Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 433 of 433
Found at i:132160322 original size:9 final size:9
Alignment explanation
Indices: 132160220--132160329 Score: 83
Period size: 9 Copynumber: 13.0 Consensus size: 9
132160210 GTTCAAATTT
132160220 CATAACTTA
1 CATAACTTA
132160229 CATAA--TA
1 CATAACTTA
132160236 CATAACTTA
1 CATAACTTA
132160245 CATAA--TA
1 CATAACTTA
132160252 CATAACTTA
1 CATAACTTA
***
132160261 CATAAAAGA
1 CATAACTTA
*
132160270 TCA-AAATT-
1 -CATAACTTA
* *
132160278 CATGATTTA
1 CATAACTTA
*
132160287 CATAATTTA
1 CATAACTTA
132160296 CATAACTTA
1 CATAACTTA
132160305 CATAA--TA
1 CATAACTTA
*
132160312 CATGACTTA
1 CATAACTTA
132160321 CATAACTTA
1 CATAACTTA
132160330 ATTATACTTA
Statistics
Matches: 81, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
7 22 0.27
8 3 0.04
9 54 0.67
10 2 0.02
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:132163600 original size:26 final size:26
Alignment explanation
Indices: 132163564--132163673 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
132163554 CATGGAATTC
132163564 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
132163590 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
132163616 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
132163642 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
132163668 TTATCA
1 TTATCA
132163674 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:132168922 original size:21 final size:21
Alignment explanation
Indices: 132168872--132168922 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
132168862 ACTTAGAGCG
*
132168872 GAGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGAGAGGCA
* *
132168893 GCGGTAGCAGCGAGAGAGGCA
1 GAGGCAGCAGCGAGAGAGGCA
132168914 GAGGCAGCA
1 GAGGCAGCA
132168923 ACGATGGCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCGAGAGAGGCA
Found at i:132169220 original size:31 final size:32
Alignment explanation
Indices: 132169158--132169240 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
132169148 TTAGAATTAA
* * *
132169158 TGTTTTTGGTTGTATTTTTTACGCTAAATTTGT
1 TGTTTTTGGTTGCATTTTATAC-CTAAATTTGC
* *
132169191 TGTTTTTGGCTGCATTTTATA-CTATATTTGC
1 TGTTTTTGGTTGCATTTTATACCTAAATTTGC
* *
132169222 TGTATTTGGTTGGATTTTA
1 TGTTTTTGGTTGCATTTTA
132169241 ATGCAAAAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 24 0.57
33 18 0.43
ACGTcount: A:0.16, C:0.07, G:0.19, T:0.58
Consensus pattern (32 bp):
TGTTTTTGGTTGCATTTTATACCTAAATTTGC
Found at i:132184488 original size:22 final size:22
Alignment explanation
Indices: 132184460--132184502 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
132184450 GCACTAATGA
132184460 ACAGAGAGCACTGAAGTGCTAT
1 ACAGAGAGCACTGAAGTGCTAT
*
132184482 ACAGAGAGCACTGACGTGCTA
1 ACAGAGAGCACTGAAGTGCTA
132184503 ATAATTAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.28, T:0.16
Consensus pattern (22 bp):
ACAGAGAGCACTGAAGTGCTAT
Found at i:132184565 original size:25 final size:25
Alignment explanation
Indices: 132184453--132184566 Score: 130
Period size: 25 Copynumber: 4.7 Consensus size: 25
132184443 TTATTATGCA
*
132184453 CTAATGAA-CAGAGAGCACTGAAGTG
1 CTAAT-AATCAGAGAGCACTGACGTG
132184478 CT-AT-A-CAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACTGACGTG
* *
132184500 CTAATAATTAGAGAGAACT-AGCGTG
1 CTAATAATCAGAGAGCACTGA-CGTG
* *
132184525 CTAATATTCAGAGAGCACTGGCGTG
1 CTAATAATCAGAGAGCACTGACGTG
132184550 CTAATAATCAGAGAGCA
1 CTAATAATCAGAGAGCA
132184567 TGCTGAGGTC
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
22 19 0.25
23 2 0.03
24 4 0.05
25 51 0.67
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTGACGTG
Found at i:132190942 original size:179 final size:178
Alignment explanation
Indices: 132190638--132190997 Score: 432
Period size: 179 Copynumber: 2.0 Consensus size: 178
132190628 AAAGGACAGT
* * * * * * *
132190638 TTTTATCTCCTTGAGATTACAGGGGAGTAGATATTCGCAGATGGTGAATCTTAGCTCCATGTATC
1 TTTTATCTCCCTGAGATTACAGCGGAGCAGATATTCACAGATAGTGAAACCTAGCTCCATGTATC
* *
132190703 AGCAATGGAGCAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAAAGGGCAGGTTGAAGAA
66 AGCAATGGAGCAAATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGAA
* * * *
