Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 383 of 438
Found at i:119395930 original size:20 final size:20
Alignment explanation
Indices: 119395900--119395987 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 20
119395890 TACAATATCT
119395900 TAAAA-AAAATTAATAACTA
1 TAAAATAAAATTAATAACTA
119395919 TAAAATAAAATT-A-AACTA
1 TAAAATAAAATTAATAACTA
* * *
119395937 TAAACT----TTAAAACACAA
1 TAAAATAAAATTAATA-ACTA
*
119395954 TAAAAACAAAATTAATAACTA
1 T-AAAATAAAATTAATAACTA
119395975 TAAAATAAAATTA
1 TAAAATAAAATTA
119395988 CAATCTAAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
14 2 0.04
15 1 0.02
16 1 0.02
17 4 0.08
18 13 0.25
19 6 0.11
20 17 0.32
21 4 0.08
22 5 0.09
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAATAAAATTAATAACTA
Found at i:119395980 original size:56 final size:56
Alignment explanation
Indices: 119395901--119396018 Score: 204
Period size: 56 Copynumber: 2.1 Consensus size: 56
119395891 ACAATATCTT
119395901 AAAA-AAAATTAATAACTATAAAATAAAATTA-AACTATAAACTTTAAAACACAATA
1 AAAACAAAATTAATAACTATAAAATAAAATTACAA-TATAAACTTTAAAACACAATA
*
119395956 AAAACAAAATTAATAACTATAAAATAAAATTACAATCTAAACTTTAAAACACAATA
1 AAAACAAAATTAATAACTATAAAATAAAATTACAATATAAACTTTAAAACACAATA
119396012 AAAACAA
1 AAAACAA
119396019 TTGTAAAATT
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
55 4 0.07
56 54 0.90
57 2 0.03
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (56 bp):
AAAACAAAATTAATAACTATAAAATAAAATTACAATATAAACTTTAAAACACAATA
Found at i:119405204 original size:2 final size:2
Alignment explanation
Indices: 119405191--119405226 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
119405181 ATTGCATTTC
*
119405191 AT AT AT AA 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 AT AT AT AT
119405227 TGGATGATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:119407833 original size:23 final size:22
Alignment explanation
Indices: 119407790--119407836 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
119407780 AATGCTCTAA
*
119407790 TTTTCCTTTTTATTTCTTTTTC
1 TTTTCCTTTTTATTTCATTTTC
119407812 TTTTCTCTTTTT-TCTTCATTTTC
1 TTTTC-CTTTTTAT-TTCATTTTC
119407835 TT
1 TT
119407837 ATTTTTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTCCTTTTTATTTCATTTTC
Found at i:119407842 original size:20 final size:21
Alignment explanation
Indices: 119407819--119407857 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
119407809 TTCTTTTCTC
119407819 TTTTTTC-TTCAT-TTTCTTA
1 TTTTTTCATTCATCTTTCTTA
119407838 TTTTTTCATTCATCTTTCTT
1 TTTTTTCATTCATCTTTCTT
119407858 TCTATTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTTCATTCATCTTTCTTA
Found at i:119407845 original size:16 final size:17
Alignment explanation
Indices: 119407806--119407847 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
119407796 TTTTTATTTC
*
119407806 TTTTTC-TTTTCTCTTT
1 TTTTTCATTTTCTCTAT
119407822 TTTCTTCATTTTCT-TAT
1 TTT-TTCATTTTCTCTAT
119407839 TTTTTCATT
1 TTTTTCATT
119407848 CATCTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCATTTTCTCTAT
Found at i:119407855 original size:21 final size:19
Alignment explanation
Indices: 119407799--119407857 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
119407789 ATTTTCCTTT
119407799 TTATTTCTTT-TTC-TTTTC
1 TTATTT-TTTCTTCATTTTC
*
119407817 -TCTTTTTTCTTCATTTTC
1 TTATTTTTTCTTCATTTTC
119407835 TTATTTTTTCATTCATCTTTC
1 TTATTTTTTC-TTCAT-TTTC
119407856 TT
1 TT
119407858 TCTATTCTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 3 0.09
17 7 0.21
18 5 0.15
19 8 0.24
20 5 0.15
21 6 0.18
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTTTTCTTCATTTTC
Found at i:119408079 original size:13 final size:13
Alignment explanation
Indices: 119408061--119408093 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
119408051 CATTGAAACA
119408061 CCCAAAAAAAGTT
1 CCCAAAAAAAGTT
119408074 CCC-AAAAAAGTT
1 CCCAAAAAAAGTT
*
119408086 CTCAAAAA
1 CCCAAAAA
119408094 CCCTCCTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.55, C:0.24, G:0.06, T:0.15
Consensus pattern (13 bp):
CCCAAAAAAAGTT
Found at i:119409462 original size:12 final size:12
Alignment explanation
Indices: 119409447--119409527 Score: 53
Period size: 11 Copynumber: 6.8 Consensus size: 12
119409437 AATATAATAG
* *
119409447 ATAATATATGAT
1 ATAACATATAAT
119409459 ATAACATATAAT
1 ATAACATATAAT
* *
119409471 ATAAAAAAATAAT
1 AT-AACATATAAT
*
119409484 AGGTAATATATAAT
1 A--TAACATATAAT
*
119409498 A-AAAATATAAT
1 ATAACATATAAT
119409509 A-AA-ATATAAT
1 ATAACATATAAT
119409519 ATAA-ATATA
1 ATAACATATA
119409528 TGTGATAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
10 8 0.14
11 19 0.33
12 12 0.21
13 9 0.16
14 9 0.16
15 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (12 bp):
ATAACATATAAT
Found at i:119409492 original size:39 final size:39
Alignment explanation
Indices: 119409431--119409519 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
119409421 AATATAAAAC
* * *
119409431 ATAAATAATATAATAGATAATATATGATATAACATATAAT
1 ATAAATAAAATAATAGATAATATATAATA-AAAATATAAT
*
119409471 ATAAA-AAAATAATAGGTAATATATAATAAAAATATAAT
1 ATAAATAAAATAATAGATAATATATAATAAAAATATAAT
*
119409509 A-AAATATAATA
1 ATAAATAAAATA
119409520 TAAATATATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
37 3 0.07
38 15 0.35
39 20 0.47
40 5 0.12
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (39 bp):
ATAAATAAAATAATAGATAATATATAATAAAAATATAAT
Found at i:119409497 original size:7 final size:7
Alignment explanation
Indices: 119409419--119409528 Score: 61
Period size: 7 Copynumber: 16.3 Consensus size: 7
119409409 AATATAATGG
119409419 ATAATAT
1 ATAATAT
* *
119409426 AAAACAT
1 ATAATAT
119409433 A-AATAAT
1 ATAAT-AT
*
119409440 ATAATAG
1 ATAATAT
119409447 ATAATAT
1 ATAATAT
*
119409454 AT--GAT
1 ATAATAT
*
119409459 ATAACAT
1 ATAATAT
119409466 ATAATAT
1 ATAATAT
* *
119409473 A-AAAAA
1 ATAATAT
*
119409479 ATAATAG
1 ATAATAT
*
119409486 GTAATAT
1 ATAATAT
119409493 ATAATA-
1 ATAATAT
*
119409499 AAAATAT
1 ATAATAT
*
119409506 AATAAAAT
1 -ATAATAT
119409514 ATAATAT
1 ATAATAT
119409521 A-AATAT
1 ATAATAT
119409527 AT
1 AT
119409529 GTGATAATTT
Statistics
Matches: 76, Mismatches: 19, Indels: 16
0.68 0.17 0.14
Matches are distributed among these distances:
5 4 0.05
6 17 0.22
7 47 0.62
8 8 0.11
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (7 bp):
ATAATAT
Found at i:119409507 original size:11 final size:11
Alignment explanation
Indices: 119409491--119409527 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
119409481 AATAGGTAAT
119409491 ATATAATAAAA
1 ATATAATAAAA
119409502 ATATAAT-AAA
1 ATATAATAAAA
*
119409512 ATATAATATAA
1 ATATAATAAAA
119409523 ATATA
1 ATATA
119409528 TGTGATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATATAATAAAA
Found at i:119409517 original size:21 final size:22
Alignment explanation
Indices: 119409468--119409527 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
119409458 TATAACATAT
*
119409468 AATATAA-AAAAATAATAGGTAA
1 AATATAATAAAAAT-ATAGATAA
*
119409490 TATATAATAAAAATATA-ATAA
1 AATATAATAAAAATATAGATAA
*
119409511 AATATAATATAAATATA
1 AATATAATAAAAATATA
119409528 TGTGATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 18 0.55
22 9 0.27
23 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (22 bp):
AATATAATAAAAATATAGATAA
Found at i:119409572 original size:25 final size:26
Alignment explanation
Indices: 119409535--119409595 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
119409525 ATATGTGATA
*
119409535 ATTTTTTATATAA-ATATATAAATAGT
1 ATTTTTTA-ATAAGACATATAAATAGT
*
119409561 ATTTTTTAATAATGACATATATATAGT
1 ATTTTTTAATAA-GACATATAAATAGT
119409588 -TTTTTTAA
1 ATTTTTTAA
119409596 AATAAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 4 0.13
26 16 0.52
27 11 0.35
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (26 bp):
ATTTTTTAATAAGACATATAAATAGT
Found at i:119409610 original size:25 final size:27
Alignment explanation
Indices: 119409556--119409606 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
119409546 AAATATATAA
* *
119409556 ATAGTATTTTTTAATAATGACATATAT
1 ATAGTATTTTTTAATAATGAAATAAAT
119409583 ATAGT-TTTTTTAA-AAT-AAATAAAT
1 ATAGTATTTTTTAATAATGAAATAAAT
119409607 TATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
26 8 0.36
27 5 0.23
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (27 bp):
ATAGTATTTTTTAATAATGAAATAAAT
Found at i:119419062 original size:28 final size:28
Alignment explanation
Indices: 119419016--119419084 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
119419006 TTTAAAACCC
*
119419016 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
119419043 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
119419071 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
119419085 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:119423320 original size:27 final size:27
Alignment explanation
Indices: 119423290--119423351 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
119423280 TTTAAAACCC
119423290 TAGGGGTATATCGGTAATTTTGCTCTT
1 TAGGGGTATATCGGTAATTTTGCTCTT
*
119423317 TAGGGGTATTTCGGTAATTTTGCTCTT
1 TAGGGGTATATCGGTAATTTTGCTCTT
119423344 TAGGGGTA
1 TAGGGGTA
