Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 54 of 328
Found at i:15291623 original size:72 final size:71
Alignment explanation
Indices: 15291543--15291766 Score: 272
Period size: 72 Copynumber: 3.0 Consensus size: 71
15291533 ACTTATTTTG
*
15291543 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGTCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAA
15291608 TTTTGAA
65 TTTTGAA
15291615 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTCTCGCAATATGAGTTGAAT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTCTCGCAATATGAGTTGAA-
15291680 TTTTTTTTGAA
65 ----TTTTGAA
* * * * * *
15291691 AGACAGAAATTGAAAATACCTCATCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGC
1 A-ACAGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCA-TTCTCGCAATATGAGT
15291755 TG-ATTTTGAA
61 TGAATTTTGAA
15291765 AA
1 AA
15291767 AGTAGAAATT
Statistics
Matches: 135, Mismatches: 7, Indels: 19
0.84 0.04 0.12
Matches are distributed among these distances:
71 20 0.15
72 43 0.32
73 1 0.01
74 8 0.06
76 8 0.06
77 20 0.15
79 18 0.13
80 17 0.13
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (71 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTCTCGCAATATGAGTTGAAT
TTTGAA
Found at i:15291830 original size:54 final size:55
Alignment explanation
Indices: 15291730--15291835 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
15291720 GAACCGAGGC
* *
15291730 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
15291784 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
15291836 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 34 0.76
55 11 0.24
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:15291842 original size:13 final size:13
Alignment explanation
Indices: 15291815--15291848 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
15291805 GAGTTGATTC
*
15291815 TTGAACAACATAAA
1 TTGAA-AACAGAAA
15291829 TTGAAAACAGAAA
1 TTGAAAACAGAAA
15291842 TTGAAAA
1 TTGAAAA
15291849 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:15291885 original size:140 final size:140
Alignment explanation
Indices: 15291686--15292313 Score: 1132
Period size: 140 Copynumber: 4.5 Consensus size: 140
15291676 GAATTTTTTT
*
15291686 TTGAAAGACAGAAATTGAAAATACCTCATCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
15291750 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
*
15291815 TTGAACAACATAAA
127 TTGAACAACGTAAA
15291829 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
15291894 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTATCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
15291959 ACAACGTAAA
131 ACAACGTAAA
* * *
15291969 TTGAAAATAGAAATCGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
15292034 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGTAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
15292099 ACAACGTAAA
131 ACAACGTAAA
15292109 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
15292174 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
15292239 ACAACGTAAA
131 ACAACGTAAA
*
15292249 TTGAAAACAGAAATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
15292314 TTGAAATTAA
Statistics
Matches: 469, Mismatches: 15, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
139 3 0.01
140 438 0.93
142 22 0.05
143 6 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:15292110 original size:54 final size:54
Alignment explanation
Indices: 15292010--15292115 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
15292000 GACCTGAGGC
*
15292010 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
15292064 TCAACCCACCTCTCGTAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
15292116 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:15292250 original size:54 final size:54
Alignment explanation
Indices: 15292150--15292255 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
15292140 GACCTGAGGC
*
15292150 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
15292204 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
15292256 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:15292380 original size:72 final size:71
Alignment explanation
Indices: 15292246--15292411 Score: 235
Period size: 72 Copynumber: 2.3 Consensus size: 71
15292236 TGAACAACGT
* * * * *
15292246 AAATTGAAAACAGAAATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
15292311 GAGTTG
66 GAGTTG
*
15292317 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
15292382 TGAGTTG
65 TGAGTTG
**
15292389 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
15292412 GGCTTAACTC
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 12 0.14
72 69 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:15292531 original size:70 final size:69
Alignment explanation
Indices: 15292411--15292584 Score: 190
Period size: 70 Copynumber: 2.5 Consensus size: 69
15292401 AAAAATTAAA
* * * * * *
15292411 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACT-ACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
15292475 CCCCG
65 CCCCG
* *
15292480 AGGCTCAACTACTTCTTGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGTG
1 AGGCTCAACTACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGTG
* **
15292545 TCTTG
65 CCCCG
*
15292550 AGGCTCAACT-CATCTCTCGTAATATGAGTTGATTT
1 AGGCTCAACTAC-T-TCTCGCAATATGAGTTGATTT
15292585 CCCTTGAAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
68 15 0.17
69 15 0.17
70 39 0.44
71 19 0.22
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (69 bp):
AGGCTCAACTACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTGC
CCCG
Found at i:15300871 original size:12 final size:12
Alignment explanation
Indices: 15300849--15300884 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
15300839 TGGGATATGC
*
15300849 AATGAATGAATG
1 AATGCATGAATG
*
15300861 GATGCATGAATG
1 AATGCATGAATG
15300873 AATGCATGAATG
1 AATGCATGAATG
15300885 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:15300871 original size:16 final size:17
Alignment explanation
Indices: 15300845--15300876 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15300835 AGTATGGGAT
15300845 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
15300862 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
15300877 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:15302893 original size:39 final size:38
Alignment explanation
Indices: 15302828--15302958 Score: 108
Period size: 39 Copynumber: 3.3 Consensus size: 38
15302818 ATAATTTGTA
15302828 ATAATAATATATACAC-AATATGGTATTTAAAATATATATAT
1 ATAAT-ATATATA-ACTAATA--GTATTTAAAATATATATAT
*
15302869 ATATATATATATATA-TAATAGTATTTAAGAATATATACAT
1 ATA-ATATATATA-ACTAATAGTATTTAA-AATATATATAT
* * * * *
15302909 A-AGAAATATATAACTAATGGCA-TTAAAAAATATATAC
1 ATA-ATATATATAACTAATAGTATTTAAAATATATATAT
15302946 ATAATATATATAA
1 ATAATATATATAA
15302959 AATACCTAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
37 18 0.24
38 6 0.08
39 23 0.31
40 11 0.15
41 15 0.20
42 2 0.03
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (38 bp):
ATAATATATATAACTAATAGTATTTAAAATATATATAT
Found at i:15302904 original size:2 final size:2
Alignment explanation
Indices: 15302859--15302885 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15302849 GGTATTTAAA
15302859 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15302886 ATAGTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15303461 original size:21 final size:21
Alignment explanation
Indices: 15303437--15303483 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15303427 GGGTTTCTTG
*
15303437 TTTTTTTTGGGGGGTTAGGTT
1 TTTTTTTTGGGGAGTTAGGTT
***
15303458 TTTTTTTTTTTGAGTTAGGTT
1 TTTTTTTTGGGGAGTTAGGTT
15303479 TTTTT
1 TTTTT
15303484 GGGGGGCTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.06, C:0.00, G:0.26, T:0.68
Consensus pattern (21 bp):
TTTTTTTTGGGGAGTTAGGTT
Found at i:15303911 original size:18 final size:17
Alignment explanation
Indices: 15303864--15303917 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
15303854 TTATTGTACG
*
15303864 TATATA-TATACTTTTA
1 TATATAGTATATTTTTA
15303880 TATATAGTATTATTTTTA
1 TATATAGTA-TATTTTTA
*
15303898 TATATCATTATATTTATTA
1 TATAT-AGTATATTT-TTA
15303917 T
1 T
15303918 TATGCTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 17 0.53
19 7 0.22
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATAGTATATTTTTA
Found at i:15304530 original size:18 final size:18
Alignment explanation
Indices: 15304509--15304556 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
15304499 ATTCGAATCC
15304509 CAAAAATTTTCATGTTTT
1 CAAAAATTTTCATGTTTT
*
15304527 C-AAAATTTTCGTGTTTT
1 CAAAAATTTTCATGTTTT
* *
15304544 AAAAAATTCTCAT
1 CAAAAATTTTCAT
15304557 TTTCAATCGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.46
