
Indices: 14105073--14105108 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14105063 ATTTATTTTT
14105073 AATTAATTAATTAAATTTG
1 AATTAA-TAATTAAATTTG
*
14105092 AATTAATAATTTAATTT
1 AATTAATAATTAAATTT
14105109 AACAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
AATTAATAATTAAATTTG
Found at i:14105107 original size:18 final size:19
Alignment explanation
Indices: 14105062--14105108 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
14105052 TTCCTTCCTA
* *
14105062 AATTTATTTTTAATTAATT
1 AATTTAATTTGAATTAATT
*
14105081 AATTAAATTTGAATTAA-T
1 AATTTAATTTGAATTAATT
14105099 AATTTAATTT
1 AATTTAATTT
14105109 AACAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
AATTTAATTTGAATTAATT
Found at i:14113699 original size:24 final size:24
Alignment explanation
Indices: 14113670--14113718 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
14113660 TAAAGAAAAA
14113670 AAAGATAAAGAAAAAAAGAATATC
1 AAAGATAAAGAAAAAAAGAATATC
14113694 AAAGATAAAGAAAAAAAGAATATC
1 AAAGATAAAGAAAAAAAGAATATC
14113718 A
1 A
14113719 TCCAAATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.71, C:0.04, G:0.12, T:0.12
Consensus pattern (24 bp):
AAAGATAAAGAAAAAAAGAATATC
Found at i:14114051 original size:9 final size:9
Alignment explanation
Indices: 14114037--14114076 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
14114027 TCTTCATATC
14114037 TTTATTATT
1 TTTATTATT
14114046 TTTATTATT
1 TTTATTATT
*
14114055 TTTATCATTT
1 TTTATTA-TT
*
14114065 TTTATTCTT
1 TTTATTATT
14114074 TTT
1 TTT
14114077 GGGTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 20 0.74
10 7 0.26
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTATTATT
Found at i:14116743 original size:8 final size:8
Alignment explanation
Indices: 14116730--14116756 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
14116720 ATTTTCAGAC
14116730 TTTTTAAA
1 TTTTTAAA
14116738 TTTTTAAA
1 TTTTTAAA
14116746 TTTTTAAA
1 TTTTTAAA
14116754 TTT
1 TTT
14116757 AGGTTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTTAAA
Found at i:14117344 original size:123 final size:120
Alignment explanation
Indices: 14117196--14117431 Score: 289
Period size: 123 Copynumber: 1.9 Consensus size: 120
14117186 AACCAAACCA
* *
14117196 AACCACAATTATCAGTTTATGATATTTTAATTTTTATTCTATAC-GATTTCAATTTCAAAAGTAA
1 AACCACAATTATCAGTTTATGATATTTCAATTTTTATTCTATACTG-TTACAATTTC--AAG-AA
* *
14117260 AAAATT-GAATAAAATGATTTAATTTATTTTTTATCTAAAAATCAAATTAAATTAAACTG
62 AAAATTAGAATAAAATAATTTAA-TTATTTTTTATCCAAAAATCAAATTAAATTAAACTG
* * **
14117319 AACCATAATTATCAGTTTCA-GATATTTCGATTTTTATTCTATACTGTTACAATTTCAAGAATGA
1 AACCACAATTATCAGTTT-ATGATATTTCAATTTTTATTCTATACTGTTACAATTTCAAGAAAAA
* * *
14117383 TTTACGAATAAAATAATTTAATTATTTTTTATCCAAAATTTAAATTAAA
65 ATTA-GAATAAAATAATTTAATTATTTTTTATCCAAAAATCAAATTAAA
14117432 CCAAACCGAG
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
120 5 0.05
121 28 0.29
122 15 0.15
123 48 0.49
124 2 0.02
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.43
Consensus pattern (120 bp):
AACCACAATTATCAGTTTATGATATTTCAATTTTTATTCTATACTGTTACAATTTCAAGAAAAAA
TTAGAATAAAATAATTTAATTATTTTTTATCCAAAAATCAAATTAAATTAAACTG
Found at i:14123537 original size:46 final size:46
Alignment explanation
Indices: 14123487--14123662 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
14123477 TGATTGAGCA
14123487 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
14123533 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
14123578 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
14123626 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14123663 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:14123643 original size:93 final size:93
Alignment explanation
Indices: 14123484--14123655 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
14123474 GGATGATTGA
*
14123484 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
14123549 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
14123577 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
14123641 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
14123656 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:14125534 original size:64 final size:64
Alignment explanation
Indices: 14125460--14125589 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
14125450 CAAGATAGTG
14125460 GTACAAGAGGTTTGATTCCTTTATGACTTCTCATGATTTTAAAAGAAGTAGTTTTGACAGTTGT
1 GTACAAGAGGTTTGATTCCTTTATGACTTCTCATGATTTTAAAAGAAGTAGTTTTGACAGTTGT
14125524 GTACAAGAGGTTTGATTCCTTTATGACTTCTCATGATTTTAAAAGAAGTAGTTTTGACAGTTGT
1 GTACAAGAGGTTTGATTCCTTTATGACTTCTCATGATTTTAAAAGAAGTAGTTTTGACAGTTGT
14125588 GT
1 GT
14125590 TTACTTTAAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.41
Consensus pattern (64 bp):
GTACAAGAGGTTTGATTCCTTTATGACTTCTCATGATTTTAAAAGAAGTAGTTTTGACAGTTGT
Found at i:14136414 original size:12 final size:12
Alignment explanation
Indices: 14136397--14136439 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
14136387 TTATTTTTTA
14136397 AAAATTAATAAT
1 AAAATTAATAAT
14136409 AAAATTAACTAA-
1 AAAATTAA-TAAT
*
14136421 AAAA-TAATCAT
1 AAAATTAATAAT
14136432 AAAATTAA
1 AAAATTAA
14136440 CAAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 2 0.07
11 7 0.26
12 15 0.56
13 3 0.11
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAATTAATAAT
Found at i:14136421 original size:23 final size:23
Alignment explanation
Indices: 14136395--14136447 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
14136385 AATTATTTTT
*
14136395 TAAAAATTAATAATAAAATTAAC
1 TAAAAAATAATAATAAAATTAAC
*
14136418 TAAAAAATAATCATAAAATTAAC
1 TAAAAAATAATAATAAAATTAAC
*
14136441 AAAAAAA
1 TAAAAAA
14136448 AATTGTAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.25
Consensus pattern (23 bp):
TAAAAAATAATAATAAAATTAAC
Found at i:14136804 original size:21 final size:21
Alignment explanation
Indices: 14136780--14136821 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
14136770 GTCAGTGTAA
*
14136780 AAAGATATGGATTAAGTGCGC
1 AAAGACATGGATTAAGTGCGC
14136801 AAAGACATGGATTAAGTGCGC
1 AAAGACATGGATTAAGTGCGC
14136822 TGCAATTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (21 bp):
AAAGACATGGATTAAGTGCGC
Found at i:14138920 original size:52 final size:51
Alignment explanation
Indices: 14138853--14139057 Score: 276
Period size: 52 Copynumber: 4.0 Consensus size: 51
14138843 AGTGATAAAA
*
14138853 TGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAAG
1 TGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-GAAAG
* *
14138905 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAG
1 TGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG-AAAG
* *
14138957 TGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----AAAG
1 TGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTGAAAG
* *
14139003 TGATAAGTGATAGTTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAG
1 TGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGTGA-AAG
14139056 TG
1 TG
14139058 GCTACACTTA
Statistics
Matches: 138, Mismatches: 7, Indels: 15
0.86 0.04 0.09
Matches are distributed among these distances:
46 42 0.30
51 1 0.01
52 90 0.65
53 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
TGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTGAAAG
Found at i:14139028 original size:98 final size:99
Alignment explanation
Indices: 14138841--14139057 Score: 283
Period size: 98 Copynumber: 2.1 Consensus size: 99
14138831 TACTTCTGAT
* *
14138841 CAAGTGATAAAATGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-----GAAAGT
* *
14138906 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
60 GATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
* *
14138946 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-AAAGTGATAAG
1 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACGAAAGTGATAAG
* *
14139010 TGATAGTTTTAGCTACACTTATCTGATCAAGAGA
66 TGATAGCTTCAGCTACACTTATCTGATCAAGAGA
*
14139044 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
14139058 GCTACACTTA
Statistics
Matches: 102, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
98 42 0.41
99 11 0.11
104 42 0.41
105 7 0.07
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (99 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACGAAAGTGATAAG
TGATAGCTTCAGCTACACTTATCTGATCAAGAGA
Found at i:14139065 original size:37 final size:37
Alignment explanation
Indices: 14139021--14139203 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
14139011 GATAGTTTTA
14139021 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
14139058 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
14139095 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* * *
14139132 GCTACACTTATGTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
14139169 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
14139204 ATCATACGTA
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 124 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:14140987 original size:26 final size:27
Alignment explanation
Indices: 14140941--14140994 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