119423352 ATTTCGTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.18, C:0.10, G:0.29, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCGGTAATTTTGCTCTT
Found at i:119429503 original size:26 final size:28
Alignment explanation
Indices: 119429438--119429504 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
119429428 GTTATCAGTG
* *
119429438 TGTTTATTGTC-CTATTGGATTATCCCG
1 TGTTTATTGTCTCTATTGGACTATCCCA
*
119429465 TGTTTAATGTCTC-ATTGGACTAT-CCA
1 TGTTTATTGTCTCTATTGGACTATCCCA
*
119429491 TTTTTATTGTCTCT
1 TGTTTATTGTCTCT
119429505 TCAGACTAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 13 0.39
27 19 0.58
28 1 0.03
ACGTcount: A:0.16, C:0.18, G:0.15, T:0.51
Consensus pattern (28 bp):
TGTTTATTGTCTCTATTGGACTATCCCA
Found at i:119429718 original size:45 final size:45
Alignment explanation
Indices: 119429669--119429754 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
119429659 GTCATAGCGC
* *
119429669 CTTTCAGCTATGGTCTTACTCAT-TTCTATCATGATGCCATAACAT
1 CTTTCAACTATGGTCTTACTCATCTT-AATCATGATGCCATAACAT
* *
119429714 CTTTCAACTATGGTTTTACTTATCTTAATCATGATGCCATA
1 CTTTCAACTATGGTCTTACTCATCTTAATCATGATGCCATA
119429755 GTGTCTCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
45 34 0.94
46 2 0.06
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (45 bp):
CTTTCAACTATGGTCTTACTCATCTTAATCATGATGCCATAACAT
Found at i:119430763 original size:15 final size:15
Alignment explanation
Indices: 119430743--119430792 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
119430733 TACAATGATC
*
119430743 CCTAATGTAATTTAT
1 CCTAATGCAATTTAT
*
119430758 CCTAATGCAA-TGAT
1 CCTAATGCAATTTAT
119430772 CCCTAATGCAATTTAT
1 -CCTAATGCAATTTAT
119430788 CCTAA
1 CCTAA
119430793 GTATGCAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 3 0.10
15 24 0.80
16 3 0.10
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (15 bp):
CCTAATGCAATTTAT
Found at i:119430771 original size:30 final size:30
Alignment explanation
Indices: 119430735--119430792 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
119430725 AAACTAAATA
*
119430735 CAATGATCCCTAATGTAATTTATCCTAATG
1 CAATGATCCCTAATGCAATTTATCCTAATG
119430765 CAATGATCCCTAATGCAATTTATCCTAA
1 CAATGATCCCTAATGCAATTTATCCTAA
119430793 GTATGCAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (30 bp):
CAATGATCCCTAATGCAATTTATCCTAATG
Found at i:119443906 original size:34 final size:34
Alignment explanation
Indices: 119443854--119443950 Score: 108
Period size: 34 Copynumber: 2.8 Consensus size: 34
119443844 CTTTGTTTGC
*
119443854 ATACTG-TATTGAAATGGGCTAAGGCCCAAACTG
1 ATACTGTTACTGAAATGGGCTAAGGCCCAAACTG
* * *
119443887 CCT-CTGTTACTGAAATGGGCTTAGGCCCATACTG
1 -ATACTGTTACTGAAATGGGCTAAGGCCCAAACTG
*
119443921 ATACTGTTACTGAAAAAGGGGCTAAGGCCC
1 ATACTGTTACTG--AAATGGGCTAAGGCCC
119443951 TAACCCGAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
33 4 0.08
34 34 0.65
36 14 0.27
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (34 bp):
ATACTGTTACTGAAATGGGCTAAGGCCCAAACTG
Found at i:119448023 original size:22 final size:22
Alignment explanation
Indices: 119447995--119448038 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
119447985 GTTTAATTTG
119447995 CTTAAGGCTTACTAAGCTAAGT
1 CTTAAGGCTTACTAAGCTAAGT
119448017 CTTAAGGCTTACTAAGCTAAGT
1 CTTAAGGCTTACTAAGCTAAGT
119448039 TAGCTTACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (22 bp):
CTTAAGGCTTACTAAGCTAAGT
Found at i:119460347 original size:34 final size:34
Alignment explanation
Indices: 119460276--119460351 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
119460266 TTGCATACTG
* * *
119460276 TACTGAAATGGGCTAAGGCCCAGATTGCCTCTAT
1 TACTGAAATGGGCTAAGGCCCAAACTGACTCTAT
* * *
119460310 TACTGAAATGGGCTCAGGCCCAAACTGATTCTGT
1 TACTGAAATGGGCTAAGGCCCAAACTGACTCTAT
119460344 TACTGAAA
1 TACTGAAA
119460352 AAGGGGTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCAAACTGACTCTAT
Found at i:119471892 original size:46 final size:44
Alignment explanation
Indices: 119471791--119471951 Score: 148
Period size: 46 Copynumber: 3.5 Consensus size: 44
119471781 TGATATGTGT
*
119471791 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCCCATTATAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG--CCATTATAAGA
* * *
119471837 GCCAATGTAAGACATGTCTGGGACATGCATCGG-TATTA-AGACGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTATA-A-G--A
*
119471883 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCC-TTGAGATATACGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATT---ATA-A-GA
*
119471931 GCTAGTGTAAGACCTGTCTGG
1 GCTAGTGTAAGACATGTCTGG
119471952 TACAGGGCGT
Statistics
Matches: 95, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 1 0.01
46 63 0.66
48 20 0.21
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTATAAGA
Found at i:119472051 original size:49 final size:49
Alignment explanation
Indices: 119471978--119472107 Score: 140
Period size: 49 Copynumber: 2.7 Consensus size: 49
119471968 GTTGTGTGTT
* * *
119471978 AGTGTCAA-ACCTGTCTAGGACATGGCATCGACAC-CGATAGATGAGAG-C
1 AGTGT-AAGACCTATCTGGGACATGGCATCGAC-CTCGATAGATGAAAGTC
* * * *
119472026 TAGTGTAAGACTTATCTGGGACATGGTATCGGCCTCGATATATGAAAGTC
1 -AGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGTC
*
119472076 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCTATCTGGGACATGGCATCGAC
119472108 TTTGACGTGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 3 0.04
49 63 0.94
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGTC
Found at i:119488854 original size:40 final size:40
Alignment explanation
Indices: 119488810--119488995 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
119488800 CGCATGTACG
*
119488810 AATGCCTTCGGGTCTTAGCCCGGATAGAACAACTTGCACA
1 AATGCCTTCGGGTCTTAGCCCGGATAGAACAACTAGCACA
* * ** *
119488850 AATGCCTTCGGGTATTAGCCAGGATTTAACAACCT-GCACG
1 AATGCCTTCGGGTCTTAGCCCGGATAGAACAA-CTAGCACA
* **
119488890 AATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCAC-
1 AATGCCTTCGGGTCTTAGCCCGGAT-AGAACAACTAGCACA
* * * ** *
119488929 AATGGCCTTCGGGTCTTAACCCGGGTATAATTACTAGCATA
1 AAT-GCCTTCGGGTCTTAGCCCGGATAGAACAACTAGCACA
* *
119488970 AATGTCTTCGGGACTTAGCCCGGATA
1 AATGCCTTCGGGTCTTAGCCCGGATA
119488996 TCATTCAATT
Statistics
Matches: 118, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
39 5 0.04
40 106 0.90
41 7 0.06
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGTCTTAGCCCGGATAGAACAACTAGCACA
Found at i:119493338 original size:46 final size:45
Alignment explanation
Indices: 119493179--119493341 Score: 206
Period size: 46 Copynumber: 3.6 Consensus size: 45
119493169 TGATATGTGT
* *
119493179 GCTAGTGTAAGACATGTATAGGACATGCATCAGCCACATTATA-A-G-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG---CATTA-AGACGAA
* * *
119493225 GCCAGTGTAAGACATGTCTGAGACATGCATCAGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGACGA-A
119493271 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGACGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGACG-AA
119493317 GCTAGTGTAAGACATGTCTGGGACA
1 GCTAGTGTAAGACATGTCTGGGACA
119493342 GGGCGTCAGC
Statistics
Matches: 104, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 1 0.01
46 96 0.92
47 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGACGAA
Found at i:119493491 original size:49 final size:49
Alignment explanation
Indices: 119493381--119493491 Score: 118
Period size: 49 Copynumber: 2.3 Consensus size: 49
119493371 GACTTGTCTG
* *
119493381 GGACATGGCATCGACACCGATAGATGAGAGCTAGTGTAAAACCTATCTA
1 GGACATGGCATCGACACCGATAGATGAAAGCTAGTGTAAAACCTACCTA
* * * * **
119493430 GGACAAGACATCGGC-CTCGATATATGAAAG-TCAGTGTAAGGCCTACCTA
1 GGACATGGCATCGACAC-CGATAGATGAAAGCT-AGTGTAAAACCTACCTA
119493479 GGACATGGCATCG
1 GGACATGGCATCG
119493492 TCTTTAACAT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
48 2 0.04
49 48 0.96
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (49 bp):
GGACATGGCATCGACACCGATAGATGAAAGCTAGTGTAAAACCTACCTA
Found at i:119496132 original size:25 final size:25
Alignment explanation
Indices: 119496098--119496148 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
119496088 TTCTAGCTAC
119496098 CCATCTAGAGCTTTCCCTTTTAACA
1 CCATCTAGAGCTTTCCCTTTTAACA
*
119496123 CCATTTAGAGCTTTCCCTTTTAACA
1 CCATCTAGAGCTTTCCCTTTTAACA
119496148 C
1 C
119496149 ACTCTTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.08, T:0.37
Consensus pattern (25 bp):
CCATCTAGAGCTTTCCCTTTTAACA
Found at i:119498019 original size:20 final size:19
Alignment explanation
Indices: 119497971--119498022 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
119497961 CAAGTTTATG
*
119497971 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
119497989 GTAAAAATAATATACATAT
1 GTAAAAATAATATACATAT
*
119498008 GTATATAATAATATA
1 GTA-AAAATAATATA
119498023 TGCAATACCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:119498174 original size:20 final size:20
Alignment explanation
Indices: 119498151--119498193 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
119498141 AAGTAAAATG
119498151 AAAGAAAAAGAAAGAAGGA-A
1 AAAGAAAAAGAAA-AAGGAGA
*
119498171 AAAGAGAAAGAAAAAGGAGA
1 AAAGAAAAAGAAAAAGGAGA
119498191 AAA
1 AAA
119498194 AGCCAAGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAAAGGAGA
Found at i:119498178 original size:22 final size:21
Alignment explanation
Indices: 119498153--119498195 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
119498143 GTAAAATGAA
119498153 AGAAA-AAGAAAGAAGGAAAAAG
1 AGAAAGAA-AAAGAA-GAAAAAG
*
119498175 AGAAAGAAAAAGGAGAAAAAG
1 AGAAAGAAAAAGAAGAAAAAG
119498196 CCAAGGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 10 0.53
23 2 0.11
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
AGAAAGAAAAAGAAGAAAAAG
Found at i:119498185 original size:13 final size:12
Alignment explanation
Indices: 119498119--119498192 Score: 55
Period size: 12 Copynumber: 6.1 Consensus size: 12
119498109 TAAATGAAAT
119498119 AGAAAAAG-GAA
1 AGAAAAAGAGAA
*
119498130 TAGAAATAGAG-A
1 -AGAAAAAGAGAA
* *
119498142 AGTAAAA-TGAA
1 AGAAAAAGAGAA
119498153 AGAAAAAGAAAGAA
1 AGAAAAAG--AGAA
*
119498167 GGAAAAAGAGAA
1 AGAAAAAGAGAA
119498179 AGAAAAAGGAGAA
1 AGAAAAA-GAGAA
119498192 A
1 A
119498193 AAGCCAAGGT
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
10 1 0.02
11 12 0.25
12 18 0.38
13 7 0.15
14 10 0.21
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:119508604 original size:30 final size:30
Alignment explanation
Indices: 119508568--119508632 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
119508558 CTCCAGGCCC
* *
119508568 TGTCCTTCATAC-GACTGAGACACACGGTCT
1 TGTCCTTCACACAG-CTGAGACACACGGTCG
119508598 TGTCCTTCACACAGCTGAGACACACGGTCG
1 TGTCCTTCACACAGCTGAGACACACGGTCG
119508628 TGTCC
1 TGTCC
119508633 CTACCCGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (30 bp):
TGTCCTTCACACAGCTGAGACACACGGTCG
Found at i:119510393 original size:43 final size:43
Alignment explanation
Indices: 119510346--119510432 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
119510336 CACATGGTAC
119510346 AACATCACATTAATTATATATACTTACCATACATGCAATATCA
1 AACATCACATTAATTATATATACTTACCATACATGCAATATCA
119510389 AACATCACATTAATTATATATACTTACCATACATGCAATATCA
1 AACATCACATTAATTATATATACTTACCATACATGCAATATCA
119510432 A
1 A
119510433 GCATTTAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (43 bp):
AACATCACATTAATTATATATACTTACCATACATGCAATATCA
Found at i:119512734 original size:20 final size:19
Alignment explanation
Indices: 119512686--119512737 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
119512676 CAAGTGTGTG
*
119512686 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
119512704 GTAAAAATAATATACATAT
1 GTAAAAATAATATACATAT
*
119512723 GTATATAATAATATA
1 GTA-AAAATAATATA
119512738 TGTAATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:119512785 original size:24 final size:22
Alignment explanation
Indices: 119512740--119512797 Score: 53
Period size: 24 Copynumber: 2.5 Consensus size: 22
119512730 ATAATATATG
*
119512740 TAATACTTAATATTTAAGTATATA
1 TAATAATT-ATATTTAAGTATA-A
* * *
119512764 TATTATATTATATTTTATTATAA
1 TAATA-ATTATATTTAAGTATAA
119512787 TAATAATTATA
1 TAATAATTATA
119512798 AAAGAATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 6 0.21
23 5 0.18
24 15 0.54
25 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TAATAATTATATTTAAGTATAA
Found at i:119512831 original size:17 final size:18
Alignment explanation
Indices: 119512795--119512848 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
119512785 AATAATAATT
*
119512795 ATAAAAGAATAAACAAATA
1 ATAAAAGAA-ATACAAATA
119512814 ATAAAAGAAATA-AAATA
1 ATAAAAGAAATACAAATA
* * *
119512831 AAAAAAGGAATAGAAATA
1 ATAAAAGAAATACAAATA
119512849 GAGAAGTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.48
18 7 0.23
19 9 0.29
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (18 bp):
ATAAAAGAAATACAAATA
Found at i:119512885 original size:20 final size:20
Alignment explanation
Indices: 119512862--119512904 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
119512852 AAGTAAAATG
119512862 AAAGAAAAAGAAAGAAGGA-A
1 AAAGAAAAAGAAA-AAGGAGA
*
119512882 AAAGAGAAAGAAAAAGGAGA
1 AAAGAAAAAGAAAAAGGAGA
119512902 AAA
1 AAA
119512905 AGCTAGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAAAGGAGA
Found at i:119512889 original size:22 final size:21
Alignment explanation
Indices: 119512864--119512906 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
119512854 GTAAAATGAA
119512864 AGAAA-AAGAAAGAAGGAAAAAG
1 AGAAAGAA-AAAGAA-GAAAAAG
*
119512886 AGAAAGAAAAAGGAGAAAAAG
1 AGAAAGAAAAAGAAGAAAAAG
119512907 CTAGGGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 10 0.53
23 2 0.11
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
AGAAAGAAAAAGAAGAAAAAG
Found at i:119512896 original size:13 final size:12
Alignment explanation
Indices: 119512832--119512903 Score: 51
Period size: 12 Copynumber: 5.9 Consensus size: 12
119512822 AATAAAATAA
119512832 AAAAAG-GAATAG
1 AAAAAGAGAA-AG
*
119512844 AAATAGAG-AAG
1 AAAAAGAGAAAG
* *
119512855 TAAAA-TGAAAG
1 AAAAAGAGAAAG
*
119512866 AAAAAGAAAGAAGG
1 AAAAAG--AGAAAG
119512880 AAAAAGAGAAAG
1 AAAAAGAGAAAG
119512892 AAAAAGGAGAAA
1 AAAAA-GAGAAA
119512904 AAGCTAGGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
10 1 0.02
11 12 0.26
12 16 0.35
13 7 0.15
14 10 0.22
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.06
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:119513888 original size:40 final size:40
Alignment explanation
Indices: 119513769--119513901 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 40
119513759 CTTCAAGTCG
* ***
119513769 ATGAGACACTAGGTGTCAATTTATTACTTCGGATTAATTTG
1 ATGAGACACTGGGTGTCAATTTATTACTTCGGATT-ATCCA
* * * * * *
119513810 ATGAGGCACCGGGTGCCAA--T-TTACTTTGGTTTAGCCA
1 ATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCCA
*
119513847 ATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCCA
1 ATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCCA
*
119513887 ATGAGGCACTGGGTG
1 ATGAGACACTGGGTG
119513902 CCAAACTGGT
Statistics
Matches: 71, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
37 17 0.24
38 10 0.14
39 2 0.03
40 27 0.38
41 15 0.21
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCCA
Found at i:119515059 original size:22 final size:22
Alignment explanation
Indices: 119515031--119515074 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
119515021 TTAATTAGAA
119515031 AAAAAATCCAATTAACGTTCTT
1 AAAAAATCCAATTAACGTTCTT
*
119515053 AAAAAATCCAATTAATGTTCTT
1 AAAAAATCCAATTAACGTTCTT
119515075 TCTTCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (22 bp):
AAAAAATCCAATTAACGTTCTT
Found at i:119515106 original size:6 final size:6
Alignment explanation
Indices: 119515070--119515144 Score: 62
Period size: 6 Copynumber: 12.0 Consensus size: 6
119515060 CCAATTAATG
* * * *
119515070 TTCTTT CTTCTTT TTATTT TTATATT ATTCTTT TTCTTAT TTCTTA TTCATT
1 TTCTTT -TTCTTT TTCTTT TTCT-TT -TTCTTT TTCTT-T TTCTTT TTCTTT
*
119515122 TTCTTT GT-TTT TTCTTT TTCTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT
119515145 ACTTTCGATT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
5 4 0.07
6 33 0.59
7 16 0.29
8 3 0.05
ACGTcount: A:0.09, C:0.13, G:0.01, T:0.76
Consensus pattern (6 bp):
TTCTTT
Found at i:119515116 original size:19 final size:18
Alignment explanation
Indices: 119515094--119515144 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
119515084 TATTTTTATA
119515094 TTATTCTTTTTCTTAT-TT
1 TTATTCTTTTTCTT-TGTT
*
119515112 CTTATTCATTTTCTTTGTT
1 -TTATTCTTTTTCTTTGTT
119515131 TT-TTCTTTTTCTTT
1 TTATTCTTTTTCTTT
119515145 ACTTTCGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 11 0.38
18 3 0.10
19 15 0.52
ACGTcount: A:0.08, C:0.14, G:0.02, T:0.76
Consensus pattern (18 bp):
TTATTCTTTTTCTTTGTT
Found at i:119517161 original size:24 final size:24
Alignment explanation
Indices: 119517111--119517173 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
119517101 AACCGAATTT
* * *
119517111 GCACACATAGTGCTTATTACACTC
1 GCACACATAGTGCATAGTAAACTC
119517135 GCACACATAGTGCCATAGTAAAC-C
1 GCACACATAGTG-CATAGTAAACTC
*
119517159 GCACACATAATGCAT
1 GCACACATAGTGCAT
119517174 TGGATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.09
24 24 0.71
25 7 0.21
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (24 bp):
GCACACATAGTGCATAGTAAACTC
Found at i:119522491 original size:55 final size:54
Alignment explanation
Indices: 119522421--119522530 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 54
119522411 GCCATACTAT
119522421 TTTTAGGTTAATTCCCACCTTTATAAATTCCTAGAGTCGTCAAGCCTAGGGTTTA
1 TTTTAGGTTAATTCCCACCTTTATAAATTCCTAGAGT-GTCAAGCCTAGGGTTTA
*
119522476 TTTTAGGTTAATTCCCACCTTTGTAAATTCCTAGAGTGTCAAGCCTAGGGTTTA
1 TTTTAGGTTAATTCCCACCTTTATAAATTCCTAGAGTGTCAAGCCTAGGGTTTA
119522530 T
1 T
119522531 GTTCTCTTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 18 0.33
55 36 0.67
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (54 bp):
TTTTAGGTTAATTCCCACCTTTATAAATTCCTAGAGTGTCAAGCCTAGGGTTTA
Found at i:119523753 original size:3 final size:3
Alignment explanation
Indices: 119523724--119523824 Score: 104
Period size: 3 Copynumber: 34.7 Consensus size: 3
119523714 AAATTATATA
* * *
119523724 TAT TA- TAT TA- TAT TA- TAT AATT TAT TAT TAT AAT TAT TAAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T-AT TAT
**
119523768 TAT GGT T-T TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
