Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 162 of 276
Found at i:52827910 original size:196 final size:196
Alignment explanation
Indices: 52827576--52827968 Score: 741
Period size: 196 Copynumber: 2.0 Consensus size: 196
52827566 TGCTCGATAT
* *
52827576 GTGATTGGAAATTGGAAAGATTGTTATGGGAAAGTGATGAATACAATTGAAGTGTGAAAGATCAA
1 GTGATTGCAAATTGGAAAGATTGTTATGGGAAAGTGATGAATACAATTGAAGTGTAAAAGATCAA
52827641 AATTGACAATAAAACTGTTCTGGATAGTTGCAGTGACGTGAATCTAAAAATTTACCAAAAATAGT
66 AATTGACAATAAAACTGTTCTGGATAGTTGCAGTGACGTGAATCTAAAAATTTACCAAAAATAGT
52827706 AGAAATTGAACCAGAAACTGAATGAGATATCAAATTAGAGCTTAATGAGTCTATTTTCATATAAC
131 AGAAATTGAACCAGAAACTGAATGAGATATCAAATTAGAGCTTAATGAGTCTATTTTCATATAAC
52827771 A
196 A
*
52827772 GTGATTGCAAATTGGAAAGATTTTTATGGGAAAGTGATGAATACAATTGAAGTGTAAAAGATCAA
1 GTGATTGCAAATTGGAAAGATTGTTATGGGAAAGTGATGAATACAATTGAAGTGTAAAAGATCAA
52827837 AATTGACAATAAAACTGTTCTGGATAGTTGCAGTGACGTGAATCTAAAAATTTACCAAAAATAGT
66 AATTGACAATAAAACTGTTCTGGATAGTTGCAGTGACGTGAATCTAAAAATTTACCAAAAATAGT
* *
52827902 AGAAATTGAATCAGAGACTGAATGAGATATCAAATTAGAGCTTAATGAGTCTATTTTCATATAAC
131 AGAAATTGAACCAGAAACTGAATGAGATATCAAATTAGAGCTTAATGAGTCTATTTTCATATAAC
52827967 A
196 A
52827968 G
1 G
52827969 AAACAGAGCA
Statistics
Matches: 192, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
196 192 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (196 bp):
GTGATTGCAAATTGGAAAGATTGTTATGGGAAAGTGATGAATACAATTGAAGTGTAAAAGATCAA
AATTGACAATAAAACTGTTCTGGATAGTTGCAGTGACGTGAATCTAAAAATTTACCAAAAATAGT
AGAAATTGAACCAGAAACTGAATGAGATATCAAATTAGAGCTTAATGAGTCTATTTTCATATAAC
A
Found at i:52833178 original size:43 final size:42
Alignment explanation
Indices: 52833124--52833218 Score: 107
Period size: 34 Copynumber: 2.4 Consensus size: 42
52833114 GGTATACGGT
*
52833124 GTAAGAATATAGATGAAAATGATATAACAGTTAGGTATAATGA
1 GTAAGACTATAGATGAAAA-GATATAACAGTTAGGTATAATGA
*
52833167 GTAAGAC--T--AT----AGATATAACAGTTAGGTATGATGA
1 GTAAGACTATAGATGAAAAGATATAACAGTTAGGTATAATGA
52833201 GTAAGACTATAGATGAAA
1 GTAAGACTATAGATGAAA
52833219 GACTCCATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 17
0.69 0.03 0.28
Matches are distributed among these distances:
34 29 0.69
35 1 0.02
36 1 0.02
38 2 0.05
39 2 0.05
41 1 0.02
43 6 0.14
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.27
Consensus pattern (42 bp):
GTAAGACTATAGATGAAAAGATATAACAGTTAGGTATAATGA
Found at i:52833187 original size:34 final size:34
Alignment explanation
Indices: 52833144--52833214 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
52833134 AGATGAAAAT
52833144 GATATAACAGTTAGGTATAATGAGTAAGACTATA
1 GATATAACAGTTAGGTATAATGAGTAAGACTATA
*
52833178 GATATAACAGTTAGGTATGATGAGTAAGACTATA
1 GATATAACAGTTAGGTATAATGAGTAAGACTATA
52833212 GAT
1 GAT
52833215 GAAAGACTCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.30
Consensus pattern (34 bp):
GATATAACAGTTAGGTATAATGAGTAAGACTATA
Found at i:52836383 original size:26 final size:27
Alignment explanation
Indices: 52836347--52836401 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
52836337 ATAGATGTTA
*
52836347 TTATCATTTTA-TGGCTTTATTTTGAC
1 TTATCATTTTATTGGCTGTATTTTGAC
52836373 TTATCATTTTATTGGCTGTATTTTGAC
1 TTATCATTTTATTGGCTGTATTTTGAC
52836400 TT
1 TT
52836402 GAATAATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.18, C:0.11, G:0.13, T:0.58
Consensus pattern (27 bp):
TTATCATTTTATTGGCTGTATTTTGAC
Found at i:52837114 original size:27 final size:27
Alignment explanation
Indices: 52837083--52837181 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
52837073 ATTGAGTATG
52837083 CCACAAAGG-TAGTTCTTACAGAGTTCA
1 CCACAAAGGCTA-TTCTTACAGAGTTCA
* *
52837110 CCACAAAGGCTATTCTTTCAGAGTTCG
1 CCACAAAGGCTATTCTTACAGAGTTCA
* * *
52837137 CCACAAACGTTATTCTTTA-AGAGTTAA
1 CCACAAAGGCTATTC-TTACAGAGTTCA
*
52837164 CCATAAAGGCTATTCTTA
1 CCACAAAGGCTATTCTTA
52837182 GCAATCGTGT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
26 3 0.05
27 53 0.88
28 4 0.07
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (27 bp):
CCACAAAGGCTATTCTTACAGAGTTCA
Found at i:52839582 original size:30 final size:30
Alignment explanation
Indices: 52839548--52839617 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
52839538 CAAAGGCTTT
52839548 CTTTATAGAGGTTCGCCATAAACACTTTTC
1 CTTTATAGAGGTTCGCCATAAACACTTTTC
* * ***
52839578 CTTTAAAGAGGTTTGCCATAAAGGTTTTTC
1 CTTTATAGAGGTTCGCCATAAACACTTTTC
52839608 CTTTATAGAG
1 CTTTATAGAG
52839618 TCTTAACACA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (30 bp):
CTTTATAGAGGTTCGCCATAAACACTTTTC
Found at i:52845046 original size:13 final size:13
Alignment explanation
Indices: 52845025--52845059 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
52845015 GTGCAGTCTT
*
52845025 CACACGCCCTGGA
1 CACATGCCCTGGA
52845038 CACATGCCCTGGA
1 CACATGCCCTGGA
52845051 CACATGCCC
1 CACATGCCC
52845060 ATGTCCCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.23, C:0.46, G:0.20, T:0.11
Consensus pattern (13 bp):
CACATGCCCTGGA
Found at i:52845355 original size:112 final size:112
Alignment explanation
Indices: 52845158--52845381 Score: 394
Period size: 112 Copynumber: 2.0 Consensus size: 112
52845148 TTTGCCACCC
*
52845158 TTATTTACACCAACCTACACAGCAACAAGCATCACCAATCCAAGCATATACATACAACCAAATCA
1 TTATTTACACCAACCTACACAACAACAAGCATCACCAATCCAAGCATATACATACAACCAAATCA
*
52845223 GCCACAAACAAGATATCGATATATCATTTGCACATACTAACATCTAT
66 GCCACAAACAAGATATCGATACATCATTTGCACATACTAACATCTAT
* * * *
52845270 TTATTTGCACCAACCTACACAATAACAAGCATCACTAATCTAAGCATATACATACAACCAAATCA
1 TTATTTACACCAACCTACACAACAACAAGCATCACCAATCCAAGCATATACATACAACCAAATCA
52845335 GCCACAAACAAGATATCGATACATCATTTGCACATACTAACATCTAT
66 GCCACAAACAAGATATCGATACATCATTTGCACATACTAACATCTAT
52845382 CATGCCTAAA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 106 1.00
ACGTcount: A:0.43, C:0.28, G:0.06, T:0.23
Consensus pattern (112 bp):
TTATTTACACCAACCTACACAACAACAAGCATCACCAATCCAAGCATATACATACAACCAAATCA
GCCACAAACAAGATATCGATACATCATTTGCACATACTAACATCTAT
Found at i:52846697 original size:26 final size:26
Alignment explanation
Indices: 52846668--52846719 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
52846658 CAAACTTAAA
52846668 TCATGCTCATAACAGCCTACATTTTT
1 TCATGCTCATAACAGCCTACATTTTT
52846694 TCATGCTCATAACAGCCTACATTTTT
1 TCATGCTCATAACAGCCTACATTTTT
52846720 CATCAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (26 bp):
TCATGCTCATAACAGCCTACATTTTT
Found at i:52847193 original size:17 final size:17
Alignment explanation
Indices: 52847171--52847228 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
52847161 TTTTTGTGTA
52847171 CTAATTTATCTAATGGT
1 CTAATTTATCTAATGGT
* * **
52847188 CTAA-TTACCAACTATGCA
1 CTAATTTATCTA--ATGGT
52847206 CTAATTTATCTAATGGT
1 CTAATTTATCTAATGGT
52847223 CTAATT
1 CTAATT
52847229 ACCAACTAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
16 5 0.17
17 13 0.43
18 7 0.23
19 5 0.17
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (17 bp):
CTAATTTATCTAATGGT
Found at i:52847210 original size:35 final size:35
Alignment explanation
Indices: 52847170--52847236 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
52847160 ATTTTTGTGT
52847170 ACTAATTTATCTAATGGTCTAATTACCAACTATGC
1 ACTAATTTATCTAATGGTCTAATTACCAACTATGC
52847205 ACTAATTTATCTAATGGTCTAATTACCAACTA
1 ACTAATTTATCTAATGGTCTAATTACCAACTA
52847237 AAGACCTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.37
Consensus pattern (35 bp):
ACTAATTTATCTAATGGTCTAATTACCAACTATGC
Found at i:52850418 original size:55 final size:53
Alignment explanation
Indices: 52850292--52850477 Score: 198
Period size: 55 Copynumber: 3.5 Consensus size: 53
52850282 TTACCATTGC
* * * *
52850292 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATG-
1 CATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAATTCATCAATGT
* * *
52850344 CTATGCCTTGGCATGGTCTTACACGGGACCTTTGCCTTATAGTAATTCATCAATGT
1 C-ATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AATTCATCAATGT
* * *
52850400 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTT-ATCAATGT
1 CATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA-TTCATCAATGT
*
52850454 CATGCCTTGGCATGGTCTTACATG
1 CATGCCTTGACATGGTCTTACATG
52850478 ATATCCTTAT
Statistics
Matches: 112, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
52 3 0.03
53 30 0.27
54 33 0.29
55 43 0.38
56 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (53 bp):
CATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAATTCATCAATGT
Found at i:52850517 original size:47 final size:47
Alignment explanation
Indices: 52850464--52850585 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
52850454 CATGCCTTGG
* *
52850464 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
52850511 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
52850558 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
52850586 GTGCCAATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:52851025 original size:8 final size:8
Alignment explanation
Indices: 52851012--52851036 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
52851002 AATACTTTCT
52851012 TATAAAAG
1 TATAAAAG
52851020 TATAAAAG
1 TATAAAAG
52851028 TATAAAAG
1 TATAAAAG
52851036 T
1 T
52851037 TCTCTTTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (8 bp):
TATAAAAG
Found at i:52853549 original size:15 final size:15
Alignment explanation
Indices: 52853529--52853572 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
52853519 CAATTTCTCA
52853529 CATTTTCAATTCAAT
1 CATTTTCAATTCAAT
* *
52853544 CATTTTCCACTCAAT
1 CATTTTCAATTCAAT
52853559 CAATTTTCAATTCA
1 C-ATTTTCAATTCA
52853573 CATATTCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.43
Consensus pattern (15 bp):
CATTTTCAATTCAAT
Found at i:52854416 original size:343 final size:343
Alignment explanation
Indices: 52853781--52854475 Score: 1374