Consensus pattern (18 bp):
CAAAAATTTTCATGTTTT
Found at i:15316399 original size:73 final size:72
Alignment explanation
Indices: 15316277--15316689 Score: 567
Period size: 73 Copynumber: 5.6 Consensus size: 72
15316267 TTTATTTCAT
* *
15316277 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
15316342 ATTTCTG
66 ATTTCTG
*
15316349 TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGTATTTTC
1 TTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
15316414 AATTTCTGG
65 AATTTCT-G
* * * *
15316423 TTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGAGCACACTGAGGTATT
1 TTTT----CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
15316488 TTCAATTTCTGG
62 TTCAATTTCT-G
* * * * * * *
15316500 TTTTCAAAAAAATCAACTTACATTGTGAGAGGTGAGTTGGGCCTCCGGACACGCTGAGGTAATTT
1 TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
15316565 CAATTTCTG
64 CAATTTCTG
*
15316574 TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTACGCTGAGGTATTTTC
1 TTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
*
15316639 AA-TTATG
65 AATTTCTG
*
15316646 CTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 -TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
15316690 GGGTTACATG
Statistics
Matches: 304, Mismatches: 27, Indels: 20
0.87 0.08 0.06
Matches are distributed among these distances:
72 46 0.15
73 124 0.41
74 8 0.03
75 58 0.19
77 68 0.22
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (72 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
ATTTCTG
Found at i:15316584 original size:150 final size:147
Alignment explanation
Indices: 15316282--15316689 Score: 563
Period size: 150 Copynumber: 2.8 Consensus size: 147
15316272 TTCATTTTTC
* *
15316282 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
* * *
15316347 T-GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGTATT
66 TGGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
15316411 TTCAATTTCTGGTTTTAAAAA
130 TTCAATTTCTGGTTTT---AA
* * *
15316432 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGAGCACACTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
* * * * *
15316497 TGGTTTTCAAAAAAATCAACTTACATTGTGAGAGGTGAGTTGGGCCTCCGGACACGCTGAGGTAA
66 TGGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
*
15316562 TTTCAATTTCT-GTTTGT-C
129 TTTCAATTTCTGGTTT-TAA
* *
15316580 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTACGCTGAGGTATTTTCAA-TTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
* *
15316644 TGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
66 TGGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
15316690 GGGTTACATG
Statistics
Matches: 229, Mismatches: 25, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
145 33 0.14
147 9 0.04
148 57 0.25
150 63 0.28
151 8 0.03
152 59 0.26
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (147 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
TGGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTCTGGTTTTAA
Found at i:15316826 original size:88 final size:87
Alignment explanation
Indices: 15316647--15316879 Score: 240
Period size: 88 Copynumber: 2.7 Consensus size: 87
15316637 TCAATTATGC
* * * * *
15316647 TTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTTACATGCCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAGCTATTTT
15316712 CAAAATTTATTTTGCAAATTCTG
66 C-AAATTTATTTTGCAAATTCTG
* * * * *
15316735 TTTTCAAAAATCAACTCATATTGCAAGAAGCGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAGCTATTTT
* **
15316800 C-AATTTCTGTTT-TTAATGTCTAG
66 CAAATTTAT-TTTGCAAAT-TCT-G
* * *
15316823 TTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGCCTCAGG-TCACATGCCGA
1 TTTTCAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGCTCACATGCCGA
15316880 AGATAAAGAT
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
86 9 0.08
87 9 0.08
88 99 0.83
89 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (87 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAGCTATTTT
CAAATTTATTTTGCAAATTCTG
Found at i:15317036 original size:21 final size:21
Alignment explanation
Indices: 15316985--15317038 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
15316975 TAGCAGAGCC
* * **
15316985 TTGAAGTTACAATGGAGCTGA
1 TTGAAGTTGCAGTGGAGCACA
* *
15317006 TCGAAATTGCAGTGGAGCACA
1 TTGAAGTTGCAGTGGAGCACA
15317027 TTGAAGTTGCAG
1 TTGAAGTTGCAG
15317039 ATCCTATCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (21 bp):
TTGAAGTTGCAGTGGAGCACA
Found at i:15318761 original size:3 final size:3
Alignment explanation
Indices: 15318753--15318809 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
15318743 AACCTTCACA
* * * *
15318753 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TTT TAC TAT CTAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
15318799 TA- TAT TAT TAT
1 TAT TAT TAT TAT
15318810 ACTTATTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.91
4 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:15318891 original size:23 final size:22
Alignment explanation
Indices: 15318849--15318892 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
15318839 TTAATATTAG
15318849 TATATATTTTATTGTAAGTATA
1 TATATATTTTATTGTAAGTATA
15318871 TATATACTTTTATATGT-AGTAT
1 TATATA-TTTTAT-TGTAAGTAT
15318893 TATTTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 11 0.55
24 3 0.15
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (22 bp):
TATATATTTTATTGTAAGTATA
Found at i:15319499 original size:17 final size:18
Alignment explanation
Indices: 15319466--15319499 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15319456 TGCTGTAAAC
15319466 TTTTCGCGTTTTCAAAAT
1 TTTTCGCGTTTTCAAAAT
*
15319484 TTTTCGTGTTTT-AAAA
1 TTTTCGCGTTTTCAAAA
15319500 AAAAATTCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (18 bp):
TTTTCGCGTTTTCAAAAT
Found at i:15319536 original size:17 final size:17
Alignment explanation
Indices: 15319516--15319568 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
15319506 TCGGATCCCA
15319516 AAAATTTTCGTGTTTTC
1 AAAATTTTCGTGTTTTC
*
15319533 AAAATTTTCGTGTTTTAA
1 AAAATTTTCGTGTTTT-C
*
15319551 AAAATTCTCGT-TTTTC
1 AAAATTTTCGTGTTTTC
15319567 AA
1 AA
15319569 TCGGCTCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 2 0.06
17 20 0.62
18 10 0.31
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.49
Consensus pattern (17 bp):
AAAATTTTCGTGTTTTC
Found at i:15319554 original size:18 final size:18
Alignment explanation
Indices: 15319466--15319565 Score: 71
Period size: 17 Copynumber: 5.7 Consensus size: 18
15319456 TGCTGTAAAC
* * *
15319466 TTTTCGCGTTTTCAAAAT
1 TTTTCGTGTTTTAAAAAA
15319484 TTTTCGTGTTTTAAAAAAA
1 TTTTCGTGTTTT-AAAAAA
** * ***
15319503 AATTCG-GATCCCAAAAA
1 TTTTCGTGTTTTAAAAAA
*
15319520 TTTTCGTGTTTT-CAAAA
1 TTTTCGTGTTTTAAAAAA
15319537 TTTTCGTGTTTTAAAAAA
1 TTTTCGTGTTTTAAAAAA
*
15319555 TTCTCGT-TTTT
1 TTTTCGTGTTTT
15319566 CAATCGGCTC
Statistics
Matches: 62, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
17 29 0.47
18 25 0.40
19 8 0.13
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (18 bp):
TTTTCGTGTTTTAAAAAA
Found at i:15324605 original size:23 final size:23
Alignment explanation
Indices: 15324547--15324607 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
15324537 GACACATAAA
15324547 GTGCCT-AAA-ACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
*
15324568 GTGCCTG--ATATGACACACGAG
1 GTGCCTGAAATACGACACACGAG
15324589 GTGCCTGAAATACGACACA
1 GTGCCTGAAATACGACACA
15324608 TAAAGTGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 24 0.71
23 9 0.26
ACGTcount: A:0.34, C:0.26, G:0.25, T:0.15
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:15324615 original size:23 final size:23
Alignment explanation
Indices: 15324534--15324619 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 23
15324524 CTGATTAGAG
*
15324534 TACGACACATAAAGTGCCT-AAA
1 TACGACACACAAAGTGCCTGAAA
* *
15324556 -ACGACACACGAGGTGCCTG--A
1 TACGACACACAAAGTGCCTGAAA
* * *
15324576 TATGACACACGAGGTGCCTGAAA
1 TACGACACACAAAGTGCCTGAAA
*
15324599 TACGACACATAAAGTGCCTGA
1 TACGACACACAAAGTGCCTGA
15324620 TCGGTAAAGC
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.63
23 18 0.35
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
TACGACACACAAAGTGCCTGAAA
Found at i:15325017 original size:15 final size:15
Alignment explanation
Indices: 15324991--15325047 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
15324981 CATATATATT
15324991 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
15325005 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
15325020 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
15325035 ATATAAATTCAAT
1 ATATAATTTCAAT
15325048 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:15325378 original size:5 final size:5
Alignment explanation