119523814 TAT TAT TAT TA
1 TAT TAT TAT TA
119523825 ATAAATTAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
2 10 0.12
3 67 0.82
4 5 0.06
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:119524110 original size:33 final size:33
Alignment explanation
Indices: 119524073--119524142 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
119524063 TATTTATACA
* *
119524073 ATTATAATATT-TTATTTAAA-TCAGTAGATATTT
1 ATTAT-ATATTATTATTAAAATTAAG-AGATATTT
*
119524106 ATTATTTATTATTATTAAAATTAAGAGATATTT
1 ATTATATATTATTATTAAAATTAAGAGATATTT
119524139 ATTA
1 ATTA
119524143 ATTAAATAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 4 0.12
33 25 0.78
34 3 0.09
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.51
Consensus pattern (33 bp):
ATTATATATTATTATTAAAATTAAGAGATATTT
Found at i:119524164 original size:33 final size:33
Alignment explanation
Indices: 119524098--119524164 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
119524088 TTAAATCAGT
* *
119524098 AGATATTTATTATTTATTATTATTAAAATTAAG
1 AGATATTTATTATTAAATATTATTAAAATTAAG
119524131 AGATATTTATTAATTAAATAGTTA-TAAAA-TAAG
1 AGATATTTATT-ATTAAATA-TTATTAAAATTAAG
119524164 A
1 A
119524165 TTTTTATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 16 0.53
34 11 0.37
35 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (33 bp):
AGATATTTATTATTAAATATTATTAAAATTAAG
Found at i:119524311 original size:15 final size:14
Alignment explanation
Indices: 119524286--119524337 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
119524276 ATTTATTAAT
*
119524286 TAAATATAATATAAA
1 TAAATAAAATA-AAA
119524301 TAAATAAAATAAAAA
1 TAAATAAAAT-AAAA
*
119524316 GAAATAAAGCATAAAA
1 TAAATAAA--ATAAAA
119524332 TAAATA
1 TAAATA
119524338 GAAACAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 19 0.61
16 10 0.32
17 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (14 bp):
TAAATAAAATAAAA
Found at i:119525643 original size:24 final size:23
Alignment explanation
Indices: 119525590--119525756 Score: 210
Period size: 24 Copynumber: 7.0 Consensus size: 23
119525580 TGCTTTATCA
*
119525590 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
* *
119525614 TAATAACTAGGGCAAAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
119525638 CTATAACTGGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTT
* *
119525662 AATAACTGGGGCGTAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
119525685 TGATAACTGGGGCGTAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
119525709 TGATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
*
119525733 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
119525756 T
1 T
119525757 GCACTTCCTC
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
23 43 0.34
24 73 0.57
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:119525667 original size:47 final size:47
Alignment explanation
Indices: 119525590--119525756 Score: 221
Period size: 47 Copynumber: 3.5 Consensus size: 47
119525580 TGCTTTATCA
* * *
119525590 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTAGGGCAAAAGCCCTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTT
*
119525638 CTATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
* *
119525685 TGATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
*
119525733 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
119525757 GCACTTCCTC
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
46 1 0.01
47 63 0.59
48 29 0.27
49 13 0.12
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (47 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
Found at i:119525691 original size:71 final size:71
Alignment explanation
Indices: 119525591--119525757 Score: 239
Period size: 71 Copynumber: 2.3 Consensus size: 71
119525581 GCTTTATCAT
* *
119525591 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTCT-ATAACTGGGGCATA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTAGGGCAAAAGCCCTTT-TGATAACTGGGGCATA
119525654 AGCCCTTTA
63 AGCCCTTTA
* * **
119525663 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
119525728 CCTTTA
66 CCTTTA
119525734 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
119525758 CACTTCCTCC
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
70 1 0.01
71 74 0.85
72 12 0.14
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:119525830 original size:20 final size:20
Alignment explanation
Indices: 119525802--119525872 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
119525792 GCATTTATGA
*
119525802 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
119525822 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
119525842 ACATGTTATGTGCATATCAT
1 ACATATCATGTGCATATCAT
119525862 ACATATCATGT
1 ACATATCATGT
119525873 TTATCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:119525951 original size:25 final size:24
Alignment explanation
Indices: 119525909--119525956 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
119525899 ATACATAAAC
* * *
119525909 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
119525934 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
119525957 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:119527212 original size:27 final size:27
Alignment explanation
Indices: 119527192--119527315 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 27
119527182 AGGGTAGTTT
* *
119527192 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
119527219 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * ** *
119527246 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
119527273 AGTAATTCTAT-AACCTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
*
119527300 GGTAATTCTGTAAATC
1 AGTAATTCTGTAAATC
119527316 GGGAGTACTT
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.04
27 75 0.93
28 3 0.04
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:119527224 original size:54 final size:55
Alignment explanation
Indices: 119527143--119527306 Score: 129
Period size: 54 Copynumber: 3.0 Consensus size: 55
119527133 ATTTTGGTAG
* *** * ****
119527143 TTTTACAAATTGAGGGTATTGCGGTAATTTC-ACAAACCAAGGGTAGTTTAGTAA
1 TTTTACAAATCGAGGGTAAAACAGTAATTTCTACAAACCAAGGGTAAAACAGTAA
** ** * *
119527197 TTTTGTAAATCGAGGGTAAAACAGTAA-TTCTGTAAATCAAGGGTAAAACGGTAA
1 TTTTACAAATCGAGGGTAAAACAGTAATTTCTACAAACCAAGGGTAAAACAGTAA
* * *
119527251 TTTTACAAATCGAGGGTAAAACAGTAA-TTCTA-TAACCTGAGGGTAAAACGGTAA
1 TTTTACAAATCGAGGGTAAAACAGTAATTTCTACAAACC-AAGGGTAAAACAGTAA
119527305 TT
1 TT
119527307 CTGTAAATCG
Statistics
Matches: 87, Mismatches: 21, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
53 6 0.07
54 81 0.93
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (55 bp):
TTTTACAAATCGAGGGTAAAACAGTAATTTCTACAAACCAAGGGTAAAACAGTAA
Found at i:119527252 original size:81 final size:81
Alignment explanation
Indices: 119527164--119527315 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
119527154 GAGGGTATTG
**** * * *
119527164 CGGTAATTTCACAAACCAAGGGTAGTTTAGTAATTTTGTAA-ATCGAGGGTAAAACAGTAATTCT
1 CGGTAATTTCACAAACCAAGGGTAAAACAGTAATTCTATAACCT-GAGGGTAAAACAGTAATTCT
119527228 GTAAATCAAGGGTAAAA
65 GTAAATCAAGGGTAAAA
* * * *
119527245 CGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAACCTGAGGGTAAAACGGTAATTCTG
1 CGGTAATTTCACAAACCAAGGGTAAAACAGTAATTCTATAACCTGAGGGTAAAACAGTAATTCTG
119527310 TAAATC
66 TAAATC
119527316 GGGAGTACTT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 58 0.98
82 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.28
Consensus pattern (81 bp):
CGGTAATTTCACAAACCAAGGGTAAAACAGTAATTCTATAACCTGAGGGTAAAACAGTAATTCTG
TAAATCAAGGGTAAAA
Found at i:119527315 original size:54 final size:54
Alignment explanation
Indices: 119527193--119527316 Score: 178
Period size: 54 Copynumber: 2.3 Consensus size: 54
119527183 GGGTAGTTTA
*
119527193 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACG
** * *
119527247 GTAATTTTACAAATCGAGGGTAAAACAGTAATTCTAT-AACCTGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATC-AAGGGTAAAACG
*
119527301 GTAATTCTGTAAATCG
1 GTAATTTTGTAAATCG
119527317 GGAGTACTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 3 0.05
54 58 0.95
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (54 bp):
GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACG
Found at i:119530464 original size:24 final size:23
Alignment explanation
Indices: 119530411--119530577 Score: 219
Period size: 24 Copynumber: 7.0 Consensus size: 23
119530401 TGCTTTATCA
*
119530411 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
119530435 TAATAACTGGGGCAAAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
119530459 CTATAACTGGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTT
* *
119530483 AATAACTGGGGCGTAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
119530506 TGATAACTGGGGCGTAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
119530530 TGATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
*
119530554 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
119530577 T
1 T
119530578 GCACTTCCTC
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
23 43 0.33
24 74 0.57
25 13 0.10
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:119530488 original size:47 final size:47