132190768 CGAGTCTTATTTTCCTGAGGTAGCAAGGAAGCAGACTGAGAATTGAAGA
131 CGAGTCTTATCTTCCGGA-GTAGCAAGGAAGCAGACTGAAAACTGAAGA
* * * * *
132190817 TTTTATCTCCCTGAGATTGCAGCGGAGCAGATCTTCATAGGTAGTGAAACCTATCTCCATGTATC
1 TTTTATCTCCCTGAGATTACAGCGGAGCAGATATTCACAGATAGTGAAACCTAGCTCCATGTATC
* * *** * * * * * *
132190882 GGCAATTGAGCAAATTTTATTTCTAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAGGAT
66 AGCAATGGAGCAAATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGAA
* *
132190947 GGAGTCTTATCTTCCGGAGTAGTAAGGAAGCAGACTGAAAACTGAAGA
131 CGAGTCTTATCTTCCGGAGTAGCAAGGAAGCAGACTGAAAACTGAAGA
132190995 TTT
1 TTT
132190998 ATTTCCCATA
Statistics
Matches: 150, Mismatches: 31, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
178 30 0.20
179 120 0.80
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (178 bp):
TTTTATCTCCCTGAGATTACAGCGGAGCAGATATTCACAGATAGTGAAACCTAGCTCCATGTATC
AGCAATGGAGCAAATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGAA
CGAGTCTTATCTTCCGGAGTAGCAAGGAAGCAGACTGAAAACTGAAGA
Found at i:132192285 original size:26 final size:26
Alignment explanation
Indices: 132192248--132192383 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
132192238 TGATACAAAT
* *
132192248 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
132192274 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
132192300 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
132192326 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
132192352 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
132192378 TGATAA
1 TGATAA
132192384 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:132194042 original size:27 final size:26
Alignment explanation
Indices: 132194002--132194113 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
132193992 AGGAAGCGTC
*
132194002 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
132194029 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
132194055 CCTGGTGGCTTTGCCACGATTATCCGTAT
1 -CTGGTGGCTCTGCCAC-ATTATCTG-AT
* ** *
132194084 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
132194110 CTGG
1 CTGG
132194114 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
26 8 0.11
27 48 0.68
28 14 0.20
29 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:132194106 original size:54 final size:54
Alignment explanation
Indices: 132193999--132194113 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
132193989 TGGAGGAAGC
* * *
132193999 GTCCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACGATTATCCGATCTGGTGACTCTACCACATATATCT
* *
132194053 GTCCTGGTGGCTTTGCCACGATTATCCGTATCTGGTGACTCTATCACAT-TATCT
1 GTCCTGGTGGCTATGCCACGATTATCCG-ATCTGGTGACTCTACCACATATATCT
*
132194107 GTTCTGG
1 GTCCTGG
132194114 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACGATTATCCGATCTGGTGACTCTACCACATATATCT
Found at i:132198142 original size:26 final size:26
Alignment explanation
Indices: 132198112--132198177 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
132198102 TTAATAGGTT
*
132198112 ATGTTCCATGATAATGGGTTAGGTAA
1 ATGTTTCATGATAATGGGTTAGGTAA
*
132198138 ATGTTTAATGATAATGGGTTAGGTAA
1 ATGTTTCATGATAATGGGTTAGGTAA
*
132198164 ATATTTCATGATAA
1 ATGTTTCATGATAA
132198178 GAATATCATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.38
Consensus pattern (26 bp):
ATGTTTCATGATAATGGGTTAGGTAA
Found at i:132204725 original size:28 final size:27
Alignment explanation
Indices: 132204675--132204788 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 27
132204665 CTATTCAGAA
*
132204675 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
132204702 ATCAGTATTAATCTGGGCCATAGCCC-T
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
* *
132204729 ATTACAATATCAGAGCATACTGGGCCTAGCCCAT
1 A-T-CAGTAT--TA--AT-CTGGGCCTAGCCCAT
* *
132204763 ATCAGTATCAGTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCC-TAGCCC
132204789 TATTACAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 19 0.27
28 21 0.30
29 5 0.07
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (27 bp):
ATCAGTATTAATCTGGGCCTAGCCCAT
Found at i:132204730 original size:62 final size:61
Alignment explanation
Indices: 132204652--132204796 Score: 179
Period size: 61 Copynumber: 2.4 Consensus size: 61
132204642 TCAAGCTTTA
* * *