Indices: 15325370--15325401 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
15325360 TCTTTAGTTT
15325370 ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
15325402 TAAAACATAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:15327355 original size:10 final size:10
Alignment explanation
Indices: 15327340--15327365 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
15327330 ATTTTATTTG
15327340 GGCCCGACCT
1 GGCCCGACCT
15327350 GGCCCGACCT
1 GGCCCGACCT
15327360 GGCCCG
1 GGCCCG
15327366 GCCCATGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.50, G:0.35, T:0.08
Consensus pattern (10 bp):
GGCCCGACCT
Found at i:15329108 original size:22 final size:22
Alignment explanation
Indices: 15329083--15329137 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
15329073 AAATTACAAA
15329083 AAAAATAATTAAAATAATTTTC
1 AAAAATAATTAAAATAATTTTC
* * *
15329105 AAAAAT--TCAAATTAATTTTT
1 AAAAATAATTAAAATAATTTTC
15329125 AAAAA-AATTAAAA
1 AAAAATAATTAAAA
15329138 ATTTATATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
20 16 0.62
21 4 0.15
22 6 0.23
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAAATAATTAAAATAATTTTC
Found at i:15329167 original size:24 final size:24
Alignment explanation
Indices: 15329105--15329168 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
15329095 AATAATTTTC
*
15329105 AAAAATT-CAAATTA-ATTTTTAA
1 AAAAATTAAAAATTATATTTTTAA
*
15329127 AAAAATTAAAAATTTATATTTTTGA
1 AAAAATTAAAAA-TTATATTTTTAA
**
15329152 AAATTTTAAAAATTATA
1 AAAAATTAAAAATTATA
15329169 AAAAAATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 7 0.20
23 3 0.09
24 8 0.23
25 17 0.49
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
AAAAATTAAAAATTATATTTTTAA
Found at i:15333278 original size:43 final size:42
Alignment explanation
Indices: 15333231--15333312 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
15333221 TCAGATGTGG
* *
15333231 TCTTACATGTAATAAAATATCGATGCC-ACTATCCCAGACAAGT
1 TCTTACACGAAATAAAATA-CGATGCCGA-TATCCCAGACAAGT
* *
15333274 TCTTACACGAAATCAAATACGATGCCGATGTCCCAGACA
1 TCTTACACGAAATAAAATACGATGCCGATATCCCAGACA
15333313 TGGTCTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 17 0.50
43 17 0.50
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (42 bp):
TCTTACACGAAATAAAATACGATGCCGATATCCCAGACAAGT
Found at i:15333354 original size:44 final size:42
Alignment explanation
Indices: 15333228--15333370 Score: 135
Period size: 44 Copynumber: 3.3 Consensus size: 42
15333218 ATCTCAGATG
* * * * * *
15333228 TGGTCTTACATGTAATAAAATATCGATGCCACTATCCCAGACA
1 TGGTCTTACACGAAATCAAATA-CGAGGCCAATGTCCCAGACA
* * * *
15333271 AGTTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACA
1 TGGTCTTACACGAAATCAAATACGAGGCCAATGTCCCAGACA
* *
15333313 TGGTCTTATACGTAAATCATAAGT-CGAGGCCAATGTCCCAGACG
1 TGGTCTTACACG-AAATCA-AA-TACGAGGCCAATGTCCCAGACA
15333357 TGGTCTTACACGAA
1 TGGTCTTACACGAA
15333371 CTCACATATC
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
42 26 0.32
43 25 0.30
44 30 0.37
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
TGGTCTTACACGAAATCAAATACGAGGCCAATGTCCCAGACA
Found at i:15336929 original size:24 final size:24
Alignment explanation
Indices: 15336884--15336928 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
15336874 ATGTTCAGTT
15336884 TCATCACATGAATAAATCAAAATG
1 TCATCACATGAATAAATCAAAATG
15336908 TCATCA-ATGAATACAA-CAAAA
1 TCATCACATGAATA-AATCAAAA
15336929 AATCAATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.53, C:0.18, G:0.07, T:0.22
Consensus pattern (24 bp):
TCATCACATGAATAAATCAAAATG
Found at i:15337982 original size:19 final size:19
Alignment explanation
Indices: 15337958--15337996 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
15337948 GTAAAACTAC
15337958 CAGTTATAACATCTGAAGA
1 CAGTTATAACATCTGAAGA
15337977 CAGTTATAACATCTGAAGA
1 CAGTTATAACATCTGAAGA
15337996 C
1 C
15337997 GAAGCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (19 bp):
CAGTTATAACATCTGAAGA
Found at i:15339459 original size:26 final size:26
Alignment explanation
Indices: 15339423--15339532 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
15339413 TGATACAAAT
15339423 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15339449 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
15339475 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
15339501 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15339527 TGATAA
1 TGATAA
15339533 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:15340695 original size:8 final size:8
Alignment explanation
Indices: 15340682--15340723 Score: 84
Period size: 8 Copynumber: 5.2 Consensus size: 8
15340672 GGTGTGTACG
15340682 AATGCCGA
1 AATGCCGA
15340690 AATGCCGA
1 AATGCCGA
15340698 AATGCCGA
1 AATGCCGA
15340706 AATGCCGA
1 AATGCCGA
15340714 AATGCCGA
1 AATGCCGA
15340722 AA
1 AA
15340724 ACTGGTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.12
Consensus pattern (8 bp):
AATGCCGA
Found at i:15342789 original size:19 final size:18
Alignment explanation
Indices: 15342762--15342797 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
15342752 ATGCGAATAT
*
15342762 ATAACAATAAATAAATAAC
1 ATAAAAATAAA-AAATAAC
15342781 ATAAAAATAAAAAATAA
1 ATAAAAATAAAAAATAA
15342798 TTTATGAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (18 bp):
ATAAAAATAAAAAATAAC
Found at i:15343055 original size:22 final size:22
Alignment explanation
Indices: 15343029--15343071 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15343019 ATTTTACATA
15343029 ATATACTA-AATATTTAATAATG
1 ATATA-TATAATATTTAATAATG
*
15343051 ATATATATATTATTTAATAAT
1 ATATATATAATATTTAATAAT
15343072 AATTTACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
ATATATATAATATTTAATAATG
Found at i:15343183 original size:19 final size:19
Alignment explanation
Indices: 15343161--15343259 Score: 62
Period size: 19 Copynumber: 5.0 Consensus size: 19
15343151 AAGGAATGAT
*
15343161 ATATATAGTAAAATATATA
1 ATATATAATAAAATATATA
*
15343180 ATATATAATAAAATTTATA
1 ATATATAATAAAATATATA
* *
15343199 A-ATAAAATGTATAATAATATAA
1 ATATATAA--TAAAAT-ATAT-A
15343221 ATAATATAATGAATAATATATA
1 AT-ATATAAT-AA-AATATATA
15343243 A-ATA-AA-AATAATATATA
1 ATATATAATAA-AATATATA
15343260 CACTATTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
17 11 0.17
18 5 0.08
19 20 0.31
20 8 0.12
21 3 0.05
22 5 0.08
23 5 0.08
24 8 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATATAATAAAATATATA
Found at i:15343219 original size:21 final size:20
Alignment explanation
Indices: 15343172--15343249 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 20
15343162 TATATAGTAA
*
15343172 AATATATAATATATAAT-AA-
1 AATATATAA-ATAAAATGAAT
* *
15343191 AATTTATAAATAAAATGTAT
1 AATATATAAATAAAATGAAT
15343211 AATAATATAAATAATATAATGAAT
1 AAT-ATATAAAT-A-A-AATGAAT
15343235 AATATATAAATAAAA
1 AATATATAAATAAAA
15343250 ATAATATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.12
19 9 0.19
20 5 0.10
21 8 0.17
22 2 0.04
23 9 0.19
24 9 0.19
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
AATATATAAATAAAATGAAT
Found at i:15343227 original size:51 final size:49
Alignment explanation
Indices: 15343110--15343253 Score: 125
Period size: 51 Copynumber: 2.9 Consensus size: 49
15343100 GCAATTAATG
* **
15343110 AATAATA-AAATAATATATAATTTATAATAAAATAAAAATGTAAGGAAT
1 AATAATATAAATAATATATAATATATAATAAAATAAAAATAAAAGGAAT
* * * *
15343158 GATATATATAGTAA-AATATATAATATATAATAAAATTTATAAATAAAATGTAT
1 AATA-ATATA--AATAATATATAATATATAATAAAA--TAAAAATAAAAGGAAT
15343211 AATAATATAAATAATATAATGAATA-AT-ATATAAATAAAAATAA
1 AATAATATAAATAATAT-AT-AATATATAATA-AAATAAAAATAA
15343254 TATATACACT
Statistics
Matches: 77, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
48 3 0.04
49 3 0.04
50 11 0.14
51 28 0.36
52 14 0.18
53 18 0.23
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (49 bp):
AATAATATAAATAATATATAATATATAATAAAATAAAAATAAAAGGAAT
Found at i:15343253 original size:24 final size:25
Alignment explanation
Indices: 15343196--15343254 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
15343186 AATAAAATTT
*
15343196 ATAAATAA-AATGTATAATAATATAA
1 ATAAA-AATAATGAATAATAATATAA
*
15343221 AT-AATATAATGAATAAT-ATATAA
1 ATAAAAATAATGAATAATAATATAA
15343244 ATAAAAATAAT
1 ATAAAAATAAT
15343255 ATATACACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 9 0.31
24 18 0.62
25 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAAAAATAATGAATAATAATATAA
Found at i:15343880 original size:55 final size:55
Alignment explanation
Indices: 15343796--15343961 Score: 323
Period size: 55 Copynumber: 3.0 Consensus size: 55
15343786 AAATCCTCTG
15343796 AAAGAGGGTTGAGAATCAGCCCTCGGAGCTCTGTCGAGCCTCCATCCAAGGGCTT
1 AAAGAGGGTTGAGAATCAGCCCTCGGAGCTCTGTCGAGCCTCCATCCAAGGGCTT
15343851 AAAGAGGGTTGAGAATCAGCCCTCGGAGCTCTGTCGAGCCTCCATCCAAGGGCTT