Period size: 343 Copynumber: 2.0 Consensus size: 343
52853771 ATTCAATTCA
*
52853781 ATAAAA-TTATTTGCCTCAATAATTACTTACTATAAAATAAATAAATTTAAAATTAATACTTAAT
1 ATAAAATTTCTTTGCCTCAATAATTACTTACTATAAAATAAATAAATTTAAAATTAATACTTAAT
52853845 AATAAATAACTTGAATTATAGTAATACAAACCCGAATTTCATAATTACTCCTCGATAACTTTCTC
66 AATAAATAACTTGAATTATAGTAATACAAACCCGAATTTCATAATTACTCCTCGATAACTTTCTC
52853910 CTTTCCTTTTTGTGCCAATGCTCCGGGTTCTTTGTTAGTTATGAAAATAATAGTAATTTACATTA
131 CTTTCCTTTTTGTGCCAATGCTCCGGGTTCTTTGTTAGTTATGAAAATAATAGTAATTTACATTA
52853975 TTATTTAAAGCATTAATTTTAATAAATAATTAAATTTCTAAACAATTCCTACCTTATTCCCAATT
196 TTATTTAAAGCATTAATTTTAATAAATAATTAAATTTCTAAACAATTCCTACCTTATTCCCAATT
52854040 CAATCCTAACTAAACTTACTTACTTTCTTAATCCAATCCACTCTCTTTTTCTATTCAAATTTTGT
261 CAATCCTAACTAAACTTACTTACTTTCTTAATCCAATCCACTCTCTTTTTCTATTCAAATTTTGT
52854105 CTAAACTTATATTTAACT
326 CTAAACTTATATTTAACT
52854123 ATAAAATTTCTTTGCCTCAATAATTACTTACTATAAAATAAATAAATTTAAAATTAATACTTAAT
1 ATAAAATTTCTTTGCCTCAATAATTACTTACTATAAAATAAATAAATTTAAAATTAATACTTAAT
52854188 AATAAATAACTTGAATTATAGTAATACAAACCCGAATTTCATAATTACTCCTCGATAACTTTCTC
66 AATAAATAACTTGAATTATAGTAATACAAACCCGAATTTCATAATTACTCCTCGATAACTTTCTC
52854253 CTTTCCTTTTTGTGCCAATGCTCCGGGTTCTTTGTTAGTTATGAAAATAATAGTAATTTACATTA
131 CTTTCCTTTTTGTGCCAATGCTCCGGGTTCTTTGTTAGTTATGAAAATAATAGTAATTTACATTA
52854318 TTATTTAAAGCATTAATTTTAATAAATAATTAAATTTCTAAACAATTCCTACCTTATTCCCAATT
196 TTATTTAAAGCATTAATTTTAATAAATAATTAAATTTCTAAACAATTCCTACCTTATTCCCAATT
52854383 CAATCCTAACTAAACTTACTTACTTTCTTAATCCAATCCACTCTCTTTTTCTATTCAAATTTTGT
261 CAATCCTAACTAAACTTACTTACTTTCTTAATCCAATCCACTCTCTTTTTCTATTCAAATTTTGT
52854448 CTAAACTTATATTTAACT
326 CTAAACTTATATTTAACT
52854466 ATAAAATTTC
1 ATAAAATTTC
52854476 CAGCATATTT
Statistics
Matches: 351, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
342 6 0.02
343 345 0.98
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (343 bp):
ATAAAATTTCTTTGCCTCAATAATTACTTACTATAAAATAAATAAATTTAAAATTAATACTTAAT
AATAAATAACTTGAATTATAGTAATACAAACCCGAATTTCATAATTACTCCTCGATAACTTTCTC
CTTTCCTTTTTGTGCCAATGCTCCGGGTTCTTTGTTAGTTATGAAAATAATAGTAATTTACATTA
TTATTTAAAGCATTAATTTTAATAAATAATTAAATTTCTAAACAATTCCTACCTTATTCCCAATT
CAATCCTAACTAAACTTACTTACTTTCTTAATCCAATCCACTCTCTTTTTCTATTCAAATTTTGT
CTAAACTTATATTTAACT
Found at i:52854782 original size:12 final size:12
Alignment explanation
Indices: 52854767--52854797 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
52854757 TTCTCTTTTA
52854767 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
52854779 TTTTTCTTTCTC
1 TTTTTCTTTCCC
52854791 TTTTTCT
1 TTTTTCT
52854798 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:52855516 original size:13 final size:13
Alignment explanation
Indices: 52855498--52855522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52855488 CACTACTAGA
52855498 CTTATAATTATTC
1 CTTATAATTATTC
52855511 CTTATAATTATT
1 CTTATAATTATT
52855523 TACGAACTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (13 bp):
CTTATAATTATTC
Found at i:52859533 original size:23 final size:22
Alignment explanation
Indices: 52859475--52859533 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
52859465 CAATTTCCAC
* *
52859475 ATCAATCACATATATCCATATAA
1 ATCAATC-CATTTATCCATACAA
**
52859498 ATTCAATAAATTTATCACATACAA
1 A-TCAATCCATTTATC-CATACAA
52859522 ATCAATCCATTT
1 ATCAATCCATTT
52859534 CAATTGTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (22 bp):
ATCAATCCATTTATCCATACAA
Found at i:52859898 original size:11 final size:12
Alignment explanation
Indices: 52859875--52859903 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
52859865 TTAATATTTA
52859875 AATTTCTTATTC
1 AATTTCTTATTC
52859887 AATTTC-TATTC
1 AATTTCTTATTC
52859898 AATTTC
1 AATTTC
52859904 CACTTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.55
Consensus pattern (12 bp):
AATTTCTTATTC
Found at i:52860334 original size:17 final size:18
Alignment explanation
Indices: 52860300--52860337 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
52860290 AAATCCCTAA
52860300 TTTTTCCTTTTTCTTTTC
1 TTTTTCCTTTTTCTTTTC
52860318 TTTTT-CTTCTTTC-TTTC
1 TTTTTCCTT-TTTCTTTTC
52860335 TTT
1 TTT
52860338 CTTTCCCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCCTTTTTCTTTTC
Found at i:52860717 original size:17 final size:18
Alignment explanation
Indices: 52860686--52860720 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
52860676 AATTTAATTA
*
52860686 TTTTATCTAATAAATATC
1 TTTTATCTAAAAAATATC
52860704 TTTT-TCTAAAAAATATC
1 TTTTATCTAAAAAATATC
52860721 ACAACTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTATCTAAAAAATATC
Found at i:52863524 original size:27 final size:27
Alignment explanation
Indices: 52863475--52863580 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
52863465 GCAATGAATT
* *
52863475 AGAGTATGCCA-AAACGGTAATTCTTTC
1 AGAGTTTGCCACAAA-GGTTATTCTTTC
** * * *
52863502 AGAGTTCACCGCAAAGGCTATTCTTTT
1 AGAGTTTGCCACAAAGGTTATTCTTTC
52863529 AGAGTTTGCCACAAAGGTTATTCTTTC
1 AGAGTTTGCCACAAAGGTTATTCTTTC
*
52863556 AAAGTTTGCCACAAAGGTTATTCTT
1 AGAGTTTGCCACAAAGGTTATTCTT
52863581 AGTAGTCATG
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 62 0.95
28 3 0.05
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (27 bp):
AGAGTTTGCCACAAAGGTTATTCTTTC
Found at i:52863555 original size:54 final size:54
Alignment explanation
Indices: 52863473--52863580 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
52863463 AAGCAATGAA
* *
52863473 TTAGAGTATGCCAAAACGGTAATTCTTTCAGAGTTCACCGCAAAGGCTATTCTT
1 TTAGAGTATGCCAAAACGGTAATTCTTTCAAAGTTCACCACAAAGGCTATTCTT
* * ** *
52863527 TTAGAGTTTGCCACAAA-GGTTATTCTTTCAAAGTTTGCCACAAAGGTTATTCTT
1 TTAGAGTATGCCA-AAACGGTAATTCTTTCAAAGTTCACCACAAAGGCTATTCTT
52863581 AGTAGTCATG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
54 43 0.93
55 3 0.07
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (54 bp):
TTAGAGTATGCCAAAACGGTAATTCTTTCAAAGTTCACCACAAAGGCTATTCTT
Found at i:52869726 original size:25 final size:27
Alignment explanation
Indices: 52869693--52869752 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
52869683 CTTATTAGCA
* *
52869693 TCCCGATTAAA-GGCTCTTTGTGAGCT
1 TCCCGATTAAATGGCTCTTTATGAACT
52869719 TCCC-ATTAAATTGGCTCTTTATGAACT
1 TCCCGATTAAA-TGGCTCTTTATGAACT
52869746 TCCCGAT
1 TCCCGAT
52869753 AATGCTTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 6 0.21
26 4 0.14
27 17 0.59
28 2 0.07
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.37
Consensus pattern (27 bp):
TCCCGATTAAATGGCTCTTTATGAACT
Found at i:52870319 original size:26 final size:26
Alignment explanation
Indices: 52870288--52870341 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
52870278 AAATATATGG
52870288 TAAGCTAAATTCCTGTTATATGAACT
1 TAAGCTAAATTCCTGTTATATGAACT
52870314 TAAGCTAAATTCCTGTTATATGAACT
1 TAAGCTAAATTCCTGTTATATGAACT
52870340 TA
1 TA
52870342 CTAAACATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (26 bp):
TAAGCTAAATTCCTGTTATATGAACT
Found at i:52875583 original size:13 final size:13
Alignment explanation
Indices: 52875560--52875593 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
52875550 TTATTAATTT
52875560 ATTTGAAAATTTTC
1 ATTT-AAAATTTTC
52875574 ATTTAAAATTTTC
1 ATTTAAAATTTTC
52875587 ATTTAAA
1 ATTTAAA
52875594 TCATTGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (13 bp):
ATTTAAAATTTTC
Found at i:52882480 original size:13 final size:13
Alignment explanation
Indices: 52882464--52882494 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
52882454 TAAACTAAAT
52882464 TTTTCCACAGCAC
1 TTTTCCACAGCAC
*
52882477 TTTTCCACGGCAC
1 TTTTCCACAGCAC
52882490 TTTTC
1 TTTTC
52882495 AAAAGCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.35, G:0.10, T:0.39
Consensus pattern (13 bp):
TTTTCCACAGCAC
Found at i:52887901 original size:57 final size:57
Alignment explanation
Indices: 52887745--52887942 Score: 134
Period size: 57 Copynumber: 3.4 Consensus size: 57
52887735 CATATATAGA
* * * * *
52887745 CAGGATTACCAATCCAGGCTAAATCTC-ATCTC-CAATATATATACTCAATAGAGCTTAAT
1 CAGGATTACCAGTCCAGGCTAAATC-CAATC-CATAACATATGTTCT-AA-AGAGCTTAAT
* ** *
52887804 CAGGATTACCAGTCCAGGCTAAATCCATTTTATAACATATGTTCTAAAGAGCTTGAT
1 CAGGATTACCAGTCCAGGCTAAATCCAATCCATAACATATGTTCTAAAGAGCTTAAT
* * * * * * *
52887861 CTA-GATTACCGGTCCGGGCTAAATTCAATCCATAATATATGCTCGAGAG-GACTTATAT
1 C-AGGATTACCAGTCCAGGCTAAATCCAATCCATAACATATGTTCTAAAGAG-CTTA-AT
* * *
52887919 CAGTATTACCTGTCCGGGCTAAAT
1 CAGGATTACCAGTCCAGGCTAAAT
52887943 TTTATCGGAA
Statistics
Matches: 111, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
56 1 0.01
57 50 0.45
58 26 0.23
59 34 0.31
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (57 bp):
CAGGATTACCAGTCCAGGCTAAATCCAATCCATAACATATGTTCTAAAGAGCTTAAT
Found at i:52888344 original size:17 final size:17
Alignment explanation
Indices: 52888322--52888368 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
52888312 TCATCTATCA
52888322 TTGTCGGGCATTATA-AT
1 TTGTCGGGCATT-TACAT
*
52888339 TTGTCGGACATTTACAT
1 TTGTCGGGCATTTACAT
*
52888356 TTATCGGGC-TTTA
1 TTGTCGGGCATTTA
52888369 ACGAGTGTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (17 bp):
TTGTCGGGCATTTACAT
Found at i:52895065 original size:17 final size:17
Alignment explanation
Indices: 52895036--52895091 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
52895026 CAATTTCTAT
52895036 CATTTATCA-TTGTCGGG
1 CATTTA-CATTTGTCGGG
*
52895053 CATTATA-ATTTGTCGGA
1 CATT-TACATTTGTCGGG
*
52895070 CATTTACATTTATCGGG
1 CATTTACATTTGTCGGG
52895087 C-TTTA
1 CATTTA
52895092 ACGGGTGTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 7 0.21
17 24 0.73
18 2 0.06
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (17 bp):
CATTTACATTTGTCGGG
Found at i:52897618 original size:10 final size:10
Alignment explanation
