Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 306 of 343
Found at i:99614524 original size:25 final size:26
Alignment explanation
Indices: 99614472--99614521 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
99614462 AAAATTTAAA
99614472 AAAAGAAAGAAAAAAAGAAAAAAAAT
1 AAAAGAAAGAAAAAAAGAAAAAAAAT
*
99614498 AAAA-AAAGAAGAAGAAGAAAAAAA
1 AAAAGAAAGAA-AAAAAGAAAAAAA
99614522 TAAGTACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (26 bp):
AAAAGAAAGAAAAAAAGAAAAAAAAT
Found at i:99616198 original size:30 final size:30
Alignment explanation
Indices: 99616164--99616226 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
99616154 ACTTAAGAAG
99616164 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
99616194 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
99616224 CAA
1 CAA
99616227 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:99618394 original size:15 final size:15
Alignment explanation
Indices: 99618374--99618406 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
99618364 AATCAAAAAA
99618374 TAAAA-TAAAATAATT
1 TAAAATTAAAA-AATT
99618389 TAAAATTAAAAAATT
1 TAAAATTAAAAAATT
99618404 TAA
1 TAA
99618407 CATGAAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAATTAAAAAATT
Found at i:99622268 original size:21 final size:22
Alignment explanation
Indices: 99622227--99622269 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
99622217 TAACATGTAC
99622227 CAAAGGAAAGCAAAAAAAAGCA
1 CAAAGGAAAGCAAAAAAAAGCA
*
99622249 CAAAGGAAAG-AAACAAAAGCA
1 CAAAGGAAAGCAAAAAAAAGCA
99622270 ACATGCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.67, C:0.14, G:0.19, T:0.00
Consensus pattern (22 bp):
CAAAGGAAAGCAAAAAAAAGCA
Found at i:99630740 original size:21 final size:23
Alignment explanation
Indices: 99630693--99630746 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
99630683 CATTCAAGAT
**
99630693 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
99630716 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
99630737 AAAAT-ATATA
1 AAAATAATATA
99630747 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:99630791 original size:25 final size:25
Alignment explanation
Indices: 99630694--99630850 Score: 72
Period size: 25 Copynumber: 6.3 Consensus size: 25
99630684 ATTCAAGATA
* * *
99630694 AAATAATATATAAAACTCTT-TAA-
1 AAATAATATATAAAAATATTAAAAT
*
99630717 AAATAATATATAAACAAT-TCAAAAT
1 AAATAATATATAAA-AATATTAAAAT
* * * *
99630742 ATATAATGTGTAAAAAAAAGTTTAAAAT
1 AAATAATATAT-AAAAATA--TTAAAAT
* * *
99630770 ACATAATATATGAAAATATTAAAGT
1 AAATAATATATAAAAATATTAAAAT
* *
99630795 AAATAATGTATAAAAAT-TTGAAAT
1 AAATAATATATAAAAATATTAAAAT
* *** *
99630819 GAACGTTATATAAAAA-GTTAAAAT
1 AAATAATATATAAAAATATTAAAAT
*
99630843 AGATAATA
1 AAATAATA
99630851 ACCAAAAATG
Statistics
Matches: 96, Mismatches: 30, Indels: 15
0.68 0.21 0.11
Matches are distributed among these distances:
23 15 0.16
24 29 0.30
25 30 0.31
26 3 0.03
27 5 0.05
28 14 0.15
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (25 bp):
AAATAATATATAAAAATATTAAAAT
Found at i:99631010 original size:15 final size:14
Alignment explanation
Indices: 99630952--99631014 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
99630942 ATATTAGTAT
*
99630952 ATAAATATAAATAG
1 ATAAATAAAAATAG
*
99630966 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
99630980 TTGAAATATAAATAG
1 AT-AAATAAAAATAG
99630995 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
99631010 ATAAA
1 ATAAA
99631015 AGTAATAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
13 2 0.05
14 17 0.45
15 17 0.45
16 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:99635428 original size:39 final size:39
Alignment explanation
Indices: 99635367--99635466 Score: 155
Period size: 39 Copynumber: 2.6 Consensus size: 39
99635357 TCGTGATCTA
** * *
99635367 AAGCCCGAAATCTAGCTAAAGCACATAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGG
*
99635406 AAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGG
99635445 AAGCCCGAAGGCTAACTGAAGC
1 AAGCCCGAAGGCTAACTGAAGC
99635467 TCATCAGAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.38, C:0.24, G:0.25, T:0.13
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGG
Found at i:99646522 original size:13 final size:13
Alignment explanation
Indices: 99646504--99646528 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99646494 ATAGTTGGGG
99646504 AGCTTTGAAACAT
1 AGCTTTGAAACAT
99646517 AGCTTTGAAACA
1 AGCTTTGAAACA
99646529 GATGAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
AGCTTTGAAACAT
Found at i:99661066 original size:3 final size:3
Alignment explanation
Indices: 99661060--99661088 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
99661050 GCAAAATGTA
99661060 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
99661089 GGAAGAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:99661640 original size:13 final size:13
Alignment explanation
Indices: 99661613--99661659 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
99661603 AGCAATGCGG
99661613 TTTTT-TTTTT-A
1 TTTTTCTTTTTCA
99661624 -TTTTCTTTTTCA
1 TTTTTCTTTTTCA
* *
99661636 TTTTTATTTTTCC
1 TTTTTCTTTTTCA
99661649 TTTTTCTTTTT
1 TTTTTCTTTTT
99661660 GTTTCTTGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 4 0.13
11 5 0.17
12 1 0.03
13 20 0.67
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTCTTTTTCA
Found at i:99663036 original size:18 final size:16
Alignment explanation
Indices: 99663003--99663049 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
99662993 TTATGTGTAC
*
99663003 AATATAAAAATTTTAAA
1 AATA-AAAAATATTAAA
99663020 AATACATAAAATATTAAA
1 AATA-A-AAAATATTAAA
99663038 AATAAAAAATAT
1 AATAAAAAATAT
99663050 AATTCAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 7 0.26
17 6 0.22
18 14 0.52
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAAAAAATATTAAA
Found at i:99671876 original size:41 final size:40
Alignment explanation
Indices: 99671831--99671968 Score: 188
Period size: 41 Copynumber: 3.4 Consensus size: 40
99671821 TGTTTTACCA
*
99671831 AAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGTTTTTTGTT
1 AAAACGCCGCTAAAAACCGGAGCAATAGCGGCG-TTTTTG-T
* *
99671872 AAAACGCCGCTAAAAACCGGAGCACTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCGGAGCAATAGCGGCG-TTTTTGT
* *
99671913 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTAGT
1 AAAACGCCGCTAAAAACCGGAGCAATAGCGGCG-TTTTTGT
99671954 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
99671969 GTCATATAAC
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
41 71 0.79
42 19 0.21
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACCGGAGCAATAGCGGCGTTTTTGT
Found at i:99672056 original size:23 final size:22
Alignment explanation
Indices: 99672009--99672056 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
99671999 AAAAAATCAT
* *
99672009 AAACACTAATCTATAATCCTTA
1 AAACACTAAACTATAAACCTTA
*
99672031 AAACACTAAACTCCTAAACCTTA
1 AAACACTAAACT-ATAAACCTTA
99672054 AAA
1 AAA
99672057 AATCTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (22 bp):
AAACACTAAACTATAAACCTTA
Found at i:99672084 original size:54 final size:55
Alignment explanation
Indices: 99671988--99672095 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 55
99671978 CCCCTAAAAA
* *
99671988 CCTAAACCTACAAAAAATCATAAACACTAATCTATAATCCTTAAAACACTAAACT
1 CCTAAACCTACAAAAAATCATAAACACTAAACTATAACCCTTAAAACACTAAACT
* * *
99672043 CCTAAACCT-TAAAAAATCTTAAA-ACGTAAACTATAACCCTTAAAATACTAAAC
1 CCTAAACCTACAAAAAATCATAAACAC-TAAACTATAACCCTTAAAACACTAAAC
99672096 CCCAAAAAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
53 2 0.04
54 36 0.77
55 9 0.19
ACGTcount: A:0.51, C:0.24, G:0.01, T:0.24
Consensus pattern (55 bp):
CCTAAACCTACAAAAAATCATAAACACTAAACTATAACCCTTAAAACACTAAACT
Found at i:99672377 original size:14 final size:14
Alignment explanation
Indices: 99672355--99672402 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
99672345 TTAATTATCA
*
99672355 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
99672369 TTATGGTTTAAGCT
1 TTATGGTTTAAGGT
*
99672383 ATATGGGTTTAAGGT
1 TTAT-GGTTTAAGGT
99672398 TTATG
1 TTATG
99672403 AGTTAACTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:99672402 original size:15 final size:15
Alignment explanation
Indices: 99672360--99672402 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
99672350 TATCATTATA
99672360 GTTTAAGGTTTAT-G
1 GTTTAAGGTTTATGG
* *
99672374 GTTTAAGCTATATGG
1 GTTTAAGGTTTATGG
99672389 GTTTAAGGTTTATG
1 GTTTAAGGTTTATG
99672403 AGTTAACTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (15 bp):
GTTTAAGGTTTATGG
Found at i:99672498 original size:22 final size:22
Alignment explanation
Indices: 99672448--99672500 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
99672438 GTTTAAGGTT
* *
99672448 AGGTGTTAGGGGTTAAGGGTTTA
1 AGGT-TTAGGGATTAAGAGTTTA
*
99672471 ATGTTTAGGGATTAAGAGTTTA
1 AGGTTTAGGGATTAAGAGTTTA
*
99672493 GGGTTTAG
1 AGGTTTAG
99672501 ATTAGTTAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (22 bp):
AGGTTTAGGGATTAAGAGTTTA
Found at i:99672888 original size:22 final size:25
Alignment explanation
Indices: 99672852--99672897 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
99672842 CATATTTCAG
99672852 TTAAAAAAATCAAT-ATT-CAAAAT
1 TTAAAAAAATCAATAATTCCAAAAT
99672875 TTAAAAAAAT-AATAATTCCAAAA
1 TTAAAAAAATCAATAATTCCAAAA
99672898 AATAATAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.14
23 13 0.62
24 5 0.24
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (25 bp):
TTAAAAAAATCAATAATTCCAAAAT
Found at i:99672891 original size:16 final size:16
Alignment explanation