Alignment explanation
Indices: 119530411--119530577 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 47
119530401 TGCTTTATCA
* *
119530411 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTT
*
119530459 CTATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
* *
119530506 TGATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
*
119530554 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
119530578 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
46 1 0.01
47 64 0.60
48 29 0.27
49 13 0.12
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (47 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
Found at i:119530512 original size:71 final size:71
Alignment explanation
Indices: 119530412--119530578 Score: 248
Period size: 71 Copynumber: 2.3 Consensus size: 71
119530402 GCTTTATCAT
* *
119530412 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCT-ATAACTGGGGCATA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTT-TGATAACTGGGGCATA
119530475 AGCCCTTTA
63 AGCCCTTTA
* **
119530484 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
119530549 CCTTTA
66 CCTTTA
119530555 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
119530579 CACTTCCTCC
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
70 1 0.01
71 75 0.85
72 12 0.14
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:119530649 original size:9 final size:9
Alignment explanation
Indices: 119530635--119530691 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
119530625 ATCTCATGTG
119530635 CATATCATA
1 CATATCATA
*
119530644 CATATCATGTG
1 CATATCA--TA
119530655 CATATCATA
1 CATATCATA
* *
119530664 CATGTCATGTG
1 CATATCA--TA
119530675 CATATCATA
1 CATATCATA
119530684 CATATCAT
1 CATATCAT
119530692 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:119530651 original size:20 final size:20
Alignment explanation
Indices: 119530623--119530693 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
119530613 GCATTTATGA
*
119530623 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
119530643 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
119530663 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
119530683 ACATATCATGT
1 ACATATCATGT
119530694 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:119530658 original size:11 final size:11
Alignment explanation
Indices: 119530628--119530682 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
119530618 TATGAACATC
119530628 TCATGTGCATA
1 TCATGTGCATA
*
119530639 TCA--TACATA
1 TCATGTGCATA
119530648 TCATGTGCATA
1 TCATGTGCATA
* *
119530659 TCA--TACATG
1 TCATGTGCATA
119530668 TCATGTGCATA
1 TCATGTGCATA
119530679 TCAT
1 TCAT
119530683 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:119530772 original size:25 final size:24
Alignment explanation
Indices: 119530730--119530777 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
119530720 ATATATAAAC
* * *
119530730 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
119530755 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
119530778 CATATTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:119532034 original size:27 final size:27
Alignment explanation
Indices: 119532013--119532137 Score: 108
Period size: 27 Copynumber: 4.6 Consensus size: 27
119532003 AAGGGTAGTT
* *
119532013 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
119532040 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
** * ** *
119532067 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
* * * *
119532094 CAGTAATTCTAT-AACCTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-AAGGGTAAAA
**
119532121 CGGTAATTCTGTAAATC
1 TAGTAATTCTGTAAATC
119532138 GGGAGTACTT
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.04
27 75 0.93
28 3 0.04
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCAAGGGTAAAA
Found at i:119532137 original size:54 final size:54
Alignment explanation
Indices: 119532015--119532138 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 54
119532005 GGGTAGTTTA
* *
119532015 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACG
** * *
119532069 GTAATTTTACAAATCGAGGGTAAAACAGTAATTCTAT-AACCTGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATC-AAGGGTAAAACG
*
119532123 GTAATTCTGTAAATCG
1 GTAATTTTGTAAATCG
119532139 GGAGTACTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
53 3 0.05
54 57 0.95
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (54 bp):
GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACG
Found at i:119534088 original size:51 final size:50
Alignment explanation
Indices: 119533973--119534092 Score: 133
Period size: 45 Copynumber: 2.5 Consensus size: 50
119533963 CAGGCACTTA
* * * *
119533973 TGTGCCGACTACTGTTACTGTTACCATTACTGTTACCGATTCGACACTTTG
1 TGTGTCGA-TACTGTTATTGTTACCATTACTGTTACAGATTCAACACTTTG
*
119534024 TGTGTCGA-A----TATTGTTACCGTTACTGTTACAGATTCAACACTTTG
1 TGTGTCGATACTGTTATTGTTACCATTACTGTTACAGATTCAACACTTTG
*
119534069 TGTGTTGAATACTGTTATTGTTAC
1 TGTGTCG-ATACTGTTATTGTTAC
119534093 TGCTACTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
45 38 0.67
46 1 0.02
47 1 0.02
49 1 0.02
51 16 0.28
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (50 bp):
TGTGTCGATACTGTTATTGTTACCATTACTGTTACAGATTCAACACTTTG
Found at i:119534092 original size:45 final size:45
Alignment explanation
Indices: 119533988--119534094 Score: 151
Period size: 45 Copynumber: 2.4 Consensus size: 45
119533978 CGACTACTGT
* * *
119533988 TACTGTTACCATTACTGTTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
* *
119534033 TATTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
**
119534078 TACTGTTATTGTTACTG
1 TACTGTTACCGTTACTG
119534095 CTACTGCTAC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
Found at i:119540131 original size:2 final size:2
Alignment explanation
Indices: 119540124--119540152 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
119540114 TTTATTTAAT
119540124 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
119540153 ATTGATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:119540172 original size:3 final size:3
Alignment explanation
Indices: 119540157--119540207 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
119540147 TATATAATTG
* * *
119540157 ATT ATT ATA ATT ATT AATT ATT ATG GTT -TT A-T ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
119540201 ATT ATT A
1 ATT ATT A
119540208 AATAAATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.82
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:119540176 original size:16 final size:17
Alignment explanation
Indices: 119540157--119540205 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
119540147 TATATAATTG
119540157 ATTATTATAATTATTA-
1 ATTATTATAATTATTAT
**
119540173 ATTATTATGGTT-TTAT
1 ATTATTATAATTATTAT
*
119540189 ATTATTATTATTATTAT
1 ATTATTATAATTATTAT
119540206 TAAATAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 3 0.11
16 20 0.74
17 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (17 bp):
ATTATTATAATTATTAT
Found at i:119540538 original size:38 final size:37
Alignment explanation
Indices: 119540445--119540538 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 37
119540435 TGTAATGATA
* *
119540445 ATATTTATACAATTATAATATT-TTATTTAAATTAGTAG
1 ATATTTAT-TAATTA-AATATTATTATTAAAATTAGTAG
119540483 ATATTTATT-ATT---TATTATTATTAAAATTAAG-AG
1 ATATTTATTAATTAAATATTATTATTAAAATT-AGTAG
119540516 ATATTTATTAATTAAATAATTAT
1 ATATTTATTAATTAAAT-ATTAT
119540539 AAAATAAGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
32 4 0.09
33 21 0.45
34 5 0.11
36 3 0.06
37 1 0.02
38 13 0.28
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTTATTAATTAAATATTATTATTAAAATTAGTAG
Found at i:119540547 original size:33 final size:33
Alignment explanation
Indices: 119540467--119540547 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
119540457 TTATAATATT
* * *
119540467 TTATTTAAATT-AGTAGATATTTATTATTTATTA
1 TTATTAAAATTAAG-AGATATTTATTATTAATAA
119540500 TTATTAAAATTAAGAGATATTTATTAATTAAATAA
1 TTATTAAAATTAAGAGATATTTATT-ATT-AATAA
119540535 TTA-TAAAA-TAAGA
1 TTATTAAAATTAAGA
119540548 TTTTTATGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.62
34 10 0.24
35 6 0.14
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (33 bp):
TTATTAAAATTAAGAGATATTTATTATTAATAA
Found at i:119540714 original size:22 final size:20
Alignment explanation
Indices: 119540679--119540728 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
119540669 AATATAATAT
119540679 AAATAAAATAAAATAAAAAG
1 AAATAAAATAAAATAAAAAG
*
119540699 AAATAAAGCATAAAATAAATAG
1 AAATAAA--ATAAAATAAAAAG
*
119540721 AAACAAAA
1 AAATAAAA
119540729 CAAACAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 8 0.31
22 18 0.69
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (20 bp):
AAATAAAATAAAATAAAAAG
Found at i:119541852 original size:45 final size:45
Alignment explanation
Indices: 119541794--119541903 Score: 141
Period size: 45 Copynumber: 2.4 Consensus size: 45
119541784 GACTACTGTT
** * *
119541794 ACTGTTATTGTTACTGTTACCGATTC-GACACTTTGTGTGTCGAAT
1 ACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAAA
* *