Indices: 52897599--52897645 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
52897589 TTCTCAATTC
52897599 ATCA-ACCAA
1 ATCATACCAA
52897608 ATCATACCAA
1 ATCATACCAA
*
52897618 ATCTAAACCAAA
1 ATC-ATACC-AA
52897630 ATCATACCAA
1 ATCATACCAA
52897640 ATCATA
1 ATCATA
52897646 TGTTTCAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 4 0.12
10 16 0.48
11 8 0.24
12 5 0.15
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (10 bp):
ATCATACCAA
Found at i:52897634 original size:22 final size:21
Alignment explanation
Indices: 52897602--52897642 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
52897592 TCAATTCATC
52897602 AACCAAATCATACCAAATCTA
1 AACCAAATCATACCAAATCTA
52897623 AACCAAAATCATACCAAATC
1 AACC-AAATCATACCAAATC
52897643 ATATGTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (21 bp):
AACCAAATCATACCAAATCTA
Found at i:52898465 original size:42 final size:43
Alignment explanation
Indices: 52898355--52898483 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 43
52898345 AAAGCTCGTA
* * *
52898355 CAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATAT
* *
52898398 CAATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATTAAGTAT
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAAATAT
* * * *
52898441 -GATGCCAACGTCCCAGGCGTGGTCTTACACGAAAACACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATAT
52898483 C
1 C
52898484 GGATCCTATG
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 32 0.46
43 36 0.51
44 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATAT
Found at i:52901092 original size:40 final size:41
Alignment explanation
Indices: 52900970--52901093 Score: 191
Period size: 40 Copynumber: 3.1 Consensus size: 41
52900960 TATTCGAATG
*
52900970 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACT
*
52901010 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTA-TTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACT
* *
52901050 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACT
52901090 ATAT
1 ATAT
52901094 GGTTATTAAG
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
40 74 0.96
41 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACT
Found at i:52919317 original size:13 final size:13
Alignment explanation
Indices: 52919301--52919334 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
52919291 CTCATTTAGT
52919301 AATTGTAAAA-AAA
1 AATT-TAAAATAAA
52919314 AATTTAAAATAAA
1 AATTTAAAATAAA
52919327 AATTTAAA
1 AATTTAAA
52919335 TAGTGAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
AATTTAAAATAAA
Found at i:52925346 original size:21 final size:22
Alignment explanation
Indices: 52925306--52925348 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
52925296 TTATATTAAA
52925306 TTATATTAAAAGATTTTTATTT
1 TTATATTAAAAGATTTTTATTT
*
52925328 TTATATTAAAATA-TTTTATTT
1 TTATATTAAAAGATTTTTATTT
52925349 ACTGCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATATTAAAAGATTTTTATTT
Found at i:52936051 original size:126 final size:126
Alignment explanation
Indices: 52935826--52936077 Score: 468
Period size: 126 Copynumber: 2.0 Consensus size: 126
52935816 TCATCTAAAA
52935826 ATCTAATGAAGAATGAGAATTAAGAAACATAAAAATGCGATGCATATATTTGATTAGCAACTTGT
1 ATCTAATGAAGAATGAGAATTAAGAAACATAAAAATGCGATGCATATATTTGATTAGCAACTTGT
* *
52935891 CTTATTCAATTTCGGAAGAGATGAAAAGTTGAATTATAGTGTACTTTTAAATAGTATGCAG
66 CCTATTCAATTTCGGAAGAGATGAAAAGTTGAATTATAGTGTACTTATAAATAGTATGCAG
* *
52935952 ATCTAATGAAGAATGAGAATTAAGCAACATAAAAATGTGATGCATATATTTGATTAGCAACTTGT
1 ATCTAATGAAGAATGAGAATTAAGAAACATAAAAATGCGATGCATATATTTGATTAGCAACTTGT
52936017 CCTATTCAATTTCGGAAGAGATGAAAAGTTGAATTATAGTGTACTTATAAATAGTATGCAG
66 CCTATTCAATTTCGGAAGAGATGAAAAGTTGAATTATAGTGTACTTATAAATAGTATGCAG
52936078 TTGAATTACT
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 122 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.32
Consensus pattern (126 bp):
ATCTAATGAAGAATGAGAATTAAGAAACATAAAAATGCGATGCATATATTTGATTAGCAACTTGT
CCTATTCAATTTCGGAAGAGATGAAAAGTTGAATTATAGTGTACTTATAAATAGTATGCAG
Found at i:52941993 original size:14 final size:14
Alignment explanation
Indices: 52941960--52941986 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52941950 TTCCCACCAT
52941960 ATTCCTTATTTTTA
1 ATTCCTTATTTTTA
52941974 ATTCCTTATTTTT
1 ATTCCTTATTTTT
52941987 GTTTCCTAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTCCTTATTTTTA
Found at i:52951481 original size:20 final size:19
Alignment explanation
Indices: 52951452--52951489 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
52951442 GACCAAATCA
*
52951452 AATTAATCCTTTTATTATT
1 AATTAATCCTTATATTATT
52951471 AATTCAATCCTTATATTAT
1 AATT-AATCCTTATATTAT
52951490 AAAAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTAATCCTTATATTATT
Found at i:52969050 original size:48 final size:47
Alignment explanation
Indices: 52968993--52969265 Score: 200
Period size: 48 Copynumber: 5.7 Consensus size: 47
52968983 TGTCGAGGCC
*
52968993 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTTAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATC-TAATGCT
* * *
52969041 GATGTCATGTTCCAGACATGGTCTTACACTGGCTCTCA--TAATG-T
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTAATGCT
** * * *
52969085 GGCCAATGCCATGTCTTAGACATGGTTTTACATTAGCGTACACATC-AATGCT
1 -G---ATGCCATGTCCCAGACATGGTCTTACACTAGC-T-CTCATCTAATGCT
* *
52969137 GATGCCATATCCCAGACATGGTCTTACACTGGCTCTCAT-TACATTGGC-
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTA-A-T-GCT
* * * ** *
52969185 GATGCCATG-CTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCC
1 GATGCCATGTC-CCAGACATGGTCTTACACTAGCTCTCATCTAAT-GCT
* * * *
52969233 AATGCCATGTACTAGACATGGTCTTTCACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
52969266 ATACATATCA
Statistics
Matches: 179, Mismatches: 29, Indels: 34
0.74 0.12 0.14
Matches are distributed among these distances:
44 1 0.01
45 6 0.03
46 5 0.03
47 7 0.04
48 147 0.82
49 4 0.02
50 3 0.02
51 5 0.03
52 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTAATGCT
Found at i:52969190 original size:96 final size:95
Alignment explanation
Indices: 52968945--52969219 Score: 274
Period size: 96 Copynumber: 2.9 Consensus size: 95
52968935 GCGATTTACC
* * * * * *
52968945 GATGCCATGTTCCAAACATGGTCTTACACTGG-TTTACAT-GTCGAGGCCGATGCCATGTCCCAG
1 GATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCCATGTCCCAG
* *
52969008 ACATGGTCTTACACTAGCTCTCGTCTTAATGCT
64 ACATGGTCTTACACTAGCTCACATC-TAATGCT
* * * * **
52969041 GATGTCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCAATGCCATGTCTTAGAC
1 GATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGAC
* *
52969106 ATGGTTTTACATTAGCGTACACATC-AATGCT
66 ATGGTCTTACACTAGC-T-CACATCTAATGCT
52969137 GATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATTACAT-TGG-CGATGCCATG-CTCCA
1 GATGCCATATCCCAGACATGGTCTTACACTGGCTCTCA-TA-ATGTGGCCGATGCCATGTC-CCA
* *
52969199 AACATGGTCTTACACTGGCTC
63 GACATGGTCTTACACTAGCTC
52969220 TCATATCGTG
Statistics
Matches: 150, Mismatches: 22, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
94 1 0.01
95 2 0.01
96 132 0.88
97 9 0.06
98 6 0.04
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (95 bp):
GATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCACATCTAATGCT
Found at i:52969206 original size:144 final size:143
Alignment explanation
Indices: 52968993--52969254 Score: 388
Period size: 144 Copynumber: 1.8 Consensus size: 143
52968983 TGTCGAGGCC
* * * * *
52968993 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTTAATGCTGATGTCATGTTCCAGAC
1 GATGCCATATCCCAGACATGGTCTTACACTAGCTCTCG-ATTAATGCTGATGCCATGCTCCAAAC
52969058 ATGGTCTTACACTGGCTCTCATAAT-GTGGCCAATGCCATGT-CTTAGACATGGTTTTACATTAG
65 ATGGTCTTACACTGGCTCTCAT-ATCGTGGCCAATGCCATGTAC-TAGACATGGTTTTACATTAG
52969121 CGTACACATCAATGCT
128 CGTACACATCAATGCT
*
52969137 GATGCCATATCCCAGACATGGTCTTACACTGGCTCTC-ATTACATTGGC-GATGCCATGCTCCAA
1 GATGCCATATCCCAGACATGGTCTTACACTAGCTCTCGATTA-A-T-GCTGATGCCATGCTCCAA
52969200 ACATGGTCTTACACTGGCTCTCATATCGTGGCCAATGCCATGTACTAGACATGGT
63 ACATGGTCTTACACTGGCTCTCATATCGTGGCCAATGCCATGTACTAGACATGGT
52969255 CTTTCACTAG
Statistics
Matches: 107, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
142 3 0.03
143 3 0.03
144 98 0.92
145 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (143 bp):
GATGCCATATCCCAGACATGGTCTTACACTAGCTCTCGATTAATGCTGATGCCATGCTCCAAACA
TGGTCTTACACTGGCTCTCATATCGTGGCCAATGCCATGTACTAGACATGGTTTTACATTAGCGT
ACACATCAATGCT
Found at i:52971410 original size:68 final size:68
Alignment explanation
Indices: 52971296--52971431 Score: 209
Period size: 68 Copynumber: 2.0 Consensus size: 68
52971286 GTAGCATTAG
** ** *
52971296 TTGAAAGTGAAAGAATTTGATATGCCTAAGACTGCCTTTAATACCCATTACGGACATTATGAGTT
1 TTGAAAGTGAAAGAATCCGATATGCCTAAGACCACCTTTAAGACCCATTACGGACATTATGAGTT
52971361 CTT
66 CTT
* *
52971364 TTGAAAGTGAAAGAATCCGATATGCCTAAGACCATCTTTAAGACCCATTATGGACATTATGAGTT
1 TTGAAAGTGAAAGAATCCGATATGCCTAAGACCACCTTTAAGACCCATTACGGACATTATGAGTT
52971429 CTT
66 CTT
52971432 ATTTATGCTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (68 bp):
TTGAAAGTGAAAGAATCCGATATGCCTAAGACCACCTTTAAGACCCATTACGGACATTATGAGTT
CTT
Found at i:52979814 original size:23 final size:23
Alignment explanation
Indices: 52979753--52979814 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
52979743 ATTGTTCGCG
* *
52979753 AACATATTCAATTATATATTCATG
1 AACATGTTCAATTA-ATATTCATA
*** *
52979777 AACATGTTTGTTTAATATTCGTA
1 AACATGTTCAATTAATATTCATA
52979800 AACATGTTCAATTAA
1 AACATGTTCAATTAA
52979815 GTCAAATGAA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (23 bp):
AACATGTTCAATTAATATTCATA
Found at i:52981305 original size:46 final size:47
Alignment explanation
Indices: 52981157--52981426 Score: 249
Period size: 47 Copynumber: 5.8 Consensus size: 47
52981147 TTTGTTTGTG
* *