Indices: 99672872--99672911 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
99672862 CAATATTCAA
*
99672872 AATTTAAAAAAATAAT
1 AATTCAAAAAAATAAT
*
99672888 AATTCCAAAAAATAAT
1 AATTCAAAAAAATAAT
99672904 AATCTCAA
1 AAT-TCAA
99672912 CACAAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (16 bp):
AATTCAAAAAAATAAT
Found at i:99675893 original size:30 final size:30
Alignment explanation
Indices: 99675857--99675917 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
99675847 GTCTTCCAAA
*
99675857 TAAGTTCCGTGTTATATCAACTCGTGAATT
1 TAAGTTCCGTGCTATATCAACTCGTGAATT
* *
99675887 TAAGTTCTGTGCTATATCAACTCGTGCATT
1 TAAGTTCCGTGCTATATCAACTCGTGAATT
99675917 T
1 T
99675918 TGATCATGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (30 bp):
TAAGTTCCGTGCTATATCAACTCGTGAATT
Found at i:99677373 original size:21 final size:21
Alignment explanation
Indices: 99677347--99677387 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
99677337 ACTTAGAGCG
*
99677347 GAGGCAGCAGTGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
99677368 GAGGCAGCAGCGAGGGAGGC
1 GAGGCAGCAGCGAGGGAGGC
99677388 GGAGTAGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.54, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:99677771 original size:43 final size:43
Alignment explanation
Indices: 99677684--99677771 Score: 97
Period size: 43 Copynumber: 2.0 Consensus size: 43
99677674 ACTGGGCAAC
* ** *
99677684 TTAGCGGCGTTTTTTTAAAAAGTGCCGTGAAAGGACCTGATCT
1 TTAGCGGCGTTTTTTTAAAAAGCGCCGCAAAAAGACCTGATCT
* * *
99677727 TTAGTGGCG-TTTTTTATAAAAGCGCCGCAAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTTA-AAAAGCGCCGCAAAAAGACCTGATCT
99677770 TT
1 TT
99677772 TAAAAAGCGC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
42 7 0.19
43 30 0.81
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTTAAAAAGCGCCGCAAAAAGACCTGATCT
Found at i:99677802 original size:29 final size:31
Alignment explanation
Indices: 99677738--99677801 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
99677728 TAGTGGCGTT
*
99677738 TTTTATAAAAGCGCCGCAAAAAGTCCTGGTC
1 TTTTATAAAAGCGCCGCAAAAAGTCCTCGTC
* *
99677769 TTTTA-AAAAGCGCCGCGAAAAGTCTTCGTC
1 TTTTATAAAAGCGCCGCAAAAAGTCCTCGTC
99677799 TTT
1 TTT
99677802 AGCGGCGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (31 bp):
TTTTATAAAAGCGCCGCAAAAAGTCCTCGTC
Found at i:99679456 original size:41 final size:41
Alignment explanation
Indices: 99679361--99679489 Score: 170
Period size: 41 Copynumber: 3.2 Consensus size: 41
99679351 AATAACCAAC
* * *
99679361 CAAAATAATTAACAAATATAATTAATCATC-AACAATCCAT
1 CAAAATAATTAACAAATATAACTAATAATCAAATAATCCAT
*
99679401 CAAAATAATTAACAAATATAACTAATTATCAAATAATCCAT
1 CAAAATAATTAACAAATATAACTAATAATCAAATAATCCAT
** * *
99679442 CAAAATAACCAACAATTATAACTAATAATCAAATAAACCAT
1 CAAAATAATTAACAAATATAACTAATAATCAAATAATCCAT
*
99679483 AAAAATA
1 CAAAATA
99679490 TTGGATTAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 28 0.35
41 51 0.65
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (41 bp):
CAAAATAATTAACAAATATAACTAATAATCAAATAATCCAT
Found at i:99681366 original size:12 final size:12
Alignment explanation
Indices: 99681349--99681381 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
99681339 TTTCACCAAT
99681349 AAAAAAAGAAAA
1 AAAAAAAGAAAA
99681361 AAAAAAAGAAAA
1 AAAAAAAGAAAA
99681373 AAAAGAAAG
1 AAAA-AAAG
99681382 GAATTTGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:99681900 original size:32 final size:32
Alignment explanation
Indices: 99681861--99681928 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 32
99681851 AACAACTTAA
99681861 AAAAAACAAT-TCCATAATTCTCATAATCAATT
1 AAAAAACAATAT-CATAATTCTCATAATCAATT
*
99681893 AAAAAACAATATCATAATTCTCATCATCAATT
1 AAAAAACAATATCATAATTCTCATAATCAATT
99681925 AAAA
1 AAAA
99681929 TAACGTTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (32 bp):
AAAAAACAATATCATAATTCTCATAATCAATT
Found at i:99688185 original size:16 final size:16
Alignment explanation
Indices: 99688164--99688195 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
99688154 TGTCATGTCA
99688164 CCTCATCTCATGTTTT
1 CCTCATCTCATGTTTT
99688180 CCTCATCTCATGTTTT
1 CCTCATCTCATGTTTT
99688196 AGTATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.31, G:0.06, T:0.50
Consensus pattern (16 bp):
CCTCATCTCATGTTTT
Found at i:99693123 original size:3 final size:3
Alignment explanation
Indices: 99693115--99693139 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
99693105 TGAGAGAGAA
99693115 GAG GAG GAG GAG GAG GAG GAG GAG G
1 GAG GAG GAG GAG GAG GAG GAG GAG G
99693140 CAATAATAGT
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:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:99699698 original size:27 final size:27
Alignment explanation
Indices: 99699668--99699784 Score: 153
Period size: 27 Copynumber: 4.3 Consensus size: 27
99699658 CCACACAAGT
*
99699668 TATTCTTTCATATTTCGCTACAAAGGC
1 TATTCTTTCATATTTCGCCACAAAGGC
*
99699695 TATTTTTTCATATTTCGCCACAAAGGC
1 TATTCTTTCATATTTCGCCACAAAGGC
* * * **
99699722 AATTCTTTCGTATTCCGCCACAAAGAT
1 TATTCTTTCATATTTCGCCACAAAGGC
*
99699749 TACTCTTTCATATTTCGCCACAAAGGC
1 TATTCTTTCATATTTCGCCACAAAGGC
*
99699776 TACTCTTTC
1 TATTCTTTC
99699785 CTGACGTGTT
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (27 bp):
TATTCTTTCATATTTCGCCACAAAGGC
Found at i:99702238 original size:99 final size:99
Alignment explanation
Indices: 99702082--99702284 Score: 388
Period size: 99 Copynumber: 2.1 Consensus size: 99
99702072 GCAAGGCTAT
*
99702082 TGATCCATTATTGGGATTTAATTTGGAAGGGAGATCGTTTTTTTCATGTCAATGGGGGGAGAATT
1 TGATCCAGTATTGGGATTTAATTTGGAAGGGAGATCGTTTTTTTCATGTCAATGGGGGGAGAATT
99702147 CATTAGTAGGTTAGGCTTAAACTGCAATGGATCA
66 CATTAGTAGGTTAGGCTTAAACTGCAATGGATCA
*
99702181 TGATCCAGTATTGGGATTTAATTTGGAAGGGAGATTGTTTTTTTCATGTCAATGGGGGGAGAATT
1 TGATCCAGTATTGGGATTTAATTTGGAAGGGAGATCGTTTTTTTCATGTCAATGGGGGGAGAATT
99702246 CATTAGTAGGTTAGGCTTAAACTGCAATGGATCA
66 CATTAGTAGGTTAGGCTTAAACTGCAATGGATCA
99702280 TGATC
1 TGATC
99702285 TAGAAGATGA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 102 1.00
ACGTcount: A:0.27, C:0.10, G:0.28, T:0.35
Consensus pattern (99 bp):
TGATCCAGTATTGGGATTTAATTTGGAAGGGAGATCGTTTTTTTCATGTCAATGGGGGGAGAATT
CATTAGTAGGTTAGGCTTAAACTGCAATGGATCA
Found at i:99708169 original size:14 final size:15
Alignment explanation
Indices: 99708150--99708185 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
99708140 AAAGATCATC
99708150 AGCCCAATT-ACACT
1 AGCCCAATTAACACT
*
99708164 AGCCCAATTAACCCT
1 AGCCCAATTAACACT
99708179 AGCCCAA
1 AGCCCAA
99708186 AATAATGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.36, C:0.39, G:0.08, T:0.17
Consensus pattern (15 bp):
AGCCCAATTAACACT
Found at i:99708933 original size:16 final size:17
Alignment explanation
Indices: 99708902--99708934 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99708892 TTCATAAGTA
99708902 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
99708919 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
99708935 GCTCCATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:99709281 original size:46 final size:46
Alignment explanation
Indices: 99709216--99709627 Score: 547
Period size: 46 Copynumber: 9.0 Consensus size: 46
99709206 TTATCTTTGA
* * * * * **
99709216 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-CGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* *** *
99709262 CATGTTGCCATGATATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** * *
99709308 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** ** ***
99709354 AATACTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
99709400 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
99709446 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
99709492 CATGTTGCTATGGTATCTGTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
99709538 CATGTTGCCATGGCATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
99709584 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
99709628 TTCAGAAAGC
Statistics
Matches: 331, Mismatches: 34, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.01
46 327 0.99
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:99713914 original size:11 final size:11
Alignment explanation
Indices: 99713898--99713945 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
99713888 CTTTATATAC
99713898 TAATAAAATAA
1 TAATAAAATAA
*
99713909 TAATAAAATATCT
1 TAATAAAATA--A
* *
99713922 TATTAAAATAT
1 TAATAAAATAA
99713933 TAATAAAATAA
1 TAATAAAATAA
99713944 TA
1 TA
99713946 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:99715855 original size:3 final size:3
Alignment explanation
Indices: 99715849--99715897 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
99715839 TATTCTATGG
* * * *
99715849 TTA TTA TTA TTA TCA TTG TCA -GA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
99715896 TT
1 TT
99715898 TTACATATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 1 0.03
3 37 0.97
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:99717766 original size:28 final size:26
Alignment explanation
Indices: 99717714--99717798 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 26
99717704 TTTAAAATGT
*
99717714 ATAAATATAAATTTTTAAAACTTAAA
1 ATAAATATAAATTTTTAAAAATTAAA
99717740 ATAATATATAATATTTTTAAAAATTAAA
1 ATAA-ATATAA-ATTTTTAAAAATTAAA
* *
99717768 AAAAAGTATTTAAATTTTAAAAAATTGAAA
1 ATAAA-TA--TAAATTTTTAAAAATT-AAA
99717798 A
1 A
99717799 AAAGAAAACT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
26 4 0.08
27 7 0.14
28 20 0.40
29 12 0.24
30 7 0.14
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (26 bp):