132204652 CTGGGCCCA-AGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGG-CCATAGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAGTATCAAT
* *
132204714 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCCATAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
*
132204775 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCCATAGCCCTATTACAA
132204797 GTCGAGATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 42 0.57
62 29 0.39
63 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (61 bp):
CTGGGCCATAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
Found at i:132204871 original size:19 final size:20
Alignment explanation
Indices: 132204817--132204871 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
132204807 ATTGGGCCTT
* *
132204817 GCCCATATTAACATAGTTGG
1 GCCCATATTAAAACAGTTGG
* *
132204837 GCCCATTTTAATACAGTT-G
1 GCCCATATTAAAACAGTTGG
*
132204856 GCCCATAATAAAACAG
1 GCCCATATTAAAACAG
132204872 CCTCATATGA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAAAACAGTTGG
Found at i:132209368 original size:28 final size:27
Alignment explanation
Indices: 132209318--132209370 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
132209308 CTATTCAGAA
* *
132209318 ATCAGTGTTAACTGGGCCTTAGCCCAT
1 ATCAGTATTAACTGGGCCATAGCCCAT
132209345 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAA-CTGGGCCATAGCCC
132209371 TATTACAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTGGGCCATAGCCCAT
Found at i:132209373 original size:62 final size:60
Alignment explanation
Indices: 132209295--132209438 Score: 168
Period size: 62 Copynumber: 2.4 Consensus size: 60
132209285 TCAAGCTTTA
* * *
132209295 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAGTATCAAT
* *
132209357 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
132209418 CTGGGCCGTAG-CCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
132209439 GTCGAGATAT
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
60 10 0.14
61 28 0.38
62 31 0.42
63 4 0.05
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
Found at i:132209513 original size:19 final size:20
Alignment explanation
Indices: 132209459--132209513 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
132209449 ATTGGGCCTT
*
132209459 GCCCATATTAACACAGTTGG
1 GCCCATATTAAAACAGTTGG
* *
132209479 GCCCATTTTAATACAGTT-G
1 GCCCATATTAAAACAGTTGG
*
132209498 GCCCATAATAAAACAG
1 GCCCATATTAAAACAG
132209514 CCTCATATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (20 bp):
GCCCATATTAAAACAGTTGG
Found at i:132214859 original size:22 final size:22
Alignment explanation
Indices: 132214834--132214882 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
132214824 GATAATGATA
132214834 ATAATAAAAGAATATAAAAAAT
1 ATAATAAAAGAATATAAAAAAT
* *
132214856 ATAACT-TAATAATATAAAAAAT
1 ATAA-TAAAAGAATATAAAAAAT
132214878 -TAATA
1 ATAATA
132214883 GGTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 1 0.04
21 3 0.13
22 18 0.78
23 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
ATAATAAAAGAATATAAAAAAT
Found at i:132215142 original size:16 final size:16
Alignment explanation
Indices: 132215117--132215147 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
132215107 ATAATAGGAA
132215117 TATTAAAATAAAAATC
1 TATTAAAATAAAAATC
*
132215133 TATTATAATAAAAAT
1 TATTAAAATAAAAAT
132215148 GTTAAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAATAAAAATC
Found at i:132215158 original size:14 final size:14
Alignment explanation
Indices: 132215115--132215158 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 14
132215105 TAATAATAGG
132215115 AATATTAAAATAAA
1 AATATTAAAATAAA
*
132215129 AATCTATTATAATAAA
1 AA--TATTAAAATAAA
*
132215145 AATGTTAAAATAAA
1 AATATTAAAATAAA
132215159 GTAATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 12 0.48
16 13 0.52
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (14 bp):
AATATTAAAATAAA
Found at i:132215235 original size:3 final size:3
Alignment explanation
Indices: 132215223--132215301 Score: 99
Period size: 3 Copynumber: 26.7 Consensus size: 3
132215213 AAATATACAC
132215223 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * *
132215269 TAA TCC TAG CAA TAA TAA TAA TTAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA
132215302 TATACACAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
2 4 0.06
3 59 0.89
4 3 0.05
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:132215328 original size:2 final size:2
Alignment explanation
Indices: 132215321--132215355 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
132215311 TATGGTATTA
132215321 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
132215356 TTAAGAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:132215451 original size:13 final size:13
Alignment explanation
Indices: 132215433--132215476 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
132215423 GGCATTAAAA
132215433 ATATATACATAAT
1 ATATATACATAAT
*
132215446 ATATATATATAA-
1 ATATATACATAAT
*
132215458 A-ATACACATAAT
1 ATATATACATAAT
132215470 ATATATA
1 ATATATA
132215477 TACATATTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 8 0.32
12 2 0.08
13 15 0.60
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATATACATAAT
Found at i:132215552 original size:16 final size:16
Alignment explanation
Indices: 132215533--132215566 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
132215523 ATATAATAAT
*
132215533 AATACTAAAATAATTA
1 AATACTAAAATAACTA
*
132215549 AATAGTAAAATAACTA
1 AATACTAAAATAACTA
132215565 AA
1 AA
132215567 AAGGATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (16 bp):
AATACTAAAATAACTA
Found at i:132216009 original size:11 final size:12
Alignment explanation
Indices: 132215995--132216030 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
132215985 AAGAAAAAAA
132215995 GAAGAGAG-AGG
1 GAAGAGAGAAGG
132216006 GAAGAGAGAAGG
1 GAAGAGAGAAGG
132216018 G-AGAGAGAAGG
1 GAAGAGAGAAGG
132216029 GA
1 GA
132216031 GGGGGAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:132216982 original size:18 final size:18
Alignment explanation
Indices: 132216959--132217031 Score: 103
Period size: 18 Copynumber: 4.1 Consensus size: 18
132216949 CAATCCCAAC
*
132216959 TACTGTATACGTGAACAG
1 TACTGTATACGTGAATAG
*
132216977 TACTGTATACGTAAATAG
1 TACTGTATACGTGAATAG
132216995 TACTGTATACGTGAATAG
1 TACTGTATACGTGAATAG
*
132217013 T-TTAGTATACGTGAATAG
1 TACT-GTATACGTGAATAG
132217031 T
1 T
132217032 GCCGTAAATG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
17 1 0.02
18 49 0.98
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:132218563 original size:30 final size:29
Alignment explanation
Indices: 132218522--132218617 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 29
132218512 CGGGTCTTCG
*
132218522 TTTTAAA-TTTTGAGGGTTTAATTAAAAT
1 TTTTAAACTTTTGAAGGTTTAATTAAAAT
* * *
132218550 TTTTATAACTTTTGAAGTTTTAGTGAAAAT
1 TTTTA-AACTTTTGAAGGTTTAATTAAAAT
*
132218580 TTTCAAAACTTTTGGAAGGTTTAATTAAAAT
1 TTT-TAAACTTTT-GAAGGTTTAATTAAAAT
*
132218611 TGTTAAA
1 TTTTAAA
132218618 AATTTTAAAC
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
28 5 0.09
29 2 0.04
30 30 0.56
31 17 0.31
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.47
Consensus pattern (29 bp):
TTTTAAACTTTTGAAGGTTTAATTAAAAT
Found at i:132218834 original size:47 final size:48
Alignment explanation
Indices: 132218765--132218861 Score: 162
Period size: 48 Copynumber: 2.0 Consensus size: 48
132218755 TCAAAAGTTT
132218765 TAGGGCTTTTAAGCCCTAACA-GG-TTCTGCTTCTGGTCAAGATGCCAA
1 TAGGGCTTTTAAGCCCTAACAGGGTTTC-GCTTCTGGTCAAGATGCCAA
*
132218812 TAGGGTTTTTAAGCCCTAACAGGGTTTCGCTTCTGGTCAAGATGCCAA
1 TAGGGCTTTTAAGCCCTAACAGGGTTTCGCTTCTGGTCAAGATGCCAA
132218860 TA
1 TA
132218862 ACGAAATAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
47 20 0.43
48 24 0.51
49 3 0.06
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (48 bp):
TAGGGCTTTTAAGCCCTAACAGGGTTTCGCTTCTGGTCAAGATGCCAA
Found at i:132219866 original size:31 final size:31
Alignment explanation
Indices: 132219822--132219883 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
132219812 GTATTTTAAT
*
132219822 TTAATCAAATTTAGTTTCTATAAATTTCAAA
1 TTAATCAAATTTAGTCTCTATAAATTTCAAA
* * **
132219853 TTAATTAATTTTAGTCTCTATACTTTTCAAA
1 TTAATCAAATTTAGTCTCTATAAATTTCAAA
132219884 ATTTGATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.48
Consensus pattern (31 bp):
TTAATCAAATTTAGTCTCTATAAATTTCAAA