14140931 ATTAATATAC
*
14140941 TAATAAATAAATTATTGAAGTAA-ATA
1 TAATAAATAAATTATTAAAGTAAGATA
*
14140967 TAATAATTATAATT-TTAAAGTAAGATA
1 TAATAAATA-AATTATTAAAGTAAGATA
14140994 T
1 T
14140995 CTACTGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (27 bp):
TAATAAATAAATTATTAAAGTAAGATA
Found at i:14143766 original size:14 final size:15
Alignment explanation
Indices: 14143743--14143771 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14143733 TTAGATTATA
14143743 TTATATAAAAAATAT
1 TTATATAAAAAATAT
14143758 TTATA-AAAAAATAT
1 TTATATAAAAAATAT
14143772 AAAAATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTATATAAAAAATAT
Found at i:14152625 original size:23 final size:24
Alignment explanation
Indices: 14152599--14152693 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
14152589 AAATGTCCAA
14152599 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
14152622 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
14152650 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
14152679 CCAAAACACACCAGA
1 CCAAAACACACCAGA
14152694 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:14152695 original size:29 final size:28
Alignment explanation
Indices: 14152613--14152696 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
14152603 AACACACCAG
* *
14152613 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
14152641 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
14152669 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
14152697 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:14154411 original size:46 final size:46
Alignment explanation
Indices: 14154361--14154489 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
14154351 TGGTTGAGCA
*
14154361 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
14154407 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
14154453 CCCGAGCTCGTTGAGTTGAATCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14154490 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:14159758 original size:25 final size:25
Alignment explanation
Indices: 14159730--14159784 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
14159720 TTTGACATTG
*
14159730 ATAAAAAAATATAACTCAGTACAAA
1 ATAAAAAAATACAACTCAGTACAAA
* *
14159755 ATAAAACAATACAACTCAGTGCAAA
1 ATAAAAAAATACAACTCAGTACAAA
14159780 ATAAA
1 ATAAA
14159785 CTTCGAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.62, C:0.15, G:0.05, T:0.18
Consensus pattern (25 bp):
ATAAAAAAATACAACTCAGTACAAA
Found at i:14161572 original size:25 final size:25
Alignment explanation
Indices: 14161518--14161595 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
14161508 AAGTACTATA
*
14161518 CAGAGAGCACGAATGTGCT-A-AAT
1 CAGAGAGCACTAATGTGCTAATAAT
* *
14161541 -GGAGAGCACTAATGTGTTAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
*
14161565 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
14161590 CAGAGA
1 CAGAGA
14161596 ACGCGCTAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 15 0.33
23 1 0.02
24 3 0.07
25 27 0.59
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (25 bp):
CAGAGAGCACTAATGTGCTAATAAT
Found at i:14162736 original size:19 final size:18
Alignment explanation
Indices: 14162712--14162756 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
14162702 TGTTTTATTT
*
14162712 TAATAATGTATTATAATAA
1 TAATAATGT-TAATAATAA
14162731 TAATAAT-TTAATAATAA
1 TAATAATGTTAATAATAA
14162748 -AATAATGTT
1 TAATAATGTT
14162757 TACTTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 6 0.25
17 10 0.42
18 1 0.04
19 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
TAATAATGTTAATAATAA
Found at i:14174028 original size:9 final size:9
Alignment explanation
Indices: 14174014--14174049 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
14174004 ATATTATAAT
14174014 TCATTTGAA
1 TCATTTGAA
14174023 TCATTTGAA
1 TCATTTGAA
14174032 TCATTTGAA
1 TCATTTGAA
14174041 TCATTTGAA
1 TCATTTGAA
14174050 ACATCATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (9 bp):
TCATTTGAA
Found at i:14174436 original size:22 final size:22
Alignment explanation
Indices: 14174397--14174441 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
14174387 GTTTATAAAT
14174397 TTTTTTATTTATCATTTTTTTAG
1 TTTTTTATTTAT-ATTTTTTTAG
*
14174420 TTTTTTATTTGATTTTTTTTTA
1 TTTTTTATTT-ATATTTTTTTA
14174442 AATTCATCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTTTTATTTATATTTTTTTAG
Found at i:14177024 original size:7 final size:7
Alignment explanation
Indices: 14177012--14177040 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
14177002 AATTTAATTT
14177012 TTTTTTC
1 TTTTTTC
14177019 TTTTTTC
1 TTTTTTC
14177026 TTTTTTC
1 TTTTTTC
14177033 TTTTTTC
1 TTTTTTC
14177040 T
1 T
14177041 CAGTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:14179031 original size:6 final size:6
Alignment explanation
Indices: 14179020--14179049 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
14179010 TCAATTAGAG
14179020 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
14179050 GTTATGTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:14180942 original size:30 final size:29
Alignment explanation
Indices: 14180894--14180958 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
14180884 TAATTTATTT
*
14180894 AATAATTTTAATAATTTTTAATTTTTAAA
1 AATAATTTTAATAATTTTTAATTTTGAAA
* * *
14180923 AATAGTTTTTATAATTTTTTCATTTTGAAA
1 AATAATTTTAATAA-TTTTTAATTTTGAAA
14180953 ATATAA
1 A-ATAA
14180959 AAATTAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 12 0.41
30 14 0.48
31 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (29 bp):
AATAATTTTAATAATTTTTAATTTTGAAA
Found at i:14185525 original size:3 final size:3
Alignment explanation
Indices: 14185517--14185546 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
14185507 ACATAAAAAG
14185517 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14185547 GGCGTGCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14187021 original size:14 final size:14
Alignment explanation
Indices: 14187002--14187028 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14186992 TAAATAAAAT
14187002 TTTAAAAACTAAAG
1 TTTAAAAACTAAAG
14187016 TTTAAAAACTAAA
1 TTTAAAAACTAAA
14187029 TATTTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (14 bp):
TTTAAAAACTAAAG
Found at i:14187395 original size:19 final size:19
Alignment explanation
Indices: 14187363--14187401 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
14187353 AGTAATTTTT
*
14187363 TAAAATTTTAAAAAAAATA
1 TAAAAATTTAAAAAAAATA
*
14187382 TAAAAATTTCAAAAAAATA
1 TAAAAATTTAAAAAAAATA
14187401 T
1 T
14187402 TTAAAAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAAATTTAAAAAAAATA
Found at i:14187407 original size:20 final size:19
Alignment explanation
Indices: 14187361--14187407 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
14187351 TAAGTAATTT
*
14187361 TTTAAAATTTTAAAAAAAA
1 TTTAAAATTTCAAAAAAAA
*
14187380 TATAAAAATTTCAAAAAAATA
1 T-TTAAAATTTCAAAAAAA-A
14187401 TTTAAAA
1 TTTAAAA
14187408 GGTTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 20 0.87
21 2 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
TTTAAAATTTCAAAAAAAA
Found at i:14190656 original size:20 final size:20
Alignment explanation
Indices: 14190619--14190657 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14190609 TGAATTTTTT
*
14190619 TTTTGAGAAATTTTGTTTAA
1 TTTTGAGAAATTTAGTTTAA
14190639 TTTTGA-AAATTTGAGTTTA
1 TTTTGAGAAATTT-AGTTTA
14190658 GAATTAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (20 bp):
TTTTGAGAAATTTAGTTTAA
Found at i:14194072 original size:60 final size:62
Alignment explanation
Indices: 14193974--14194118 Score: 231
Period size: 62 Copynumber: 2.4 Consensus size: 62
14193964 GATAAAATCT
*
14193974 CTAGAAAGCTTTAAATGGTTTTAAGATCAGTTGAATTGTGAATACT-GG-ACAATTAGGGTCC
1 CTAGAAAGCTCT-AATGGTTTTAAGATCAGTTGAATTGTGAATACTAGGAACAATTAGGGTCC
* * *
14194035 CTAGAAAGCTCTAATAGTTTTAAGATTAGTTGGATTGTGAATACTAGGAACAATTAGGGTCC
1 CTAGAAAGCTCTAATGGTTTTAAGATCAGTTGAATTGTGAATACTAGGAACAATTAGGGTCC
14194097 CTAGAAAGCTCTAATGGTTTTA
1 CTAGAAAGCTCTAATGGTTTTA
14194119 TTTATAATTG
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
60 30 0.39
61 13 0.17
62 34 0.44
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (62 bp):
CTAGAAAGCTCTAATGGTTTTAAGATCAGTTGAATTGTGAATACTAGGAACAATTAGGGTCC
Found at i:14201410 original size:18 final size:19
Alignment explanation
Indices: 14201377--14201414 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
14201367 AGACTCCAGG
*
14201377 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
14201396 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
14201414 T
1 T
14201415 GCTTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:14205493 original size:28 final size:28
Alignment explanation
Indices: 14205453--14205509 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
14205443 AGAAAGAATG
14205453 ATATCTAGCATTATACTATAATCCTTTT
1 ATATCTAGCATTATACTATAATCCTTTT
14205481 ATATCTAGCATTATACTATAATCCTTTT
1 ATATCTAGCATTATACTATAATCCTTTT
14205509 A