ATAAATATAAATTTTTAAAAATTAAA
Found at i:99717800 original size:29 final size:28
Alignment explanation
Indices: 99717718--99717802 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 28
99717708 AAATGTATAA
* *
99717718 ATATAAATTTTTAAAACTTAAAATAA-T
1 ATATAAATTTTTAAAAATTAAAAAAAGT
99717745 ATATAATATTTTTAAAAATTAAAAAAAAGT
1 ATATAA-ATTTTTAAAAATT-AAAAAAAGT
* *
99717775 ATTTAAATTTTAAAAAATTGAAAAAAAG
1 ATATAAATTTTTAAAAATT-AAAAAAAG
99717803 AAAACTTATC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
27 6 0.12
28 12 0.24
29 26 0.52
30 6 0.12
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (28 bp):
ATATAAATTTTTAAAAATTAAAAAAAGT
Found at i:99718008 original size:22 final size:22
Alignment explanation
Indices: 99717990--99718037 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
99717980 TATTATTTTG
99717990 AAATTTTAAAATTCATATTTAT
1 AAATTTTAAAATTCATATTTAT
*
99718012 ATATTTTAAAATT-AT-TTTA-
1 AAATTTTAAAATTCATATTTAT
99718031 AAATTTT
1 AAATTTT
99718038 TTTGAATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.25
20 4 0.17
21 2 0.08
22 12 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
AAATTTTAAAATTCATATTTAT
Found at i:99718667 original size:28 final size:28
Alignment explanation
Indices: 99718624--99718694 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
99718614 AAAAAATGAT
*
99718624 AAAAATAAAAATTA-TTAAATTTTAATA
1 AAAAATAAAAAATATTTAAATTTTAATA
*
99718651 AAAAATAAAAAAATATTTAAATTTTATTA
1 AAAAAT-AAAAAATATTTAAATTTTAATA
*
99718680 AAAATTCAAAAAATA
1 AAAAAT-AAAAAATA
99718695 AAAATTGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 6 0.16
28 7 0.18
29 25 0.66
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (28 bp):
AAAAATAAAAAATATTTAAATTTTAATA
Found at i:99718707 original size:10 final size:10
Alignment explanation
Indices: 99718694--99718756 Score: 51
Period size: 9 Copynumber: 6.5 Consensus size: 10
99718684 TTCAAAAAAT
99718694 AAAAATTGTA
1 AAAAATTGTA
99718704 AAAAATTGT-
1 AAAAATTGTA
*
99718713 AAAATTTG-A
1 AAAAATTGTA
* **
99718722 TAAAATCCTA
1 AAAAATTGTA
*
99718732 AGAAAATTATA
1 A-AAAATTGTA
99718743 AAAAA-TGTA
1 AAAAATTGTA
99718752 AAAAA
1 AAAAA
99718757 AATAAAATTC
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
9 19 0.46
10 14 0.34
11 8 0.20
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (10 bp):
AAAAATTGTA
Found at i:99718779 original size:18 final size:17
Alignment explanation
Indices: 99718734--99718783 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
99718724 AAATCCTAAG
99718734 AAAATTATAAAAAATGTA
1 AAAATTAT-AAAAATGTA
** *
99718752 AAAAAAATAAAATTCGTA
1 AAAATTATAAAAAT-GTA
99718770 AAAATTATAAAAAT
1 AAAATTATAAAAAT
99718784 TATCATACCA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (17 bp):
AAAATTATAAAAATGTA
Found at i:99720143 original size:19 final size:18
Alignment explanation
Indices: 99720108--99720174 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 18
99720098 TTTTGATGCA
99720108 TTTTATAAATTATTTTATGAT
1 TTTTATAAA--ATTTTAT-AT
*
99720129 ATTTATAAAATTTTATAT
1 TTTTATAAAATTTTATAT
*
99720147 TTTTATTAAAATTTAATAAT
1 TTTTA-TAAAATTTTAT-AT
99720167 TTTTATAA
1 TTTTATAA
99720175 TTTTTTTGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 6 0.15
19 20 0.49
20 7 0.17
21 8 0.20
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (18 bp):
TTTTATAAAATTTTATAT
Found at i:99721059 original size:3 final size:3
Alignment explanation
Indices: 99721053--99721098 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
99721043 ACACTACTAT
99721053 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
99721099 ATATAGAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:99721301 original size:3 final size:3
Alignment explanation
Indices: 99721293--99721346 Score: 67
Period size: 3 Copynumber: 18.0 Consensus size: 3
99721283 AATAGGGGTG
*
99721293 ATA ATA ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA AT- ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA
99721338 ATA ATA ATA
1 ATA ATA ATA
99721347 GTCAGAAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
2 3 0.07
3 39 0.85
4 4 0.09
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:99721442 original size:12 final size:12
Alignment explanation
Indices: 99721418--99721462 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
99721408 GATGGTATAT
99721418 ATAATAT-AATA
1 ATAATATAAATA
99721429 ATAATATAAATA
1 ATAATATAAATA
* *
99721441 ATAGTAAAAATA
1 ATAATATAAATA
*
99721453 ATAAAATAAA
1 ATAATATAAA
99721463 AAAAATAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:99724710 original size:38 final size:36
Alignment explanation
Indices: 99724613--99724724 Score: 170
Period size: 36 Copynumber: 3.0 Consensus size: 36
99724603 TCCTCCATAT
*
99724613 CAAATAAAGCCAAAGTCTATCTATTCTTCGCCAGGGA
1 CAAA-AAAGCCAAAGTCTATCTATTCTCCGCCAGGGA
99724650 CAAAAAAGCCAAAGTCTATCTATTCTCCGCCAGGGA
1 CAAAAAAGCCAAAGTCTATCTATTCTCCGCCAGGGA
* *
99724686 CAAAAAAGAGTCAAAGTCTATCTATTCTCTGCCAGGGA
1 C-AAAAA-AGCCAAAGTCTATCTATTCTCCGCCAGGGA
99724724 C
1 C
99724725 GAAATTTTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
36 32 0.46
37 9 0.13
38 29 0.41
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (36 bp):
CAAAAAAGCCAAAGTCTATCTATTCTCCGCCAGGGA
Found at i:99728112 original size:3 final size:3
Alignment explanation
Indices: 99728104--99728366 Score: 141
Period size: 3 Copynumber: 88.0 Consensus size: 3
99728094 TTGAACATTT
* * * *
99728104 TTA TTA TTAA TTA TT- TTA ATA ATA TTA CTA TT- GTA TTCA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
* * * * *
99728149 TTA TTA TATG TTA CTA TTA -CA TTCA TTA TTT TTA CTT- TTA TTA TTC
1 TTA TTA T-TA TTA TTA TTA TTA TT-A TTA TTA TTA -TTA TTA TTA TTA
* ** * * * * * * *
99728195 TTT TTA TTA AAA TTA TTT TTA CTA TTA TTT TTA -TA CTA TAA TCA TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
99728242 TTA TTA ATA -TA TTA TTA TT- TT- TCTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * *
99728285 TTA TTA TTA TTA TTA TTA TTAA TGTA TTA TTA TTG TTA TTT TCTA CT-
1 TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA TTA T-TA TTA
* * *
99728332 TTA TTA TTA TTA TT- GTA TTA TCA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
99728367 CCATATCATT
Statistics
Matches: 196, Mismatches: 46, Indels: 36
0.71 0.17 0.13
Matches are distributed among these distances:
2 15 0.08
3 161 0.82
4 19 0.10
5 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:99728556 original size:8 final size:8
Alignment explanation
Indices: 99728543--99728567 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
99728533 CTTTAGATTA
99728543 TTTGTTAT
1 TTTGTTAT
99728551 TTTGTTAT
1 TTTGTTAT
99728559 TTTGTTAT
1 TTTGTTAT
99728567 T
1 T
99728568 AATATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (8 bp):
TTTGTTAT
Found at i:99736087 original size:24 final size:24
Alignment explanation
Indices: 99736042--99736088 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
99736032 ATATTAAAAG
*
99736042 ATATATATATAAAATGTATACATA
1 ATATATATATAAAATATATACATA
*
99736066 ATATA-ATATTAAAATATTTACAT
1 ATATATATA-TAAAATATATACAT
99736089 GGTATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATATATATAAAATATATACATA
Found at i:99736657 original size:38 final size:39
Alignment explanation
Indices: 99736615--99736755 Score: 185
Period size: 39 Copynumber: 3.6 Consensus size: 39
99736605 CCCATGCTAC
* *
99736615 TTTGTTTTATTATTAATCAAAACCAC-TCCCCATGCCAT
1 TTTGTTTTATTATTAATTAAAACCACTTCCCCATACCAT
* ** *
99736653 TTTGTTTTATTGTTAATTAAAATTACTTCCCCATACTAT
1 TTTGTTTTATTATTAATTAAAACCACTTCCCCATACCAT
* * * *
99736692 TTTGTTTTATTGTTAATTAAAACTACTTCCTCATACCGT
1 TTTGTTTTATTATTAATTAAAACCACTTCCCCATACCAT
99736731 TTTGTTTTATTATTAATTAAAACCA
1 TTTGTTTTATTATTAATTAAAACCA
99736756 TACTTTATTT
Statistics
Matches: 90, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
38 22 0.24
39 68 0.76
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.48
Consensus pattern (39 bp):
TTTGTTTTATTATTAATTAAAACCACTTCCCCATACCAT
Found at i:99736702 original size:77 final size:78
Alignment explanation
Indices: 99736604--99736752 Score: 210
Period size: 77 Copynumber: 1.9 Consensus size: 78
99736594 GATTCCACTC
* * *
99736604 CCCCATGCTACTTTGTTTTATTATTAATCAAAACCAC-TCCCCATGCCATTTTGTTTTATTGTTA
1 CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTGTTTTATTATTA
99736668 ATTAAAATTACTT
66 ATTAAAATTACTT
* * * * * *
99736681 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTTCCTCATACCGTTTTGTTTTATTATTA
1 CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTGTTTTATTATTA
99736746 ATTAAAA
66 ATTAAAA
99736753 CCATACTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
77 32 0.52
78 30 0.48
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.46
Consensus pattern (78 bp):
CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTGTTTTATTATTA
ATTAAAATTACTT
Found at i:99738033 original size:19 final size:19
Alignment explanation
Indices: 99737997--99738036 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
99737987 TATTAAAAGG
* *
99737997 TATATGTACATACGTAATA
1 TATATATACATACATAATA
*
99738016 TATATATACATATATAATA
1 TATATATACATACATAATA
99738035 TA
1 TA
99738037 ATGTTAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (19 bp):
TATATATACATACATAATA
Found at i:99738136 original size:15 final size:14
Alignment explanation
Indices: 99738116--99738149 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
99738106 ATATATGCCT
*
99738116 ATATATATATTAAAG
1 ATATATATA-TAAAA
99738131 ATATATATATAAAA
1 ATATATATATAAAA
99738145 ATATA
1 ATATA
99738150 CTAATATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