Found at i:132223182 original size:2 final size:2
Alignment explanation
Indices: 132223177--132223209 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
132223167 TCACACACAC
132223177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
132223210 ATTTAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:132225077 original size:44 final size:44
Alignment explanation
Indices: 132225010--132225484 Score: 742
Period size: 44 Copynumber: 10.8 Consensus size: 44
132225000 GTTATTTTTT
* * *
132225010 ATCTGCTCTCTGCCAATATAGAGACGCCAAATCTG-TCATCTTCG
1 ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCT-ATCTTCG
* *
132225054 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
* * *
132225098 -GCTTGCTCTCTGCCAATACAGAGATGCCAAATCTACTATCTTCG
1 ATC-TGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
* *
132225142 ATCTGCTCTCTGCCAATACAGAGATGTCAAATCTGCTATCTTCG
1 ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
132225186 ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
132225230 ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
*
132225274 ATCTGCTCTCCACCAATACAGAGATGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
** *
132225318 ATCTATTCTCCGTCAATACAGAGATGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
*
132225362 ATCTGCTCTCCGCCAATACAGAGATG-CAAATTTGCTAT-TTCG
1 ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
132225404 ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
* *
132225448 ATCTGCTCTCTGCTAATACAGAGATGCCCAAATCTGC
1 ATCTGCTCTCCGCCAATACAGAGATG-CCAAATCTGC
132225485 AGGATTTGCC
Statistics
Matches: 404, Mismatches: 21, Indels: 11
0.93 0.05 0.03
Matches are distributed among these distances:
42 30 0.07
43 23 0.06
44 339 0.84
45 12 0.03
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.29
Consensus pattern (44 bp):
ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
Found at i:132232057 original size:13 final size:13
Alignment explanation
Indices: 132232039--132232066 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
132232029 GCTACATTGG
132232039 GTGTGGCTGGGTC
1 GTGTGGCTGGGTC
132232052 GTGTGGCTGGGTC
1 GTGTGGCTGGGTC
132232065 GT
1 GT
132232067 CAAATCTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.54, T:0.32
Consensus pattern (13 bp):
GTGTGGCTGGGTC
Found at i:132236611 original size:15 final size:15
Alignment explanation
Indices: 132236591--132236620 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
132236581 AATAATAATT
132236591 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
132236606 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
132236621 GCTAGGTGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:132236729 original size:15 final size:15
Alignment explanation
Indices: 132236709--132236739 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
132236699 ATATATATTA
132236709 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
132236724 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
132236739 A
1 A
132236740 GAAAATAATA
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:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:132236779 original size:19 final size:19
Alignment explanation
Indices: 132236743--132236794 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
132236733 ATAAATAGAA
*
132236743 AATAATAGTACA--TTAAT
1 AATAATAGTATATGTTAAT
132236760 AATAATAGTATATGTTAAT
1 AATAATAGTATATGTTAAT
132236779 -ATCAATAGTGATATGT
1 AAT-AATAGT-ATATGT
132236795 ATAAAAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 11 0.37
18 2 0.07
19 11 0.37
20 6 0.20
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (19 bp):
AATAATAGTATATGTTAAT
Found at i:132237036 original size:3 final size:3
Alignment explanation
Indices: 132237030--132237153 Score: 92
Period size: 3 Copynumber: 41.3 Consensus size: 3
132237020 ATAGTTGTAG
* * * * * * *
132237030 TAA TAA TAA TAG TAA GAA AAA TAG TGA TAA T-A TAA CAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
132237077 T-A TAA CAA -AA GAA TAA CAA TAA TAA TAA TAG TAA TGGAGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T--A-A TAA TAA
*
132237123 TAA TAA TAA TAA TAA TAA TAC TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
132237154 GTAAATAAAA