1 A
14205510 CTCCATTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.46
Consensus pattern (28 bp):
ATATCTAGCATTATACTATAATCCTTTT
Found at i:14211283 original size:18 final size:19
Alignment explanation
Indices: 14211262--14211308 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
14211252 ATATATGGAT
14211262 ATATATAATAGGAT-ATAA
1 ATATATAATAGGATGATAA
* *
14211280 ATATATAATAAGATGATAT
1 ATATATAATAGGATGATAA
14211299 ATATA-AATAG
1 ATATATAATAG
14211309 TTATAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (19 bp):
ATATATAATAGGATGATAA
Found at i:14211314 original size:35 final size:33
Alignment explanation
Indices: 14211259--14211323 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
14211249 GAGATATATG
14211259 GATATATATAATAGGATATAAATATATAATAAGAT
1 GATATATATAATAGGATAT-AATA-ATAATAAGAT
*
14211294 GATATATATAAATA-GTTATAATAATAATAA
1 GATATATAT-AATAGGATATAATAATAATAA
14211324 TAATAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 4 0.14
35 13 0.46
36 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.35
Consensus pattern (33 bp):
GATATATATAATAGGATATAATAATAATAAGAT
Found at i:14212542 original size:15 final size:15
Alignment explanation
Indices: 14212522--14212573 Score: 104
Period size: 15 Copynumber: 3.5 Consensus size: 15
14212512 GGGCATGGTA
14212522 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
14212537 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
14212552 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
14212567 ATTGGGT
1 ATTGGGT
14212574 CCCTTTGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (15 bp):
ATTGGGTTTGTGGGT
Found at i:14212550 original size:8 final size:8
Alignment explanation
Indices: 14212524--14212566 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
14212514 GCATGGTAAT
14212524 TGGGTTTG
1 TGGGTTTG
*
14212532 TGGGTAT-
1 TGGGTTTG
14212539 TGGGTTTG
1 TGGGTTTG
*
14212547 TGGGTAT-
1 TGGGTTTG
14212554 TGGGTTTG
1 TGGGTTTG
14212562 TGGGT
1 TGGGT
14212567 ATTGGGTCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 12 0.41
8 17 0.59
ACGTcount: A:0.05, C:0.00, G:0.49, T:0.47
Consensus pattern (8 bp):
TGGGTTTG
Found at i:14212853 original size:44 final size:43
Alignment explanation
Indices: 14212794--14213173 Score: 171
Period size: 44 Copynumber: 8.7 Consensus size: 43
14212784 ACTTGATGCG
** * * *
14212794 ATCTGCTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCTTT-CTTCA
* * * ** * *
14212838 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCTTTCTTCA
* * **
14212881 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATC-CTTTCTTCA
* *
14212925 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTCCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCT----TTCTTCA
* * * * ** * *
14212971 GTCTACTCTACTGTAATCCTCAGAGAGATAAGA-CC-TAATGCG
1 ATCTGCTCCACTGTAA-CCTCAGGGAGATAAGATCCTTTCTTCA
* * ** * *
14213013 GTCTACTCTGCTGTAACTTCAGAGAGATAAGAT-C-TT-TT-A
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCTTTCTTCA
* * * * * * * **
14213052 ATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGA-TCCTTTCTTCA
* * * **
14213096 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTTAAATTCTTTG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCT---TTCTTCA
* * *
14213142 GTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGA
14213174 CCTGTATAAT
Statistics
Matches: 257, Mismatches: 63, Indels: 30
0.73 0.18 0.09
Matches are distributed among these distances:
39 21 0.08
40 2 0.01
41 18 0.07
42 22 0.09
43 34 0.13
44 93 0.36
46 51 0.20
47 16 0.06
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCTTTCTTCA
Found at i:14212912 original size:87 final size:87
Alignment explanation
Indices: 14212792--14212953 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 87
14212782 AGACTTGATG
* * * * *
14212792 CGATCTGCTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTGCTCCGCTGTAACCTCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACC
14212856 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAGGATAGTGTCTT
* * * *
14212879 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTGCTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
14212944 CAGGGAGATA
66 CAGGGAGATA
14212954 AGATCTGAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
87 64 0.98
88 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (87 bp):
CGATCTGCTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAGGATAGTGTCTT
Found at i:14213003 original size:47 final size:41
Alignment explanation
Indices: 14212934--14213047 Score: 129
Period size: 42 Copynumber: 2.6 Consensus size: 41
14212924 AATCTGCTCC
*
14212934 ACTGTAACCTCAGGGAGATAAGATCTGAAATTCTCCGGTCTACTCT
1 ACTGTAACCTCAGAGAGATAAGATCT--AA---TCCGGTCTACTCT
* *
14212980 ACTGTAATCCTCAGAGAGATAAGACCTAATGCGGTCTACTCT
1 ACTGTAA-CCTCAGAGAGATAAGATCTAATCCGGTCTACTCT
* *
14213022 GCTGTAACTTCAGAGAGATAAGATCT
1 ACTGTAACCTCAGAGAGATAAGATCT
14213048 TTTAATCCGC
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
41 17 0.28
42 18 0.30
45 2 0.03
46 7 0.11
47 17 0.28
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (41 bp):
ACTGTAACCTCAGAGAGATAAGATCTAATCCGGTCTACTCT
Found at i:14220475 original size:15 final size:15
Alignment explanation
Indices: 14220452--14220481 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14220442 GTTACAAACC
*
14220452 GAAACAAAAGGGAAA
1 GAAAAAAAAGGGAAA
14220467 GAAAAAAAAGGGAAA
1 GAAAAAAAAGGGAAA
14220482 TTTCATTAGG
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:0.70, C:0.03, G:0.27, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAGGGAAA
Found at i:14223411 original size:2 final size:2
Alignment explanation
Indices: 14223404--14223442 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
14223394 TTCAAAACTT
14223404 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14223443 CTCACTTTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14223643 original size:27 final size:25
Alignment explanation
Indices: 14223613--14223682 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 25
14223603 TTCATTTAAC
14223613 ATATTATTTATTTGAAATTTGCCTTAT
1 ATATTATTTATTTGAAA-TTG-CTTAT
** *
14223640 ATATTATTTTATTCCAAATTGTTTAT
1 ATATTA-TTTATTTGAAATTGCTTAT
*
14223666 ATTTTATTTATGTTGAA
1 ATATTATTTAT-TTGAA
14223683 TTTTTTTCAC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
25 5 0.14
26 12 0.34
27 9 0.26
28 9 0.26
ACGTcount: A:0.30, C:0.06, G:0.07, T:0.57
Consensus pattern (25 bp):
ATATTATTTATTTGAAATTGCTTAT
Found at i:14225297 original size:47 final size:47
Alignment explanation
Indices: 14225228--14225380 Score: 191
Period size: 47 Copynumber: 3.2 Consensus size: 47
14225218 TTCGGAGAAA
* *
14225228 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
* *
14225275 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
* * ** * *
14225322 TGTGATATGTGAT-CCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
14225368 TATGTGATATGTG
1 --TGTGATATGTG
14225381 ACTATGTGCA
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
46 26 0.28
47 55 0.60
48 11 0.12
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.31
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:14230239 original size:14 final size:13
Alignment explanation
Indices: 14230220--14230251 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
14230210 ACATTGTGTG
14230220 TTTTTTATTTTTAT
1 TTTTTTA-TTTTAT
14230234 TTTTTTATTTTAT
1 TTTTTTATTTTAT
14230247 TTTTT
1 TTTTT
14230252 CACAAGCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:14237586 original size:28 final size:28
Alignment explanation
Indices: 14237548--14237617 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
14237538 TTTAAATACC
14237548 TTTTTATAATTTTTTTACAAAA-AAAATA
1 TTTTTATAATTTTTTTA-AAAATAAAATA
* * *
14237576 TTTTTAAAATTTTTTTAAAAATACAATT
1 TTTTTATAATTTTTTTAAAAATAAAATA
14237604 TTTTTATAATTTTT
1 TTTTTATAATTTTT
14237618 ACAATTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 4 0.11
28 33 0.89
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTTTATAATTTTTTTAAAAATAAAATA
Found at i:14237652 original size:19 final size:19
Alignment explanation
Indices: 14237630--14237666 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14237620 AATTTTTTTC
14237630 ATTTTTAATAATATTATTA
1 ATTTTTAATAATATTATTA
* *
14237649 ATTTTTTATAATCTTATT
1 ATTTTTAATAATATTATT
14237667 GTATTTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTAATAATATTATTA
Found at i:14239023 original size:20 final size:20
Alignment explanation
Indices: 14238998--14239035 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14238988 TACAAGTAGG
14238998 TATGAAGCTGCCAACACAAA
1 TATGAAGCTGCCAACACAAA
14239018 TATGAAGCTGCCAACACA
1 TATGAAGCTGCCAACACA
14239036 TATACTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.26, G:0.16, T:0.16
Consensus pattern (20 bp):
TATGAAGCTGCCAACACAAA
Found at i:14251336 original size:18 final size:18
Alignment explanation
Indices: 14251313--14251366 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
14251303 CCACCACCAA
14251313 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