ATATATATATAAAA
Found at i:99739092 original size:16 final size:16
Alignment explanation
Indices: 99739071--99739113 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
99739061 AAAAAAAGAA
99739071 AGAAGGGAGAGAGGGG
1 AGAAGGGAGAGAGGGG
*
99739087 AGAAGGAAGAGAGGGG
1 AGAAGGGAGAGAGGGG
99739103 A-AAGGG-GAGAG
1 AGAAGGGAGAGAG
99739114 CTCCGGCCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.20
15 4 0.16
16 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (16 bp):
AGAAGGGAGAGAGGGG
Found at i:99740759 original size:88 final size:88
Alignment explanation
Indices: 99740637--99741038 Score: 312
Period size: 88 Copynumber: 4.4 Consensus size: 88
99740627 CGTTTGGCTT
*
99740637 GAGGCTCGACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAA-TGAAAACAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAA-ATAATAATTGAAAACAGAA
*
99740701 ATTGAAAATACCTCGGCGTGACCC
65 ATTGAAAATACCTCAGCGTGACCC
* * ** * **
99740725 GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAGTAGGAATTGAAAAGCAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAAATAATAATTGAAAA-CAGAA
* *
99740790 ATTGAAAATACGTCAGCGTGCCCC
65 ATTGAAAATACCTCAGCGTGACCC
* * * * *
99740814 GAGGCTCGACTCACCTCTCGCAATATGAGTTG-GT-TTT-AAGAAAGTAAAAATTAAAAACAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTCAA-AAAATAATAATTGAAAACAGAA
* * ** * ***
99740876 TTTGAATAACAGAATTTGAAAAT-ACCTC
65 ATTG-A-AA-A-TACCTCAGCGTGACC-C
* *
99740904 GACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAA
1 G--A-G-G-CTC-A-ACTC-----ACCTCTCGCAATATGAGTTGATTCTTTCAAAAA-ATAATAA
* *
99740969 -TGAAAACAGAAATTGAAAATATCTCAGCGTGACCT
53 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCC
*
99741004 GAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
99741039 TTGAAAAAGT
Statistics
Matches: 244, Mismatches: 45, Indels: 50
0.72 0.13 0.15
Matches are distributed among these distances:
86 9 0.04
87 22 0.09
88 71 0.29
89 59 0.24
90 6 0.02
92 1 0.00
93 4 0.02
94 2 0.01
95 4 0.02
96 1 0.00
97 4 0.02
98 1 0.00
100 6 0.02
101 4 0.02
102 22 0.09
103 2 0.01
104 19 0.08
105 7 0.03
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (88 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAAATAATAATTGAAAACAGAAA
TTGAAAATACCTCAGCGTGACCC
Found at i:99740782 original size:14 final size:14
Alignment explanation
Indices: 99740763--99740797 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
99740753 GCTGATTTTT
* *
99740763 TTGAAAAGTAGGAA
1 TTGAAAAGCAGAAA
99740777 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
99740791 TTGAAAA
1 TTGAAAA
99740798 TACGTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.23, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:99740888 original size:14 final size:14
Alignment explanation
Indices: 99740869--99740895 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99740859 AAAAATTAAA
99740869 AACAGAATTTGAAT
1 AACAGAATTTGAAT
99740883 AACAGAATTTGAA
1 AACAGAATTTGAA
99740896 AATACCTCGA
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:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (14 bp):
AACAGAATTTGAAT
Found at i:99741018 original size:190 final size:188
Alignment explanation
Indices: 99740690--99741059 Score: 523
Period size: 190 Copynumber: 2.0 Consensus size: 188
99740680 AACATAATAA
*
99740690 TGAAAACAGAAATTGAAAATACCTCGGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGC
1 TGAAAACAGAAATTGAAAATACCTCGACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGC
* ** * * *
99740755 TGATTTTTTTGAAAAGTAGGAATTGAAAAGCAGAAATTGAAAATACGTCAGCGTGCCCCGAGGCT
66 TGATTCTTTCAAAAAATAAGAATTGAAAAGCAGAAATTGAAAATACGTCAGCGTGACCCGAGGCT
* * *
99740820 CGACTCACCTCTCGCAATATGAGTTGGTTTT-AAGAAAGTAAAAATTAAAAACAGAATT
131 CAACTCACCTCTCGCAATATGAGCTGATTTTGAA-AAAGTAAAAATTAAAAACAGAATT
*
99740878 TGAATAACAGAATTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
1 TGAA-AACAGAAATTGAAAATACCTCGAC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATG
* * *
99740943 AGTTGATTCTTTCAAAAACATAATAA-TGAAAA-CAGAAATTGAAAATATC-TCAGCGTGACCTG
63 AGCTGATTCTTTCAAAAA-ATAAGAATTGAAAAGCAGAAATTGAAAATA-CGTCAGCGTGACCCG
*
99741005 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAA
126 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAAATTAAAA
99741060 GGTTCAACCC
Statistics
Matches: 161, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
188 4 0.02
189 22 0.14
190 74 0.46
191 57 0.35
192 4 0.02
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (188 bp):
TGAAAACAGAAATTGAAAATACCTCGACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGC
TGATTCTTTCAAAAAATAAGAATTGAAAAGCAGAAATTGAAAATACGTCAGCGTGACCCGAGGCT
CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAAATTAAAAACAGAATT
Found at i:99741198 original size:127 final size:127
Alignment explanation
Indices: 99740972--99741286 Score: 558
Period size: 127 Copynumber: 2.5 Consensus size: 127
99740962 ATAATAATGA
* * * *
99740972 AAACAGAAATTGAAAATATCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
1 AAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
99741037 TTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGCTGATTCTTGAC
66 TTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGCTGATTCTTGAC
99741099 AAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
1 AAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
*
99741164 TTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAC
66 TTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGCTGATTCTTGAC
* * *
99741226 AAACAGAAATTGAAATTACCTTATCGTATCCTGAGGCTCATCTCACCTCTCGCAATATGAG
1 AAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
99741287 TTGAAATTAA
Statistics
Matches: 180, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 180 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.27
Consensus pattern (127 bp):
AAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
TTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGCTGATTCTTGAC
Found at i:99741287 original size:73 final size:72
Alignment explanation
Indices: 99741190--99741384 Score: 241
Period size: 72 Copynumber: 2.7 Consensus size: 72
99741180 ATTAAAAGGT
* * * * * * *
99741190 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTTATCGTAT
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGAAAAACAAAAATTGAAAATACCTCAGCGTAC
*
99741255 CCTGAGGC
65 CCCGAGGC
* ** *
99741263 TCATCTCACCTCTCGCAATATGAGTTGAAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA-ACAAAAATTGAAAATACCTCAGCGTAC
99741327 CCCGAGGC
65 CCCGAGGC
*
99741335 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTGAAAA
99741385 GGCTTAACTC
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
71 7 0.07
72 67 0.64
73 30 0.29
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTGAAAATACCTCAGCGTACC
CCGAGGC
Found at i:99741479 original size:122 final size:124
Alignment explanation
Indices: 99741267--99741505 Score: 378
Period size: 122 Copynumber: 1.9 Consensus size: 124
99741257 TGAGGCTCAT
* *
99741267 CTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGA
1 CTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCGTGCCCCGA
99741332 GGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAA
66 GGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAAGGCTTAA
* * *
99741392 CTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCGTGCCCCGA
1 CTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCGTGCCCCGA
*
99741454 GGCTCAACTCACTTCTCA-CAATATGAGTTGATTTTGAAAACAAAAATTAAAA
66 GGCTCAACTCACCTCT-AGCAATATGAGTTGATTTTGAAAACAAAAATTAAAA
99741506 ATACCTCAAC
Statistics
Matches: 107, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
121 16 0.15
122 62 0.58
123 8 0.07
124 1 0.01
125 20 0.19
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (124 bp):
CTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCGTGCCCCGA
GGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAGGCTTAA
Found at i:99741527 original size:71 final size:70
Alignment explanation
Indices: 99741384--99741559 Score: 221
Period size: 71 Copynumber: 2.5 Consensus size: 70
99741374 AAAAATTAAA
* * * * * *
99741384 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
99741448 CCCCG
66 CCCCG
* *
99741453 AGGCTCAACTCACTTCTCACAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
99741518 GTCTTG
65 GCCCCG
99741524 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
99741560 CCTTGAAAAG
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 25 0.27
70 6 0.07
71 61 0.66
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:99741548 original size:193 final size:198
Alignment explanation
Indices: 99741063--99741559 Score: 619
Period size: 199 Copynumber: 2.5 Consensus size: 198
99741053 ATTAAAAGGT
* * * * *
99741063 TCAACCCACCTCTCGCAATATGAGCTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGA-AAACAAAAATTGAAAATACCTCAACGTGT
* * *
99741128 CCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCA
64 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGCAAAAATTAAAAGGTTCA
* * * * * * * * *
99741193 ACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTTATCGTATCCT
129 ACCCACCTCTCGCAATATGAGTTCAATCTTGACAAACAGAAACTAAAAATACCTCAGCGTACCCC
99741258 GAGGC
194 GAGGC
* ** * * *
99741263 TCATCTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTGAAAATACCTCAACGTGTC
* *
99741328 CCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA-CAAAAATTAAAAGGCTT-A
65 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGCAAAAATTAAAAGG-TTCA
* * *
99741391 ACTCACCTCTCGCAATATGAG-TCAAT-TT-A-AAACATAAACTAAAAATACCTCAGCGTGCCCC
129 ACCCACCTCTCGCAATATGAGTTCAATCTTGACAAACAGAAACTAAAAATACCTCAGCGTACCCC