119541839 ATTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAAA
1 ACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAAA
*
119541884 ACTGTTACTGTTACTGTTAC
1 ACTGTTACCGTTACTGTTAC
119541904 TGCTACTGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 55 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (45 bp):
ACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAAA
Found at i:119541910 original size:18 final size:18
Alignment explanation
Indices: 119541883--119541930 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
119541873 GTGTGTTGAA
* *
119541883 AACTGTTACTGTTACTGT
1 AACTGTTACTGCTACCGT
* *
119541901 TACTGCTACTGCTACCGT
1 AACTGTTACTGCTACCGT
119541919 AACTGATTACTG
1 AACTG-TTACTG
119541931 ATTAGGTACT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (18 bp):
AACTGTTACTGCTACCGT
Found at i:119542584 original size:15 final size:15
Alignment explanation
Indices: 119542564--119542594 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
119542554 TGTGAAATAA
119542564 TTTGGTTGAATTGGT
1 TTTGGTTGAATTGGT
119542579 TTTGGTTGAATTGGT
1 TTTGGTTGAATTGGT
119542594 T
1 T
119542595 ATGCTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.32, T:0.55
Consensus pattern (15 bp):
TTTGGTTGAATTGGT
Found at i:119542602 original size:15 final size:15
Alignment explanation
Indices: 119542569--119542603 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
119542559 AATAATTTGG
* *
119542569 TTGAATTGGTTTTGG
1 TTGAATTGGTTATGC
119542584 TTGAATTGGTTATGC
1 TTGAATTGGTTATGC
119542599 TTGAA
1 TTGAA
119542604 ATGGATATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.29, T:0.49
Consensus pattern (15 bp):
TTGAATTGGTTATGC
Found at i:119543803 original size:3 final size:3
Alignment explanation
Indices: 119543795--119543824 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
119543785 GTGGCTGTTA
119543795 TAT TAT TAT TAT TAT TAT TAT TATT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA
119543825 CAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:119544759 original size:3 final size:3
Alignment explanation
Indices: 119544751--119544813 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
119544741 AACCAAGTAA
119544751 AAT AAT 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 AAT AAT
119544799 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
119544814 TGCTTTGACT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:119546614 original size:9 final size:9
Alignment explanation
Indices: 119546585--119546642 Score: 50
Period size: 8 Copynumber: 6.7 Consensus size: 9
119546575 AATCATTTTT
119546585 AAAATTA-A
1 AAAATTATA
*
119546593 AATATTAATA
1 AAAATT-ATA
119546603 AAAATTATA
1 AAAATTATA
119546612 AAAA-TATA
1 AAAATTATA
* *
119546620 AGAATT-TT
1 AAAATTATA
*
119546628 AAAATTTTA
1 AAAATTATA
119546637 AAAATT
1 AAAATT
119546643 TCTAAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
8 18 0.45
9 16 0.40
10 6 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (9 bp):
AAAATTATA
Found at i:119546643 original size:17 final size:17
Alignment explanation
Indices: 119546600--119546650 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
119546590 TAAAATATTA
* *
119546600 ATAAAAATTATAAAAAT
1 ATAAAAATTTTAAAATT
*
119546617 ATAAGAATTTTAAAATT
1 ATAAAAATTTTAAAATT
*
119546634 TTAAAAATTTCTAAAAT
1 ATAAAAATTT-TAAAAT
119546651 AAAAATTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 22 0.79
18 6 0.21
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
ATAAAAATTTTAAAATT
Found at i:119551030 original size:203 final size:200
Alignment explanation
Indices: 119550645--119551045 Score: 502
Period size: 203 Copynumber: 2.0 Consensus size: 200
119550635 TTTTTTTTAT
* * **
119550645 TTTTTTAATTTGGTTATGCCAACTTTAACTGTTTTGTCACTCATCTGTTCTTCTCATTCTGATTG
1 TTTTTTAATTTGGTTATGCCAACTGTAACTGTTTTGTCACTCATCTGTTCTTCTCATGCTGAAAG
* * * * * ** *
119550710 GGATACAAAATTGTAATTTCTTTTCCGTAGTCTCCCTCCTTTTTCTTCCTCATGCTATCAGTCAA
66 GGATACAAAAATGAAATTTCTTTTCCCTAGTCTCCCTCCTTTCTCTTCCACACACTAACAGTCAA
* * * *
119550775 GAACTAGAATTTCTAACTGAATTGGGGAGAACATAACCTGTTTTAACTTCCATTGCTGATATTGA
131 GAACTAGAATTTCTAACTGAATTAGGGAGAACACAACCTGTGTTAACTTCCATTGCTAATATTGA
119550840 TTTTC
196 TTTTC
* * *
119550845 TTTTTT-ATTTGGTTATGCCATCTGTAACTGTTTTGTCATTCTTCTGTTCTTCCTCATGCTGAAA
1 TTTTTTAATTTGGTTATGCCAACTGTAACTGTTTTGTCACTCATCTGTTCTT-CTCATGCTGAAA
*
119550909 GGGATACAAAAATGAAATTTCTTTTCCACT-GTCTCCTTCCTTTCTCTTCTTCACACACTCAACA
65 GGGATACAAAAATGAAATTTCTTTTCC-CTAGTCTCCCTCCTTTCTCTTC--CACACACT-AACA
* * * *
119550973 GTCAAGAACTAGAGTTTTTAACTG-ATATAGGGAGAACACAACTTGTGTTAGCTTCCATTGCTAA
126 GTCAAGAACTAGAATTTCTAACTGAAT-TAGGGAGAACACAACCTGTGTTAACTTCCATTGCTAA
*
119551037 TATTTATTT
190 TATTGATTT
119551046 ATTAACATAC
Statistics
Matches: 170, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
199 41 0.24
200 57 0.34
201 1 0.01
202 7 0.04
203 64 0.38
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.42
Consensus pattern (200 bp):
TTTTTTAATTTGGTTATGCCAACTGTAACTGTTTTGTCACTCATCTGTTCTTCTCATGCTGAAAG
GGATACAAAAATGAAATTTCTTTTCCCTAGTCTCCCTCCTTTCTCTTCCACACACTAACAGTCAA
GAACTAGAATTTCTAACTGAATTAGGGAGAACACAACCTGTGTTAACTTCCATTGCTAATATTGA
TTTTC
Found at i:119554788 original size:16 final size:18
Alignment explanation
Indices: 119554762--119554794 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
119554752 TTACTTTAGA
119554762 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
119554779 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
119554795 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:119559473 original size:24 final size:24
Alignment explanation
Indices: 119559445--119559493 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
119559435 ATATATTTTT
*
119559445 TTTAAAAGATTTAGTATTTATTAA
1 TTTAAAAGATTTAGCATTTATTAA
* *
119559469 TTTAATATATTTAGCATTTATTAA
1 TTTAAAAGATTTAGCATTTATTAA
119559493 T
1 T
119559494 ATAATTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (24 bp):
TTTAAAAGATTTAGCATTTATTAA
Found at i:119559498 original size:24 final size:24
Alignment explanation
Indices: 119559453--119559504 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
119559443 TTTTTAAAAG
* *
119559453 ATTTAGTATTTATTAATTTAATAT
1 ATTTAGCATTTATTAATATAATAT
*
119559477 ATTTAGCATTTATTAATATAATTT
1 ATTTAGCATTTATTAATATAATAT
119559501 ATTT
1 ATTT
119559505 GACCGACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
ATTTAGCATTTATTAATATAATAT
Found at i:119564970 original size:18 final size:18
Alignment explanation
Indices: 119564947--119564997 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 18
119564937 GAGGAATGGA
119564947 TAGAATTCAACACTATTC
1 TAGAATTCAACACTATTC
119564965 TAGAATTCAACAACACTATTC
1 TAGAATT---CAACACTATTC
119564986 TAGAATTCAACA
1 TAGAATTCAACA
119564998 AGGTTCTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 12 0.40
21 18 0.60
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (18 bp):
TAGAATTCAACACTATTC
Found at i:119564980 original size:21 final size:21
Alignment explanation
Indices: 119564954--119564998 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
119564944 GGATAGAATT
119564954 CAACACTATTCTAGAATTCAA
1 CAACACTATTCTAGAATTCAA
119564975 CAACACTATTCTAGAATTCAA
1 CAACACTATTCTAGAATTCAA
119564996 CAA
1 CAA
119564999 GGTTCTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.24, G:0.04, T:0.27
Consensus pattern (21 bp):
CAACACTATTCTAGAATTCAA
Found at i:119572476 original size:18 final size:18
Alignment explanation
Indices: 119572436--119572497 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
119572426 CAAGCAAGTC
**
119572436 TGCGAGCTCACCAAAAGCA
1 TGCGAGCTCATAAAAAG-A
*
119572455 -GCGAGCTCTATTAAAAG-
1 TGCGAGCTC-ATAAAAAGA
119572472 TGCGAGCTCATAAAAAGA
1 TGCGAGCTCATAAAAAGA
119572490 TGCGAGCT
1 TGCGAGCT
119572498 TAACTTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.19
18 24 0.65
19 6 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (18 bp):
TGCGAGCTCATAAAAAGA
Found at i:119573427 original size:29 final size:29
Alignment explanation
Indices: 119573385--119573440 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
119573375 TCCTGAGTTA
119573385 ACTAAAATTGTGATTTCGATAGAAATTCG
1 ACTAAAATTGTGATTTCGATAGAAATTCG
* * *
119573414 ACTACAATTGTGATTTTGGTAGAAATT
1 ACTAAAATTGTGATTTCGATAGAAATT
119573441 GCTTAGGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (29 bp):
ACTAAAATTGTGATTTCGATAGAAATTCG
Found at i:119574570 original size:63 final size:64
Alignment explanation
Indices: 119574447--119574570 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 64
119574437 ACAATTTAGA
* *
119574447 CATTCAAACAAAACTTAGTTTCATCAATTGAAACATAAAAATCTTTGTCATTAGATGAACCGAG
1 CATTCAAACAAAACTTAGTTTCATCAATAGAAACATAAAAATCTTTGTCATCAGATGAACCGAG
* * * * *
119574511 CATTCGAACAAAACTTGGTTTCAT-TATAGAAATATACAAATCTTTGTCATCAGATGAACC
1 CATTCAAACAAAACTTAGTTTCATCAATAGAAACATAAAAATCTTTGTCATCAGATGAACC
119574571 ATACTAAACA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
63 31 0.58
64 22 0.42
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (64 bp):
CATTCAAACAAAACTTAGTTTCATCAATAGAAACATAAAAATCTTTGTCATCAGATGAACCGAG
Found at i:119577650 original size:16 final size:16
Alignment explanation