52981157 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCCGGCATATTATGA--A
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCAT-CGGCCT-TGA-GATTA
* * **
52981203 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACAA
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATTA
52981250 GAGCTAGTGTAAGA-CATG-CTTGGGACAT-GCATCGGCCTTGAGACTTA
1 -AGCTAGTGTAAGACCATGTC-TGGGACATGGCATCGGCCTTGAGA-TTA
* * * *
52981297 AGCGAGTGTAAGA-CATGTCTGGGAAAT-GCATCGG-CTACGAGATGA
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-TGAGATTA
* *
52981342 TAG-TCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGATATG
1 -AGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGAT-TA
*
52981390 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
52981427 ACCTTACCCA
Statistics
Matches: 190, Mismatches: 17, Indels: 32
0.79 0.07 0.13
Matches are distributed among these distances:
45 6 0.03
46 74 0.39
47 85 0.45
48 25 0.13
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATTA
Found at i:52981414 original size:140 final size:141
Alignment explanation
Indices: 52981161--52981426 Score: 366
Period size: 140 Copynumber: 1.9 Consensus size: 141
52981151 TTTGTGAGCT
* **
52981161 AGTGTAAGACATGTCTGGGACATGCATCCGGCATATTATGAAAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGAAATGCATCCGGCATAAGATGAAAGCTAGTGTAAGACCATGTCTGG
*
52981226 GACATGGCATCAGCATTGAGACAAGAGCTAGTGTAAGACATGCTTGGGACAT-GCATCGGCCTTG
66 GACATGGCATCAGCATTGAGACAAGAGCCAGTGTAAGACATGCTTGGGACATGGCATCGGCCTTG
52981290 AGACTTAAGCG
131 AGACTTAAGCG
*
52981301 AGTGTAAGACATGTCTGGGAAATGCAT-CGGC-TACGAGATGATAG-TCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGAAATGCATCCGGCATA--AGATGAAAGCT-AGTGTAAGACCATGTC
* *
52981363 TGGGACATGGCATC-G-ACTTGAGATATGAGCCAGTGTAAGACCATG-TCTGGGACATGGCATCG
63 TGGGACATGGCATCAGCA-TTGAGACAAGAGCCAGTGTAAGA-CATGCT-TGGGACATGGCATCG
52981425 GC
125 GC
52981427 ACCTTACCCA
Statistics
Matches: 112, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
138 3 0.03
139 27 0.24
140 74 0.66
141 8 0.07
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGAAATGCATCCGGCATAAGATGAAAGCTAGTGTAAGACCATGTCTGG
GACATGGCATCAGCATTGAGACAAGAGCCAGTGTAAGACATGCTTGGGACATGGCATCGGCCTTG
AGACTTAAGCG
Found at i:52982558 original size:20 final size:21
Alignment explanation
Indices: 52982520--52982558 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
52982510 TCGAGTTGGT
52982520 CACATGGGCGTGTTGCCCTTC
1 CACATGGGCGTGTTGCCCTTC
52982541 CACATGGGCGTG-TGCCCT
1 CACATGGGCGTGTTGCCCT
52982559 CTTTTAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.26
Consensus pattern (21 bp):
CACATGGGCGTGTTGCCCTTC
Found at i:52987904 original size:12 final size:12
Alignment explanation
Indices: 52987865--52987902 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
52987855 TATGGTGCCA
52987865 TTTGGAAACTTG
1 TTTGGAAACTTG
52987877 TTTGGAAACTTG
1 TTTGGAAACTTG
52987889 TTTGGAAAC-TG
1 TTTGGAAACTTG
52987900 TTT
1 TTT
52987903 TGTATGCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.19
12 21 0.81
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.45
Consensus pattern (12 bp):
TTTGGAAACTTG
Found at i:52995562 original size:28 final size:28
Alignment explanation
Indices: 52995522--52995580 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
52995512 TCAAAAGTAG
52995522 GATATTTTGACAAAAAAATAAACATTGT
1 GATATTTTGACAAAAAAATAAACATTGT
52995550 GATATTTTGACAAAAAAATAAACATTGT
1 GATATTTTGACAAAAAAATAAACATTGT
52995578 GAT
1 GAT
52995581 TAATTGTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (28 bp):
GATATTTTGACAAAAAAATAAACATTGT
Found at i:52997001 original size:31 final size:30
Alignment explanation
Indices: 52996945--52997003 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
52996935 AAAAATCTAA
52996945 TGACTTAAATAAAAATTTATGAATAGTTAAG
1 TGACTTAAATAAAAATTTA-GAATAGTTAAG
*
52996976 TGACTTAAATGAAAACTTTCA-AATAGTT
1 TGACTTAAAT-AAAAATTT-AGAATAGTT
52997004 TAATGACCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 17 0.68
32 7 0.28
33 1 0.04
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.36
Consensus pattern (30 bp):
TGACTTAAATAAAAATTTAGAATAGTTAAG
Found at i:53001865 original size:28 final size:28
Alignment explanation
Indices: 53001802--53001955 Score: 247
Period size: 28 Copynumber: 5.5 Consensus size: 28
53001792 ATATTAAGTC
*
53001802 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
53001829 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
53001857 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
53001885 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53001913 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
53001942 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53001956 CAATCTCATG
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 22 0.18
28 79 0.66
29 19 0.16
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53004042 original size:10 final size:10
Alignment explanation
Indices: 53004024--53004058 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
53004014 CTAAATTCCA
53004024 AAAGATAAAT
1 AAAGATAAAT
*
53004034 AAGGATAAAT
1 AAAGATAAAT
53004044 AAAGATAAAT
1 AAAGATAAAT
53004054 AAAGA
1 AAAGA
53004059 AAAAAGCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:53005453 original size:13 final size:13
Alignment explanation
Indices: 53005431--53005464 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
53005421 CGAACATGGA
*
53005431 CGTGTGCCACGGG
1 CGTGTCCCACGGG
53005444 CGTGTCCCACGGG
1 CGTGTCCCACGGG
53005457 CGTGTCCC
1 CGTGTCCC
53005465 TGCCGAGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.38, G:0.38, T:0.18
Consensus pattern (13 bp):
CGTGTCCCACGGG
Found at i:53010946 original size:27 final size:27
Alignment explanation
Indices: 53010913--53011036 Score: 185
Period size: 27 Copynumber: 4.6 Consensus size: 27
53010903 TAAATTGTGC
53010913 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
53010940 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
53010967 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
53010995 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
53011022 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
53011037 GACTTAATAT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 66 0.73
28 25 0.27
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:53011005 original size:55 final size:54
Alignment explanation
Indices: 53010913--53011036 Score: 185
Period size: 55 Copynumber: 2.3 Consensus size: 54
53010903 TAAATTGTGC
*
53010913 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAATTGACTATAT
* * * *
53010967 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAATTGACTATAT
*
53011022 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
53011037 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
54 16 0.25
55 47 0.75
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAATTGACTATAT
Found at i:53014513 original size:515 final size:515
Alignment explanation
Indices: 53013542--53014571 Score: 2060
Period size: 515 Copynumber: 2.0 Consensus size: 515
53013532 TACGTGACTC
53013542 AACTGGAGCAACACTTTGGGCTCCTCAACACCGTAGCCCAAGAATCATCCCTCACCCTCATCGGC
1 AACTGGAGCAACACTTTGGGCTCCTCAACACCGTAGCCCAAGAATCATCCCTCACCCTCATCGGC
53013607 CAGATGTCCCCACAAGGCATCTCGAGCATGCTCAGCATGAGGATGATCGAGAGGCGCCGAGGAAC
66 CAGATGTCCCCACAAGGCATCTCGAGCATGCTCAGCATGAGGATGATCGAGAGGCGCCGAGGAAC
53013672 CTACCCTCCCCAGTATCGTCTCGCCCAATCTACCGAGGAGGAGGCCTACGAAGACATTTCCGATG
131 CTACCCTCCCCAGTATCGTCTCGCCCAATCTACCGAGGAGGAGGCCTACGAAGACATTTCCGATG
53013737 ATGTCCCTCCACAACACGAGGACCCACCGACTCAGCCACCACCACCCTCTCATCCAGTTCATGCG
196 ATGTCCCTCCACAACACGAGGACCCACCGACTCAGCCACCACCACCCTCTCATCCAGTTCATGCG
53013802 GTGGCTTCATATGCTTACAACTCTGAGCGACTCACTCAATTCGAGCAGCAGTGTTTTCAACGATT
261 GTGGCTTCATATGCTTACAACTCTGAGCGACTCACTCAATTCGAGCAGCAGTGTTTTCAACGATT
53013867 TGACAACATTGATGTTACTCTATAGTAAATCTGTCAGCACCTTCACATCTCATTGCCAGTCCCAC
326 TGACAACATTGATGTTACTCTATAGTAAATCTGTCAGCACCTTCACATCTCATTGCCAGTCCCAC
53013932 ATCGCGAAACATTCAGCGATGAAGATGTTTAAAAATATTTATTTATTATTTTATGTTTTTAATTT
391 ATCGCGAAACATTCAGCGATGAAGATGTTTAAAAATATTTATTTATTATTTTATGTTTTTAATTT
53013997 TTATTGAAACTACTTTTTATTTTTATTAGATTTTAGAAATTTTATTTTTAATTATTAATT
456 TTATTGAAACTACTTTTTATTTTTATTAGATTTTAGAAATTTTATTTTTAATTATTAATT
53014057 AACTGGAGCAACACTTTGGGCTCCTCAACACCGTAGCCCAAGAATCATCCCTCACCCTCATCGGC
1 AACTGGAGCAACACTTTGGGCTCCTCAACACCGTAGCCCAAGAATCATCCCTCACCCTCATCGGC
53014122 CAGATGTCCCCACAAGGCATCTCGAGCATGCTCAGCATGAGGATGATCGAGAGGCGCCGAGGAAC
66 CAGATGTCCCCACAAGGCATCTCGAGCATGCTCAGCATGAGGATGATCGAGAGGCGCCGAGGAAC
53014187 CTACCCTCCCCAGTATCGTCTCGCCCAATCTACCGAGGAGGAGGCCTACGAAGACATTTCCGATG
131 CTACCCTCCCCAGTATCGTCTCGCCCAATCTACCGAGGAGGAGGCCTACGAAGACATTTCCGATG
53014252 ATGTCCCTCCACAACACGAGGACCCACCGACTCAGCCACCACCACCCTCTCATCCAGTTCATGCG
196 ATGTCCCTCCACAACACGAGGACCCACCGACTCAGCCACCACCACCCTCTCATCCAGTTCATGCG
53014317 GTGGCTTCATATGCTTACAACTCTGAGCGACTCACTCAATTCGAGCAGCAGTGTTTTCAACGATT
261 GTGGCTTCATATGCTTACAACTCTGAGCGACTCACTCAATTCGAGCAGCAGTGTTTTCAACGATT
53014382 TGACAACATTGATGTTACTCTATAGTAAATCTGTCAGCACCTTCACATCTCATTGCCAGTCCCAC
326 TGACAACATTGATGTTACTCTATAGTAAATCTGTCAGCACCTTCACATCTCATTGCCAGTCCCAC
53014447 ATCGCGAAACATTCAGCGATGAAGATGTTTAAAAATATTTATTTATTATTTTATGTTTTTAATTT
391 ATCGCGAAACATTCAGCGATGAAGATGTTTAAAAATATTTATTTATTATTTTATGTTTTTAATTT
53014512 TTATTGAAACTACTTTTTATTTTTATTAGATTTTAGAAATTTTATTTTTAATTATTAATT
456 TTATTGAAACTACTTTTTATTTTTATTAGATTTTAGAAATTTTATTTTTAATTATTAATT
53014572 TTGGTTATTT
Statistics
Matches: 515, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
515 515 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (515 bp):
AACTGGAGCAACACTTTGGGCTCCTCAACACCGTAGCCCAAGAATCATCCCTCACCCTCATCGGC
CAGATGTCCCCACAAGGCATCTCGAGCATGCTCAGCATGAGGATGATCGAGAGGCGCCGAGGAAC
CTACCCTCCCCAGTATCGTCTCGCCCAATCTACCGAGGAGGAGGCCTACGAAGACATTTCCGATG