99741452 GAGGC
194 GAGGC
* * * *
99741457 TCAACTCACTTCTCACAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGTGTCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTGAAAATACCTCAACGTGTCC
*
99741522 TGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
66 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
99741560 CCTTGAAAAG
Statistics
Matches: 255, Mismatches: 40, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
193 60 0.24
194 58 0.23
195 1 0.00
196 2 0.01
197 3 0.01
198 35 0.14
199 71 0.28
200 25 0.10
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.27
Consensus pattern (198 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTGAAAATACCTCAACGTGTCC
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGCAAAAATTAAAAGGTTCAAC
CCACCTCTCGCAATATGAGTTCAATCTTGACAAACAGAAACTAAAAATACCTCAGCGTACCCCGA
GGC
Found at i:99768955 original size:17 final size:17
Alignment explanation
Indices: 99768926--99768961 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
99768916 GTAAATACAT
99768926 AATATATACATATTAGA
1 AATATATACATATTAGA
99768943 AATATCATA-ATATTAGA
1 AATAT-ATACATATTAGA
99768960 AA
1 AA
99768962 CAACTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (17 bp):
AATATATACATATTAGA
Found at i:99769165 original size:24 final size:24
Alignment explanation
Indices: 99769120--99769166 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
99769110 ATATTAAAAG
*
99769120 ATATATATATAAAATGTATACATA
1 ATATATATATAAAATATATACATA
*
99769144 ATATA-ATATTAAAATATTTACAT
1 ATATATATA-TAAAATATATACAT
99769167 GGTATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATATATATAAAATATATACATA
Found at i:99769734 original size:38 final size:39
Alignment explanation
Indices: 99769674--99769832 Score: 212
Period size: 39 Copynumber: 4.1 Consensus size: 39
99769664 AAAGCTGATT
* * * *
99769674 CCACTTCCCCCATGCTACTTTGTTTTATTATTAATCAAAA
1 CCACTT-CCCCATACCATTTTGTTTTATTATTAATTAAAA
*
99769714 CCAC-TCCCCATGCCATTTTGTTTTATTATTAATTAAAA
1 CCACTTCCCCATACCATTTTGTTTTATTATTAATTAAAA
* * *
99769752 CTACTTCCCCATACTATTTTGTTTTATTGTTAATTAAAA
1 CCACTTCCCCATACCATTTTGTTTTATTATTAATTAAAA
* *
99769791 CTACTTCCTCATACCATTTTGTTTTATTATTAATTAAAA
1 CCACTTCCCCATACCATTTTGTTTTATTATTAATTAAAA
99769830 CCA
1 CCA
99769833 TACTTTATTT
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
38 33 0.31
39 70 0.65
40 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (39 bp):
CCACTTCCCCATACCATTTTGTTTTATTATTAATTAAAA
Found at i:99769772 original size:39 final size:39
Alignment explanation
Indices: 99769692--99769830 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
99769682 CCCATGCTAC
* * *
99769692 TTTGTTTTATTATTAATCAAAACCAC-TCCCCATGCCAT
1 TTTGTTTTATTATTAATTAAAACTACTTCCCCATACCAT
*
99769730 TTTGTTTTATTATTAATTAAAACTACTTCCCCATACTAT
1 TTTGTTTTATTATTAATTAAAACTACTTCCCCATACCAT
* *
99769769 TTTGTTTTATTGTTAATTAAAACTACTTCCTCATACCAT
1 TTTGTTTTATTATTAATTAAAACTACTTCCCCATACCAT
99769808 TTTGTTTTATTATTAATTAAAAC
1 TTTGTTTTATTATTAATTAAAAC
99769831 CATACTTTAT
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 24 0.26
39 68 0.74
ACGTcount: A:0.30, C:0.18, G:0.04, T:0.47
Consensus pattern (39 bp):
TTTGTTTTATTATTAATTAAAACTACTTCCCCATACCAT
Found at i:99770475 original size:21 final size:21
Alignment explanation
Indices: 99770436--99770475 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99770426 AATCCCCTCT
** *
99770436 AATACAATCTTTTCTCTCCAA
1 AATACAATCGATTCCCTCCAA
99770457 AATACAATCGATTCCCTCC
1 AATACAATCGATTCCCTCC
99770476 TGGCACAAGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.33
Consensus pattern (21 bp):
AATACAATCGATTCCCTCCAA
Found at i:99794174 original size:20 final size:19
Alignment explanation
Indices: 99794133--99794179 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
99794123 TTAAAATTTT
99794133 ATTTTAA-TTTATTTATAC
1 ATTTTAATTTTATTTATAC
99794151 ATTTTAATTTTA-TTATGCAC
1 ATTTTAATTTTATTTAT--AC
99794171 ATTTTAATT
1 ATTTTAATT
99794180 GTATATCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.42
19 4 0.15
20 11 0.42
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTAATTTTATTTATAC
Found at i:99794481 original size:20 final size:20
Alignment explanation
Indices: 99794456--99794494 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
99794446 CACACGCCCG
99794456 TGTGGCCTGGGACATGGCCA
1 TGTGGCCTGGGACATGGCCA
*
99794476 TGTGGCTTGGGACATGGCC
1 TGTGGCCTGGGACATGGCC
99794495 GTGGGGCCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.41, T:0.23
Consensus pattern (20 bp):
TGTGGCCTGGGACATGGCCA
Found at i:99798330 original size:3 final size:3
Alignment explanation
Indices: 99798322--99798446 Score: 67
Period size: 3 Copynumber: 41.7 Consensus size: 3
99798312 AGTTTTATAT
* * * *
99798322 TTA TTA TTA -TA TTTA TTA TTA TT- TCTG TTA TTA TTG TTA CTA CTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * * * *
99798367 CTA TTA TTA TTA TTA TT- TTT TTCA CTA CTG TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
* * * * *
99798412 GTA TTA TTA TTA CTA ATA TTT TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
99798447 TTTTTTAAAA
Statistics
Matches: 95, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
2 5 0.05
3 86 0.91
4 4 0.04
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:99798333 original size:12 final size:12
Alignment explanation
Indices: 99798316--99798343 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
99798306 AATTTGAGTT
99798316 TTATATTTATTA
1 TTATATTTATTA
99798328 TTATATTTATTA
1 TTATATTTATTA
99798340 TTAT
1 TTAT
99798344 TTCTGTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATATTTATTA
Found at i:99798383 original size:30 final size:30
Alignment explanation
Indices: 99798349--99798446 Score: 92
Period size: 30 Copynumber: 3.3 Consensus size: 30
99798339 ATTATTTCTG
* *
99798349 TTATTATTGTTACTACTACTATTATTATTA
1 TTATTATTATTACTACTAATATTATTATTA
* *
99798379 TTATT-TTTTTCACTACT-GTCATTATTATTA
1 TTATTATTATT-ACTACTAAT-ATTATTATTA
* * *
99798409 TTAGTATTATTATTACTAATATTTTTATTA
1 TTATTATTATTACTACTAATATTATTATTA
*
99798439 TCATTATT
1 TTATTATT
99798447 TTTTTTAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
29 5 0.09
30 45 0.82
31 5 0.09
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (30 bp):
TTATTATTATTACTACTAATATTATTATTA
Found at i:99798596 original size:23 final size:21
Alignment explanation
Indices: 99798532--99798597 Score: 55
Period size: 20 Copynumber: 3.1 Consensus size: 21
99798522 TCGCTAGAAT
* * *
99798532 TTTTTTTTATTTCATTTATTA
1 TTTTATTTATGTCCTTTATTA
*
99798553 TTTTATTTATGTCGTTT-TTA
1 TTTTATTTATGTCCTTTATTA
99798573 TTTTATTCT-TGTCCTCATTATTA
1 TTTTATT-TATGTCCT--TTATTA
99798596 TT
1 TT
99798598 ATCTTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
20 15 0.41
21 15 0.41
22 2 0.05
23 5 0.14
ACGTcount: A:0.17, C:0.09, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTATTTATGTCCTTTATTA
Found at i:99798612 original size:15 final size:14
Alignment explanation
Indices: 99798584--99798622 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
99798574 TTTATTCTTG
99798584 TCCTCATTATTATTA
1 TCCT-ATTATTATTA
*
99798599 TCTTATTATATATTA
1 TCCTATTAT-TATTA
99798614 TCCTATTAT
1 TCCTATTAT
99798623 GTACCTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
TCCTATTATTATTA
Found at i:99805703 original size:21 final size:23
Alignment explanation
Indices: 99805665--99805711 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
99805655 ACGTCTCATT
*
99805665 CTGAGCATATATTTCTTTTA-TC
1 CTGAGCAAATATTTCTTTTATTC
99805687 CTGAGCAAATA-TTCTTTTATTC
1 CTGAGCAAATATTTCTTTTATTC
99805709 CTG
1 CTG
99805712 CATTTCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (23 bp):
CTGAGCAAATATTTCTTTTATTC
Found at i:99810338 original size:134 final size:134
Alignment explanation
Indices: 99810038--99810387 Score: 374
Period size: 134 Copynumber: 2.6 Consensus size: 134
99810028 ACAAATTTCG
* *
99810038 ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAGGCTAAAGATTGTAGATCTTATCTCTCTG-A
1 ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAGCTAAAGATTGTAGATCTTATCTCCCTGAA
*
99810102 GATAGCAGTGGAGCAGATCAAATACGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTT
66 G-TAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTT
99810167 AAGCT
130 AAGCT
*
99810172 ACAAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAGCTAAAGATTGTAGATCTTATCTCCCTGAA
1 ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAGCTAAAGATTGTAGATCTTATCTCCCTGAA
* * * *** *
99810237 GTAGCAGTAGAGTAGATCGAAGACGGTGAATCTTATC-T-CC-ATGTAGC-GGCAATGGAGCAGA
66 GTAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCCGAGGTAGCAGG----GGAGCAGA
99810298 TTTAAG-T
127 TTTAAGCT
* * * * ** * * * *
99810305 CACCAGTCTTATCTCCCTGAAGTTGCAGCGGAGC-AGACTGAAGATAG-CGAGTCTTATCTCCTT
1 -ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAG-CTAAAGATTGTAGA-TCTTATCTCCCT
*
99810368 GAAGTTGCAGTGGAGCAGAT
63 GAAGTAGCAGTGGAGCAGAT
99810388 TGAAAATAGC
Statistics
Matches: 183, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
130 2 0.01
131 6 0.03
132 2 0.01
133 6 0.03
134 165 0.90
135 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (134 bp):
ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAGCTAAAGATTGTAGATCTTATCTCCCTGAA
GTAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTA
AGCT
Found at i:99810348 original size:89 final size:90
Alignment explanation
Indices: 99810219--99810454 Score: 226
Period size: 89 Copynumber: 2.6 Consensus size: 90
99810209 TAAAGATTGT
* ** * * * *
99810219 AGATCTTATCTCCCTGAAGTAGCAGTAGAGTAGATCGAAGACGGTGAATCTTATCTCCATGTAGC