14251331 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
14251343 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
14251361 CTCCAC
1 CTCCAC
14251367 CATCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 1 0.04
16 1 0.04
17 3 0.11
18 13 0.46
ACGTcount: A:0.24, C:0.50, G:0.07, T:0.19
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:14251339 original size:30 final size:30
Alignment explanation
Indices: 14251303--14251368 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
14251293 CTAGCCTTTG
14251303 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
14251333 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
14251363 CCACCA
1 CCACCA
14251369 TCACTTGTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.27, C:0.52, G:0.06, T:0.15
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:14251943 original size:23 final size:25
Alignment explanation
Indices: 14251917--14251972 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 25
14251907 ATTCCAAATT
14251917 CTATATTACGTATATAT-ATT-ATA
1 CTATATTACGTATATATCATTAATA
* * *
14251940 CTATTTTATGTATATATCTTTAATA
1 CTATATTACGTATATATCATTAATA
14251965 CTATATTA
1 CTATATTA
14251973 TTTATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 15 0.56
24 2 0.07
25 10 0.37
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.52
Consensus pattern (25 bp):
CTATATTACGTATATATCATTAATA
Found at i:14251955 original size:25 final size:25
Alignment explanation
Indices: 14251917--14252058 Score: 78
Period size: 25 Copynumber: 5.7 Consensus size: 25
14251907 ATTCCAAATT
*
14251917 CTATATTACGTATATATA-TT-ATA
1 CTATATTATGTATATATATTTAATA
* *
14251940 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
* * * *
14251965 CTATATTATTTATATTTTTTTTTCTACATG
1 CTATATTATGTATA---TATATT-TA-ATA
* *
14251995 TTATCTTATGTATATAT-TTTAAT-
1 CTATATTATGTATATATATTTAATA
* * * *
14252018 -TATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATATTTAATA
*
14252042 CTATATTATGTACATAT
1 CTATATTATGTATATAT
14252059 TTTTTTATAT
Statistics
Matches: 91, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
22 14 0.15
23 19 0.21
24 4 0.04
25 31 0.34
26 2 0.02
27 2 0.02
28 4 0.04
29 2 0.02
30 13 0.14
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:14252045 original size:77 final size:81
Alignment explanation
Indices: 14251926--14252097 Score: 190
Period size: 77 Copynumber: 2.2 Consensus size: 81
14251916 TCTATATTAC
* * * * * * *
14251926 GTATATATATTATACTATTTTATGTATATATCTTTAATACTATATTATTTATATTTTTTTTTCTA
1 GTATATATTTTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTATA
*
14251991 -C-ATGTTAT-CTTAT
66 TCTATGTTATACATAT
* * * *
14252004 GTATATATTTTA-ATTATATTATGTATGTATTTTTTACACTATATTATGTACATATTTTTTTATA
1 GTATATATTTTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTATA
*
14252068 TCTATTTTATACATAT
66 TCTATGTTATACATAT
*
14252084 GTATATATTATATA
1 GTATATATTTTATA
14252098 TATCTTAACA
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
77 42 0.55
78 12 0.16
79 6 0.08
80 15 0.20
81 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (81 bp):
GTATATATTTTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTATA
TCTATGTTATACATAT
Found at i:14252072 original size:27 final size:25
Alignment explanation
Indices: 14252006--14252077 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
14251996 TATCTTATGT
* *
14252006 ATATATTTTAAT-TATATTATGTAT
1 ATATTTTTTAATCTATATTATGTAC
*
14252030 GTATTTTTTACA-CTATATTATGTAC
1 ATATTTTTTA-ATCTATATTATGTAC
*
14252055 ATATTTTTTTATATCTATTTTAT
1 ATA-TTTTTTA-ATCTATATTAT
14252078 ACATATGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 8 0.21
25 14 0.37
26 8 0.21
27 8 0.21
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
ATATTTTTTAATCTATATTATGTAC
Found at i:14257893 original size:13 final size:13
Alignment explanation
Indices: 14257875--14257899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14257865 CTTTTTATTA
14257875 TTTTGTTTCTTTC
1 TTTTGTTTCTTTC
14257888 TTTTGTTTCTTT
1 TTTTGTTTCTTT
14257900 TATATATATA
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:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTGTTTCTTTC
Found at i:14266557 original size:73 final size:73
Alignment explanation
Indices: 14266464--14266630 Score: 271
Period size: 73 Copynumber: 2.3 Consensus size: 73
14266454 AATTTCCGTT
* * *
14266464 TTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACG
1 TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGGCACG
14266529 CCGAGGTA
66 CCGAGGTA
*
14266537 TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGGCACG
*
14266602 CTGAGGTA
66 CCGAGGTA
* *
14266610 TTTTCAATTTCTATTTTTCAA
1 TTTTTAATTTCTGTTTTTCAA
14266631 TTTTTGCCTT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 87 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (73 bp):
TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGGCACG
CCGAGGTA
Found at i:14266864 original size:255 final size:260
Alignment explanation
Indices: 14266395--14266885 Score: 710
Period size: 255 Copynumber: 1.9 Consensus size: 260
14266385 TCTTTCAAAA
* *
14266395 AAATCAACTCATATTGCGAGAGGTGAGTTGGGTCTCAGGTCACACGCTGAGGTATTTTCAATTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGTATTTTCAATTTC
* * * * *
14266460 CGTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGG
65 CATTTTTTTAATTTATGCTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGCTGAGCCTCAGGA
* * * * *
14266525 CACGCCGAGGTATTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
130 CACGCCGAGGTAATTTCAA-TTCTGTTTGTCAAAAATCAACTCATATTGCAAAAGGTGAGTTGAG
* *
14266590 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTA-TTTTTCAATTTTTGCCTTACAAATTCTTCTT
194 CCTCAAGACACGCTGAGGTATTTTCAATTTC-AGTTTTTCAATTTTTGCCTTACAAATTCTTCTT
14266654 TTC
258 TTC
*
14266657 AAATCAACTCATATTGCGAGAGGTGAGTT-AGCCTCA-G-ACACGCTGAGGTATTTTCAATTTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTTCC
*
14266719 ATTTTTTTAATTTATG-TTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG
66 ATTTTTTTAATTTATGCTTT-T-AAAAAATCAACTCATATTGCGAGAAGTGAGCTGAGCCTCAGG
* *
14266783 ACACGCTGAGGTAATTTCAA-T-T-TTTGTCAAAACTCAACTCATATTGCAAAAGGTGAGTTGAG
129 ACACGCCGAGGTAATTTCAATTCTGTTTGTCAAAAATCAACTCATATTGCAAAAGGTGAGTTGAG
*
14266845 CCTCAAGACACGTTGAGGTATTTTCAATTTCAGTTTTTCAA
194 CCTCAAGACACGCTGAGGTATTTTCAATTTCAGTTTTTCAA
14266886 AAAAATCAAC
Statistics
Matches: 207, Mismatches: 19, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
254 1 0.00
255 72 0.35
256 1 0.00
257 4 0.02
258 40 0.19
259 54 0.26
260 1 0.00
261 5 0.02
262 29 0.14
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (260 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTTCC
ATTTTTTTAATTTATGCTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGCTGAGCCTCAGGAC
ACGCCGAGGTAATTTCAATTCTGTTTGTCAAAAATCAACTCATATTGCAAAAGGTGAGTTGAGCC
TCAAGACACGCTGAGGTATTTTCAATTTCAGTTTTTCAATTTTTGCCTTACAAATTCTTCTTTTC
Found at i:14267346 original size:221 final size:220
Alignment explanation
Indices: 14266742--14267770 Score: 1662
Period size: 221 Copynumber: 4.7 Consensus size: 220
14266732 ATGTTTCTAA
* * * * *
14266742 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* * * * *
14266807 TGTC-----AAAACTCAACTCATATTGCAAAAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATT
66 TGTCTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATT
* * *
14266867 TTCAATTTCAGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACG
131 TTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA--AGACG
*
14266932 CTGAGGTAATTTAAATTTTTGTTTGTC
194 CTGAGGTAATTTCAATTTTTGTTTGTC
*
14266959 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
14267024 TGTCTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATT
66 TGTCTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATT
14267089 TTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGCT
131 TTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGCT
14267153 GAGGTAATTTCAATTTTTGTTTGTC
196 GAGGTAATTTCAATTTTTGTTTGTC
*
14267178 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
14267243 TGTCTTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
66 TGTC-TTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
*
14267308 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTC-AGACAG
130 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGAC-G
14267372 CTGAGGTAATTTCAATTTTTGTTTGTC
194 CTGAGGTAATTTCAATTTTTGTTTGTC
*
14267399 AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
*
14267464 CTGTCTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACATGTTGAGGTAT
65 CTGTCTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
*
14267529 TTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGC
130 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGC
*
14267594 TGAGGTAATTTTAATTTTTGTTTGTC
195 TGAGGTAATTTCAATTTTTGTTTGTC
* * *
14267620 AAAAATCAACTCATATTGTGAAAGGTGAGTTGAGCCTCAAGACACGTTGAGGCATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
*
14267685 TGTCTTTCAAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGG
66 TGTCTTT----AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGG
* * *
14267748 TGTTTTCCATTTCTGTTCTTCAA
127 TATTTTCAATTTCTGTTTTTCAA
14267771 TTTCTGTGTT
Statistics
Matches: 764, Mismatches: 34, Indels: 23
0.93 0.04 0.03
Matches are distributed among these distances:
217 63 0.08
219 97 0.13
220 144 0.19
221 259 0.34
222 158 0.21
224 43 0.06
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (220 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTCTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATT
TTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGCT
GAGGTAATTTCAATTTTTGTTTGTC
Found at i:14267478 original size:367 final size:365
Alignment explanation
Indices: 14266722--14267763 Score: 1415
Period size: 367 Copynumber: 2.8 Consensus size: 365
14266712 AATTTTCATT
* * * * *
14266722 TTTTTAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGTTT-TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA--AGAC
* *
14266787 GCTGAGGTAATTTCAA---TT-TTTGTCAAAACTCAACTCATATTGCAAAAGGTGAGTTGAGCCT
63 GCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
* *
14266848 CAAGACACGTTGAGGTATTTTCAATTTCAGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTG
128 CAAGACAC-TTGAGGTATTTTCAATTTCTGTTTTT-AAAAAAATCAACTCATATTGCGAAAGGTG
* * * * * *
14266913 AGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATTTTTGTTTGTC--AAAAATCAACTCATATT
191 AGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATT
* *
14266976 GCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAATCA
256 GCGAGAGGTGAGTTGAACCTCAAGACA-GCTGAGGTAATTTCAATTTCTGTCTTTAAAAAAATCA
* *
14267041 GCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTA
320 ACTCATATTGCGAGAGATGAGTTGAACCTCAAGACACGTTGAGGTA
*
14267087 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGC
1 TTTTCAATTTCTGTTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGC
*
14267152 TGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
65 TGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCA
* *
14267217 AGACACATTGAGGTATTTTCAATTTCTGTCTTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAG
130 AGACAC-TTGAGGTATTTTCAATTTCTGT-TTTTAAAAAAATCAACTCATATTGCGAAAGGTGAG
*
14267282 TTGAACCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGC
193 TTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGC
* * * *
14267347 GATAGGTGAGTTGAGCCTC-AGACAGCTGAGGTAATTTCAATTTTTGT-TTGTCAAAAAATCAAC
258 GAGAGGTGAGTTGAACCTCAAGACAGCTGAGGTAATTTCAATTTCTGTCTT-TAAAAAAATCAAC
*
14267410 TCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTA
322 TCATATTGCGAGAGATGAGTTGAACCTCAAGACACGTTGAGGTA
*
14267454 TTTTCAATTTCTGTCTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAT
1 TTTTCAATTTCTGT-TTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC--
* * * * *
14267519 GTTGAGGTATTTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAAC
63 GCTGAGGTAATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGC
* * * * *
14267584 CTCAAGACGC-TGAGGTAATTTT-AATTTTTGTTTGT-CAAAAATCAACTCATATTGTGAAAGGT
126 CTCAAGACACTTGAGGT-ATTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAAAGGT
* * *
14267646 GAGTTGAGCCTCAAGACACGTTGAGGCATTTTCAATTTCTGTCTTTCAAAAAAAAAATCAGCTCA
190 GAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTC---AAAAAAATCAACTCA
** *
14267711 TATTGCGAGAGGTGAGTTGAACCTCAAGAC-GCTGAGGTGTTTTCCATTTCTGT
252 TATTGCGAGAGGTGAGTTGAACCTCAAGACAGCTGAGGTAATTTCAATTTCTGT
14267764 TCTTCAATTT
Statistics
Matches: 605, Mismatches: 53, Indels: 33
0.88 0.08 0.05
Matches are distributed among these distances:
363 19 0.03
364 1 0.00
365 52 0.09
366 4 0.01
367 332 0.55
368 15 0.02
369 75 0.12
370 61 0.10
371 46 0.08
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (365 bp):
TTTTCAATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCT
GAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAA
GACACTTGAGGTATTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAAAGGTGAGTTG
AGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAG
AGGTGAGTTGAACCTCAAGACAGCTGAGGTAATTTCAATTTCTGTCTTTAAAAAAATCAACTCAT
ATTGCGAGAGATGAGTTGAACCTCAAGACACGTTGAGGTA
Found at i:14267877 original size:15 final size:14
Alignment explanation
Indices: 14267841--14267873 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
14267831 CGCTGAGGTA
14267841 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
14267855 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
14267869 TTTTC
1 TTTTC
14267874 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:14267879 original size:91 final size:89
Alignment explanation
Indices: 14267739--14268176 Score: 448
Period size: 91 Copynumber: 4.9 Consensus size: 89
14267729 GAACCTCAAG
* * * * * *
14267739 ACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGC
1 ACGCTGAGGTATTTT-CAATTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGC
*
14267804 GAGTGGTGAGTTGAGCCTTGATTCAC
65 GAGAGGTGAGTTGAGCCTTGA-TCAC
*
14267830 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTT-TGTTTTTCCAAAAAATCAACTCATATTG
1 ACGCTGAGGTATTTTC-AATTCTGTTTTTC-AATTTATGTTTTTCAAAAAAATCAACTCATATTG
* * **
14267894 CGAGAGGTGAGTTCAGCC-TCAGGAC
64 CGAGAGGTGAGTTGAGCCTTGATCAC
* * *
14267919 ACACTGAGATATTTTCAATT-T-TTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCG
1 ACGCTGAGGTATTTTCAATTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCG
*
14267982 AGAGGTGAGTTGAGCCTCAGATCAC
66 AGAGGTGAGTTGAGCCT-TGATCAC
* * * * * *
14268007 ACGCCGAGGTATTTTCAATTGATTTTTTTCAATTTATGCTTTGC--AAAAATCAACTCATATTAC
1 ACGCTGAGGTATTTTCAATT-CTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGC
* *
14268070 GAGAGGTGAGTTGAGCCTCGGGTCAC
65 GAGAGGTGAGTTGAGCCT-TGATCAC
** * * *
14268096 ATACCGAGGTATTTTCAAAATCTGTTTTACAAATTT-TG-TTTT---AAAAATCAACTCATATTG
1 ACGCTGAGGTATTTTC-AATTCTGTTTTTC-AATTTATGTTTTTCAAAAAAATCAACTCATATTG
*
14268156 CGAGAAGTGAGTTGAGCCTTG
64 CGAGAGGTGAGTTGAGCCTTG
14268177 GCTCACGTGC
Statistics
Matches: 298, Mismatches: 39, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
85 5 0.02
86 50 0.17
87 36 0.12
88 27 0.09
89 80 0.27
90 12 0.04
91 83 0.28
92 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (89 bp):
ACGCTGAGGTATTTTCAATTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCG
AGAGGTGAGTTGAGCCTTGATCAC
Found at i:14267994 original size:177 final size:173
Alignment explanation
Indices: 14267697--14268176 Score: 535
Period size: 177 Copynumber: 2.7 Consensus size: 173
14267687 TCTTTCAAAA
* * * * * *
14267697 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCTGAGGTGTTTTCCATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTT
* *
14267760 CTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGA
66 -T-TT-TTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGA
* * *
14267825 TTCACACGCTGAGGTATTTTCAAATT-CTGTTTTTCAAATTT-TGTTTTTCC
126 -TCACACGCCGAGGTATTTTC-AATTGATGTTTTTC-AATTTATG-CTTTCC
* *
14267875 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACACTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTT
*
14267940 TTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
66 TTTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGATC
* *
14268005 ACACGCCGAGGTATTTTCAATTGATTTTTTTCAATTTATGCTTTGC
128 ACACGCCGAGGTATTTTCAATTGATGTTTTTCAATTTATGCTTTCC
* * * *
14268051 -AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACACTGAGGTATTTTC--A
* * *
14268115 ATCTGTTTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTG
62 AT-TTTTTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
14268177 GCTCACGTGC
Statistics
Matches: 263, Mismatches: 27, Indels: 27
0.83 0.09 0.09
Matches are distributed among these distances:
175 39 0.15
176 51 0.19
177 93 0.35
178 41 0.16
179 5 0.02
180 29 0.11
181 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (173 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTT
TTTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGATCACA
CGCCGAGGTATTTTCAATTGATGTTTTTCAATTTATGCTTTCC
Found at i:14268078 original size:89 final size:87
Alignment explanation
Indices: 14267697--14268174 Score: 423
Period size: 89 Copynumber: 5.4 Consensus size: 87
14267687 TCTTTCAAAA
* * * * * *
14267697 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTC--A--AGACGCTGAGGTGTTTTCCAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAAT
*
14267758 -TTCTGTTCTTC-AATTTCTGTGTTTC
66 ATT-T-TT-TTCAAATTT-TGT-TTGC
* * * *
14267783 AAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGATTCACACGCTGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-TCACACGCCGAGGTATTTTCA
*
14267847 A-ATTCTGTTTTTCAAATTTTGTTTTTCC
64 ATA-T-T-TTTTTCAAATTTTG--TTTGC
* * *
14267875 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGA-CACA--CTGAGATATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GATCACACGCCGAGGTATTTTCAA
14267937 T-TTTTTTTC-AATTTATGTTTGTC
65 TATTTTTTTCAAATTT-TGTTTG-C
14267960 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAA
14268025 TTGATTTTTTTC-AATTTATGCTTTGC
65 -T-ATTTTTTTCAAATTT-TG-TTTGC
* * * ** *
14268051 -AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAAT
*
14268115 ATCTGTTTTACAAATTTTGTTT--
66 AT-T-TTTTTCAAATTTTGTTTGC