1 AAAGAGGGTTGAGAATCAGCCCTCGGAGCTCTGTCGAGCCTCCATCCAAGGGCTT
*
15343906 AAAGAGGGTTGAGAATCAGCCCTCGGAGCTCTGTCGAGCCTCCATCCAGGGGCTT
1 AAAGAGGGTTGAGAATCAGCCCTCGGAGCTCTGTCGAGCCTCCATCCAAGGGCTT
15343961 A
1 A
15343962 CACGTACCTA
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 110 1.00
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.20
Consensus pattern (55 bp):
AAAGAGGGTTGAGAATCAGCCCTCGGAGCTCTGTCGAGCCTCCATCCAAGGGCTT
Found at i:15345027 original size:44 final size:44
Alignment explanation
Indices: 15344973--15345159 Score: 302
Period size: 44 Copynumber: 4.2 Consensus size: 44
15344963 CAAATGTCAG
* *
15344973 ATCTGCTATCTTCAATCTGCTCTTTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
15345017 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * **
15345061 ATCTGCTATTTTTGATCTGCTCTCTGCCAATACAGAGACGTTAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
*
15345105 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
15345149 ATCTGCTATCT
1 ATCTGCTATCT
15345160 GACAATACAG
Statistics
Matches: 131, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 131 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
Found at i:15345124 original size:132 final size:132
Alignment explanation
Indices: 15344973--15345494 Score: 689
Period size: 132 Copynumber: 4.1 Consensus size: 132
15344963 CAAATGTCAG
* * *
15344973 ATCTGCTATCTTCAATCTGCTCTTTGTCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCT
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTTGATCTGCT
* * * * **
15345038 CTCTGTCAATACAGAGACGCCAAATCTGCTATTTTTGATCTGCTCTCTGCCAATACAGAGACGTT
66 CTCTGTCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCC
15345103 AA
131 AA
*
15345105 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC--TGA------
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTTGATCTGCT
* * *
15345162 ------CAATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGATGCC
66 CTCTGTCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCC
15345221 AA
131 AA
* * *
15345223 ATCAGCTATCTTCGATCTTCTCTCTGTCAATACAGAGACGCCAAATCTACTATCTTTGATCTGCT
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTTGATCTGCT
* * *
15345288 CTCTGTCAATACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCACTGTCAATACAGAGATGCC
66 CTCTGTCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCC
15345353 AA
131 AA
* * * *
15345355 ATCTGCTATCTTCGATCCGCTCTCTGCCAATACAGAGACGTCAAATCTGCTATATTTGATCTGCT
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTTGATCTGCT
* * * *
15345420 TTTTGACAATACAGAGACGCCAAATCTGTTATCTTCGATCTG--CTCTGTCAATACAGAGATGCC
66 CTCTGTCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCC
15345483 AA
131 AA
15345485 ATCTGCTATC
1 ATCTGCTATC
15345495 GGTGATCTAT
Statistics
Matches: 342, Mismatches: 34, Indels: 30
0.84 0.08 0.07
Matches are distributed among these distances:
118 103 0.30
120 3 0.01
130 34 0.10
132 202 0.59
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (132 bp):
ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTTGATCTGCT
CTCTGTCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCC
AA
Found at i:15345155 original size:30 final size:30
Alignment explanation
Indices: 15345119--15345189 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
15345109 GCTATCTTCG
*
15345119 ATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTGACAATACAGAGACGCCAA
*
15345149 ATCTGCTATCTGACAATACAGAGATGCCAA
1 ATCTGCTATCTGACAATACAGAGACGCCAA
*
15345179 ATCTACTATCT
1 ATCTGCTATCT
15345190 TCGATCTGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (30 bp):
ATCTGCTATCTGACAATACAGAGACGCCAA
Found at i:15345177 original size:88 final size:87
Alignment explanation
Indices: 15345000--15345178 Score: 227
Period size: 88 Copynumber: 2.0 Consensus size: 87
15344990 TGCTCTTTGT
*
15345000 CAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCT
1 CAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
* * ****
15345065 GCTATTTTTGATCTGCTCTCTGC
66 GCTA-TTCTGATCTACGAGATGC
**
15345088 CAATACAGAGACGTTAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
1 CAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
15345153 GCTA-TCTGA-CAATACAGAGATGC
66 GCTATTCTGATC--TAC-GAGATGC
15345176 CAA
1 CAA
15345179 ATCTACTATC
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
85 1 0.01
86 4 0.05
87 2 0.03
88 72 0.91
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (87 bp):
CAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
GCTATTCTGATCTACGAGATGC
Found at i:15345181 original size:74 final size:74
Alignment explanation
Indices: 15345075--15345233 Score: 246
Period size: 74 Copynumber: 2.1 Consensus size: 74
15345065 GCTATTTTTG
* * ** *
15345075 ATCTGCTCTCTGCCAATACAGAGACGTTAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAG
1 ATCTGCTATCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAG
15345140 AGACGCCAA
66 AGACGCCAA
*
15345149 ATCTGCTATCTGACAATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAG
1 ATCTGCTATCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAG
*
15345214 AGATGCCAA
66 AGACGCCAA
*
15345223 ATCAGCTATCT
1 ATCTGCTATCT
15345234 TCGATCTTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (74 bp):
ATCTGCTATCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAG
AGACGCCAA
Found at i:15345197 original size:44 final size:44
Alignment explanation
Indices: 15345149--15345494 Score: 462
Period size: 44 Copynumber: 7.9 Consensus size: 44
15345139 GAGACGCCAA
* * * *
15345149 ATCTGCTATCTGACAATACAGAGATGCCAAATCTACTATCTTCG
1 ATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTCG
* * *
15345193 ATCTGCTCTCTGACAATACAGAGATGCCAAATCAGCTATCTTCG
1 ATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTCG
* * *
15345237 ATCTTCTCTCTGTCAATACAGAGACGCCAAATCTACTATCTTTG
1 ATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTCG
* *
15345281 ATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTTATCTTCG
1 ATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTCG
* *
15345325 ATCTGCTCACTGTCAATACAGAGATGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTCG
* * * * *
15345369 ATCCGCTCTCTGCCAATACAGAGACGTCAAATCTGCTATATTTG
1 ATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTCG
* * * *
15345413 ATCTGCTTTTTGACAATACAGAGACGCCAAATCTGTTATCTTCG
1 ATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTCG
*
15345457 ATCTG--CTCTGTCAATACAGAGATGCCAAATCTGCTATC
1 ATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATC
15345495 GGTGATCTAT
Statistics
Matches: 264, Mismatches: 38, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 28 0.11
44 236 0.89
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (44 bp):
ATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTCG
Found at i:15355756 original size:552 final size:551
Alignment explanation
Indices: 15354686--15355797 Score: 1911
Period size: 552 Copynumber: 2.0 Consensus size: 551
15354676 TTGCAGGTAT
* ** *
15354686 AAAC-TGCCCCGCTTTATATTGCCTTGGGACGAGTAATGATGCATAACCAATGACTCCCCAAATT
1 AAACTTGCCCCGCTTTATATAGCCTTAAGACGAGTAATGATGCATAACCAACGACTCCCCAAATT
15354750 CCAGGAAGAGGTACCCAATCAAAACTTCCACAACGATAAAGGACTTCATTAGGAGCCATCCAAGG
66 CCAGGAAGAGGTACCCAATCAAAACTTCCACAACGATAAAGGACTTCATTAGGAGCCATCCAAGG
15354815 AGCTTTCCACATTATATCTTCCTCTCGGAGATTCTGAAGTATTTCCGTCCATCTTTCCTCTGTAA
131 AGCTTTCCACATTATATCTTCCTCTCGGAGATTCTGAAGTATTTCCGTCCATCTTTCCTCTGTAA
*
15354880 TGTCGTCCCTCCTCGGCGTAGCTGCAGCTTCCCTTAAGGGAGAATAATCCTCAAAGGACACTCGG
196 TGTCGTCCCTCCTCGGCGTAGCTGCAGCTTCCCTTAAGGGAGAATAACCCTCAAAGGACACTCGG
15354945 CAAGGAACCTTATCAACATTCCAAAAGTGACTATGGAACCACACTAATAACAACTGTGCACATCC
261 CAAGGAACCTTATCAACATTCCAAAAGTGACTATGGAACCACACTAATAACAACTGTGCACATCC
* *
15355010 AATGAATCTACCTTCACCAGCTCTCTGACGTGAGCTCAAGAATCTAAACGTCTCAGCTAGGATTG
326 AATGAATCTACCTTCACCAGCTCTCCGACGTGAGCTCAAGAATCTAAACGTCTCAGCTAAGATTG
* * *
15355075 CAGGTACATGTGTGTTCTGTTTACCAAGTCGATCGAACAAATCTGCAACCGCCTCATCTATGTGC
391 CAGGCACAGGTGTGTTCTGTTTACCAAGTCGATCGAACAAATCCGCAACCGCCTCATCTATGTGC
15355140 CCAATAGCTTTAGGGAAAATCACCAAACCATAAATACTTAAGGCCAAAACATCAACCCTCTTCTT
456 CCAATAGCTTTAGGGAAAATCACCAAACCATAAATACTTAAGGCCAAAACATCAACCCTCTTCTT
* * *
15355205 CACATCTGGGTGTGCCAATATTAAATCCCTC
521 CACATCTGGGTATACCAATATCAAATCCCTC
* *
15355236 AAACTTGCCCCGCTTTGTAATAGCCTTAAGACGAGTAATGGTGCATAACCAACGACTCCCCAAAT
1 AAACTTGCCCCGCTTTAT-ATAGCCTTAAGACGAGTAATGATGCATAACCAACGACTCCCCAAAT
* *
15355301 TCCAGGAAGAGGTACCCAATCAAAACTTCTACAACGATAAAGGACTTCATTATGAGCCATCCAAG
65 TCCAGGAAGAGGTACCCAATCAAAACTTCCACAACGATAAAGGACTTCATTAGGAGCCATCCAAG
* * *
15355366 GAGCTTTCCACATTATATCTTCCTCTTGGAGATTCTGAAGTATTTCTGTCCATCTTTCTTCTGTA
130 GAGCTTTCCACATTATATCTTCCTCTCGGAGATTCTGAAGTATTTCCGTCCATCTTTCCTCTGTA
*
15355431 ATTTCGTCCCTCCTCGGCGTAGCTGCAGCTTCCCTTAAGGGAGAATAACCCTCAAAGGACACTCG