Statistics
Matches: 94, Mismatches: 21, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
2 6 0.06
3 84 0.89
4 1 0.01
5 1 0.01
6 2 0.02
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:132237074 original size:20 final size:21
Alignment explanation
Indices: 132237035--132237074 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
132237025 TGTAGTAATA
*
132237035 ATAATAGTAAGAAAAATAGTG
1 ATAATAGTAACAAAAATAGTG
*
132237056 ATAATA-TAACAATAATAGT
1 ATAATAGTAACAAAAATAGT
132237075 AATATAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (21 bp):
ATAATAGTAACAAAAATAGTG
Found at i:132238302 original size:33 final size:33
Alignment explanation
Indices: 132238251--132238317 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
132238241 TGTCAGACGT
132238251 GTGGAGCGTGGTGACCAAGGCTGAGAGGCATGC
1 GTGGAGCGTGGTGACCAAGGCTGAGAGGCATGC
* * * *
132238284 GTGGGGCGTGGTGGCCAAGGCTGAGGGGTATGC
1 GTGGAGCGTGGTGACCAAGGCTGAGAGGCATGC
132238317 G
1 G
132238318 GCGGCTGAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.16, C:0.16, G:0.51, T:0.16
Consensus pattern (33 bp):
GTGGAGCGTGGTGACCAAGGCTGAGAGGCATGC
Found at i:132240161 original size:266 final size:260
Alignment explanation
Indices: 132239737--132240284 Score: 693
Period size: 266 Copynumber: 2.1 Consensus size: 260
132239727 ATGAAAAAGC
* * *
132239737 GCAACCCAACACGTAGGGCTCGATTCTCAAATCGCCAAATATCGAACATCGCCTTCATTTTTAGA
1 GCAACCCAACACGTAGGGCACGATTCCCAAATCGCCAAACATCGAACATCGCCTTCATTTTTAGA
* * * *
132239802 TATTTTTTTTAAACATGAGTGAGAATATAAAGGAATGTTCGATCGTTTTGAGCAAATGAGAAATC
66 TATTTTTTTTAAACATGAGTGAAAACATAAAGGAATATTCGATCGTTTTGAGCAAACGAGAAATC
* * ** **
132239867 ATAACCCAGCACGATAGAGCATGATTCTCGAATTGTCAAATGCCGAATATTGCCTTTCGTTTTAA
131 ACAACCCAGCACGATAGAGCATGATTCTCGAATTATCAAACACCGAATATCACCTTT-GTTTTAA
* *
132239932 AA-AGTTTTTAGAAAACACGAATGAAATTCCAAAGGGATATTCGACTATCTTGCGCAAACGAGAA
195 AAGA-TTTTTAGAAAACACGAATGAAATT-CAAAGGAATATTCGACTATCTTGAGCAAACGAGAA
132239996 ATT
258 ATT
* * * **
132239999 GCAACCCATCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCATTTTTA
1 GCAACCCAACACG-TAGGGCACGATT-CCCAAATCGCCAAACATCGAACATCGCCTTCATTTTT-
* * * *
132240064 AATATATTTTTTTTAAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAGCAAACGAGG
63 -AGATATTTTTTTTAAACATGAGTGAAAACATAAAGGAATATTCGATCGTTTTGAGCAAACGAGA
* *
132240129 AATCACAACCCAGCACGATAGGGCATGATTCTCGAATTATCAAACACCGAGTATCACCTTTGTTT
127 AATCACAACCCAGCACGATAGAGCATGATTCTCGAATTATCAAACACCGAATATCACCTTTGTTT
* * * ** * * * * *
132240194 TAAAAGATTTTTAGAAGACATGAGTGAAATTTGAAGTAATATTCGATTATTTTGAGCAAATGCGA
192 TAAAAGATTTTTAGAAAACACGAATGAAATTCAAAGGAATATTCGACTATCTTGAGCAAACGAGA
132240259 AATT
257 AATT
132240263 GCAACCCAACACGTTAGGGCAC
1 GCAACCCAACACG-TAGGGCAC
132240285 TATTTTGCAA
Statistics
Matches: 243, Mismatches: 38, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
262 12 0.05
263 11 0.05
264 80 0.33
265 30 0.12
266 110 0.45
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (260 bp):
GCAACCCAACACGTAGGGCACGATTCCCAAATCGCCAAACATCGAACATCGCCTTCATTTTTAGA
TATTTTTTTTAAACATGAGTGAAAACATAAAGGAATATTCGATCGTTTTGAGCAAACGAGAAATC
ACAACCCAGCACGATAGAGCATGATTCTCGAATTATCAAACACCGAATATCACCTTTGTTTTAAA
AGATTTTTAGAAAACACGAATGAAATTCAAAGGAATATTCGACTATCTTGAGCAAACGAGAAATT
Found at i:132241519 original size:2 final size:2
Alignment explanation
Indices: 132241512--132241540 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
132241502 TAATATTCAC
132241512 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
132241541 ATTTAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:132243070 original size:4 final size:4
Alignment explanation
Indices: 132243061--132243094 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
132243051 GGTTTTTTAC
*
132243061 TATT TATT TATT TATT TATT TATT T-TA TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TAT
132243095 ATATAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 2 0.07
4 25 0.93
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:132247468 original size:25 final size:26
Alignment explanation
Indices: 132247439--132247499 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
132247429 ATTTTTGGAC
**
132247439 TCTTTTTGGATGTTTT-TCTTTCTTT