1 AGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACAGCGAATCTTATCTCCATGAAGC
* *
99810284 GGCAATGGAGCAGATT-TAAGTCACC
66 GGCAATGGAGCAGATTGAAAAT-ACC
* * *
99810309 AG-TCTTATCTCCCTGAAGTTGCAGCGGAGCAGA-CTGAAGATAGCGAGTCTTATCTCCTTGAAG
1 AGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATC-GAAGACAGCGAATCTTATCTCCATGAAG
** * *
99810372 TTGCAGTGGAGCAGATTGAAAATAGC
65 CGGCAATGGAGCAGATTGAAAATACC
* * * * * * *
99810398 AGATCTCATTTCCCTGAAGTTGCAGCGGAGTAGATCAAAGATAGCAAACCTTATCTC
1 AGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACAGCGAATCTTATCTC
99810455 TTTGAAGTTA
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
88 1 0.01
89 67 0.56
90 50 0.42
91 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (90 bp):
AGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACAGCGAATCTTATCTCCATGAAGC
GGCAATGGAGCAGATTGAAAATACC
Found at i:99810364 original size:45 final size:44
Alignment explanation
Indices: 99810308--99810427 Score: 168
Period size: 45 Copynumber: 2.7 Consensus size: 44
99810298 TTTAAGTCAC
*
99810308 CAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAG
1 CAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAATAG
* * *
99810352 CGAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAAATAG
1 C-AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAATAG
* *
99810397 CAGATCTCATTTCCCTGAAGTTGCAGCGGAG
1 CAG-TCTTATCTCCCTGAAGTTGCAGCGGAG
99810428 TAGATCAAAG
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
44 3 0.05
45 63 0.95
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (44 bp):
CAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAATAG
Found at i:99810442 original size:45 final size:46
Alignment explanation
Indices: 99810309--99810531 Score: 156
Period size: 45 Copynumber: 5.0 Consensus size: 46
99810299 TTAAGTCACC
* *
99810309 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGA-CTGAAGATAGC-G
1 AGTCTCATCTCCCTGAAGTTGCAGCGGAGCAGATC-AAAGATAGCAG
* * * *
99810354 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAA-ATAGCAG
1 AGTCTCATCTCCCTGAAGTTGCAGCGGAGCAGA-TCAAAGATAGCAG
* *
99810400 A-TCTCATTTCCCTGAAGTTGCAGCGGAGTAGATCAAAGATAGCA-
1 AGTCTCATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGATAGCAG
** * ** * * * ** * *
99810444 AACCTTATCTCTTTGAAGTTACAG-AGAGCAGGTTGAAGTTA-TAG
1 AGTCTCATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGATAGCAG
* * * *
99810488 A-TCCCATCTCCCTAAAGTTGTAGCGAAGCAGATCAAAGATAGCA
1 AGTCTCATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGATAGCA
99810532 AACCTTGTCT
Statistics
Matches: 132, Mismatches: 38, Indels: 16
0.71 0.20 0.09
Matches are distributed among these distances:
43 15 0.11
44 28 0.21
45 85 0.64
46 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (46 bp):
AGTCTCATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGATAGCAG
Found at i:99810524 original size:88 final size:89
Alignment explanation
Indices: 99810315--99810605 Score: 302
Period size: 88 Copynumber: 3.3 Consensus size: 89
99810305 CACCAGTCTT
* * ** * *
99810315 ATCTCCCTGAAGTTGCAGCGGAGCAGA-CTGAAGATAGCGAGTCTTATCTCCTTGAAGTTGCAGT
1 ATCTCCCTGAAGTTGCAGCGGAGCAGATC-AAAGATAGCAAACCTTATCTCTTTGAAGTTACAG-
* * ** *
99810379 GGAGCAGATTGAAAATAGCAGATCTC
64 AGAGCAGGTTGAAGTTAGCAGATCCC
* *
99810405 ATTTCCCTGAAGTTGCAGCGGAGTAGATCAAAGATAGCAAACCTTATCTCTTTGAAGTTACAGAG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGATAGCAAACCTTATCTCTTTGAAGTTACAGAG
*
99810470 AGCAGGTTGAAGTTA-TAGATCCC
66 AGCAGGTTGAAGTTAGCAGATCCC
* * * * * **
99810493 ATCTCCCTAAAGTTGTAGCGAAGCAGATCAAAGATAGCAAACCTTGTCTCTCTGAAGTTATTGAG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGATAGCAAACCTTATCTCTTTGAAGTTACAGAG
* *
99810558 AGCAAGTTGAAGTTA-CATG-TCAC
66 AGCAGGTTGAAGTTAGCA-GATCCC
* *
99810581 ATCTCTCTGAAGTTGCAGTGGAGCA
1 ATCTCCCTGAAGTTGCAGCGGAGCA
99810606 AACTGAAGAT
Statistics
Matches: 168, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
88 100 0.60
89 14 0.08
90 53 0.32
91 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (89 bp):
ATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGATAGCAAACCTTATCTCTTTGAAGTTACAGAG
AGCAGGTTGAAGTTAGCAGATCCC
Found at i:99810588 original size:133 final size:133
Alignment explanation
Indices: 99810450--99810707 Score: 295
Period size: 133 Copynumber: 2.0 Consensus size: 133
99810440 AGCAAACCTT
* *** * *
99810450 ATCTCTTTGAAGTTACAG-AGAGCAGGTTGAAGTTA-TAGATCCCATCTCCCTAAAGTTGTAGCG
1 ATCTCTCTGAAGTTACAGTAGAGCAAACTGAAGATAGTAGATCCCATCTCCCTAAAGTTGCAGCG
* * * **
99810513 AAGCAGATCAAAGATAGCAAACCTTGTCTCTCTGAAGTTATTGAGAGCAAGTTGAAGTTACATGT
66 AAGCAGATCAAAAATAGCAAACCTTATCTCTCTAAAGTTACAGAGAGCAAGTTGAAGTTACATGT
99810578 CAC
131 CAC
* * ** * * *
99810581 ATCTCTCTGAAGTTGCAGTGGAGCAAACTGAAGATAGTAGATCTTATTTCCTTAAAGTTGCAGTG
1 ATCTCTCTGAAGTTACAGTAGAGCAAACTGAAGATAGTAGATCCCATCTCCCTAAAGTTGCAGCG
* * * * *
99810646 GAGCAGATCAAAAATGGCACACCTTATCTCTCTAAAGTTGCAGAGAGCATGTTGAAGTTACA
66 AAGCAGATCAAAAATAGCAAACCTTATCTCTCTAAAGTTACAGAGAGCAAGTTGAAGTTACA
99810708 ATTCCTATAT
Statistics
Matches: 102, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
131 16 0.16
132 12 0.12
133 74 0.73
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (133 bp):
ATCTCTCTGAAGTTACAGTAGAGCAAACTGAAGATAGTAGATCCCATCTCCCTAAAGTTGCAGCG
AAGCAGATCAAAAATAGCAAACCTTATCTCTCTAAAGTTACAGAGAGCAAGTTGAAGTTACATGT
CAC
Found at i:99811002 original size:24 final size:24
Alignment explanation
Indices: 99810956--99811007 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
99810946 AAATTAAATA
99810956 CCCAAACAAAAACCAAAGACCTAGG
1 CCCAAACAAAAACCAAAGACCTA-G
*
99810981 CCCAAAC-ACAACCAAA-ACCCTAG
1 CCCAAACAAAAACCAAAGA-CCTAG
99811004 CCCA
1 CCCA
99811008 CTTAGCACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 6 0.24
24 12 0.48
25 7 0.28
ACGTcount: A:0.48, C:0.40, G:0.08, T:0.04
Consensus pattern (24 bp):
CCCAAACAAAAACCAAAGACCTAG
Found at i:99811983 original size:3 final size:3
Alignment explanation
Indices: 99811975--99812133 Score: 99
Period size: 3 Copynumber: 53.7 Consensus size: 3
99811965 AGTTTTATAT
* * * *
99811975 TTA TTA TTA -TA TTTA TTA TTA TTT TTA GTA TTA TTA TTT TTG TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
99812020 TTA CTG TTA CTA CTA TTT TTA TTA GTA TTG TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * *
99812067 TTA TCA CTA CTG TCA TTA TTA -TA GTA TTA TTA GTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
99812114 TTA TTT TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
99812134 TTTTTTAAAT
Statistics
Matches: 116, Mismatches: 36, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
2 6 0.05
3 108 0.93
4 2 0.02
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:99811986 original size:12 final size:12
Alignment explanation
Indices: 99811969--99812013 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
99811959 AAATTAAGTT
99811969 TTATATTTATTA
1 TTATATTTATTA
99811981 TTATATTTATTA
1 TTATATTTATTA
* *
99811993 TTATTTTTAGTA
1 TTATATTTATTA
99812005 TTATTATTT
1 TTA-TATTT
99812014 TTGTTATTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 25 0.86
13 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TTATATTTATTA
Found at i:99812284 original size:23 final size:21
Alignment explanation
Indices: 99812234--99812285 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 21
99812224 TGTTATTTCA
*
99812234 TTTATTATTTTATTTATGTCG
1 TTTATTATTTTATTTATGTCC
99812255 TTT-TTATTTTA-TTATTGTCC
1 TTTATTATTTTATTTA-TGTCC
99812275 TCATTATTATT
1 T--TTATTATT
99812286 ATCTTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 3 0.12
20 13 0.50
21 3 0.12
22 2 0.08
23 5 0.19
ACGTcount: A:0.19, C:0.08, G:0.06, T:0.67
Consensus pattern (21 bp):
TTTATTATTTTATTTATGTCC
Found at i:99812300 original size:15 final size:14
Alignment explanation
Indices: 99812263--99812310 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
99812253 CGTTTTTATT
*
99812263 TTATTATTGTCCTCA
1 TTATTATTATCCT-A
*
99812278 TTATTATTATCTTA
1 TTATTATTATCCTA
99812292 TTATATATTATCCTA
1 TTAT-TATTATCCTA
99812307 TTAT
1 TTAT
99812311 GTACCTATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 5 0.17
15 24 0.83
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.58
Consensus pattern (14 bp):
TTATTATTATCCTA
Found at i:99822171 original size:3 final size:3
Alignment explanation
Indices: 99822147--99822243 Score: 65
Period size: 3 Copynumber: 32.0 Consensus size: 3
99822137 TTTTGCTGTA
* * *
99822147 ATT ATT CTT ATT AAT A-T ATT ATT ATTT CTT ATT ATT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* * * * *
99822191 ATT ATT ATT CTT ATT AATGT AGT ATT ATT GTT ATT TTCT ACT -TT ATT
1 ATT ATT ATT ATT ATT -AT-T ATT ATT ATT ATT ATT AT-T ATT ATT ATT
99822238 ATT ATT
1 ATT ATT
99822244 GTATTATCAC
Statistics
Matches: 72, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
2 5 0.07
3 60 0.83
4 6 0.08
5 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:99822172 original size:20 final size:20
Alignment explanation
Indices: 99822147--99822225 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 20
99822137 TTTTGCTGTA
99822147 ATTATTCTTATTAATATATT
1 ATTATTCTTATTAATATATT
99822167 ATTATTTCTTATTATTATTATTATATT
1 ATTA-TTC---TTATTA--A-TATATT
* *
99822194 ATTATTCTTATTAATGTAGT
1 ATTATTCTTATTAATATATT
*
99822214 ATTATTGTTATT
1 ATTATTCTTATT
99822226 TTCTACTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
20 19 0.39
21 4 0.08
23 6 0.12
24 6 0.12
26 4 0.08
27 10 0.20
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (20 bp):
ATTATTCTTATTAATATATT
Found at i:99822179 original size:27 final size:26
Alignment explanation