195 ATGTCGTCCCTCCTCGGCGTAGCTGCAGCTTCCCTTAAGGGAGAATAACCCTCAAAGGACACTCG
* * * *
15355496 GCAAGGAACCTTATCAACCTTCTAAAAGTGACTATGGAACCATATTAATAACAACTGTGCACATC
260 GCAAGGAACCTTATCAACATTCCAAAAGTGACTATGGAACCACACTAATAACAACTGTGCACATC
* *
15355561 CAATGAATCTACCTTCACCAGCTCTCCGACGTGCGCTCAAGGATCTAAACGTCTCAGCTAAGATT
325 CAATGAATCTACCTTCACCAGCTCTCCGACGTGAGCTCAAGAATCTAAACGTCTCAGCTAAGATT
* * * * *
15355626 GTAGGCACAGGTGTGTTCTGTTTACCAAGTTGATCGAATAAATCCGTAACTGCCTCATCTATGTG
390 GCAGGCACAGGTGTGTTCTGTTTACCAAGTCGATCGAACAAATCCGCAACCGCCTCATCTATGTG
*
15355691 CCCAATAGCTTTAGGGAAAGTCACCAAACCATAAATACTTAAGGCCAAAACATCAACCCTCTTCT
455 CCCAATAGCTTTAGGGAAAATCACCAAACCATAAATACTTAAGGCCAAAACATCAACCCTCTTCT
15355756 TCACATCTGGGTATACCAATATCAAATCCCTC
520 TCACATCTGGGTATACCAATATCAAATCCCTC
15355788 AAACTTGCCC
1 AAACTTGCCC
15355798 ACGGAATGCA
Statistics
Matches: 527, Mismatches: 33, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
550 4 0.01
551 12 0.02
552 511 0.97
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (551 bp):
AAACTTGCCCCGCTTTATATAGCCTTAAGACGAGTAATGATGCATAACCAACGACTCCCCAAATT
CCAGGAAGAGGTACCCAATCAAAACTTCCACAACGATAAAGGACTTCATTAGGAGCCATCCAAGG
AGCTTTCCACATTATATCTTCCTCTCGGAGATTCTGAAGTATTTCCGTCCATCTTTCCTCTGTAA
TGTCGTCCCTCCTCGGCGTAGCTGCAGCTTCCCTTAAGGGAGAATAACCCTCAAAGGACACTCGG
CAAGGAACCTTATCAACATTCCAAAAGTGACTATGGAACCACACTAATAACAACTGTGCACATCC
AATGAATCTACCTTCACCAGCTCTCCGACGTGAGCTCAAGAATCTAAACGTCTCAGCTAAGATTG
CAGGCACAGGTGTGTTCTGTTTACCAAGTCGATCGAACAAATCCGCAACCGCCTCATCTATGTGC
CCAATAGCTTTAGGGAAAATCACCAAACCATAAATACTTAAGGCCAAAACATCAACCCTCTTCTT
CACATCTGGGTATACCAATATCAAATCCCTC
Found at i:15358147 original size:19 final size:19
Alignment explanation
Indices: 15358125--15358223 Score: 62
Period size: 19 Copynumber: 5.0 Consensus size: 19
15358115 AAGGAATGAT
*
15358125 ATATATAGTAAAATATATA
1 ATATATAATAAAATATATA
*
15358144 ATATATAATAAAATTTATA
1 ATATATAATAAAATATATA
* *
15358163 A-ATAAAATGTATAATAATATAA
1 ATATATAA--TAAAAT-ATAT-A
15358185 ATAATATAATGAATAATATATA
1 AT-ATATAAT-AA-AATATATA
15358207 A-ATA-AA-AATAATATATA
1 ATATATAATAA-AATATATA
15358224 CACTATTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
17 11 0.17
18 5 0.08
19 20 0.31
20 8 0.12
21 3 0.05
22 5 0.08
23 5 0.08
24 8 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATATAATAAAATATATA
Found at i:15358183 original size:21 final size:20
Alignment explanation
Indices: 15358136--15358213 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 20
15358126 TATATAGTAA
*
15358136 AATATATAATATATAAT-AA-
1 AATATATAA-ATAAAATGAAT
* *
15358155 AATTTATAAATAAAATGTAT
1 AATATATAAATAAAATGAAT
15358175 AATAATATAAATAATATAATGAAT
1 AAT-ATATAAAT-A-A-AATGAAT
15358199 AATATATAAATAAAA
1 AATATATAAATAAAA
15358214 ATAATATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.12
19 9 0.19
20 5 0.10
21 8 0.17
22 2 0.04
23 9 0.19
24 9 0.19
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
AATATATAAATAAAATGAAT
Found at i:15358217 original size:24 final size:25
Alignment explanation
Indices: 15358160--15358218 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
15358150 AATAAAATTT
*
15358160 ATAAATAA-AATGTATAATAATATAA
1 ATAAA-AATAATGAATAATAATATAA
*
15358185 AT-AATATAATGAATAAT-ATATAA
1 ATAAAAATAATGAATAATAATATAA
15358208 ATAAAAATAAT
1 ATAAAAATAAT
15358219 ATATACACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 9 0.31
24 18 0.62
25 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAAAAATAATGAATAATAATATAA
Found at i:15359890 original size:21 final size:21
Alignment explanation
Indices: 15359866--15359905 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15359856 ACATTTATGG
15359866 CATTTTACAAATTAG-CCCTCA
1 CATTTT-CAAATTAGTCCCTCA
*
15359887 CATTTTCACATTAGTCCCT
1 CATTTTCAAATTAGTCCCT
15359906 AATTCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.30, G:0.05, T:0.38
Consensus pattern (21 bp):
CATTTTCAAATTAGTCCCTCA
Found at i:15363054 original size:21 final size:21
Alignment explanation
Indices: 15363030--15363075 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15363020 TTACACGATT
*
15363030 GTGTCCTTGCT-TCACACGGGC
1 GTGTCCTT-CTGTCACACGGCC
*
15363051 GTGTGCTTCTGTCACACGGCC
1 GTGTCCTTCTGTCACACGGCC
15363072 GTGT
1 GTGT
15363076 GCTACCCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.09, C:0.30, G:0.30, T:0.30
Consensus pattern (21 bp):
GTGTCCTTCTGTCACACGGCC
Found at i:15378831 original size:2 final size:2
Alignment explanation
Indices: 15378824--15378851 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15378814 AAATTGTTGA
15378824 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15378852 TACAAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15382922 original size:30 final size:30
Alignment explanation
Indices: 15382888--15382950 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
15382878 ACTTAACAAG
15382888 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
15382918 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
15382948 CAA
1 CAA
15382951 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:15384338 original size:11 final size:11
Alignment explanation
Indices: 15384320--15384359 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
15384310 ACAATAACAA
15384320 CAAAATAATAG
1 CAAAATAATAG
*
15384331 CAACATAATAG
1 CAAAATAATAG
* *
15384342 TAAAATGATAG
1 CAAAATAATAG
15384353 CAAAATA
1 CAAAATA
15384360 GGGAGAAAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:15385638 original size:16 final size:15
Alignment explanation
Indices: 15385612--15385670 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 15
15385602 CATAAAGTTT
*
15385612 AAAATAATAAT-ATA
1 AAAAAAATAATAATA
15385626 AGAACAAAATAATAATA
1 A-AA-AAAATAATAATA
15385643 AAAAAAATAACTACATA
1 AAAAAAATAA-TA-ATA
15385660 AAAATAAATAA
1 AAAA-AAATAA
15385671 AACATAGGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 1 0.03
15 9 0.24
16 11 0.29
17 11 0.29
18 6 0.16
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (15 bp):
AAAAAAATAATAATA
Found at i:15387149 original size:16 final size:15
Alignment explanation
Indices: 15387128--15387166 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
15387118 GTAAATGGAC
15387128 TTTTATTTATTTTTAA
1 TTTTATTTA-TTTTAA
*
15387144 TTTTATTTATTTTAT
1 TTTTATTTATTTTAA
15387159 TTTTATTT
1 TTTTATTT
15387167 TGGGTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATTTATTTTAA
Found at i:15387154 original size:20 final size:20
Alignment explanation
Indices: 15387129--15387167 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15387119 TAAATGGACT
15387129 TTTA-TTTATTTTTAATTTTA
1 TTTATTTTATTTTT-ATTTTA
15387149 TTTATTTTATTTTTATTTT
1 TTTATTTTATTTTTATTTT
15387168 GGGTTTATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTATTTTATTTTTATTTTA
Found at i:15387212 original size:3 final size:3
Alignment explanation
Indices: 15387204--15387245 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
15387194 GGTTTGCTAC
15387204 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15387246 GGCATTTGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15388730 original size:9 final size:8
Alignment explanation
Indices: 15388713--15388755 Score: 52
Period size: 9 Copynumber: 5.1 Consensus size: 8
15388703 AGCCTAGTCC
15388713 TAATCTATT
1 TAAT-TATT
15388722 TAATTTATT
1 TAA-TTATT
15388731 TAATTATT
1 TAATTATT
15388739 ATAATTATT
1 -TAATTATT
15388748 T-ATTATT
1 TAATTATT
15388755 T
1 T
15388756 CAGTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.22
8 6 0.19
9 18 0.56
10 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (8 bp):
TAATTATT
Found at i:15389127 original size:25 final size:26
Alignment explanation
Indices: 15389088--15389153 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
15389078 CAATACATAG
* *
15389088 TTTAAACTATTTTATATATTATTCAC
1 TTTAAACTTTTTTATATAATATTCAC
*
15389114 TTTAAA-TTTTTTATATAATATTCAT
1 TTTAAACTTTTTTATATAATATTCAC
15389139 TTTAAACTGTTTTTA
1 TTTAAACT-TTTTTA
15389154 ATACATGTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 22 0.63
26 7 0.20
27 6 0.17
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTAAACTTTTTTATATAATATTCAC
Found at i:15389441 original size:25 final size:23
Alignment explanation
Indices: 15389305--15389603 Score: 126
Period size: 25 Copynumber: 12.3 Consensus size: 23
15389295 TTTTATATGG
15389305 ATTATTTATTTTCAAATTTTTATAT
1 ATTATTTATTTT-AAATTTTT-TAT
* * * * *
15389330 GTTGTGTATCTTAAACTCTTTATAT
1 ATTATTTATTTTAAA-T-TTTTTAT
**
15389355 ATTATTTATTTTATTTTTTATATAT
1 ATTATTTATTTTAAATTTT-T-TAT
* * *
15389380 ATTATTTATGTTAAACTGTTT-T
1 ATTATTTATTTTAAATTTTTTAT
* *
15389402 -TTGTTT-TTTT-TATTTTATGTAT
1 ATTATTTATTTTAAATTTT-T-TAT
15389424 ATTATTTATTTTAAATTTTTTTTACGT
1 ATTATTTATTTTAAA--TTTTTTA--T
* *
15389451 ATTATTTATTTTAGACTTTTTAT