Indices: 119577626--119577658 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
119577616 GTGAGTGATC
*
119577626 TCCACCGAGCTTCCAA
1 TCCAACGAGCTTCCAA
119577642 TCCAACGAGCTTCCAA
1 TCCAACGAGCTTCCAA
119577658 T
1 T
119577659 TTACTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.39, G:0.12, T:0.21
Consensus pattern (16 bp):
TCCAACGAGCTTCCAA
Found at i:119582189 original size:2 final size:2
Alignment explanation
Indices: 119582182--119582217 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
119582172 CTCATTTCAC
119582182 AT AT AT AT 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 AT AT AT AT
119582218 TTACCATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:119587009 original size:22 final size:23
Alignment explanation
Indices: 119586975--119587017 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
119586965 AACTGATGCC
*
119586975 AATGTCACGATACC-AAGACATT
1 AATGTCACAATACCGAAGACATT
*
119586997 AATGTCTCAATACCGAAGACA
1 AATGTCACAATACCGAAGACA
119587018 GAAGCCGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.21
Consensus pattern (23 bp):
AATGTCACAATACCGAAGACATT
Found at i:119587491 original size:14 final size:14
Alignment explanation
Indices: 119587452--119587492 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
119587442 ATCCATAAGC
119587452 ATCTCTTTTCTTT-T
1 ATCTC-TTTCTTTAT
119587466 AT-TCTATTCTTTAT
1 ATCTCT-TTCTTTAT
119587480 ATCTCTTTCTTTA
1 ATCTCTTTCTTTA
119587493 ACATTGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 1 0.04
13 8 0.33
14 12 0.50
15 3 0.12
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.66
Consensus pattern (14 bp):
ATCTCTTTCTTTAT
Found at i:119589334 original size:12 final size:12
Alignment explanation
Indices: 119589319--119589360 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
119589309 GTTTATTCCC
119589319 TGTTTTAAATTT
1 TGTTTTAAATTT
*
119589331 TGTTTTAAAATT
1 TGTTTTAAATTT
*
119589343 TGTTTT-ATTTT
1 TGTTTTAAATTT
119589354 TGTTTTA
1 TGTTTTA
119589361 CTTTTATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (12 bp):
TGTTTTAAATTT
Found at i:119589402 original size:21 final size:22
Alignment explanation
Indices: 119589357--119589402 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
119589347 TTATTTTTGT
*
119589357 TTTACTTTTATTTTTTTATTCA
1 TTTACTTTTATTTTTTTAATCA
119589379 TTTA-TTTTATTTTTATTAAT-A
1 TTTACTTTTATTTTT-TTAATCA
119589400 TTT
1 TTT
119589403 GTTGTGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTACTTTTATTTTTTTAATCA
Found at i:119603144 original size:37 final size:37
Alignment explanation
Indices: 119603094--119603167 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
119603084 GATCGATGTC
*
119603094 GTTGTGATTAGCCA-AATG-TATTGGCTTATAATGATTT
1 GTTGTGATTAGCCATGA-GATA-TGGCTTATAATGATTT
119603131 GTTGT-ATGTAGCCATGAGATATGGCTTATAATGATTT
1 GTTGTGAT-TAGCCATGAGATATGGCTTATAATGATTT
119603168 TGGCTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
36 2 0.06
37 28 0.85
38 3 0.09
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (37 bp):
GTTGTGATTAGCCATGAGATATGGCTTATAATGATTT
Found at i:119618844 original size:37 final size:37
Alignment explanation
Indices: 119618794--119618867 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
119618784 GATCGATGTC
*
119618794 GTTGTGATTAGCCA-AATG-TATTGGCTTATAATGATTT
1 GTTGTGATTAGCCATGA-GATA-TGGCTTATAATGATTT
119618831 GTTGT-ATGTAGCCATGAGATATGGCTTATAATGATTT
1 GTTGTGAT-TAGCCATGAGATATGGCTTATAATGATTT
119618868 TGGCTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
36 2 0.06
37 28 0.85
38 3 0.09
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (37 bp):
GTTGTGATTAGCCATGAGATATGGCTTATAATGATTT
Found at i:119619553 original size:537 final size:537
Alignment explanation
Indices: 119618532--119619608 Score: 1965
Period size: 537 Copynumber: 2.0 Consensus size: 537
119618522 TTGACCAGAA
119618532 TATGAATAAAAGCATAATTATAGTTGTTTTACCTAAGGAAACATGCTATTATAATGCTTATTATT
1 TATGAATAAAAGCATAATTATAGTTGTTTTACCTAAGGAAACATGCTATTATAATGCTTATTATT
119618597 TTCATATGGACTTACTAAGCGTAAAGCTTACTTCCCCTTTCCATCTTTTTAGTTTTGACAGGTCA
66 TTCATATGGACTTACTAAGCGTAAAGCTTACTTCCCCTTTCCATCTTTTTAGTTTTGACAGGTCA
119618662 GCTCGAGGTTGGAGATCATCGGAGGCAGCATCACACTATCGAGCCTTTACCCTTGGAGTATTGAC
131 GCTCGAGGTTGGAGATCATCGGAGGCAGCATCACACTATCGAGCCTTTACCCTTGGAGTATTGAC
*
119618727 ATGTATCTGTTAAACGTGTTCAAGTGAGTGACATGTATAAGGACATAGCTTTTCTATGATCGATG
196 ATGTATATGTTAAACGTGTTCAAGTGAGTGACATGTATAAGGACATAGCTTTTCTATGATCGATG
*
119618792 TCGTTGTGATTAGCCAAATGTATTGGCTTATAATGATTTGTTGTATGTAGCCATGAGATATGGCT
261 TCGTTGTGATTAGCCAAATGTATTGGCTTATAATGATTTGTTATATGTAGCCATGAGATATGGCT
* *
119618857 TATAATGATTTTGGCTTGTAAGCCTATTCATCCATGATATGTGTAAATGTCTTGTGATGTGGGTA
326 TATAATGATTTTGGCTTGTAAGCCTATTCATCCATGATATGTGTAAATGTCTTGTAACGTGGGTA
*
119618922 TGTGATTATGCTTGTTCACTATGTATAAGAAGTATATGGAATATGTACATGGTGAACGCCTTAGG
391 TGTGATTATACTTGTTCACTATGTATAAGAAGTATATGGAATATGTACATGGTGAACGCCTTAGG
* * *
119618987 GCCATTTGAGGTGGTCATGGCTATGGAATAAATGTGTGATATAGTAATAAGTTGTTAGTTCCTTG
456 GCCATTTGAGGTGGTCATGACTATGGAATAAATGTGTGATATAGTAATAAGTTGTTAGTGCCCTG
119619052 AACATGGATGTTTAATT
521 AACATGGATGTTTAATT
119619069 TATGAATAAAAGCATAATTATAGTTGTTTTACCTAAGGAAACATGCTATTATAATGCTTATTATT
1 TATGAATAAAAGCATAATTATAGTTGTTTTACCTAAGGAAACATGCTATTATAATGCTTATTATT
* *
119619134 TTCATATGGACTTACTAAGTGTAAAGCTTACTTCCCCTTTCCATCTTTTTGGTTTTGACAGGTCA
66 TTCATATGGACTTACTAAGCGTAAAGCTTACTTCCCCTTTCCATCTTTTTAGTTTTGACAGGTCA
* * *
119619199 GCTTGGGGTTGGAGATCGTCGGAGGCAGCATCACACTATCGAGCCTTTACCCTTGGAGTATTGAC
131 GCTCGAGGTTGGAGATCATCGGAGGCAGCATCACACTATCGAGCCTTTACCCTTGGAGTATTGAC
* * *
119619264 ATGTATATGTTAAACGTGTTCAAGTGAGTGACATGTTTAGGGACATAGTTTTTCTATGATCGATG
196 ATGTATATGTTAAACGTGTTCAAGTGAGTGACATGTATAAGGACATAGCTTTTCTATGATCGATG
*
119619329 TCGTTGTGATTAGCCAAATGTATTGGCTTATAATGATTTGTTATATGTAGCCATGAGATGTGGCT
261 TCGTTGTGATTAGCCAAATGTATTGGCTTATAATGATTTGTTATATGTAGCCATGAGATATGGCT
*
119619394 TATAATGATTTTGGCTTGTAAGCTTATTCATCCATGATATGTGTAAATGTCTTGTAACGTGGGTA
326 TATAATGATTTTGGCTTGTAAGCCTATTCATCCATGATATGTGTAAATGTCTTGTAACGTGGGTA
*
119619459 TGTGATTATACTTGTTCACTATGTATAAGAAGTATATGGCATATGTACATGGTGAACGCCTTAGG
391 TGTGATTATACTTGTTCACTATGTATAAGAAGTATATGGAATATGTACATGGTGAACGCCTTAGG
* *
119619524 GCTATTTGAGGTGGTCATGACTGTGGAATAAATGTGTGATATAGTAATAAGTTGTTAGTGCCCTG
456 GCCATTTGAGGTGGTCATGACTATGGAATAAATGTGTGATATAGTAATAAGTTGTTAGTGCCCTG
119619589 AACATGGATGTTTAATT
521 AACATGGATGTTTAATT
119619606 TAT
1 TAT
119619609 AAGTTAGTAA
Statistics
Matches: 519, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
537 519 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (537 bp):
TATGAATAAAAGCATAATTATAGTTGTTTTACCTAAGGAAACATGCTATTATAATGCTTATTATT
TTCATATGGACTTACTAAGCGTAAAGCTTACTTCCCCTTTCCATCTTTTTAGTTTTGACAGGTCA
GCTCGAGGTTGGAGATCATCGGAGGCAGCATCACACTATCGAGCCTTTACCCTTGGAGTATTGAC
ATGTATATGTTAAACGTGTTCAAGTGAGTGACATGTATAAGGACATAGCTTTTCTATGATCGATG
TCGTTGTGATTAGCCAAATGTATTGGCTTATAATGATTTGTTATATGTAGCCATGAGATATGGCT
TATAATGATTTTGGCTTGTAAGCCTATTCATCCATGATATGTGTAAATGTCTTGTAACGTGGGTA
TGTGATTATACTTGTTCACTATGTATAAGAAGTATATGGAATATGTACATGGTGAACGCCTTAGG
GCCATTTGAGGTGGTCATGACTATGGAATAAATGTGTGATATAGTAATAAGTTGTTAGTGCCCTG
AACATGGATGTTTAATT
Found at i:119624360 original size:23 final size:23
Alignment explanation
Indices: 119624315--119624371 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
119624305 TTATTAGGTT
*
119624315 TCACCCTAATCTGGAAAAATCTTA
1 TCACCCT-ATCCGGAAAAATCTTA
*
119624339 TCACCCTATCCGGCAAAATCTTA
1 TCACCCTATCCGGAAAAATCTTA
119624362 TCACCCTATC
1 TCACCCTATC
119624372 TCTAGGCGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 24 0.77
24 7 0.23
ACGTcount: A:0.32, C:0.33, G:0.07, T:0.28
Consensus pattern (23 bp):
TCACCCTATCCGGAAAAATCTTA
Found at i:119636634 original size:46 final size:46
Alignment explanation
Indices: 119636584--119636759 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
119636574 TGGTTGAGCA
119636584 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
119636630 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
119636675 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
119636723 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
119636760 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:119636740 original size:93 final size:93
Alignment explanation
Indices: 119636581--119636752 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
119636571 GGATGGTTGA
* *
119636581 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
119636646 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
119636674 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
119636739 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
119636753 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:119644293 original size:93 final size:92
Alignment explanation
Indices: 119644135--119644305 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
119644125 GGATGGTTGA
* *
119644135 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
119644200 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
119644227 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
119644292 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