Indices: 99822148--99822206 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 26
99822138 TTTGCTGTAA
*
99822148 TTATTCTTATTAATATATTATTATTTC
1 TTATTATTATTAATATATTATTA-TTC
*
99822175 TTATTATTATTATTATATTATTATTC
1 TTATTATTATTAATATATTATTATTC
99822201 TTATTA
1 TTATTA
99822207 ATGTAGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 9 0.30
27 21 0.70
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (26 bp):
TTATTATTATTAATATATTATTATTC
Found at i:99822250 original size:11 final size:11
Alignment explanation
Indices: 99822179--99822250 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 11
99822169 TATTTCTTAT
*
99822179 TATTATTATTA
1 TATTATTATTG
99822190 TATTATTA-T-
1 TATTATTATTG
* *
99822199 TCTTATTAATG
1 TATTATTATTG
*
99822210 TAGTATTATTG
1 TATTATTATTG
*
99822221 TTATTTTCTACTT-
1 -TATTAT-TA-TTG
99822234 TATTATTATTG
1 TATTATTATTG
99822245 TATTAT
1 TATTAT
99822251 CACTATCATT
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
9 7 0.15
10 4 0.08
11 24 0.50
12 9 0.19
13 2 0.04
14 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (11 bp):
TATTATTATTG
Found at i:99822261 original size:23 final size:24
Alignment explanation
Indices: 99822213--99822264 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
99822203 ATTAATGTAG
* *
99822213 TATTATTGTTATTTTCTACTTTAT
1 TATTATTGTTATTATCTACTTCAT
99822237 TATTATTG-TATTATC-ACTATCAT
1 TATTATTGTTATTATCTACT-TCAT
99822260 TATTA
1 TATTA
99822265 CCATATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 3 0.12
23 14 0.56
24 8 0.32
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.60
Consensus pattern (24 bp):
TATTATTGTTATTATCTACTTCAT
Found at i:99824438 original size:26 final size:26
Alignment explanation
Indices: 99824409--99824467 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
99824399 TTTACCAGGG
*
99824409 GTAAAATTGTCAAAAATTTATCGGGC
1 GTAAAATCGTCAAAAATTTATCGGGC
* * *
99824435 GTAAAATCGTCAAAATTTTATTGGGG
1 GTAAAATCGTCAAAAATTTATCGGGC
99824461 GTAAAAT
1 GTAAAAT
99824468 ATGGATGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.32
Consensus pattern (26 bp):
GTAAAATCGTCAAAAATTTATCGGGC
Found at i:99826620 original size:26 final size:26
Alignment explanation
Indices: 99826584--99826637 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
99826574 GAGTGTTGTA
99826584 AATATTTTATAAGTGGATGTCCTTTC
1 AATATTTTATAAGTGGATGTCCTTTC
99826610 AATATTTTATAAGTGGATGTCCTTTC
1 AATATTTTATAAGTGGATGTCCTTTC
99826636 AA
1 AA
99826638 CTCTCACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (26 bp):
AATATTTTATAAGTGGATGTCCTTTC
Found at i:99834993 original size:23 final size:23
Alignment explanation
Indices: 99834967--99835013 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
99834957 ATTCCAAGTT
*
99834967 TCCCATC-TTGTGTCTTATTATTC
1 TCCCATCTTTGT-TCTTACTATTC
99834990 TCCCATCTTTGTTCTTACTATTC
1 TCCCATCTTTGTTCTTACTATTC
99835013 T
1 T
99835014 ATTATATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.13, C:0.28, G:0.06, T:0.53
Consensus pattern (23 bp):
TCCCATCTTTGTTCTTACTATTC
Found at i:99850236 original size:33 final size:33
Alignment explanation
Indices: 99850172--99850237 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
99850162 CTTAATTTGG
* *
99850172 ATTGTATCGGAATCACCATTCATTTGCAAAATC
1 ATTGTATCGGAATCACCAGTCATTTACAAAATC
* *
99850205 ATTGTATTGGAATCACCAGTCATTTATAAAATC
1 ATTGTATCGGAATCACCAGTCATTTACAAAATC
99850238 TTAGTACTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGGAATCACCAGTCATTTACAAAATC
Found at i:99852268 original size:18 final size:19
Alignment explanation
Indices: 99852230--99852272 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
99852220 TAAATTCGAA
*
99852230 AAATAATTTGAGTTGACTC
1 AAATAATTTGAGTTAACTC
99852249 AAATAATTTGA-TTAACTC
1 AAATAATTTGAGTTAACTC
99852267 AAATAA
1 AAATAA
99852273 CTCGATTCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (19 bp):
AAATAATTTGAGTTAACTC
Found at i:99852279 original size:18 final size:18
Alignment explanation
Indices: 99852245--99852279 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99852235 ATTTGAGTTG
* *
99852245 ACTCAAATAATTTGATTA
1 ACTCAAATAACTCGATTA
99852263 ACTCAAATAACTCGATT
1 ACTCAAATAACTCGATT
99852280 CGTTTAACTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:99854908 original size:10 final size:10
Alignment explanation
Indices: 99854893--99854918 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
99854883 TATATGAAAA
99854893 ATATTTCTTG
1 ATATTTCTTG
99854903 ATATTTCTTG
1 ATATTTCTTG
99854913 ATATTT
1 ATATTT
99854919 ATATGAAAAT
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:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (10 bp):
ATATTTCTTG
Found at i:99856758 original size:2 final size:2
Alignment explanation
Indices: 99856751--99856800 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
99856741 ACACTTCAAT
99856751 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
99856793 TC TC TC TC
1 TC TC TC TC
99856801 GTCTATTGAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:99862380 original size:14 final size:14
Alignment explanation
Indices: 99862361--99862440 Score: 79
Period size: 14 Copynumber: 5.6 Consensus size: 14
99862351 GGATGATTGG
99862361 ATAATATTTATTTA
1 ATAATATTTATTTA
*
99862375 ATAATATTAATTTA
1 ATAATATTTATTTA
* *
99862389 TACAATAATTATTTA
1 -ATAATATTTATTTA
*
99862404 ATAATATTAATTTA
1 ATAATATTTATTTA
* * *
99862418 TACAATAATTATTCA
1 -ATAATATTTATTTA
99862433 ATAATATT
1 ATAATATT
99862441 AATTATAAAA
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
14 30 0.59
15 21 0.41
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (14 bp):
ATAATATTTATTTA
Found at i:99862395 original size:18 final size:18
Alignment explanation
Indices: 99862374--99862426 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
99862364 ATATTTATTT
99862374 AATAATATTAATTTATAC
1 AATAATATTAATTTATAC
99862392 AAT-A-ATT-A-TT-T--
1 AATAATATTAATTTATAC
99862403 AATAATATTAATTTATAC
1 AATAATATTAATTTATAC
99862421 AATAAT
1 AATAAT
99862427 TATTCAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
11 3 0.11
12 1 0.04
13 4 0.14
14 3 0.11
15 3 0.11
16 4 0.14
17 1 0.04
18 9 0.32
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (18 bp):
AATAATATTAATTTATAC
Found at i:99862405 original size:29 final size:29
Alignment explanation
Indices: 99862363--99862444 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
99862353 ATGATTGGAT
*
99862363 AATATTTATTTAATAATATTAATTTATAC
1 AATAATTATTTAATAATATTAATTTATAC
99862392 AATAATTATTTAATAATATTAATTTATAC
1 AATAATTATTTAATAATATTAATTTATAC
*
99862421 AATAATTATTCAATAATATTAATT
1 AATAATTATTTAATAATATTAATT
99862445 ATAAAATTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.49
Consensus pattern (29 bp):
AATAATTATTTAATAATATTAATTTATAC
Found at i:99866746 original size:23 final size:24
Alignment explanation
Indices: 99866699--99866750 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
99866689 AATTTAATAA
99866699 TTTTTCGTATTAAACTTAAATTTT
1 TTTTTCGTATTAAACTTAAATTTT
99866723 TTTTTCGTATTAAACTTAAATTTT
1 TTTTTCGTATTAAACTTAAATTTT
99866747 TTTT
1 TTTT
99866751 GTCCGAGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTTCGTATTAAACTTAAATTTT
Found at i:99867353 original size:19 final size:19
Alignment explanation
Indices: 99867329--99867368 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
99867319 TTATTATCAG
99867329 TATTATTTATAAATTTATT
1 TATTATTTATAAATTTATT
* *
99867348 TATTATTTATTATTTTATT
1 TATTATTTATAAATTTATT
99867367 TA
1 TA
99867369 ATAATGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTATTTATAAATTTATT
Found at i:99869911 original size:22 final size:21
Alignment explanation
Indices: 99869872--99869914 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
99869862 TTTAATTTGA
* *
99869872 ATATTTTTTGATTTTTTAAAT
1 ATATTTTTTGACTATTTAAAT
99869893 ATATTTTTTGAACTATTTAAAT
1 ATATTTTTTG-ACTATTTAAAT
99869915 TTATCTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (21 bp):
ATATTTTTTGACTATTTAAAT
Found at i:99870359 original size:21 final size:22
Alignment explanation
Indices: 99870335--99870376 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
99870325 TAAAATTGCT
*
99870335 TAATTAATATT-TTGAAAAAAA
1 TAATTAATATTAGTGAAAAAAA
*
99870356 TAATTAGTATTAGTGAAAAAA
1 TAATTAATATTAGTGAAAAAA
99870377 TTATTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (22 bp):
TAATTAATATTAGTGAAAAAAA
Found at i:99872213 original size:91 final size:91
Alignment explanation
Indices: 99872032--99872227 Score: 304
Period size: 91 Copynumber: 2.2 Consensus size: 91
99872022 ACTCTTTGTA
* *
99872032 TAAGGGTTGGTATATGCATGCCTAAAGCAACGCTTAAATAAGAGTTAGCTTTGTCTAGTCCTAAG
1 TAAGGGTTGGGATATGCATGCCTAAAGCAACGCTTAAATAAGAGTTAGCTTTATCTAGTCCTAAG
99872097 ACGACACTTTTGGGGCAACACTTTCC
66 ACGACACTTTTGGGGCAACACTTTCC
* * * *
99872123 TAAGGGTTGGGATATGTATGCCTAAAGCAACGCTTGAATAAGAGTTGGTTTTTATCTAGTCCTAA
1 TAAGGGTTGGGATATGCATGCCTAAAGCAACGCTTAAATAAGAGTTAG-CTTTATCTAGTCCTAA
*
99872188 GACGACACTTTTGTGGCAACA-TTTCC
65 GACGACACTTTTGGGGCAACACTTTCC
*
99872214 TAAGTGTTGGGATA
1 TAAGGGTTGGGATA
99872228 GACTATGCTT
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
91 62 0.65
92 34 0.35
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (91 bp):
TAAGGGTTGGGATATGCATGCCTAAAGCAACGCTTAAATAAGAGTTAGCTTTATCTAGTCCTAAG
ACGACACTTTTGGGGCAACACTTTCC
Found at i:99872411 original size:132 final size:132
Alignment explanation
Indices: 99872123--99872727 Score: 856
Period size: 132 Copynumber: 4.5 Consensus size: 132
99872113 AACACTTTCC
* * *
99872123 TAAGGGTTGGGATATGTATGCCTAAAGCAACGCTTGAATAAGAGTTGGTTTTTATCTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