1 ATTATTTATTTTAAATTTTTTAT
* * *
15389474 -TGA-TGATTTTAAATTATTTTCT
1 ATTATTTATTTTAAATT-TTTTAT
*
15389496 ATTATTTACTTTAAATTGCTTTTAT
1 ATTATTTATTTTAAATT--TTTTAT
*
15389521 AGTATTTATTTTAAACCTTTTATACATAT
1 ATTATTTATTTTAAA--TTTT-T---TAT
* * *
15389550 ATTATTTAGTTAAAATTATCTTAT
1 ATTATTTATTTTAAATT-TTTTAT
*
15389574 ATTATTTGA-TTTAAGTTGTTTTAT
1 ATTATTT-ATTTTAAATT-TTTTAT
15389598 ATTATT
1 ATTATT
15389604 ACTTCATTTC
Statistics
Matches: 202, Mismatches: 46, Indels: 53
0.67 0.15 0.18
Matches are distributed among these distances:
19 3 0.01
20 4 0.02
21 15 0.07
22 9 0.04
23 12 0.06
24 46 0.23
25 68 0.34
26 5 0.02
27 24 0.12
28 1 0.00
29 15 0.07
ACGTcount: A:0.28, C:0.05, G:0.06, T:0.62
Consensus pattern (23 bp):
ATTATTTATTTTAAATTTTTTAT
Found at i:15389444 original size:27 final size:27
Alignment explanation
Indices: 15389414--15389474 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
15389404 GTTTTTTTTA
15389414 TTTTATGTA-TATTATTTATTTTAAA-T
1 TTTTAT-TACTATTATTTATTTTAAACT
* *
15389440 TTTTTTTACGTATTATTTATTTTAGACT
1 TTTTATTAC-TATTATTTATTTTAAACT
15389468 TTTTATT
1 TTTTATT
15389475 GATGATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 5 0.17
27 15 0.52
28 7 0.24
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTTATTACTATTATTTATTTTAAACT
Found at i:15389484 original size:71 final size:70
Alignment explanation
Indices: 15389352--15389543 Score: 185
Period size: 71 Copynumber: 2.7 Consensus size: 70
15389342 AAACTCTTTA
* * **
15389352 TATATTATTTATTTT--ATTTTTTATATATATTATTTATGTTAAACTGTTTT-TTGTTTTTTTTA
1 TATATTATTTATTTTAAATTTTTT-T-TATATTATTTATTTTAAACT-TTTTATTGATGATTTTA
**
15389414 TTTTA-TG
63 AATTATTG
*
15389421 TATATTATTTATTTTAAATTTTTTTTACGTATTATTTATTTTAGACTTTTTATTGATGATTTTAA
1 TATATTATTTATTTTAAATTTTTTTTA--TATTATTTATTTTAAACTTTTTATTGATGATTTTAA
*
15389486 ATTATTT
64 ATTATTG
* * ** * *
15389493 TCTATTATTTACTTTAAATTGCTTTTATAGTATTTATTTTAAACCTTTTAT
1 TATATTATTTATTTTAAATTTTTTTTATATTATTTATTTTAAACTTTTTAT
15389544 ACATATATTA
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
69 17 0.17
70 26 0.25
71 35 0.34
72 24 0.24
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.65
Consensus pattern (70 bp):
TATATTATTTATTTTAAATTTTTTTTATATTATTTATTTTAAACTTTTTATTGATGATTTTAAAT
TATTG
Found at i:15390155 original size:26 final size:26
Alignment explanation
Indices: 15390122--15390229 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
15390112 TGATACAAAT
15390122 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
15390148 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15390174 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15390200 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15390226 TGAT
1 TGAT
15390230 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15397922 original size:2 final size:2
Alignment explanation
Indices: 15397915--15397941 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15397905 GCTTGTGCCC
15397915 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15397942 ACAAAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15402980 original size:13 final size:13
Alignment explanation
Indices: 15402962--15402987 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15402952 TATATATATA
15402962 TAACAAGAGCTTG
1 TAACAAGAGCTTG
15402975 TAACAAGAGCTTG
1 TAACAAGAGCTTG
15402988 ATTTGGTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
TAACAAGAGCTTG
Found at i:15405502 original size:10 final size:9
Alignment explanation
Indices: 15405468--15405538 Score: 52
Period size: 10 Copynumber: 7.2 Consensus size: 9
15405458 ATAACCAATA
15405468 AATTTTTAT
1 AATTTTTAT
**
15405477 AGCTTTTAT
1 AATTTTTAT
*
15405486 ATTTTTTCTAT
1 A-ATTTT-TAT
15405497 AATTTTTAT
1 AATTTTTAT
*
15405506 AATTCTTTACA
1 AATT-TTTA-T
15405517 AATTTTCTAT
1 AATTTT-TAT
15405527 AATTTTTTAT
1 AA-TTTTTAT
15405537 AA
1 AA
15405539 GCATCAATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
9 15 0.31
10 20 0.41
11 14 0.29
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:15405502 original size:11 final size:10
Alignment explanation
Indices: 15405480--15405538 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
15405470 TTTTTATAGC
*
15405480 TTTTATATTT
1 TTTTATAATT
15405490 TTTCTATAA-T
1 TTT-TATAATT
15405500 TTTTATAATT
1 TTTTATAATT
* *
15405510 CTTTACAAATT
1 TTTTA-TAATT
*
15405521 TTCTATAATT
1 TTTTATAATT
15405531 TTTTATAA
1 TTTTATAA
15405539 GCATCAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 5 0.13
10 23 0.59
11 11 0.28
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:15405529 original size:21 final size:20
Alignment explanation
Indices: 15405497--15405535 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
15405487 TTTTTTCTAT
15405497 AATTTTTATAATTCTTTACA
1 AATTTTTATAATTCTTTACA
*
15405517 AATTTTCTATAATTTTTTA
1 AATTTT-TATAATTCTTTA
15405536 TAAGCATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTTTATAATTCTTTACA
Found at i:15406217 original size:41 final size:37
Alignment explanation
Indices: 15406163--15406262 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 37
15406153 ATATTTTATT
* *
15406163 TATATTATAAATATATAATAAAAGTATTTAAATAAAATA
1 TATATTATTAATATATAATAAAAATATTTAAAT-AAA-A
15406202 TATATTAAATTAATATATAATAAAAATATTTAAATAAAA
1 TATATT--ATTAATATATAATAAAAATATTTAAATAAAA
15406241 TATATTATTAATATATAATAAA
1 TATATTATTAATATATAATAAA
15406263 TATTTTTTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
37 16 0.28
39 13 0.23
40 3 0.05
41 25 0.44
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (37 bp):
TATATTATTAATATATAATAAAAATATTTAAATAAAA
Found at i:15410353 original size:25 final size:25
Alignment explanation
Indices: 15410323--15410372 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
15410313 GAATATTTTA
*
15410323 ACAATTTAACAATCATATTTAATAT
1 ACAATTTAACAATCATATCTAATAT
* *
15410348 ACAATTTAATAATTATATCTAATAT
1 ACAATTTAACAATCATATCTAATAT
15410373 TCCAATCATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (25 bp):
ACAATTTAACAATCATATCTAATAT
Found at i:15411235 original size:5 final size:5
Alignment explanation
Indices: 15411227--15411275 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
15411217 AATAAAAAAA
* *
15411227 TAATT TAATT TAGTT TGATT T--TT ATAATT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT TAATT -TAATT TAATT TAATT TAATT TAATT
15411276 AATGTAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
3 2 0.05
4 1 0.03
5 33 0.87
6 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (5 bp):
TAATT
Found at i:15411258 original size:24 final size:24
Alignment explanation
Indices: 15411226--15411271 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
15411216 AAATAAAAAA
* *
15411226 ATAATTTAATTTAGTTTGATTTTT
1 ATAATTTAATTTAATTTAATTTTT
15411250 ATAATTTAATTTAATTTAATTT
1 ATAATTTAATTTAATTTAATTT
15411272 AATTAATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
ATAATTTAATTTAATTTAATTTTT
Found at i:15422090 original size:44 final size:44
Alignment explanation
Indices: 15422040--15422130 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
15422030 TTGAAACTAA
* * *
15422040 AATAGAAGTTGTGATAATTATACATTTAATAATAATTATAAGTT
1 AATAGAAATTCTGATAATTATACATTTAAAAATAATTATAAGTT
* * *
15422084 AATAGAAATTCTTATAATTATGCATTTAAAAATAATTATAATTT
1 AATAGAAATTCTGATAATTATACATTTAAAAATAATTATAAGTT
15422128 AAT
1 AAT
15422131 TTATAATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (44 bp):
AATAGAAATTCTGATAATTATACATTTAAAAATAATTATAAGTT
Found at i:15422093 original size:17 final size:18
Alignment explanation
Indices: 15422053--15422087 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15422043 AGAAGTTGTG
*
15422053 ATAATTATACATTTAATA
1 ATAATTATACAGTTAATA
15422071 ATAATTATA-AGTTAATA
1 ATAATTATACAGTTAATA
15422088 GAAATTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
ATAATTATACAGTTAATA
Found at i:15426575 original size:27 final size:27
Alignment explanation
Indices: 15426545--15426606 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
15426535 TGCGTATAGA
*
15426545 GGTTCGCAAATAT-GGTTCGTACCTAGG
1 GGTTCGCAAATATGGGTTCGCACCTA-G
* *
15426572 GGTTCGTACATATGGGTTCGCACCTAG
1 GGTTCGCAAATATGGGTTCGCACCTAG
15426599 GGTTCGCA
1 GGTTCGCA
15426607 TATTAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 19 0.63
28 11 0.37
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (27 bp):
GGTTCGCAAATATGGGTTCGCACCTAG
Found at i:15426577 original size:14 final size:13
Alignment explanation
Indices: 15426558--15426604 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
15426548 TCGCAAATAT
15426558 GGTTCGTACCTAGG
1 GGTTCGTACCTA-G
*
15426572 GGTTCGTACATATG
1 GGTTCGTACCTA-G
*
15426586 GGTTCGCACCTAG
1 GGTTCGTACCTAG
15426599 GGTTCG
1 GGTTCG
15426605 CATATTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 7 0.24