* *
14268137 TAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
14268175 TGGCTCACGT
Statistics
Matches: 338, Mismatches: 25, Indels: 56
0.81 0.06 0.13
Matches are distributed among these distances:
84 3 0.01
85 8 0.02
86 51 0.15
87 74 0.22
88 19 0.06
89 80 0.24
90 5 0.01
91 78 0.23
92 15 0.04
93 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (87 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAAT
ATTTTTTTCAAATTTTGTTTGC
Found at i:14268929 original size:30 final size:30
Alignment explanation
Indices: 14268893--14268993 Score: 186
Period size: 30 Copynumber: 3.4 Consensus size: 30
14268883 CTAGCCTTTG
*
14268893 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCTACTCCACTAGCCACACTTGCT
14268923 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCTACTCCACTAGCCACACTTGCT
14268953 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCTACTCCACTAGCCACACTTGCT
14268983 CCACCA-CTACT
1 CCACCACCTACT
14268994 TGTACCTACA
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
29 5 0.07
30 65 0.93
ACGTcount: A:0.25, C:0.50, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACCACCTACTCCACTAGCCACACTTGCT
Found at i:14269572 original size:22 final size:22
Alignment explanation
Indices: 14269537--14269599 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 22
14269527 ATTCTAAATT
*
14269537 CTATATTACATATATATTT-ATA
1 CTATATTA-TTATATATTTAATA
*
14269559 CTATTTTATGTATATATCTTTAATA
1 CTATATTAT-TATATA--TTTAATA
14269584 CTATATTATTATATAT
1 CTATATTATTATATAT
14269600 ATTTTTTCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 14 0.41
24 9 0.26
25 11 0.32
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (22 bp):
CTATATTATTATATATTTAATA
Found at i:14269580 original size:24 final size:24
Alignment explanation
Indices: 14269537--14269603 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
14269527 ATTCTAAATT
*
14269537 CTATATTA-CATATATATTT-ATA
1 CTATATTATTATATATATTTAATA
* *
14269559 CTATTTTATGTATATATCTTTAATA
1 CTATATTAT-TATATATATTTAATA
14269584 CTATATTATTATATATATTT
1 CTATATTATTATATATATTT
14269604 TTTCTACATG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 7 0.19
24 19 0.51
25 11 0.30
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.55
Consensus pattern (24 bp):
CTATATTATTATATATATTTAATA
Found at i:14269639 original size:22 final size:23
Alignment explanation
Indices: 14269614--14269680 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 23
14269604 TTTCTACATG
*
14269614 TTATCTTATGTATATATTTTA-A
1 TTATATTATGTATATATTTTACA
*
14269636 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTACA
*
14269661 TTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
14269681 TTTATATCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
22 11 0.29
23 6 0.16
24 8 0.21
25 13 0.34
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:14269671 original size:47 final size:52
Alignment explanation
Indices: 14269564--14269680 Score: 136
Period size: 47 Copynumber: 2.3 Consensus size: 52
14269554 TTATACTATT
*
14269564 TTATGTATATATCTTTAATACTATATTATTATATATATTTTTTCTACATGTTATC
1 TTATGTATATAT-TTTAATA-TATATTATTATATATATTTTTTCTACA-GTTATA
* *
14269619 TTATGTATATATTTTAAT-TATATTA-TGTATGTA-TTTTT-TACA-TTATA
1 TTATGTATATATTTTAATATATATTATTATATATATTTTTTCTACAGTTATA
*
14269666 TTATGTACATATTTT
1 TTATGTATATATTTT
14269681 TTTATATCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
47 18 0.31
49 4 0.07
50 5 0.09
51 6 0.10
52 7 0.12
54 6 0.10
55 12 0.21
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (52 bp):
TTATGTATATATTTTAATATATATTATTATATATATTTTTTCTACAGTTATA
Found at i:14269769 original size:25 final size:24
Alignment explanation
Indices: 14269741--14269796 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
14269731 GTTATATTTT
*
14269741 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
14269766 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
14269789 CACTATTA
1 CACTATTA
14269797 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:14276792 original size:25 final size:25
Alignment explanation
Indices: 14276764--14276815 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
14276754 TTTGGCTTGA
**
14276764 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
14276789 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
14276814 CA
1 CA
14276816 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:14279981 original size:40 final size:40
Alignment explanation
Indices: 14279930--14280032 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
14279920 CCATAGTAAA
* *
14279930 CAGGAACAAATCCTATCCACTTTATATAT-TTCTAGTGAAT
1 CAGGAATAAATCCTATTCACTTTA-ATATCTTCTAGTGAAT
* * * *
14279970 CAGGAGTAAATCATATTCACTTTAATTTCTTTTAGTGAAT
1 CAGGAATAAATCCTATTCACTTTAATATCTTCTAGTGAAT
*
14280010 TAGGAATAAATCCTATTCACTTT
1 CAGGAATAAATCCTATTCACTTT
14280033 TAATTCTCGA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 3 0.06
40 50 0.94
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.39
Consensus pattern (40 bp):
CAGGAATAAATCCTATTCACTTTAATATCTTCTAGTGAAT
Found at i:14280959 original size:27 final size:25
Alignment explanation
Indices: 14280907--14280991 Score: 74
Period size: 27 Copynumber: 3.5 Consensus size: 25
14280897 ATTTCTCCCT
*
14280907 TTTCTTTCT-TT-T-CC-TTTTTCC
1 TTTCTTTCTGTTCTCCCTTTTTTTC
14280928 TTTCTTTCT-TTCTCCCCTGTTTTTTC
1 TTTCTTTCTGTTCT-CCCT-TTTTTTC
*
14280954 GTTTCTATTCTGTTCTTCCTTTTTTTC
1 -TTTCT-TTCTGTTCTCCCTTTTTTTC
14280981 TTTCTTT-TGTT
1 TTTCTTTCTGTT
14280992 TATTATATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
21 11 0.20
22 1 0.02
24 6 0.11
25 2 0.04
26 11 0.20
27 12 0.22
28 7 0.13
29 4 0.07
ACGTcount: A:0.01, C:0.25, G:0.05, T:0.69
Consensus pattern (25 bp):
TTTCTTTCTGTTCTCCCTTTTTTTC
Found at i:14280978 original size:28 final size:27
Alignment explanation
Indices: 14280921--14280987 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
14280911 TTTCTTTTCC
14280921 TTTTTCCTTTCTTTCTTTCTCCCCTGT
1 TTTTTCCTTTCTTTCTTTCTCCCCTGT
* *
14280948 TTTTTCGTTTCTATTCTGTTCT-TCCT-T
1 TTTTTCCTTTCT-TTCT-TTCTCCCCTGT
14280975 TTTTT-CTTTCTTT
1 TTTTTCCTTTCTTT
14280988 TGTTTATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
25 2 0.06
26 5 0.14
27 17 0.49
28 7 0.20
29 4 0.11
ACGTcount: A:0.01, C:0.25, G:0.04, T:0.69
Consensus pattern (27 bp):
TTTTTCCTTTCTTTCTTTCTCCCCTGT
Found at i:14285183 original size:6 final size:6
Alignment explanation
Indices: 14285174--14285205 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
14285164 ACCCACACCA
14285174 GCCCCT GCCCCT GCCCCT GCCCCT GCCCCT GC
1 GCCCCT GCCCCT GCCCCT GCCCCT GCCCCT GC
14285206 TGCATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.19, T:0.16
Consensus pattern (6 bp):
GCCCCT
Found at i:14289455 original size:5 final size:5
Alignment explanation
Indices: 14289447--14289478 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
14289437 CTAATTTAAT
14289447 AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
14289479 ATAATATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:14290020 original size:23 final size:25
Alignment explanation
Indices: 14289994--14290040 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14289984 TATCATTCAT
*
14289994 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
14290017 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
14290041 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:14290361 original size:46 final size:46
Alignment explanation
Indices: 14290301--14290650 Score: 428
Period size: 46 Copynumber: 8.0 Consensus size: 46
14290291 TTTGACGTGA
* * * * * *
14290301 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * *
14290347 TGCCATGATATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
14290393 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
14290439 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
14290485 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
14290523 TGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
14290569 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
14290607 TGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
14290651 AGAGCACACT
Statistics
Matches: 270, Mismatches: 17, Indels: 34
0.84 0.05 0.11
Matches are distributed among these distances:
38 65 0.24
39 2 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 6 0.02
46 181 0.67
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:14290441 original size:92 final size:90
Alignment explanation
Indices: 14290301--14290650 Score: 436
Period size: 84 Copynumber: 4.0 Consensus size: 90
14290291 TTTGACGTGA
* * * * * * *
14290301 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGATATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA--TTCTATCAAGTTGCCATGGTATCTTTCAAC
** * * *
14290366 CATGGTCTTATTCTTTTCATGTCACGT
64 CATGGTCTTACACATTTCATATCAGGT
14290393 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAAGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAT-TC-TATCAAGTTGCCATGGTATCTTTCAAC
14290458 CATGGTCTTACACATTTCATATCAGGT
64 CATGGTCTTACACATTTCATATCAGGT