119644306 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 24 0.32
93 51 0.68
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:119644303 original size:46 final size:46
Alignment explanation
Indices: 119644139--119644312 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
119644129 GGTTGAGCAT
* *
119644139 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
119644184 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
119644229 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
119644277 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
119644313 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 23 0.21
46 41 0.38
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:119650542 original size:21 final size:20
Alignment explanation
Indices: 119650497--119650542 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
119650487 CTTAAACCAG
* *
119650497 GAACACGGGCGTGGAGGACC
1 GAACACGGGCGTGGAGAAAC
*
119650517 TAACACGGGCGTAGGAGAAAC
1 GAACACGGGCGT-GGAGAAAC
119650538 GAACA
1 GAACA
119650543 ACATCACACA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.35, C:0.22, G:0.37, T:0.07
Consensus pattern (20 bp):
GAACACGGGCGTGGAGAAAC
Found at i:119650750 original size:254 final size:255
Alignment explanation
Indices: 119650344--119650838 Score: 760
Period size: 254 Copynumber: 1.9 Consensus size: 255
119650334 ATGGACACAG
* *
119650344 GCGTGTTGAGGGGGACACAGGCATGGGAGAAACGAAGGGATCACCATATGGCCATGCGATGTGGC
1 GCGTGTTGAGGGGGACACAGGCATGGGAGAAACGAAGGGATCACCACATGGCCATGCAATGTGGC
**** * *
119650409 CGTATGGGTCATACGGCCTAGGAACACGGGTGTGTCCTCAGGCCGTGTGCGACACTGACTTTAAC
66 CGTATGGGTCATACGGCCTAGGAACACAAACGTGTCCTCAGGCCATGTGCGACACTGACTTGAAC
*
119650474 ATCAACCCACAAGCTTAAACCAGGAACACGGGCGTGGAGGACCTAACACGGGCGTAGGAGAAACG
131 ATCAACCCACAAGCTTAAACCAGGAACACGGGCGTGGAGGACCTAACACGGGCGTAGGAGAAACA
* * * *
119650539 AACAACATCACACATGGTCGTGCGATATGACCGTGTGAACCACACGGCCGGGACACACTA
196 AACAACATCACACACGGTCGAGCAATACGACCGTGTGAACCACACGGCCGGGACACACTA
*
119650599 GCGTGTTG-GGGGGACAC-GGGAGTGGGAGAAACGAAGGGATCACCACATGGCCATGCAATGTGG
1 GCGTGTTGAGGGGGACACAGGCA-TGGGAGAAACGAAGGGATCACCACATGGCCATGCAATGTGG
* * * *
119650662 TCGTGTGGGTTATACGGCCTAGGAACACAAACGTGTCCTCAGGCCATGTGCGACATTGACTTGAA
65 CCGTATGGGTCATACGGCCTAGGAACACAAACGTGTCCTCAGGCCATGTGCGACACTGACTTGAA
* *
119650727 CATCAACCCATAAGCTTAAACCAGGAACACGGGCGTGGAGGACCTAACACGGGCGTGGGAGAAAC
130 CATCAACCCACAAGCTTAAACCAGGAACACGGGCGTGGAGGACCTAACACGGGCGTAGGAGAAAC
* * *
119650792 AAACAACATCACATACGGTTGAGCAATACGACTGTGTGAACCACACG
195 AAACAACATCACACACGGTCGAGCAATACGACCGTGTGAACCACACG
119650839 AGCGTGTCCT
Statistics
Matches: 216, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
253 3 0.01
254 205 0.95
255 8 0.04
ACGTcount: A:0.29, C:0.24, G:0.31, T:0.16
Consensus pattern (255 bp):
GCGTGTTGAGGGGGACACAGGCATGGGAGAAACGAAGGGATCACCACATGGCCATGCAATGTGGC
CGTATGGGTCATACGGCCTAGGAACACAAACGTGTCCTCAGGCCATGTGCGACACTGACTTGAAC
ATCAACCCACAAGCTTAAACCAGGAACACGGGCGTGGAGGACCTAACACGGGCGTAGGAGAAACA
AACAACATCACACACGGTCGAGCAATACGACCGTGTGAACCACACGGCCGGGACACACTA
Found at i:119650796 original size:21 final size:20
Alignment explanation
Indices: 119650752--119650796 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
119650742 TTAAACCAGG
* * *
119650752 AACACGGGCGTGGAGGACCT
1 AACACGGGCGTGGAGAAACA
119650772 AACACGGGCGTGGGAGAAACA
1 AACACGGGCGT-GGAGAAACA
119650793 AACA
1 AACA
119650797 ACATCACATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.36, C:0.22, G:0.36, T:0.07
Consensus pattern (20 bp):
AACACGGGCGTGGAGAAACA
Found at i:119651374 original size:26 final size:24
Alignment explanation
Indices: 119651332--119651384 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
119651322 CCTCCGCTAC
* *
119651332 TTTTTTTATTTTCTTTTACTGTTA
1 TTTTTTTATTTTATTTTAATGTTA
*
119651356 TTTTTTTATTCTTTATTTTAATTTTA
1 TTTTTTTA-T-TTTATTTTAATGTTA
119651382 TTT
1 TTT
119651385 CATCTCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.33
25 1 0.04
26 15 0.62
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTTTTATTTTATTTTAATGTTA
Found at i:119658522 original size:52 final size:51
Alignment explanation
Indices: 119658421--119658522 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
119658411 AAATGCCCAT
119658421 CATGGAACATTTACCTAAACCATTATATGGAACATTTACCTAACCCATTAG
1 CATGGAACATTTACCTAAACCATTATATGGAACATTTACCTAACCCATTAG
* *
119658472 CATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTA
1 CATGGAACATTTACCTAAACCATTAT-ATGGAACATTTACCTAACCCATTA
119658523 TCAATTTGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 24 0.50
52 24 0.50
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (51 bp):
CATGGAACATTTACCTAAACCATTATATGGAACATTTACCTAACCCATTAG
Found at i:119658523 original size:26 final size:26
Alignment explanation
Indices: 119658419--119658525 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
119658409 TGAAATGCCC
*
119658419 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
119658445 AT-ATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
119658470 AGCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
119658496 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
119658522 ATCA
1 ATCA
119658526 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
25 23 0.32
26 50 0.68
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:119660606 original size:29 final size:29
Alignment explanation
Indices: 119660564--119660621 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
119660554 TATAATACAC
119660564 CTTTCTCCGTACAAGTAATGTCTCCAAAT
1 CTTTCTCCGTACAAGTAATGTCTCCAAAT
119660593 CTTTCTCCGTACAAGTAATGTCTCCAAAT
1 CTTTCTCCGTACAAGTAATGTCTCCAAAT
119660622 TTAAGTGCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (29 bp):
CTTTCTCCGTACAAGTAATGTCTCCAAAT
Found at i:119665597 original size:26 final size:26
Alignment explanation
Indices: 119665533--119665639 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
119665523 TGAAATGCCC
*
119665533 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
119665559 AT-ATGGAACATTTAGCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
119665584 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
119665610 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
119665636 ATCA
1 ATCA
119665640 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
25 23 0.32
26 50 0.68
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:119665639 original size:52 final size:51
Alignment explanation
Indices: 119665533--119665639 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
119665523 TGAAATGCCC
*
119665533 ATCATGGAACATTTACCTAAACCATTATATGGAACATTTAGCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATATGGAACATTTACCTAACCCATT
* *
119665584 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTAT-ATGGAACATTTACCTAACCCATT
119665636 ATCA
1 ATCA
119665640 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 26 0.50
52 26 0.50
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.33
Consensus pattern (51 bp):
ATCATGGAACATTTACCTAAACCATTATATGGAACATTTACCTAACCCATT
Found at i:119668537 original size:90 final size:90
Alignment explanation
Indices: 119668431--119668682 Score: 280
Period size: 90 Copynumber: 2.8 Consensus size: 90
119668421 CGATATGATA
* * * *
119668431 CCATAATGTCTTTCAACTATGATCTTATTCA-TTTTCGTCATATTGTCATAATTCCTTTCAACTA
1 CCATAATGTCTTTCAACTATGGTCTTATTCATTTTTCGT-ATAGTGCCATAATGCCTTTCAACTA
119668495 TGGTCTTATTCGA-TTCTGGTATAGTG
65 TGGTCTTATTC-ATTTCTGGTATAGTG
** * * ** *
119668521 TTATAGTGTCTTTCAACTATGGTCTTATTCATTTTTGGTATAGTGCCATTGTGCCTTTCGACTAT
1 CCATAATGTCTTTCAACTATGGTCTTATTCATTTTTCGTATAGTGCCATAATGCCTTTCAACTAT
119668586 GGTCTTATTCATTTCTGGTATAGTG
66 GGTCTTATTCATTTCTGGTATAGTG
* * * * *
119668611 CCATAATGTCTTTCATCTATGGTCTTACTCGTTTGATTCGT-GA-TGCCATAATGTCTTTCATA-
1 CCATAATGTCTTTCAACTATGGTCTTATTCATTT--TTCGTATAGTGCCATAATGCCTTTCA-AC
119668673 TATGGTCTTA
63 TATGGTCTTA
119668683 CTCGTTTGAT
Statistics
Matches: 134, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
89 1 0.01
90 121 0.90
91 8 0.06
92 4 0.03
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (90 bp):
CCATAATGTCTTTCAACTATGGTCTTATTCATTTTTCGTATAGTGCCATAATGCCTTTCAACTAT
GGTCTTATTCATTTCTGGTATAGTG
Found at i:119668560 original size:45 final size:44
Alignment explanation
Indices: 119668431--119668637 Score: 236
Period size: 45 Copynumber: 4.6 Consensus size: 44
119668421 CGATATGATA
* * * *
119668431 CCATAATGTCTTTCAACTATGATCTTATTCATTTTCGTCATATTG
1 CCATAATGTCTTTCAACTATGGTCTTATTCATTCTGGT-ATAGTG
*
119668476 TCATAAT-TCCTTTCAACTATGGTCTTATTCGATTCTGGTATAGTG
1 CCATAATGT-CTTTCAACTATGGTCTTATTC-ATTCTGGTATAGTG
** * *
119668521 TTATAGTGTCTTTCAACTATGGTCTTATTCATTTTTGGTATAGTG
1 CCATAATGTCTTTCAACTATGGTCTTATTCA-TTCTGGTATAGTG
** * *
119668566 CCATTGTGCCTTTCGACTATGGTCTTATTCATTTCTGGTATAGTG
1 CCATAATGTCTTTCAACTATGGTCTTATTCA-TTCTGGTATAGTG
*
119668611 CCATAATGTCTTTCATCTATGGTCTTA
1 CCATAATGTCTTTCAACTATGGTCTTA
119668638 CTCGTTTGAT
Statistics
Matches: 139, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
44 2 0.01
45 130 0.94
46 7 0.05
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (44 bp):
CCATAATGTCTTTCAACTATGGTCTTATTCATTCTGGTATAGTG
Done.