14 22 0.76
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (13 bp):
GGTTCGTACCTAG
Found at i:15426910 original size:18 final size:18
Alignment explanation
Indices: 15426864--15426921 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
15426854 ATGGGCTCAC
*
15426864 CTATAA-GGGTTTACACA
1 CTATAAGGGGTTTACATA
* * *
15426881 ATATCAGTGGTTTACATA
1 CTATAAGGGGTTTACATA
*
15426899 CTATAAGGGGTTCACATA
1 CTATAAGGGGTTTACATA
15426917 CTATA
1 CTATA
15426922 GGGTTTTCAT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
17 4 0.12
18 28 0.88
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (18 bp):
CTATAAGGGGTTTACATA
Found at i:15428568 original size:11 final size:11
Alignment explanation
Indices: 15428554--15428592 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
15428544 TGTTTTCTCT
15428554 CTATTTTGCTA
1 CTATTTTGCTA
*
15428565 CTATTTTACTA
1 CTATTTTGCTA
* *
15428576 TTATGTTGCTA
1 CTATTTTGCTA
15428587 CTATTT
1 CTATTT
15428593 GTTGTTATTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:15428643 original size:18 final size:19
Alignment explanation
Indices: 15428609--15428655 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
15428599 ATTATTTGAA
15428609 TATTGTATAAATTTTATT-T
1 TATTGT-TAAATTTTATTAT
*
15428628 TATTGTTAATTTTTATTAT
1 TATTGTTAAATTTTATTAT
15428647 TATT-TTAAA
1 TATTGTTAAA
15428656 CACATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
TATTGTTAAATTTTATTAT
Found at i:15428838 original size:12 final size:12
Alignment explanation
Indices: 15428817--15428850 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15428807 TATATATTTT
*
15428817 AAAATTATATAA
1 AAAATAATATAA
15428829 AAAATAATATAA
1 AAAATAATATAA
*
15428841 AAATTAATAT
1 AAAATAATAT
15428851 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:15429607 original size:26 final size:26
Alignment explanation
Indices: 15429571--15429732 Score: 252
Period size: 26 Copynumber: 6.2 Consensus size: 26
15429561 TGATACAAAT
* *
15429571 TGATAATAGGTTAGGTAAATGTTTCG
1 TGATAATAGGTTAGGTAAATGTTCCA
15429597 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15429623 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
15429649 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
15429675 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
15429701 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15429727 TGATAA
1 TGATAA
15429733 GAATTTCATG
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:15431205 original size:28 final size:26
Alignment explanation
Indices: 15431174--15431248 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
15431164 GAAAGTAGCT
15431174 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATAATACCCCTA-GT-TGGA
* * *
15431202 AAATTACTGTTATACCCCTAGTTGTA
1 AAATTACTATAATACCCCTAGTTGGA
** *
15431228 AAATTACCGTTATACCCCTAG
1 AAATTACTATAATACCCCTAG
15431249 GGTTAATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 23 0.53
27 2 0.05
28 18 0.42
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (26 bp):
AAATTACTATAATACCCCTAGTTGGA
Found at i:15431239 original size:26 final size:27
Alignment explanation
Indices: 15431185--15431248 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
15431175 AATTACTATA
*
15431185 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-GTATGGAAAATTACCGTT
*
15431213 ATACCCCTAGT-TGTAAAATTACCGTT
1 ATACCCCTAGTATGGAAAATTACCGTT
15431239 ATACCCCTAG
1 ATACCCCTAG
15431249 GGTTAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 23 0.68
27 2 0.06
28 9 0.26
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (27 bp):
ATACCCCTAGTATGGAAAATTACCGTT
Found at i:15431393 original size:27 final size:27
Alignment explanation
Indices: 15431352--15431464 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
15431342 GAGGAAGCGT
*
15431352 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
15431379 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
15431406 TCTGGTGGCTCTGCCACAATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
15431434 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
15431460 TCTGG
1 TCTGG
15431465 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.07
27 56 0.74
28 15 0.20
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:15431457 original size:54 final size:54
Alignment explanation
Indices: 15431350--15431464 Score: 178
Period size: 54 Copynumber: 2.1 Consensus size: 54
15431340 TGGAGGAAGC
*
15431350 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * *
15431404 GTTCTGGTGGCTCTGCCACAATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
15431458 GTTCTGG
1 GTTCTGG
15431465 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
54 38 0.68
55 18 0.32
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:15435230 original size:19 final size:20
Alignment explanation
Indices: 15435181--15435231 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
15435171 TTTCCCATTA
15435181 AACTTAATTAATAACTAATT
1 AACTTAATTAATAACTAATT
* * *
15435201 TATTATAATTAA-ACCTAATT
1 AACT-TAATTAATAACTAATT
15435221 AACTTAATTAA
1 AACTTAATTAA
15435232 CTAAGATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 7 0.28
20 11 0.44
21 7 0.28
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (20 bp):
AACTTAATTAATAACTAATT
Found at i:15439043 original size:14 final size:15
Alignment explanation
Indices: 15439016--15439044 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15439006 TATAATTTAA
15439016 AATAAACAATACTCT
1 AATAAACAATACTCT
15439031 AATAAAC-ATACTCT
1 AATAAACAATACTCT
15439045 CTAACTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAAACAATACTCT
Found at i:15440330 original size:28 final size:28
Alignment explanation
Indices: 15440294--15440359 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
15440284 TTTTTTCAAG
15440294 AAGAAAATAC-CAAGCTACTATTGATTCA
1 AAGAAAATACACAA-CTACTATTGATTCA
* *
15440322 AAGAAAATACACAACTATTGTTGATTCA
1 AAGAAAATACACAACTACTATTGATTCA
15440350 AAGAAAATAC
1 AAGAAAATAC
15440360 TCAAATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 32 0.91
29 3 0.09
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (28 bp):
AAGAAAATACACAACTACTATTGATTCA
Found at i:15443185 original size:18 final size:18
Alignment explanation
Indices: 15443148--15443186 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15443138 GTGGAAATCA
*
15443148 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
15443166 AAATTATTAAAAAGA-AAT
1 AAATTATT-AAAAGATAAT
15443184 AAA
1 AAA
15443187 AGTCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:15457742 original size:1 final size:1
Alignment explanation
Indices: 15457736--15457766 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
15457726 AATGTGAACC
15457736 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15457767 GCCAAATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:15465945 original size:2 final size:2
Alignment explanation
Indices: 15465938--15465964 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15465928 TGGAATTTAG
15465938 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
15465965 AAGATGTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:15467279 original size:30 final size:30
Alignment explanation
Indices: 15467238--15467297 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
15467228 ATTTATACAT
*
15467238 TAATAAACAAATGTAA-ATTTTAAAATTAA
1 TAATAAACAAATGCAATATTTTAAAATTAA
*
15467267 TAATAATACAAATGCAATATTTTGAAATTAA
1 TAATAA-ACAAATGCAATATTTTAAAATTAA
15467298 AATCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 6 0.22
30 9 0.33
31 12 0.44
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (30 bp):
TAATAAACAAATGCAATATTTTAAAATTAA
Found at i:15468336 original size:12 final size:12
Alignment explanation
Indices: 15468319--15468343 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15468309 GCTATGAAAT
15468319 TGGGAAATTTTA
1 TGGGAAATTTTA
15468331 TGGGAAATTTTA
1 TGGGAAATTTTA
15468343 T
1 T
15468344 AGAATATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (12 bp):
TGGGAAATTTTA
Found at i:15470693 original size:14 final size:14
Alignment explanation
Indices: 15470669--15470701 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
15470659 TCCCTGCTTC
15470669 GTTTCTGTTTCTTTT
1 GTTTCTGTTTC-TTT
15470684 GTTT-TGTTTCTTT
1 GTTTCTGTTTCTTT
15470697 GTTTC
1 GTTTC
15470702 CTTAATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.73
Consensus pattern (14 bp):
GTTTCTGTTTCTTT
Found at i:15471033 original size:15 final size:14
Alignment explanation
Indices: 15471015--15471045 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
15471005 TTAATTTATT
15471015 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
15471030 TAATAATAATCTAA
1 TAATAATAATCTAA
15471044 TA