*
14290485 TGCCATGGTATCTTTCAACCATGGTCTT--ACA--C-A-CAGGTTGCCATGGTATCTTTCAACCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTCTATCAAGTTGCCATGGTATCTTTCAACCA
*
14290544 TGGTCTTGCACATTTCATATCAGGT
66 TGGTCTTACACATTTCATATCAGGT
* *
14290569 TGCCATGGTATCTTTCAACCATGGTCTT--ACA--C-A-CAGGTTGCCATGGTATTTTTCAACCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTCTATCAAGTTGCCATGGTATCTTTCAACCA
14290628 TGGTCTTACACATTTCATATCAG
66 TGGTCTTACACATTTCATATCAG
14290651 AGAGCACACT
Statistics
Matches: 240, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
84 129 0.54
85 1 0.00
87 1 0.00
90 4 0.02
91 2 0.01
92 103 0.43
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (90 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTCTATCAAGTTGCCATGGTATCTTTCAACCA
TGGTCTTACACATTTCATATCAGGT
Found at i:14290531 original size:38 final size:38
Alignment explanation
Indices: 14290480--14290639 Score: 239
Period size: 38 Copynumber: 4.0 Consensus size: 38
14290470 CATTTCATAT
14290480 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
14290518 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
14290563 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
14290602 CAGGTTGCCATGGTATTTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
14290640 TTTCATATCA
Statistics
Matches: 113, Mismatches: 1, Indels: 16
0.87 0.01 0.12
Matches are distributed among these distances:
38 70 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 33 0.29
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:14292813 original size:30 final size:30
Alignment explanation
Indices: 14292770--14292840 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
14292760 TTATATACTA
*
14292770 ATAAAATAATAATAATATCTTATTAAAGT-ATT
1 ATAAAATAAT-AT-ATATCTAATTAAA-TAATT
*
14292802 AATAAAATAATATTTATCTAATTAAATAATT
1 -ATAAAATAATATATATCTAATTAAATAATT
14292833 ATAAAATA
1 ATAAAATA
14292841 TCAAAATATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 9 0.26
31 14 0.40
32 2 0.06
33 10 0.29
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (30 bp):
ATAAAATAATATATATCTAATTAAATAATT
Found at i:14295714 original size:16 final size:17
Alignment explanation
Indices: 14295683--14295715 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14295673 ATTAAAAAAT
*
14295683 AATAAATTATATTTTTG
1 AATAAAATATATTTTTG
14295700 AATAAAATA-ATTTTTG
1 AATAAAATATATTTTTG
14295716 CTTCAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
AATAAAATATATTTTTG
Found at i:14295839 original size:26 final size:26
Alignment explanation
Indices: 14295810--14295862 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
14295800 AGTACTGTAC
14295810 TGTCTTATATAATAAAAATATTAAAT
1 TGTCTTATATAATAAAAATATTAAAT
14295836 TGTCTTATATAATAAAAATATTAAAT
1 TGTCTTATATAATAAAAATATTAAAT
14295862 T
1 T
14295863 ATATTTGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (26 bp):
TGTCTTATATAATAAAAATATTAAAT
Found at i:14297239 original size:12 final size:13
Alignment explanation
Indices: 14297221--14297252 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
14297211 TCGATATCTC
14297221 AATTTCAATTCAT
1 AATTTCAATTCAT
14297234 -ATTTCAATTCAT
1 AATTTCAATTCAT
14297246 AATTTCA
1 AATTTCA
14297253 CTTTCTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTTCAATTCAT
Found at i:14299213 original size:23 final size:24
Alignment explanation
Indices: 14299157--14299215 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
14299147 AAATAAATTA
* *
14299157 TTTTATAACAAGTGTACATATATC
1 TTTTATTACAAATGTACATATATC
14299181 TATTTATTACAAATGTACCA-ATAT-
1 T-TTTATTACAAATGTA-CATATATC
14299205 TTTTATTACAA
1 TTTTATTACAA
14299216 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 17 0.55
26 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (24 bp):
TTTTATTACAAATGTACATATATC
Found at i:14299357 original size:3 final size:3
Alignment explanation
Indices: 14299349--14299373 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14299339 ATTTATTTAA
14299349 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
14299374 CTTGCCGCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14314838 original size:61 final size:60
Alignment explanation
Indices: 14314723--14314839 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 60
14314713 CTCTTAAAAA
***
14314723 TTAAATTTATTAAATTTTTAGAATTTAAATTAAAATGATAAATTTTGTAAACATTAATAG
1 TTAAATTTATTAAATTTTTAGAATTTAAATTAAAATGATAAAACATGTAAACATTAATAG
* * * *
14314783 TTAAATTTGTTAAATTTGTTA-TATTTAAAATTAAATTTATAAAACATGTAAACATTA
1 TTAAATTTATTAAATTT-TTAGAATTT-AAATTAAAATGATAAAACATGTAAACATTA
14314840 GAAAACTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
60 20 0.42
61 28 0.58
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (60 bp):
TTAAATTTATTAAATTTTTAGAATTTAAATTAAAATGATAAAACATGTAAACATTAATAG
Found at i:14315556 original size:31 final size:25
Alignment explanation
Indices: 14315487--14315548 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
14315477 TTTAAAAAGA
* *
14315487 TAAATACATCAAATTATTTTTATAT
1 TAAATAAATAAAATTATTTTTATAT
14315512 TAAATAAATAAAATTATTTTTATAT
1 TAAATAAATAAAATTATTTTTATAT
*
14315537 TAAATATATAAA
1 TAAATAAATAAA
14315549 CTTAAAATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (25 bp):
TAAATAAATAAAATTATTTTTATAT
Found at i:14315632 original size:29 final size:29
Alignment explanation
Indices: 14315582--14315657 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
14315572 ATTATATTAA
* * *
14315582 TAAAATCTCATATAT-ATAATATACAAAAT
1 TAAAAT-TTATATATAATTATATACAAAAC
**
14315611 TAAAATTTATATATAATTATATATTAAAC
1 TAAAATTTATATATAATTATATACAAAAC
**
14315640 TAAAAACTATATATAATT
1 TAAAATTTATATATAATT
14315658 TTGAGATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 7 0.18
29 32 0.82
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (29 bp):
TAAAATTTATATATAATTATATACAAAAC
Found at i:14316542 original size:104 final size:103
Alignment explanation
Indices: 14316341--14316547 Score: 281
Period size: 104 Copynumber: 2.0 Consensus size: 103
14316331 TATCATAAAA
* **** * *
14316341 AACGAAATAGTAATACTTCGTTGACAAATAATATTGGTCCATAAAAAAAATCTATTAAAGGTTGG
1 AACGAAATAGTAATACTTCGTTGACAAACAATATCAACCCATAAAAAAAACCTATCAAAGGTTGG
* *
14316406 AATTATGGAAACAACTTATTTCTACTACTCCATCTCCT
66 AATCACGGAAACAACTTATTTCTACTACTCCATCTCCT
* *
14316444 AACGAAGTAGTAATACTTCGTTTACAAACAATATCAACCCATAAAAAAAAACCTATCAAAGGTTG
1 AACGAAATAGTAATACTTCGTTGACAAACAATATCAACCCAT-AAAAAAAACCTATCAAAGGTTG
*
14316509 GAATCAC-GAGAACAACTTATTTTTACTACTCCATCTCCT
65 GAATCACGGA-AACAACTTATTTCTACTACTCCATCTCCT
14316548 CTAATTTAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
103 37 0.41
104 53 0.59
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (103 bp):
AACGAAATAGTAATACTTCGTTGACAAACAATATCAACCCATAAAAAAAACCTATCAAAGGTTGG
AATCACGGAAACAACTTATTTCTACTACTCCATCTCCT
Found at i:14320565 original size:31 final size:32
Alignment explanation
Indices: 14320533--14320593 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
14320523 TGTTATATAT
*
14320533 TTTTTATATTTA-AAATTTAGTTTTT-TTTTA
1 TTTTTATATTTAGAAATTTAATTTTTCTTTTA
*
14320563 TTTTTATTTTTAGAAATTTAATTTTTCTTTT
1 TTTTTATATTTAGAAATTTAATTTTTCTTTT
14320594 TTACTTCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 11 0.41
31 12 0.44
32 4 0.15
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (32 bp):
TTTTTATATTTAGAAATTTAATTTTTCTTTTA
Found at i:14323909 original size:134 final size:134
Alignment explanation
Indices: 14323753--14324034 Score: 368
Period size: 133 Copynumber: 2.1 Consensus size: 134
14323743 GAATATTGCT
* * * * * * * *
14323753 TTCGTTTTAAATAATTTTTTTTAAAATATATGAATGAATTTTTGAAGGGATACTCGATCATTTTA
1 TTCGTTTTAAAGAATTTCTTTTAAAAGACATGAAGGAAATCTTGAAGGGACACTCGATCA-TTTA
14323818 AGCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATCCCGCGAATTGCAAAATATCGAATT
65 AGCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATCCCGCGAATTGCAAAATATCGAATT
*
14323883 TCGCC
130 TCACC
* * * * *
14323888 TTCGTTTTAAAGAA-TTCTTTTAAAAGGCATGAGGGAAATCTTGAAGGGACATTCGATTATTTGA
1 TTCGTTTTAAAGAATTTCTTTTAAAAGACATGAAGGAAATCTTGAAGGGACACTCGATCATTTAA
* * * * * *
14323952 GCAAACGCGAAATTGCCACCCAACACGTTAAGGCACTGTTCCGCGGATTGCCAAATATCGGATTT
66 GCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATCCCGCGAATTGCAAAATATCGAATTT
14324017 CACC
131 CACC
14324021 TTCGTTTTAAAGAA
1 TTCGTTTTAAAGAA
14324035 AATTGTTTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
133 80 0.63
134 34 0.27
135 13 0.10
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (134 bp):
TTCGTTTTAAAGAATTTCTTTTAAAAGACATGAAGGAAATCTTGAAGGGACACTCGATCATTTAA
GCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATCCCGCGAATTGCAAAATATCGAATTT
CACC
Found at i:14323974 original size:133 final size:134
Alignment explanation
Indices: 14323794--14324034 Score: 376
Period size: 133 Copynumber: 1.8 Consensus size: 134
14323784 GAATGAATTT
*
14323794 TTGAAGGGATACTCGATCATTTTAAGCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATC
1 TTGAAGGGACACTCGATCATTTTAAGCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATC
*
14323859 CCGCGAATTGCAAAATATCGAATTTCGCCTTCGTTTTAAAGAATTCTTTTAAAAGGCATGAGGGA