1 TCTTTTTGGATGTTTTCTCTGGCTTT
*
132247464 TCTTTTTGG-GGTTTTCTCTGGCTTT
1 TCTTTTTGGATGTTTTCTCTGGCTTT
*
132247489 TCTTTTGGGAT
1 TCTTTTTGGAT
132247500 TGTTGTGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.03, C:0.13, G:0.20, T:0.64
Consensus pattern (26 bp):
TCTTTTTGGATGTTTTCTCTGGCTTT
Found at i:132249009 original size:26 final size:26
Alignment explanation
Indices: 132248974--132249108 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
132248964 TGATACAAAT
132248974 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
132249000 TAATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* * *
132249026 TAATAATAGGTTAGGTAAGTGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
132249052 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
132249078 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
132249103 TGATAA
1 TGATAA
132249109 GAATTTCATG
Statistics
Matches: 103, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 23 0.22
26 80 0.78
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:132252278 original size:12 final size:12
Alignment explanation
Indices: 132252261--132252291 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
132252251 ACTCGGGGAA
132252261 GAGGCCGTGGTC
1 GAGGCCGTGGTC
132252273 GAGGCCGTGGTC
1 GAGGCCGTGGTC
132252285 GAGGCCG
1 GAGGCCG
132252292 CATTCGAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:132257218 original size:26 final size:25
Alignment explanation
Indices: 132257175--132257282 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 25
132257165 TGATACAAAT
132257175 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
132257200 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
*
132257226 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
132257252 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATGTTCCA
132257277 TGATAA
1 TGATAA
132257283 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
25 33 0.42
26 43 0.55
27 2 0.03
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:132260846 original size:19 final size:19
Alignment explanation
Indices: 132260822--132260966 Score: 221
Period size: 19 Copynumber: 7.9 Consensus size: 19
132260812 ATAATCTTCA
*
132260822 ATGATATGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
132260841 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
132260860 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
132260877 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
132260895 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
132260914 ATGATAT--AATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
132260931 ATAAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
132260949 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
132260967 AGATATGATT
Statistics
Matches: 116, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
16 1 0.01
17 30 0.26
18 30 0.26
19 55 0.47
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:132260860 original size:14 final size:15
Alignment explanation
Indices: 132260843--132260898 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
132260833 TCTTAAATAT
132260843 GATATG-CAATCTTA
1 GATATGACAATCTTA
132260857 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
132260874 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
132260892 GATATGA
1 GATATGA
132260899 TATGTAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:132260887 original size:54 final size:54
Alignment explanation
Indices: 132260822--132260966 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
132260812 ATAATCTTCA
*
132260822 ATGATATGCAATCTTAAATATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
* *
132260877 ATGATTGCAATCTTAGATATGATATGTAATCTTAGATATGATATAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
*
132260931 ATAATTGCAATCTTAGATATGATATGCAATCTTAGA
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGA
132260967 AGATATGATT
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
54 80 0.94
55 5 0.06
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (54 bp):
ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:132260893 original size:35 final size:36
Alignment explanation
Indices: 132260830--132260966 Score: 190