ATGTCCCTCCACAACACGAGGACCCACCGACTCAGCCACCACCACCCTCTCATCCAGTTCATGCG
GTGGCTTCATATGCTTACAACTCTGAGCGACTCACTCAATTCGAGCAGCAGTGTTTTCAACGATT
TGACAACATTGATGTTACTCTATAGTAAATCTGTCAGCACCTTCACATCTCATTGCCAGTCCCAC
ATCGCGAAACATTCAGCGATGAAGATGTTTAAAAATATTTATTTATTATTTTATGTTTTTAATTT
TTATTGAAACTACTTTTTATTTTTATTAGATTTTAGAAATTTTATTTTTAATTATTAATT
Found at i:53030332 original size:32 final size:29
Alignment explanation
Indices: 53030224--53030334 Score: 77
Period size: 32 Copynumber: 3.7 Consensus size: 29
53030214 CCTGTAAATT
53030224 TATATATTATATAA-AACCATACCCATAAT-
1 TATATATTATATAATAA-CA-ACCCATAATA
* * *
53030253 TATATATTATATAATAA-GACTCATGCATA
1 TATATATTATATAATAACAACCCAT-AATA
*
53030282 TAATATAATT-TATGTATAACAACCCATATATA
1 T-ATAT-ATTATAT-AATAACAACCCATA-ATA
53030314 TATTATATTATATATATAACA
1 TA-TATATTATATA-ATAACA
53030335 CCAAATTCCA
Statistics
Matches: 63, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
27 5 0.08
28 2 0.03
29 15 0.24
30 9 0.14
31 11 0.17
32 21 0.33
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.39
Consensus pattern (29 bp):
TATATATTATATAATAACAACCCATAATA
Found at i:53030386 original size:31 final size:33
Alignment explanation
Indices: 53030312--53030390 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 33
53030302 AACCCATATA
*
53030312 TATATTATATTATATATATAACACCAAATTCCAT
1 TATA-TATATTATATATATAACACCAAATCCCAT
*
53030346 TAATATATATTATATATA-AA-A-TAAATCCCAT
1 T-ATATATATTATATATATAACACCAAATCCCAT
53030377 GTATATATATTATA
1 -TATATATATTATA
53030391 GGTTCATGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 20 0.49
32 2 0.05
33 2 0.05
34 14 0.34
35 3 0.07
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (33 bp):
TATATATATTATATATATAACACCAAATCCCAT
Found at i:53036844 original size:84 final size:85
Alignment explanation
Indices: 53036698--53036981 Score: 356
Period size: 84 Copynumber: 3.3 Consensus size: 85
53036688 AGATCAAGAC
*
53036698 AGTACGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGACGAGTAAGATCATAGCTGAAAG
1 AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGACGAGTAAGATCATAGCTGAAAG
*
53036763 AC-GCACCATTATTCAGATG
66 ACTGCATCATTATTCAGATG
* * *
53036782 AGTAAGACCATAGTTGAAAGACGCTATGGGATCATTATTCAAACGAGTAAGATCATAGCTGAAAG
1 AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGACGAGTAAGATCATAGCTGAAAG
*
53036847 ACGTTATGGCATCATTATTCAGACG
66 AC----T-GCATCATTATTCAGATG
* * * *
53036872 AGTAAGACCCTAGCTGAAAGCCGCTATGGCATCATTATTCAGAC-AATAAGACCATAGCTGAAGA
1 AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGACGAGTAAGATCATAGCTGAA-A
* *
53036936 CACTATAGCATCATGATTCAGATG
65 GAC--T-GCATCATTATTCAGATG
*
53036960 AGTAAGACCATAGTTGAAAGAC
1 AGTAAGACCATAGCTGAAAGAC
53036982 ATTATCGCAT
Statistics
Matches: 173, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
84 63 0.36
88 37 0.21
89 16 0.09
90 57 0.33
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (85 bp):
AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGACGAGTAAGATCATAGCTGAAAG
ACTGCATCATTATTCAGATG
Found at i:53036992 original size:45 final size:45
Alignment explanation
Indices: 53036694--53036981 Score: 369
Period size: 45 Copynumber: 6.6 Consensus size: 45
53036684 ATCAAGATCA
*
53036694 AGAC-AGTACGACCATAGCTGAAAGACGCTATGGCATCATTATTC
1 AGACGAGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTC
*
53036738 AGACGAGTAAGATCATAGCTGAAAGACGC-A---C--CATTATTC
1 AGACGAGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTC
* * *
53036777 AGATGAGTAAGACCATAGTTGAAAGACGCTATGGGATCATTATTC
1 AGACGAGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTC
* * *
53036822 AAACGAGTAAGATCATAGCTGAAAGACGTTATGGCATCATTATTC
1 AGACGAGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTC
* *
53036867 AGACGAGTAAGACCCTAGCTGAAAGCCGCTATGGCATCATTATTC
1 AGACGAGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTC
* * * *
53036912 AGAC-AATAAGACCATAGCTG-AAGACACTATAGCATCATGATTC
1 AGACGAGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTC
* *
53036955 AGATGAGTAAGACCATAGTTGAAAGAC
1 AGACGAGTAAGACCATAGCTGAAAGAC
53036982 ATTATCGCAT
Statistics
Matches: 209, Mismatches: 26, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
39 34 0.16
40 1 0.00
41 1 0.00
43 22 0.11
44 33 0.16
45 118 0.56
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (45 bp):
AGACGAGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTC
Found at i:53037035 original size:178 final size:171
Alignment explanation
Indices: 53036694--53037039 Score: 401
Period size: 178 Copynumber: 2.0 Consensus size: 171
53036684 ATCAAGATCA
* * *
53036694 AGACAGTACGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGACGAGTAAGATCATAGCTG
1 AGACAGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGACGAATAAGACCATAGCTG
* * * * * *
53036759 AAAGACGCACCATTATTCAGATGAGTAAGACCATAGTTGAAAGACGCTATGGGATCATTATTCAA
66 AAACACGCACCATGATTCAGATGAGTAAGACCATAGTTGAAAGACACTATCGCATCA-TAATCAA
* * *
53036824 ACGAGTAAGATCATAGCTGAAAGACGTTATGGCATCATTATTC
130 ACGAATAAGACCATAACTGAAAGACG-TATGGCATCATTATTC
* *
53036867 AGACGAGTAAGACCCTAGCTGAAAGCCGCTATGGCATCATTATTCAGAC-AATAAGACCATAGCT
1 AGAC-AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGACGAATAAGACCATAGCT
* *
53036931 GAAGACACTATAGCATCATGATTCAGATGAGTAAGACCATAGTTGAAAGACATTATCGCATC-TA
65 GAA-ACAC----GCACCATGATTCAGATGAGTAAGACCATAGTTGAAAGACACTATCGCATCATA
* *
53036995 ATCGAAAATGAATAAGACCATAATTGAAAGGAAC-TATGGCATCAT
125 ATC--AAACGAATAAGACCATAACTGAAA-G-ACGTATGGCATCAT
53037040 ATTGGAAAGT
Statistics
Matches: 145, Mismatches: 18, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
173 20 0.14
174 44 0.30
176 4 0.03
178 74 0.51
179 1 0.01
180 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.23
Consensus pattern (171 bp):
AGACAGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGACGAATAAGACCATAGCTG
AAACACGCACCATGATTCAGATGAGTAAGACCATAGTTGAAAGACACTATCGCATCATAATCAAA
CGAATAAGACCATAACTGAAAGACGTATGGCATCATTATTC
Found at i:53037061 original size:46 final size:47
Alignment explanation
Indices: 53036916--53037128 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 47
53036906 TTATTCAGAC
** *
53036916 AATAAGACCATAGCTG-AA-GACACTATAGCATCATGATTCAG--A-TG
1 AATAAGACCATAATTGAAAGGACACTATGGCATCAT-ATT-AGAAAGTG
* * * * * * *
53036960 AGTAAGACCATAGTTGAAA-GACATTATCGCATC-TAATCGAAAATG
1 AATAAGACCATAATTGAAAGGACACTATGGCATCATATTAGAAAGTG
*
53037005 AATAAGACCATAATTGAAAGGA-ACTATGGCATCATATTGGAAAGTG
1 AATAAGACCATAATTGAAAGGACACTATGGCATCATATTAGAAAGTG
** *
53037051 AATAAGACCATGGTT-AAAAGACACTATGGCATCATATTAGAAAGTG
1 AATAAGACCATAATTGAAAGGACACTATGGCATCATATTAGAAAGTG
* * *
53037097 AATAAGACAATGATTGAAA-GACATTATGGCAT
1 AATAAGACCATAATTGAAAGGACACTATGGCAT
53037129 TAAGTCGAGA
Statistics
Matches: 141, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 16 0.11
45 47 0.33
46 72 0.51
47 3 0.02
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (47 bp):
AATAAGACCATAATTGAAAGGACACTATGGCATCATATTAGAAAGTG
Found at i:53037071 original size:91 final size:91
Alignment explanation
Indices: 53036962--53037158 Score: 220
Period size: 91 Copynumber: 2.2 Consensus size: 91
53036952 TTCAGATGAG
* * * * *
53036962 TAAGACCATAGTTGAAAGACATTATCGCATC-TAATCGAAAATGAATAAGACCATAATTGAAAGG
1 TAAGACCATGGTTAAAAGACACTATCGCATCATAATAGAAAATGAATAAGACAATAATTGAAA-G
* * *
53037026 A-ACTATGGCATCATATTGGA-AAGTGAA
65 ACACTATGGCATCA-AGTCGAGAA-TAAA
* * * *
53037053 TAAGACCATGGTTAAAAGACACTATGGCATCATATTAGAAAGTGAATAAGACAATGATTGAAAGA
1 TAAGACCATGGTTAAAAGACACTATCGCATCATAATAGAAAATGAATAAGACAATAATTGAAAGA
* *
53037118 CATTATGGCATTAAGTCGAGAATAAA
66 CACTATGGCATCAAGTCGAGAATAAA
53037144 TAAGACCATGGTTAA
1 TAAGACCATGGTTAA
53037159 GAGAAACCAT
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
91 51 0.57
92 38 0.43
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.24
Consensus pattern (91 bp):
TAAGACCATGGTTAAAAGACACTATCGCATCATAATAGAAAATGAATAAGACAATAATTGAAAGA
CACTATGGCATCAAGTCGAGAATAAA
Found at i:53041765 original size:20 final size:20
Alignment explanation
Indices: 53041742--53041795 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 20
53041732 GCTCTTGAGT
53041742 GCACATTCATGCTCCT-ATTA
1 GCACATTCATGCTCCTGA-TA
53041762 GCAC-TGT-AGTGCTCCTGATA
1 GCACAT-TCA-TGCTCCTGATA
*
53041782 GCACATTCGTGCTC
1 GCACATTCATGCTC
53041796 ATGTCAGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 10
0.72 0.03 0.26
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.31
Consensus pattern (20 bp):
GCACATTCATGCTCCTGATA
Found at i:53041824 original size:39 final size:38
Alignment explanation
Indices: 53041730--53041846 Score: 117
Period size: 39 Copynumber: 3.0 Consensus size: 38
53041720 TCTTAAATAT
** * *
53041730 GTGCTCTTGAGTGCACATTCATGCTCCTATTAGCACTGTA
1 GTGCTCTTGAAAGCACATTCGTGCTCCTGTTAGCA-T-TA
* * * *
53041770 GTGCTCCTGATAGCACATTCGTGCTCATGTCAGCATTA
1 GTGCTCTTGAAAGCACATTCGTGCTCCTGTTAGCATTA
* *
53041808 GGTGCTCTTGAAAGCACATTTGCGCTCCTGTTAGCATTA
1 -GTGCTCTTGAAAGCACATTCGTGCTCCTGTTAGCATTA
53041847 CGGTTCTCCT
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
38 2 0.03
39 33 0.52
40 28 0.44
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (38 bp):
GTGCTCTTGAAAGCACATTCGTGCTCCTGTTAGCATTA
Found at i:53042824 original size:19 final size:19
Alignment explanation
Indices: 53042800--53042838 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
53042790 ATTAATGAAG
**
53042800 TTGAATTTCGGTATTGATT
1 TTGAATTTAAGTATTGATT
53042819 TTGAATTTAAGTATTGATT
1 TTGAATTTAAGTATTGATT
53042838 T
1 T
53042839 ATGTTTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.54
Consensus pattern (19 bp):
TTGAATTTAAGTATTGATT
Found at i:53048448 original size:21 final size:20
Alignment explanation
Indices: 53048409--53048448 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
53048399 CAAAACTTGT
*
53048409 ATAACTATCATTAAACATTC