*
99872188 GACGACACTTTTGTGGCAACA-TTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACATTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
99872252 TA
131 TA
* * *
99872254 TAAGGGTTGGTATATGTATGCCTAAGGCAACGCTTGAATAAAAGTTGGCTTTTGTATAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
*
99872319 GACGACACTTTTGTGGCGACATTTTACTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACATTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
99872384 TA
131 TA
* * *
99872386 TAAGGGTTGGGATATGTATGTCTAAGGCAACGCTTGAATAAAAGTTGGCTTTTGTATAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
* *
99872451 GACGACACTTTTTTGGTGACATTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACATTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
99872516 TA
131 TA
* * * *
99872518 TAAGGGTTGGGACATGTATTCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTCGTTCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
* ** * * *
99872583 GACGACAGTTTT-TGTATGACACTTTCCGAAGTGTTGGGATAGACTGGCCAACATATGCTTTAGC
66 GACGACACTTTTGTG-GCGACATTTTCCTAAGTGTTGGGAT--A---G---AC-TATGCTTTGGC
99872647 CAACTCTTTGTA
121 CAACTCTTTGTA
* * * *
99872659 TAAGGGTTGGGATATGCATGCCAAAGGCAACGCTTAAATAAGAGTTGGC-TTTGTCCAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
99872723 GACGA
66 GACGA
99872728 TATATATTTT
Statistics
Matches: 430, Mismatches: 33, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
131 81 0.19
132 262 0.61
134 1 0.00
137 1 0.00
140 19 0.04
141 66 0.15
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (132 bp):
TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
GACGACACTTTTGTGGCGACATTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
TA
Found at i:99872840 original size:130 final size:130
Alignment explanation
Indices: 99872605--99872845 Score: 340
Period size: 130 Copynumber: 1.9 Consensus size: 130
99872595 TGTATGACAC
* *
99872605 TTTCCGAAGTGTTGGGATAGACTGGCCAACATATGCTTTAGCCAACTCTTTGTATAAGGGTTGGG
1 TTTCCGAAGTGTTGGGATAGACTGGCCAACATACGCTTTAGCCAACTCTTTATATAAGGGTTGGG
**
99872670 ATATGCATGCCAAAGGCAACGCTTAAATAAGAGTTGGCTTTGTCCAGTCCTAAGACGATATATAT
66 ATATGCATGCCAAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCAGTCCTAAGACGATATATAT
* * * ** * *
99872735 TTTCCTAAGTGTTGGGATAGACTTGCCGACATACGC-TTAGGTTAACTTTTTATATAAGGGTTGT
1 TTTCCGAAGTGTTGGGATAGACTGGCCAACATACGCTTTA-GCCAACTCTTTATATAAGGGTTGG
** *
99872799 GATATGCATGCTTAATGCAACGCTTAAATAAGAGTCAGCTTTGTCCA
65 GATATGCATGCCAAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCA
99872846 ACACTATGCC
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
129 3 0.03
130 93 0.97
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (130 bp):
TTTCCGAAGTGTTGGGATAGACTGGCCAACATACGCTTTAGCCAACTCTTTATATAAGGGTTGGG
ATATGCATGCCAAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCAGTCCTAAGACGATATATAT
Found at i:99872976 original size:7 final size:7
Alignment explanation
Indices: 99872955--99873012 Score: 89
Period size: 7 Copynumber: 8.0 Consensus size: 7
99872945 CATGCCTAAT
99872955 GGGTTTA
1 GGGTTTA
99872962 GGGTGTTTA
1 -GG-GTTTA
99872971 GGGTTTA
1 GGGTTTA
99872978 GGGTTTA
1 GGGTTTA
99872985 GGGTTTA
1 GGGTTTA
*
99872992 GGGCTTA
1 GGGTTTA
99872999 GGGTTTA
1 GGGTTTA
99873006 GGGTTTA
1 GGGTTTA
99873013 AGATTTAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
7 38 0.81
8 4 0.09
9 5 0.11
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:99873191 original size:14 final size:14
Alignment explanation
Indices: 99873172--99873269 Score: 72
Period size: 15 Copynumber: 6.6 Consensus size: 14
99873162 AGCTTCTATA
99873172 TTTAGGTTTTAGGG
1 TTTAGGTTTTAGGG
* *
99873186 TTTAGGATTTAGGA
1 TTTAGGTTTTAGGG
*
99873200 TTTATAG-TTTAGGAG
1 TTTA-GGTTTTAGG-G
*
99873215 TTTAGGGTTTAGGG
1 TTTAGGTTTTAGGG
* *
99873229 TGTATGGTTTTAAGG
1 TTTA-GGTTTTAGGG
*
99873244 TTTAGGATTTTATGG
1 TTTAGG-TTTTAGGG
99873259 TCTTGAGGTTT
1 T-TT-AGGTTT
99873270 AAGGTTTGTG
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
14 29 0.43
15 30 0.45
16 5 0.07
17 3 0.04
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (14 bp):
TTTAGGTTTTAGGG
Found at i:99873195 original size:21 final size:21
Alignment explanation
Indices: 99873171--99873229 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
99873161 TAGCTTCTAT
*
99873171 ATTTAGGTTTTAGGGTTTAGG
1 ATTTAGGATTTAGGGTTTAGG
**
99873192 ATTTAGGATTTATAGTTTAGG
1 ATTTAGGATTTAGGGTTTAGG
*
99873213 AGTTTAGGGTTTAGGGT
1 A-TTTAGGATTTAGGGT
99873230 GTATGGTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (21 bp):
ATTTAGGATTTAGGGTTTAGG
Found at i:99873219 original size:29 final size:29
Alignment explanation
Indices: 99873177--99873253 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
99873167 CTATATTTAG
*
99873177 GTTTTAGGGTTTAGGATTTAGGATTTATA
1 GTTTTAGGGTTTAGGATTTAGGATGTATA
* * *
99873206 G-TTTAGGAGTTTAGGGTTTAGGGTGTATG
1 GTTTTAGG-GTTTAGGATTTAGGATGTATA
*
99873235 GTTTTAAGGTTTAGGATTT
1 GTTTTAGGGTTTAGGATTT
99873254 TATGGTCTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 6 0.15
29 29 0.73
30 5 0.12
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (29 bp):
GTTTTAGGGTTTAGGATTTAGGATGTATA
Found at i:99873254 original size:15 final size:15
Alignment explanation
Indices: 99873234--99873287 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
99873224 TAGGGTGTAT
99873234 GGTTTTAAGGTTT-A
1 GGTTTTAAGGTTTGA
*
99873248 GGATTTTATGGTCTTGA
1 GG-TTTTAAGGT-TTGA
*
99873265 GG-TTTAAGGTTTGT
1 GGTTTTAAGGTTTGA
99873279 GG-TTTAAGG
1 GGTTTTAAGG
99873288 CTTAGGGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 14 0.41
15 15 0.44
16 2 0.06
17 3 0.09
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (15 bp):
GGTTTTAAGGTTTGA
Found at i:99884525 original size:17 final size:17
Alignment explanation
Indices: 99884505--99884537 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
99884495 GGATATTTCC
99884505 TTGGGCTGTTTTTATTT
1 TTGGGCTGTTTTTATTT
*
99884522 TTGGGTTGTTTTTATT
1 TTGGGCTGTTTTTATT
99884538 CAAATATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.03, G:0.24, T:0.67
Consensus pattern (17 bp):
TTGGGCTGTTTTTATTT
Found at i:99888860 original size:35 final size:37
Alignment explanation
Indices: 99888819--99889130 Score: 200
Period size: 37 Copynumber: 8.5 Consensus size: 37
99888809 TATACCAACG
* * **
99888819 TTTTTAAGGTTACCTTAGAAGAA-TCTATCGTAACC-
1 TTTTTAAGGTTGCCTTAGAACAAGTCTATCCCAACCT
* *
99888854 TTTTTAACGTTGCTTTA-AACAAGTCTATCCCAACCTT
1 TTTTTAAGGTTGCCTTAGAACAAGTCTATCCCAACC-T
* * *
99888891 TTTTTAAGGTTGCCTTAG-ACAATGTCTATTCTAACAT
1 TTTTTAAGGTTGCCTTAGAACAA-GTCTATCCCAACCT
* * *
99888928 TTTTAAAAGGTTGCCTTA-AACATGCCTATCCCAACCT
1 TTTT-TAAGGTTGCCTTAGAACAAGTCTATCCCAACCT
* *
99888965 TTCCTAAAGGTTGCCTTAG-ACAAGATCTATCCCAA-CT
1 TT-TTTAAGGTTGCCTTAGAACAAG-TCTATCCCAACCT
* * * * * *
99889002 TTTTTAAAAAGTTGCTTTAGATA-AGGTTTATACCAA-TT
1 TTTTT--AAGGTTGCCTTAGA-ACAAGTCTATCCCAACCT
* *
99889040 TTTTTAAGGGTTGCTTTAG-ACAAGGCATATCCCAACC-
1 TTTTTAA-GGTTGCCTTAGAACAAGTC-TATCCCAACCT
** *
99889077 TTTTTAAGGTTGCCTTA-AATGAGTCAATCCCAACC-
1 TTTTTAAGGTTGCCTTAGAACAAGTCTATCCCAACCT
* *
99889112 TTTTAAAGGTTGCCATAGA
1 TTTTTAAGGTTGCCTTAGA
99889131 TGGATCTATC
Statistics
Matches: 216, Mismatches: 41, Indels: 39
0.73 0.14 0.13
Matches are distributed among these distances:
34 4 0.02
35 49 0.23
36 19 0.09
37 81 0.38
38 60 0.28
39 2 0.01
40 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (37 bp):
TTTTTAAGGTTGCCTTAGAACAAGTCTATCCCAACCT
Found at i:99888958 original size:75 final size:75
Alignment explanation
Indices: 99888862--99889187 Score: 220
Period size: 75 Copynumber: 4.4 Consensus size: 75
99888852 CCTTTTTAAC
* * ** * * *
99888862 GTTGCTTTAAACAAGTCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAATG-TCTATTCTAAC
1 GTTGCCTTAAACAAGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAA-GATCTATCCCAAC
*
99888926 ATTTTTAAAAG
65 ATTTTTAAAAA
* *
99888937 GTTGCCTTAAACATGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAAGATCTATCCCAACT
1 GTTGCCTTAAACAAGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAAGATCTATCCCAACA
99889002 TTTTTAAAAA
66 TTTTTAAAAA
* * * ** * * ** * * *
99889012 GTTGCTTTAGATAAGGTTTATACCAA-TTTTTTTAAGGGTTGCTTTAGACAAG-GCATATCCCAA
1 GTTGCCTTAAACAA-GCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAAGATC-TATCCCAA
* *
99889075 CCTTTTT--AAG
64 CATTTTTAAAAA
** * * * **
99889085 GTTGCCTTAAATGAGTCAATCCCAACCTTT--TAAAGGTTGCCATAGA-TGGATCTATCCCAACT
1 GTTGCCTTAAACAAGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAAGATCTATCCCAAC-
*
99889147 ATTCTT-AAAA
65 ATTTTTAAAAA
* * * *
99889157 TTTGCCTTAGACAAGAACTATACCAACCTTT
1 GTTGCCTTAAACAAG-CCTATCCCAACCTTT
99889188 TTATAGTTGC
Statistics
Matches: 195, Mismatches: 48, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
70 10 0.05
71 18 0.09
72 21 0.11
73 28 0.14
74 2 0.01
75 108 0.55
76 8 0.04
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (75 bp):
GTTGCCTTAAACAAGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAAGATCTATCCCAACA
TTTTTAAAAA
Found at i:99889142 original size:35 final size:35
Alignment explanation
Indices: 99889067--99889145 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
99889057 AGACAAGGCA
* *
99889067 TATCCCAACCTTTTTAAGGTTGCCTTAAATGAGTC
1 TATCCCAACCTTTTAAAGGTTGCCATAAATGAGTC
* *
99889102 AATCCCAACCTTTTAAAGGTTGCCATAGATG-GATC
1 TATCCCAACCTTTTAAAGGTTGCCATAAATGAG-TC
99889137 TATCCCAAC
1 TATCCCAAC
99889146 TATTCTTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
34 1 0.03
35 37 0.97
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (35 bp):
TATCCCAACCTTTTAAAGGTTGCCATAAATGAGTC
Done.