1 TA
15471046 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:15471056 original size:21 final size:20
Alignment explanation
Indices: 15471032--15471100 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
15471022 AATGCTAATA
15471032 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
15471053 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
15471072 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
15471093 ATAATAAT
1 ATAATAAT
15471101 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:15478080 original size:21 final size:19
Alignment explanation
Indices: 15478052--15478104 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
15478042 CAAAAAATCC
15478052 TTAAATATTAAATTGAAAAA
1 TTAAATATTAAATT-AAAAA
* *
15478072 TTCAAATATTAAGTTAAACA
1 TT-AAATATTAAATTAAAAA
15478092 TTAAA-ATTAAATT
1 TTAAATATTAAATT
15478105 TAGATACTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 7 0.24
19 3 0.10
20 8 0.28
21 11 0.38
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (19 bp):
TTAAATATTAAATTAAAAA
Found at i:15478625 original size:21 final size:21
Alignment explanation
Indices: 15478579--15478639 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 21
15478569 TCTCTATTTT
*
15478579 TTATATTTAAAAATATGATATA
1 TTAT-TTTAAAAATATAATATA
*
15478601 --ATTTTAAAATTATAATATA
1 TTATTTTAAAAATATAATATA
* *
15478620 TTATTTGAATAATATTAATA
1 TTATTTTAAAAATA-TAATA
15478640 ATTCATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 15 0.48
20 2 0.06
21 9 0.29
22 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (21 bp):
TTATTTTAAAAATATAATATA
Found at i:15491225 original size:16 final size:16
Alignment explanation
Indices: 15491204--15491246 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
15491194 GTTCATTGAC
15491204 ATGGAATAGA-TGAGGA
1 ATGGAATAGAGTGA-GA
15491220 ATGGAATTA-AGTGAGA
1 ATGGAA-TAGAGTGAGA
15491236 ATGGAATAGAG
1 ATGGAATAGAG
15491247 ATATAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.08
16 17 0.71
17 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (16 bp):
ATGGAATAGAGTGAGA
Found at i:15491356 original size:21 final size:21
Alignment explanation
Indices: 15491321--15491382 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 21
15491311 TATTTTACCC
*
15491321 TTAACTTAA-AAAATAATATT
1 TTAATTTAATAAAATAATATT
*
15491341 TTAATTTAATAAAAT-AT-TA
1 TTAATTTAATAAAATAATATT
*
15491360 TTAATTTAATATAA-AATATT
1 TTAATTTAATAAAATAATATT
15491380 TTA
1 TTA
15491383 TATTAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 16 0.46
20 14 0.40
21 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAATTTAATAAAATAATATT
Found at i:15491365 original size:19 final size:18
Alignment explanation
Indices: 15491335--15491382 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 18
15491325 CTTAAAAAAT
15491335 AATATTTTAATTTAATAA
1 AATATTTTAATTTAATAA
15491353 AATATTATTAATTTAATATAA
1 AATATT-TTAATTT-A-ATAA
15491374 AATATTTTA
1 AATATTTTA
15491383 TATTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.22
19 7 0.26
20 4 0.15
21 10 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATATTTTAATTTAATAA
Found at i:15491511 original size:21 final size:21
Alignment explanation
Indices: 15491473--15491512 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15491463 TAAAATTTTA
*
15491473 TAATAATTACATATTTATATT
1 TAATAATTACATAATTATATT
15491494 TAATAATATAC-TAATTATA
1 TAATAAT-TACATAATTATA
15491513 AAAATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATAATTACATAATTATATT
Found at i:15492766 original size:31 final size:31
Alignment explanation
Indices: 15492731--15492789 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
15492721 ACGACCTTAT
*
15492731 GACTTAAATAAAAACTTT-AGAATAGTTTAGC
1 GACTTAAACAAAAACTTTCA-AATAGTTTAGC
*
15492762 GACTTAAACGAAAACTTTCAAATAGTTT
1 GACTTAAACAAAAACTTTCAAATAGTTT
15492790 TGTAACATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (31 bp):
GACTTAAACAAAAACTTTCAAATAGTTTAGC
Found at i:15493446 original size:14 final size:14
Alignment explanation
Indices: 15493410--15493448 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
15493400 GGCCTCAAAA
15493410 TTATCTTATTTTAC
1 TTATCTTATTTTAC
* * *
15493424 TAATATTATTTTAG
1 TTATCTTATTTTAC
15493438 TTATCTTATTT
1 TTATCTTATTT
15493449 ATTTTTGTAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (14 bp):
TTATCTTATTTTAC
Found at i:15493822 original size:2 final size:2
Alignment explanation
Indices: 15493811--15493843 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
15493801 TTATTACTTA
*
15493811 AT AT -T AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15493844 TTAAACTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:15498741 original size:19 final size:19
Alignment explanation
Indices: 15498686--15498742 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
15498676 AAAATTAATA
* *
15498686 ACAAATTTGATTATGGTAG
1 ACAAATTTGATTACGGTGG
15498705 ACAAATTTGATTACGGTGG
1 ACAAATTTGATTACGGTGG
15498724 ACAAATTTGATTACGGTGG
1 ACAAATTTGATTACGGTGG
15498743 GTGAAAGTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (19 bp):
ACAAATTTGATTACGGTGG
Found at i:15502206 original size:19 final size:19
Alignment explanation
Indices: 15502182--15502218 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15502172 TTTTGAGTTT
* *
15502182 AAAATATTTAATTATGTGA
1 AAAATAATTAATGATGTGA
15502201 AAAATAATTAATGATGTG
1 AAAATAATTAATGATGTG
15502219 GAATGCACAG
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:0.49, C:0.00, G:0.14, T:0.38
Consensus pattern (19 bp):
AAAATAATTAATGATGTGA
Found at i:15505899 original size:6 final size:7
Alignment explanation
Indices: 15505883--15505911 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
15505873 TTACGAAAAC
15505883 AAAAGGA
1 AAAAGGA
15505890 AAAAGGA
1 AAAAGGA
15505897 AAAAGG-
1 AAAAGGA
15505903 AAAAGGA
1 AAAAGGA
15505910 AA
1 AA
15505912 GATTAAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AAAAGGA
Found at i:15505906 original size:13 final size:14
Alignment explanation
Indices: 15505883--15505911 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15505873 TTACGAAAAC
15505883 AAAAGGAAAAAGGA
1 AAAAGGAAAAAGGA
15505897 AAAAGG-AAAAGGA
1 AAAAGGAAAAAGGA
15505910 AA
1 AA
15505912 GATTAAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
AAAAGGAAAAAGGA
Found at i:15506777 original size:20 final size:19
Alignment explanation
Indices: 15506751--15506813 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 19
15506741 CAAAATAATG
15506751 CAAAATAATTTTCAAAAATT
1 CAAAATAATTTT-AAAAATT
*
15506771 TAAAATAAATTTT-AAAATT
1 CAAAAT-AATTTTAAAAATT
15506790 CAAAAT-ATTTATAAAAAATT
1 CAAAATAATTT-T-AAAAATT
15506810 CAAA
1 CAAA
15506814 TTTTATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 4 0.11
18 1 0.03
19 11 0.30
20 15 0.41
21 6 0.16
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
CAAAATAATTTTAAAAATT
Found at i:15506818 original size:18 final size:20
Alignment explanation
Indices: 15506784--15506821 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
15506774 AATAAATTTT
15506784 AAAATTCAAAATATTTATAA
1 AAAATTCAAAATATTTATAA
15506804 AAAATTC-AAAT-TTTATAA
1 AAAATTCAAAATATTTATAA
15506822 TTAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATTCAAAATATTTATAA
Found at i:15506827 original size:20 final size:22
Alignment explanation
Indices: 15506782--15506827 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
15506772 AAAATAAATT
15506782 TTAAAATTCAAAATATTTATAA
1 TTAAAATTCAAAATATTTATAA
15506804 --AAAATTC-AAAT-TTTATAA
1 TTAAAATTCAAAATATTTATAA
15506822 TTAAAA
1 TTAAAA
15506828 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 7 0.32
19 4 0.18
20 11 0.50
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAAATTCAAAATATTTATAA
Found at i:15506850 original size:10 final size:9
Alignment explanation
Indices: 15506832--15506881 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
15506822 TTAAAAAAAA
15506832 TAAAAATTT
1 TAAAAATTT
15506841 TAAAATATTT
1 TAAAA-ATTT
*
15506851 TAAAAATATA
1 TAAAAAT-TT
*
15506861 TAAAAA-GT
1 TAAAAATTT
15506869 T-AAAATTT
1 TAAAAATTT
15506877 TAAAA
1 TAAAA
15506882 CTTCTCTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
7 4 0.12
8 3 0.09
9 10 0.30
10 16 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
TAAAAATTT
Found at i:15510753 original size:4 final size:5
Alignment explanation
Indices: 15510717--15510759 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
15510707 AGGTTTTCAT
*
15510717 TTTTC TTTTC TCTTC TTTTTC TTTTC TTTTC -TTTC TTTT- TTTT
1 TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
15510760 ATTGTAGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
4 8 0.24
5 22 0.65
6 4 0.12
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Done.