1 ATAACTATCATCAAACATTC
*
53048429 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
53048449 AAAATACATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:53049379 original size:50 final size:50
Alignment explanation
Indices: 53049325--53049464 Score: 208
Period size: 50 Copynumber: 2.8 Consensus size: 50
53049315 ACTGGTCACT
** *
53049325 AAGGCTTCCCAAATAATAAGTTACATAGGCTTTTCAGATAACAAGCCACA
1 AAGGCTTCCCAAATAATAAGCCACATAGGCTTTTTAGATAACAAGCCACA
* * *
53049375 AAGGCTTCCCAAATAATACGCCACATAGGCTTTTTAGATAACTAGTCACA
1 AAGGCTTCCCAAATAATAAGCCACATAGGCTTTTTAGATAACAAGCCACA
* *
53049425 AAGGCTTTCCAAATAATATGCCACATAGGCTTTTTAGATA
1 AAGGCTTCCCAAATAATAAGCCACATAGGCTTTTTAGATA
53049465 GCTACAAAGG
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 82 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (50 bp):
AAGGCTTCCCAAATAATAAGCCACATAGGCTTTTTAGATAACAAGCCACA
Found at i:53049457 original size:25 final size:25
Alignment explanation
Indices: 53049326--53049457 Score: 113
Period size: 25 Copynumber: 5.3 Consensus size: 25
53049316 CTGGTCACTA
* **
53049326 AGGCTTCCCAAATAATAAGTTACAT
1 AGGCTTTCCAAATAATAAGCCACAT
* * * *
53049351 AGGCTTTTCAGATAACAAGCCACAA
1 AGGCTTTCCAAATAATAAGCCACAT
* *
53049376 AGGCTTCCCAAATAATACGCCACAT
1 AGGCTTTCCAAATAATAAGCCACAT
** * * *
53049401 AGGCTTTTTAGATAACT-AGTCACAA
1 AGGCTTTCCAAATAA-TAAGCCACAT
*
53049426 AGGCTTTCCAAATAATATGCCACAT
1 AGGCTTTCCAAATAATAAGCCACAT
53049451 AGGCTTT
1 AGGCTTT
53049458 TTAGATAGCT
Statistics
Matches: 79, Mismatches: 26, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
24 1 0.01
25 77 0.97
26 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (25 bp):
AGGCTTTCCAAATAATAAGCCACAT
Found at i:53057777 original size:94 final size:94
Alignment explanation
Indices: 53057664--53057851 Score: 358
Period size: 94 Copynumber: 2.0 Consensus size: 94
53057654 CAAATCCCTT
53057664 GGCACGCAAAGGTTGATTATTTTGCTATGTTGGGATGGCAAGAGTTGGTGTTGGTTTTAAACTCT
1 GGCACGCAAAGGTTGATTATTTTGCTATGTTGGGATGGCAAGAGTTGGTGTTGGTTTTAAACTCT
* *
53057729 GGTGATGGAGGGATCCCACATCGGGAAGC
66 AGTGATGGAGGGATCCCACATCAGGAAGC
53057758 GGCACGCAAAGGTTGATTATTTTGCTATGTTGGGATGGCAAGAGTTGGTGTTGGTTTTAAACTCT
1 GGCACGCAAAGGTTGATTATTTTGCTATGTTGGGATGGCAAGAGTTGGTGTTGGTTTTAAACTCT
53057823 AGTGATGGAGGGATCCCACATCAGGAAGC
66 AGTGATGGAGGGATCCCACATCAGGAAGC
53057852 TAACATAAGA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.30
Consensus pattern (94 bp):
GGCACGCAAAGGTTGATTATTTTGCTATGTTGGGATGGCAAGAGTTGGTGTTGGTTTTAAACTCT
AGTGATGGAGGGATCCCACATCAGGAAGC
Found at i:53058154 original size:27 final size:27
Alignment explanation
Indices: 53058120--53058319 Score: 249
Period size: 27 Copynumber: 7.4 Consensus size: 27
53058110 AGGATAAGTT
*
53058120 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
53058147 GTAGAATTACTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
53058174 GTAGAATTATTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
53058201 GTAGAATTACC-AGAATACCCCTGCAGG
1 GTAGAATTACCGA-AATACCCCTGTAGG
* * *
53058228 GTAGAAGTATCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
53058255 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
53058282 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
53058309 GTAAAATTACC
1 GTAGAATTACC
53058320 ATTTTGCCCC
Statistics
Matches: 148, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 146 0.99
28 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:53058319 original size:54 final size:54
Alignment explanation
Indices: 53058120--53058319 Score: 285
Period size: 54 Copynumber: 3.7 Consensus size: 54
53058110 AGGATAAGTT
* * * * *
53058120 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTATAGG
1 GTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
* *
53058174 GTAGAATTATTGAAATACCCTTGTAGGGTAGAATTACC-AGAATACCCCTGCAGG
1 GTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCGA-AATACCCCTGTAGG
*
53058228 GTAGAAGTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
* * *
53058282 GTAGAATTATCGAGATACCCTTGTGGGGTAAAATTACC
1 GTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACC
53058320 ATTTTGCCCC
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
53 1 0.01
54 128 0.98
55 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (54 bp):
GTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
Found at i:53059015 original size:27 final size:26
Alignment explanation
Indices: 53058971--53059022 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
53058961 CTCGCTGCAA
*
53058971 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
53058998 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
53059023 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:53060970 original size:180 final size:179
Alignment explanation
Indices: 53060666--53060990 Score: 497
Period size: 180 Copynumber: 1.8 Consensus size: 179
53060656 ATTTTCTCTA
* * * * * *
53060666 AAACTAGACTCATATATTTTCTTACCATAAAATTTTCATAATTTTGGTTTAGTCAATTAGTACAT
1 AAACTAGACTCACATATATTCTTACCATAAAATTTTCAGAATTTTAGTTTAGCCAATTAGTACAG
* * * ** *
53060731 TTTATTCATTGAAGATACCCCTATTTCACTGTTTGATAGTTCTGACCTCTCTTCACTAAAAGTTA
66 TTTATTCATTAAAGATACCCCTATTTCACTGTCTGACAGTTCCAACCTCTCTTCACTAAAAATTA
*
53060796 TTTATTTCATGGTACGGGACTCCAAATTGAGAACAACTAATTTTACTAG
131 TTTATCTCATGGTACGGGACTCCAAATTGAGAACAACTAATTTTACTAG
53060845 AAACTAGACTCACATATATTCTTACCATAAAATTTTCAGAATTTTTAGTTTAGCCAATTAGTACA
1 AAACTAGACTCACATATATTCTTACCATAAAATTTTCAGAA-TTTTAGTTTAGCCAATTAGTACA
* * *
53060910 GTTTATTCATTAAATATTCCCCTATTTGACTGTCTGACAGTTCCAACCTCTCTTCACTAAAAATT
65 GTTTATTCATTAAAGATACCCCTATTTCACTGTCTGACAGTTCCAACCTCTCTTCACTAAAAATT
53060975 ATTTATCTCATGGTAC
130 ATTTATCTCATGGTAC
53060991 AGCTCTCGGA
Statistics
Matches: 129, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
179 38 0.29
180 91 0.71
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.40
Consensus pattern (179 bp):
AAACTAGACTCACATATATTCTTACCATAAAATTTTCAGAATTTTAGTTTAGCCAATTAGTACAG
TTTATTCATTAAAGATACCCCTATTTCACTGTCTGACAGTTCCAACCTCTCTTCACTAAAAATTA
TTTATCTCATGGTACGGGACTCCAAATTGAGAACAACTAATTTTACTAG
Found at i:53061335 original size:16 final size:16
Alignment explanation
Indices: 53061316--53061347 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
53061306 AATTGTTTTA
53061316 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
53061332 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
53061348 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:53061613 original size:50 final size:50
Alignment explanation
Indices: 53061559--53061986 Score: 378
Period size: 50 Copynumber: 8.5 Consensus size: 50
53061549 TGGTACGCAA
* * *
53061559 AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACCT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACGT
* * * * *
53061609 AGTAGCTTACACTTAGTACTACACA-GTGACTTATCCATCTGATACACGT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACGT
* * * ** * * * * *
53061658 ACTAGCCTACACTTAATACTACACACGTGATCGAAGTTAA-CGGGTTCGCAT
1 AGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTGGTACACGT
* * *
53061709 AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATATGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACGT
* * * * * *
53061759 AGTAGCCTGTAGTTAGTACTACACACGTGACCTAACCATCTGATACATGT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACGT
** * * * * * *
53061809 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGCACGCAT
1 AGTAGCCTGCACTTAGTACTACACACGTGA-CCTATCAATCTGGTACACGT
* * *
53061860 AGTAGCCTGCACTTAGTACTGCACATGTGACCTAACAATCTGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACGT
* * * *
53061910 AGTAGCATGCACTTAGTACTACACACGTGACCTA--AATTTGTCTTAAACACAT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTG--GT--ACACGT
*
53061962 AGTAGCCTGCACATAGTACTACACA
1 AGTAGCCTGCACTTAGTACTACACA
53061987 TGTGTTCTCA
Statistics
Matches: 300, Mismatches: 69, Indels: 16
0.78 0.18 0.04
Matches are distributed among these distances:
48 5 0.02
49 44 0.15
50 149 0.50
51 72 0.24
52 30 0.10
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
AGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACGT
Found at i:53061864 original size:101 final size:99
Alignment explanation
Indices: 53061559--53061986 Score: 344
Period size: 101 Copynumber: 4.3 Consensus size: 99
53061549 TGGTACGCAA
* * * * * * *
53061559 AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACCTAGTAGCTTACACTTA
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACGTAGTAGCCTGCACTTA
** * * *
53061624 GTACTACACA-GTGACTTATCCATCTGATACACGT
66 GTACTACACACGTGACCGA-CAATATGGTACACGT
* * * * * * * * * * *
53061658 ACTAGCCTACACTTAATACTACACACGTGATCGAAGTTAA-CGGGTTCGCATAGTAGCCTGCACT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAA--CAATCTGATACACGTAGTAGCCTGCACT
* * *
53061722 TAGTACTACACATGCGACCTATCAATATGGTACACGT
64 TAGTACTACACACGTGACCGA-CAATATGGTACACGT
* * * *
53061759 AGTAGCCTGTAGTTAGTACTACACACGTGACCTAACCATCTGATACATGTAGTAGCCTGCACTTA
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACGTAGTAGCCTGCACTTA
* *
53061824 GTACTACACACGTGATCGA-AACTATCGG-GCACGCAT
66 GTACTACACACGTGACCGACAA-TAT-GGTACACG--T
* * * *
53061860 AGTAGCCTGCACTTAGTACTGCACATGTGACCTAACAATCTGGTACACGTAGTAGCATGCACTTA
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACGTAGTAGCCTGCACTTA
* * * *
53061925 GTACTACACACGTGACCTA-AATTTGTCTTAAACACAT
66 GTACTACACACGTGACCGACAATATG--GT--ACACGT
*
53061962 AGTAGCCTGCACATAGTACTACACA
1 AGTAGCCTGCACTTAGTACTACACA
53061987 TGTGTTCTCA
Statistics
Matches: 260, Mismatches: 56, Indels: 23
0.77 0.17 0.07
Matches are distributed among these distances:
98 2 0.01
99 36 0.14
100 69 0.27
101 126 0.48
102 24 0.09
104 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (99 bp):
AGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACGTAGTAGCCTGCACTTA
GTACTACACACGTGACCGACAATATGGTACACGT