Period size: 35 Copynumber: 3.8 Consensus size: 36
132260820 CAATGATATG
*
132260830 CAATCTTAAATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
132260866 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
* * *
132260901 TGTAATCTTAGATATGATAT--AATCTTAGATATAATTG
1 --CAATCTTAGATATGATATGCAATCTTAGATATGA-TA
132260938 CAATCTTAGATATGATATGCAATCTTAGA
1 CAATCTTAGATATGATATGCAATCTTAGA
132260967 AGATATGATT
Statistics
Matches: 90, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
35 36 0.40
36 28 0.31
37 25 0.28
38 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:132260916 original size:14 final size:15
Alignment explanation
Indices: 132260850--132260954 Score: 75
Period size: 17 Copynumber: 6.1 Consensus size: 15
132260840 TATGATATGC
132260850 AATCTTAGATATGAT
1 AATCTTAGATATGAT
132260865 ACAATCTTAGATATGATT
1 --AATCTTAGATATGA-T
132260883 GCAATCTTAGATATGATATGT
1 --AATCTTAGATATG--A--T
132260904 AATCTTAGATATGATAT
1 AATCTTAGATATG--AT
*
132260921 AATCTTAGATATAATT
1 AATCTTAGATATGA-T
132260937 GCAATCTTAGATATGAT
1 --AATCTTAGATATGAT
132260954 A
1 A
132260955 TGCAATCTTA
Statistics
Matches: 77, Mismatches: 4, Indels: 16
0.79 0.04 0.16
Matches are distributed among these distances:
15 2 0.03
16 1 0.01
17 28 0.36
18 28 0.36
19 16 0.21
20 1 0.01
21 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (15 bp):
AATCTTAGATATGAT
Found at i:132260959 original size:73 final size:73
Alignment explanation
Indices: 132260822--132260989 Score: 223
Period size: 73 Copynumber: 2.2 Consensus size: 73
132260812 ATAATCTTCA
* * *
132260822 ATGATATGCAATCTTAAATATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAA
1 ATGATATGTAATCTTAGATATGATAT-CAATCTTAGATATAATACAATCTTAGATATGATTGCAA
132260887 TCTT-AGAT
65 TCTTAAGAT
*
132260895 ATGATATGTAATCTTAGATATGATAT-AATCTTAGATATAATTGCAATCTTAGATATGATATGCA
1 ATGATATGTAATCTTAGATATGATATCAATCTTAGATATAA-TACAATCTTAGATATGAT-TGCA
132260959 ATCTTAGAAGAT
64 ATCTT--AAGAT
*
132260971 ATGATTTTGTAATCTTAGA
1 ATGA-TATGTAATCTTAGA
132260990 GATTTAATTT
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
71 13 0.15
72 17 0.20
73 33 0.39
76 8 0.10
77 13 0.15
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (73 bp):
ATGATATGTAATCTTAGATATGATATCAATCTTAGATATAATACAATCTTAGATATGATTGCAAT
CTTAAGAT
Found at i:132260992 original size:22 final size:22
Alignment explanation
Indices: 132260822--132260989 Score: 102
Period size: 19 Copynumber: 8.8 Consensus size: 22
132260812 ATAATCTTCA
132260822 ATGATATGCAATCTT--AA-AT
1 ATGATATGCAATCTTAGAAGAT
132260841 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
132260860 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
132260877 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
132260895 ATGATATGTAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
132260914 ATGATAT--AATCTTAG---AT
1 ATGATATGCAATCTTAGAAGAT
*
132260931 ATAAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
132260949 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
132260971 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
132260990 GATTTAATTT
Statistics
Matches: 129, Mismatches: 5, Indels: 26
0.81 0.03 0.16
Matches are distributed among these distances:
16 1 0.01
17 28 0.22
18 29 0.22
19 51 0.40
22 8 0.06
23 12 0.09
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:132261290 original size:18 final size:18
Alignment explanation
Indices: 132261256--132261290 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
132261246 TGTTTCCCTG
* *
132261256 TTTTTTTATATATTTTAA
1 TTTTTTTAAATAATTTAA
132261274 TTTTTTTAAATAATTTA
1 TTTTTTTAAATAATTTA
132261291 GTATTATATC
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTTAAATAATTTAA
Found at i:132262528 original size:22 final size:23
Alignment explanation
Indices: 132262480--132262528 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
132262470 GTAGCTTTTT
*
132262480 TATTTCTTTTAGGTTTGTCTTAC
1 TATTTCTTTTAGGTTTGCCTTAC
*
132262503 TATTT-TTTTAGTTTTAGCCTTA-
1 TATTTCTTTTAGGTTT-GCCTTAC
132262525 TATT
1 TATT
132262529 ATGCTGAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.16, C:0.10, G:0.10, T:0.63
Consensus pattern (23 bp):
TATTTCTTTTAGGTTTGCCTTAC
Done.