66 CCGCGAATTGCAAAATATCGAATTTCACCTTCGTTTTAAAGAATTCTTTTAAAAGGCATGAGGGA
14323924 AATC
131 AATC
* * * * * *
14323928 TTGAAGGGACATTCGATTA-TTTGAGCAAACGCGAAATTGCCACCCAACACGTTAAGGCACTGTT
1 TTGAAGGGACACTCGATCATTTTAAGCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATC
* * *
14323992 CCGCGGATTGCCAAATATCGGATTTCACCTTCGTTTTAAAGAA
66 CCGCGAATTGCAAAATATCGAATTTCACCTTCGTTTTAAAGAA
14324035 AATTGTTTTA
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
133 80 0.83
134 16 0.17
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (134 bp):
TTGAAGGGACACTCGATCATTTTAAGCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATC
CCGCGAATTGCAAAATATCGAATTTCACCTTCGTTTTAAAGAATTCTTTTAAAAGGCATGAGGGA
AATC
Found at i:14324758 original size:18 final size:18
Alignment explanation
Indices: 14324735--14324774 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
14324725 AAAGGAGAGA
14324735 AAAAAAAACTATATGTAC
1 AAAAAAAACTATATGTAC
14324753 AAAAAAAACTATATGTAC
1 AAAAAAAACTATATGTAC
14324771 AAAA
1 AAAA
14324775 TACATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.65, C:0.10, G:0.05, T:0.20
Consensus pattern (18 bp):
AAAAAAAACTATATGTAC
Found at i:14326353 original size:23 final size:21
Alignment explanation
Indices: 14326306--14326355 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
14326296 TGCGATAGAT
*
14326306 AAATCAAAGAAAACAGAAATG
1 AAATCAAAGAAAACAGAAATC
14326327 AAATCGAAAGAAAA-ATGAGAATC
1 AAATC-AAAGAAAACA-GA-AATC
14326350 AAATCA
1 AAATCA
14326356 CCTTGTGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.24
22 11 0.44
23 8 0.32
ACGTcount: A:0.64, C:0.10, G:0.14, T:0.12
Consensus pattern (21 bp):
AAATCAAAGAAAACAGAAATC
Found at i:14327306 original size:3 final size:3
Alignment explanation
Indices: 14327287--14327322 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
14327277 TCCATGGTGG
* *
14327287 TAA TAA AAA TAA AAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14327323 CAAAGTAGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:14328692 original size:24 final size:23
Alignment explanation
Indices: 14328665--14328733 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
14328655 TATGTTTTTG
14328665 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
* *
14328689 TTATTATTATAGTTTTATATTAAA
1 TTATTA-AATAGTATTATATTAAA
14328713 TTATTAAAT--TATTATTATTAA
1 TTATTAAATAGTATTA-TATTAA
14328734 TAAAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.11
22 6 0.16
23 2 0.05
24 17 0.45
25 9 0.24
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:14331053 original size:70 final size:75
Alignment explanation
Indices: 14330977--14331152 Score: 184
Period size: 70 Copynumber: 2.3 Consensus size: 75
14330967 ATGTGAACAA
* **
14330977 ATTGGAAATTAAAAGTGATTTGAATT-AAGT-AATTGAATT-AT-G-AATTATGTGAATATTTGA
1 ATTGGAAACTAAAAGTGATTTGAATTGAA-TAAATTGAATTAATAGAAAAGATGTGAATATTTGA
14331037 AA-GTATATTG
65 AATGTATATTG
* *
14331047 ATTGGAAACTAAAAGTGATTTTAATTGAATCAAATTGAATTGAATGAAGAAAAGATGTGAGTATT
1 ATTGGAAACTAAAAGTGATTTGAATTGAAT-AAATTGAATT-AAT--AGAAAAGATGTGAATATT
14331112 TGAAATGTATATTG
62 TGAAATGTATATTG
* * *
14331126 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGGAAACTAA-AAGTGATTTGAATT
14331153 TGATTGGAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
70 25 0.29
71 2 0.02
72 9 0.10
74 2 0.02
77 1 0.01
78 17 0.20
79 18 0.21
80 12 0.14
ACGTcount: A:0.42, C:0.01, G:0.19, T:0.38
Consensus pattern (75 bp):
ATTGGAAACTAAAAGTGATTTGAATTGAATAAATTGAATTAATAGAAAAGATGTGAATATTTGAA
ATGTATATTG
Found at i:14331409 original size:34 final size:33
Alignment explanation
Indices: 14331330--14331411 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 33
14331320 AGAAAGTGGA
* * *
14331330 AAAGTGAATTTGAATTTAATGAGAATTGAATTG
1 AAAGTGAATTTGAATTGAAAGAAAATTGAATTG
*
14331363 AATTGTGAATTTGAATTGAAAGTAAAATTGACATTG
1 AA-AGTGAATTTGAATTGAAAG-AAAATTGA-ATTG
14331399 AAAGTG-ATTTGAA
1 AAAGTGAATTTGAA
14331412 ATGTGAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 2 0.05
34 23 0.56
35 10 0.24
36 6 0.15
ACGTcount: A:0.43, C:0.01, G:0.21, T:0.35
Consensus pattern (33 bp):
AAAGTGAATTTGAATTGAAAGAAAATTGAATTG
Found at i:14332207 original size:23 final size:25
Alignment explanation
Indices: 14332181--14332227 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14332171 TATCATTCAT
*
14332181 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
14332204 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
14332228 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:14332558 original size:46 final size:47
Alignment explanation
Indices: 14332488--14332638 Score: 191
Period size: 46 Copynumber: 3.3 Consensus size: 47
14332478 TTTGACGTGA
* * * * *
14332488 TGCCATAGTGTCTTTTAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
*
14332534 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
* * * *
14332580 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
14332626 TGCCATGGTATCT
1 TGCCATGGTATCT
14332639 CAGGTTGCCA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
45 5 0.05
46 87 0.95
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
Found at i:14332643 original size:18 final size:18
Alignment explanation
Indices: 14332620--14332656 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
14332610 ACATCTCATA
14332620 TCAGGTTGCCATGGTATC
1 TCAGGTTGCCATGGTATC
14332638 TCAGGTTGCCATGGTATC
1 TCAGGTTGCCATGGTATC
14332656 T
1 T
14332657 TTCAACCATG
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:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (18 bp):
TCAGGTTGCCATGGTATC
Found at i:14332655 original size:64 final size:64
Alignment explanation
Indices: 14332578--14332702 Score: 241
Period size: 64 Copynumber: 2.0 Consensus size: 64
14332568 TTCATGTCAC
14332578 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTCAG
*
14332642 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCT
14332703 TTCAACCATG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (64 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTCAG
Found at i:14332690 original size:46 final size:46
Alignment explanation
Indices: 14332638--14332733 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
14332628 CCATGGTATC
14332638 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
14332684 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
14332730 TCAG
1 TCAG
14332734 AGAGCACACT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (46 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
Found at i:14332729 original size:110 final size:110
Alignment explanation
Indices: 14332532--14332733 Score: 350
Period size: 110 Copynumber: 1.8 Consensus size: 110
14332522 TTTCTGTCAT
** * *
14332532 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
14332597 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTCAG
66 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTCAG
*
14332642 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
*
14332707 ACCATGGTCTTACACATTTCATATCAG
66 ACCATGGTCTTACACATCTCATATCAG
14332734 AGAGCACACT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 86 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (110 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTCAG
Found at i:14337417 original size:17 final size:18
Alignment explanation
Indices: 14337391--14337431 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
14337381 ACATGTGGAA
*
14337391 AAAAATAATAGAA-G-AT
1 AAAAATAATAAAATGTAT
14337407 AAAAATCAATAAAATGTAT
1 AAAAAT-AATAAAATGTAT
14337426 AAAAAT
1 AAAAAT
14337432 TATTAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 6 0.29
18 1 0.05
19 8 0.38
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.22
Consensus pattern (18 bp):
AAAAATAATAAAATGTAT
Found at i:14337438 original size:19 final size:18
Alignment explanation
Indices: 14337416--14337551 Score: 82
Period size: 19 Copynumber: 7.3 Consensus size: 18
14337406 TAAAAATCAA
14337416 TAAAATGTATAAAAATTAT
1 TAAAATGTA-AAAAATTAT
* * *
14337435 TAAATTTTAATAAAAATAT
1 TAAAATGTAA-AAAATTAT
*
14337454 TAAAACTAGAAAAAAAATTAT
1 TAAAA-T-G-TAAAAAATTAT
14337475 TAAAAT-TAAAAAA--AT
1 TAAAATGTAAAAAATTAT
* *
14337490 AAAAATCGTAAAAAAATAT
1 TAAAAT-GTAAAAAATTAT
* **
14337509 AAAAATTGTAAAATTTTAT
1 TAAAA-TGTAAAAAATTAT
*
14337528 AAAAATCGTAAAAAATTA-
1 TAAAAT-GTAAAAAATTAT
14337546 TAAAAT
1 TAAAAT
14337552 TTTATAAAGC
Statistics
Matches: 92, Mismatches: 15, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
15 7 0.08
17 13 0.14
18 7 0.08
19 48 0.52
20 3 0.03
21 12 0.13
22 2 0.02
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
TAAAATGTAAAAAATTAT
Found at i:14337470 original size:21 final size:20
Alignment explanation
Indices: 14337446--14337488 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
14337436 AAATTTTAAT
14337446 AAAAATATTAAAACTAGAAAA
1 AAAAATATTAAAACTA-AAAA
* *
14337467 AAAATTATTAAAATTAAAAA
1 AAAAATATTAAAACTAAAAA
14337487 AA
1 AA
14337489 TAAAAATCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAAATATTAAAACTAAAAA
Done.