Found at i:53061873 original size:151 final size:151
Alignment explanation
Indices: 53061553--53061944 Score: 579
Period size: 151 Copynumber: 2.6 Consensus size: 151
53061543 GCTCTCTGGT
* * * *
53061553 ACGCAAAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACCTAGTAGCTTA
1 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCATG
* *
53061618 CACTTAGTACTACACA-GTGACTTATCCATCTGATACACGTACTAGCCTACACTTAATACTACAC
66 CACTTAGTACTACACACGTGACCTAACCATCTGATACACGTACTAGCCTACACTTAATACTACAC
** *
53061682 ACGTGATCGAAGTTAACGGGT
131 ACGTGATCGAAACTAACGGGC
* * *
53061703 TCGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATATGGTACACGTAGTAGCCTG
1 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCATG
* * * * * *
53061768 TAGTTAGTACTACACACGTGACCTAACCATCTGATACATGTAGTAGCCTGCACTTAGTACTACAC
66 CACTTAGTACTACACACGTGACCTAACCATCTGATACACGTACTAGCCTACACTTAATACTACAC
*
53061833 ACGTGATCGAAACTATCGGGC
131 ACGTGATCGAAACTAACGGGC
* * *
53061854 ACGCATAGTAGCCTGCACTTAGTACTGCACATGTGACCTAACAATCTGGTACACGTAGTAGCATG
1 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCATG
53061919 CACTTAGTACTACACACGTGACCTAA
66 CACTTAGTACTACACACGTGACCTAA
53061945 ATTTGTCTTA
Statistics
Matches: 215, Mismatches: 26, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
150 73 0.34
151 142 0.66
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (151 bp):
ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCATG
CACTTAGTACTACACACGTGACCTAACCATCTGATACACGTACTAGCCTACACTTAATACTACAC
ACGTGATCGAAACTAACGGGC
Found at i:53067307 original size:26 final size:27
Alignment explanation
Indices: 53067278--53067330 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
53067268 TGATCAATAC
* *
53067278 TAAAAATTAAAATTA-GAAAACAAAAT
1 TAAAAATTAAAACTATGAAAAAAAAAT
*
53067304 TAAAAATTGAAACTATGAAAAAAAAAT
1 TAAAAATTAAAACTATGAAAAAAAAAT
53067331 AACACACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.23
Consensus pattern (27 bp):
TAAAAATTAAAACTATGAAAAAAAAAT
Found at i:53071268 original size:154 final size:154
Alignment explanation
Indices: 53070988--53071297 Score: 602
Period size: 154 Copynumber: 2.0 Consensus size: 154
53070978 TTGATAATTG
53070988 TAGACACTCAATTTTTCCTGGGCCCAGAAATAAGTCCAAAAACAAAAATAATAAACCCCCCCAAA
1 TAGACACTCAATTTTTCCTGGGCCCAGAAATAAGTCCAAAAACAAAAATAATAAACCCCCCCAAA
*
53071053 AAAAACGAAGTCTAAGTTCAGTCCAGAATTACAAATATAATTTGGCCCGATCGGAATGGCCCATT
66 AAAAACGAAGTCTAAGTTCAGTCCAGAATTACAAATATAATTTGGCCCGATCAGAATGGCCCATT
53071118 ACTTGAAAAGATTTAAGGTCCATC
131 ACTTGAAAAGATTTAAGGTCCATC
53071142 TAGACACTCAATTTTTCCTGGGCCCAGAAATAAGTCCAAAAACAAAAATAATAAACCCCCCCAAA
1 TAGACACTCAATTTTTCCTGGGCCCAGAAATAAGTCCAAAAACAAAAATAATAAACCCCCCCAAA
*
53071207 AAAAACGAAGTCTAAGTTCAGTCCAGAATTACAAATATAATTTGGCCCGATCAGAATGGCCCTTT
66 AAAAACGAAGTCTAAGTTCAGTCCAGAATTACAAATATAATTTGGCCCGATCAGAATGGCCCATT
53071272 ACTTGAAAAGATTTAAGGTCCATC
131 ACTTGAAAAGATTTAAGGTCCATC
53071296 TA
1 TA
53071298 TAAGCTTGAC
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 154 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (154 bp):
TAGACACTCAATTTTTCCTGGGCCCAGAAATAAGTCCAAAAACAAAAATAATAAACCCCCCCAAA
AAAAACGAAGTCTAAGTTCAGTCCAGAATTACAAATATAATTTGGCCCGATCAGAATGGCCCATT
ACTTGAAAAGATTTAAGGTCCATC
Found at i:53071401 original size:35 final size:37
Alignment explanation
Indices: 53071330--53071427 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
53071320 ATAATCTTCA
53071330 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
53071368 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
53071403 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
53071428 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:53071427 original size:17 final size:19
Alignment explanation
Indices: 53071330--53071420 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
53071320 ATAATCTTCA
53071330 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
53071349 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
53071368 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
53071385 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
53071403 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
53071421 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:53071446 original size:22 final size:22
Alignment explanation
Indices: 53071330--53071443 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
53071320 ATAATCTTCA
53071330 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
53071349 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
53071368 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
53071385 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
53071403 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
53071425 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
53071444 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:53073528 original size:27 final size:26
Alignment explanation
Indices: 53073493--53073604 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
53073483 AGCATGGCTG
* *
53073493 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
53073519 CCAGATACAGATAACCGTGGCAGAGCCA
1 CCAGA-ACAGATAA-TGTGGCAGAGCCA
53073547 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
53073574 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
53073601 CCAG
1 CCAG
53073605 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:53073557 original size:54 final size:54
Alignment explanation
Indices: 53073493--53073604 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
53073483 AGCATGGCTG
*
53073493 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAACCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAACCGTGGCAGAGCCA
* ** *
53073547 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAACCGTGGCAGAGCCA
53073601 CCAG
1 CCAG
53073605 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAACCGTGGCAGAGCCA
Found at i:53077120 original size:27 final size:26
Alignment explanation
Indices: 53077080--53077191 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
53077070 AGGAAGAGTC
*
53077080 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
53077107 CTGGTGGCTCTGCCACATATACCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* * *
53077134 CTGCTGGCTCCGCCACGGTTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
53077162 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
53077188 CTGG
1 CTGG
53077192 CAGCCATGCT
Statistics
Matches: 68, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
26 7 0.10
27 47 0.69
28 14 0.21
ACGTcount: A:0.15, C:0.27, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:53083099 original size:27 final size:27
Alignment explanation
Indices: 53083068--53083245 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
53083058 TAAATTGTAC
53083068 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
53083095 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
53083121 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
53083149 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
53083177 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
53083204 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
53083231 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
53083246 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:53083182 original size:82 final size:81
Alignment explanation
Indices: 53083069--53083224 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53083059 AAATTGTACA
* *
53083069 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
53083133 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
53083150 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
53083215 TGCGAGTTGA
65 TGCGAATTGA
53083225 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:53083236 original size:82 final size:81
Alignment explanation
Indices: 53083065--53083245 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
53083055 GATTAAATTG
* *
53083065 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
53083130 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
53083146 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
53083210 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
53083228 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
53083246 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:53097283 original size:19 final size:18
Alignment explanation
Indices: 53097259--53097297 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
53097249 ATGAGATCCC
*
53097259 TATTTTTTAATATATATTT
1 TATTTTTTAAAATA-ATTT
53097278 TATTTTTTAAAATAATTT
1 TATTTTTTAAAATAATTT
53097296 TA
1 TA
53097298 GTATCATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTTTTTAAAATAATTT
Found at i:53106017 original size:56 final size:56
Alignment explanation
Indices: 53105938--53106048 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 56
53105928 GTAAAATAGG
*
53105938 TACAATTGATGAAGGTAAATATTGAGTATGTGTTAGGAATGTATTGATAGTAAAAA
1 TACAATTGATGAAGGCAAATATTGAGTATGTGTTAGGAATGTATTGATAGTAAAAA
53105994 TACAATTGATGAAGGCAAATATTGAGTATGTGTTAGGAATGTATTGATAGTAAAA
1 TACAATTGATGAAGGCAAATATTGAGTATGTGTTAGGAATGTATTGATAGTAAAA
53106049 TGGTTAATTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (56 bp):
TACAATTGATGAAGGCAAATATTGAGTATGTGTTAGGAATGTATTGATAGTAAAAA
Found at i:53135060 original size:14 final size:14
Alignment explanation
Indices: 53135041--53135070 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
53135031 ATGGTTTGGG
53135041 TTGTTTCTTTATTA
1 TTGTTTCTTTATTA
53135055 TTGTTTCTTTATTA
1 TTGTTTCTTTATTA
53135069 TT
1 TT
53135071 TAACTCTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (14 bp):
TTGTTTCTTTATTA
Found at i:53141020 original size:29 final size:29
Alignment explanation
Indices: 53140975--53141057 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
53140965 TCCAGAGTAC
53140975 TGATA-TCATGGCC-CGAAGCCAAATCAGA
1 TGATATTCAT-GCCTCGAAGCCAAATCAGA
*
53141003 TGATATTCATGCCTCGAAGCCAAATCAGC
1 TGATATTCATGCCTCGAAGCCAAATCAGA
* * *
53141032 TTATATTCATGGCTCAAAGCCAAATC
1 TGATATTCATGCCTCGAAGCCAAATC
53141058 GGTATAACCC
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
28 8 0.16
29 41 0.84
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (29 bp):
TGATATTCATGCCTCGAAGCCAAATCAGA
Found at i:53142318 original size:32 final size:32
Alignment explanation
Indices: 53142278--53142341 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
53142268 CCAAAAACGG
*
53142278 GTTGTTACAATCATACCCAAATGAGGCGAGAT
1 GTTGTTACAATCATACCCAAAGGAGGCGAGAT
53142310 GTTGTTACAATCATACCCAAAGGAGGCGAGAT
1 GTTGTTACAATCATACCCAAAGGAGGCGAGAT
53142342 TAAACTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (32 bp):
GTTGTTACAATCATACCCAAAGGAGGCGAGAT
Found at i:53143033 original size:23 final size:23
Alignment explanation
Indices: 53143007--53143052 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
53142997 TAAAATATAC
*
53143007 TTACAACTAAAAAGAAACCTAAA
1 TTACAACTAAAAAGAAAACTAAA
* *
53143030 TTACAAGTAAAAATAAAACTAAA
1 TTACAACTAAAAAGAAAACTAAA
53143053 CAGGAGATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.63, C:0.13, G:0.04, T:0.20
Consensus pattern (23 bp):
TTACAACTAAAAAGAAAACTAAA
Found at i:53145136 original size:28 final size:28
Alignment explanation
Indices: 53145104--53145228 Score: 121
Period size: 28 Copynumber: 4.4 Consensus size: 28
53145094 GTGAAAACGA
* *
53145104 CACTTAGTGTGCTAATTAT-TGAGGATGG
1 CACTTAGTGTGCAAATCATCT-AGGATGG
* * *
53145132 CACTTAGTGTGCAAAACATCTAGAAATAG
1 CACTTAGTGTGCAAATCATCTAG-GATGG
* *
53145161 CACTTAGTGTGCAAATTAT-TGAAGATGG
1 CACTTAGTGTGCAAATCATCT-AGGATGG
*
53145189 CACTTAGTGTGCGAGA-CATCTAGGATGG
1 CACTTAGTGTGC-AAATCATCTAGGATGG
53145217 CACTTAGTGTGC
1 CACTTAGTGTGC
53145229 GATACATCCC
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
28 54 0.68
29 25 0.32
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (28 bp):
CACTTAGTGTGCAAATCATCTAGGATGG
Found at i:53145178 original size:57 final size:56
Alignment explanation
Indices: 53145104--53145228 Score: 187
Period size: 57 Copynumber: 2.2 Consensus size: 56
53145094 GTGAAAACGA
* *
53145104 CACTTAGTGTGCTAATTATTGAGGATGGCACTTAGTGTGCAAAACATCTAGAAATAG
1 CACTTAGTGTGCAAATTATTGAAGATGGCACTTAGTGTGCAAAACATCTAG-AATAG
* * * *
53145161 CACTTAGTGTGCAAATTATTGAAGATGGCACTTAGTGTGCGAGACATCTAGGATGG
1 CACTTAGTGTGCAAATTATTGAAGATGGCACTTAGTGTGCAAAACATCTAGAATAG
53145217 CACTTAGTGTGC
1 CACTTAGTGTGC
53145229 GATACATCCC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
56 15 0.24
57 47 0.76
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (56 bp):
CACTTAGTGTGCAAATTATTGAAGATGGCACTTAGTGTGCAAAACATCTAGAATAG
Found at i:53145229 original size:28 final size:28
Alignment explanation
Indices: 53145125--53145261 Score: 125
Period size: 28 Copynumber: 4.9 Consensus size: 28
53145115 CTAATTATTG
*
53145125 AGGATGGCACTTAGTGTGCAAAACATCT
1 AGGATGGCACTTAGTGTGCGAAACATCT
* * *
53145153 AGAAATAGCACTTAGTGTGC-AAATTAT-T
1 AG-GATGGCACTTAGTGTGCGAAA-CATCT
* *
53145181 GAAGATGGCACTTAGTGTGCGAGACATCT
1 -AGGATGGCACTTAGTGTGCGAAACATCT
* *
53145210 AGGATGGCACTTAGTGTGCGATACATCC
1 AGGATGGCACTTAGTGTGCGAAACATCT
** * *
53145238 CTGAAGGCACTGAGTGTGCGAAAC
1 AGGATGGCACTTAGTGTGCGAAAC
53145262 TTCGAGAACA
Statistics
Matches: 88, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
28 67 0.76
29 21 0.24
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (28 bp):
AGGATGGCACTTAGTGTGCGAAACATCT
Found at i:53147401 original size:51 final size:51
Alignment explanation
Indices: 53147346--53147445 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
53147336 CTACTGCATA
* * * * *
53147346 ACATGTAA-CACATCCATAATGAACTTGGGCCTCTCAACGAGCTTGGATGTT
1 ACATG-AATCACATCCATAATGAACTCGGACCACTCAACAAGCTCGGATGTT
*
53147397 ACATGAATCACATCCATCATGAACTCGGACCACTCAACAAGCTCGGATG
1 ACATGAATCACATCCATAATGAACTCGGACCACTCAACAAGCTCGGATG
53147446 CTCACATCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.05
51 40 0.95
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTCGGACCACTCAACAAGCTCGGATGTT
Found at i:53147465 original size:43 final size:43
Alignment explanation
Indices: 53147404--53147487 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
53147394 GTTACATGAA
* * *
53147404 TCACATCCATCATGAACTCGGACCACTCAACAAGCTCGGATGC
1 TCACATCCATAATAAACTCAGACCACTCAACAAGCTCGGATGC
* * * *
53147447 TCACATCTATAATAAACTCAGACCTCTCAACGAGCTTGGAT
1 TCACATCCATAATAAACTCAGACCACTCAACAAGCTCGGAT
53147488 ACTACATACC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.23
Consensus pattern (43 bp):
TCACATCCATAATAAACTCAGACCACTCAACAAGCTCGGATGC
Found at i:53149562 original size:27 final size:26
Alignment explanation
Indices: 53149514--53149565 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
53149504 GCGAAGCTAC
*
53149514 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
53149540 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
53149566 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:53150191 original size:26 final size:27
Alignment explanation
Indices: 53150162--53150215 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
53150152 TCAAACAAGC
*
53150162 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
53150188 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
53150215 T
1 T
53150216 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:53150264 original size:27 final size:27
Alignment explanation
Indices: 53150234--53150348 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
53150224 TACCGCACAA
* *
53150234 GGGTATCTCGATAATTCTACCCTACTG
1 GGGTATTTCGATAATTCTACCCTACAG
*
53150261 GGGTATTTC-AGTAATTCTACCCTA-AC
1 GGGTATTTCGA-TAATTCTACCCTACAG
** *
53150287 GGGTATTTTAATAATTCTACCTTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
* *
53150314 GGGTATTTCGTTAATTCTACCTTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
53150341 GGGTATTT
1 GGGTATTT
53150349 TGGTAATTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
26 21 0.28
27 55 0.72
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGATAATTCTACCCTACAG
Found at i:53150292 original size:53 final size:53
Alignment explanation
Indices: 53150234--53150334 Score: 141
Period size: 53 Copynumber: 1.9 Consensus size: 53
53150224 TACCGCACAA
* *
53150234 GGGTATCTCGATAATTCTACCCTACTGGGGTATTTCAG-TAATTCTACCCTAAC
1 GGGTATCTCAATAATTCTACCCTACAGGGGTATTTC-GTTAATTCTACCCTAAC
* * *
53150287 GGGTATTTTAATAATTCTACCTTACAGGGGTATTTCGTTAATTCTACC
1 GGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGTTAATTCTACC
53150335 TTACAGGGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 1 0.02
53 41 0.98
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (53 bp):
GGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGTTAATTCTACCCTAAC
Found at i:53161064 original size:25 final size:24
Alignment explanation
Indices: 53161030--53161079 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
53161020 GATGAGTATG
53161030 ATGCACACTTAAGAATTGTGTTGC
1 ATGCACACTTAAGAATTGTGTTGC
*
53161054 ATGCATCACTTAAGGATTGTGTTGC
1 ATGCA-CACTTAAGAATTGTGTTGC
53161079 A
1 A
53161080 GACTTTGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (24 bp):
ATGCACACTTAAGAATTGTGTTGC
Found at i:53163161 original size:60 final size:59
Alignment explanation
Indices: 53163034--53163172 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 59
53163024 TTTAGTGTTA
* *
53163034 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTAT
* * *
53163095 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCTTATTACAAGT-C-GAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCC-CATTAC-AGTACAGAG-TAT
* *
53163155 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
53163173 TAACACAGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
59 3 0.04
60 50 0.74
61 12 0.18
62 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACAGAGTAT
Found at i:53163194 original size:19 final size:19
Alignment explanation
Indices: 53163167--53163203 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
53163157 TGGGCCTTGC
53163167 CCATATTAACACAGTTGGG
1 CCATATTAACACAGTTGGG
* *
53163186 CCATTTTAATACAGTTGG
1 CCATATTAACACAGTTGG
53163204 CCTATAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (19 bp):
CCATATTAACACAGTTGGG
Found at i:53165307 original size:20 final size:22
Alignment explanation
Indices: 53165269--53165308 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
53165259 TTCAAATACG
*
53165269 ATAATATATATATATTTTCCTA
1 ATAATATATATATAATTTCCTA
53165291 ATAATA-AT-TATAATTTCC
1 ATAATATATATATAATTTCC
53165309 ATAAATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATATATATATAATTTCCTA
Found at i:53166809 original size:8 final size:8
Alignment explanation
Indices: 53166798--53166840 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
53166788 TAACGCCCTA
53166798 AAAATCCT
1 AAAATCCT
53166806 AAAATCCT
1 AAAATCCT
* *
53166814 AAAACCCC
1 AAAATCCT
53166822 AAAATCCT
1 AAAATCCT
*
53166830 AAAATCTT
1 AAAATCCT
53166838 AAA
1 AAA
53166841 TTCTTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAATCCT
Found at i:53168332 original size:29 final size:29
Alignment explanation
Indices: 53168297--53168436 Score: 167
Period size: 29 Copynumber: 4.9 Consensus size: 29
53168287 TGAATATAAG
* *
53168297 GTGATTTGGGCCTAACGGGCCATATAAAT
1 GTGAATTGGGCCTAATGGGCCATATAAAT
* * *
53168326 GTGATTTGGGCCCAATGGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATAAAT
* * *
53168355 ATGAATTGGGCCTGATGGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATAAAT
*
53168384 GTGAATTGGGCCTGATGGGCCATATAAAT
1 GTGAATTGGGCCTAATGGGCCATATAAAT
*
53168413 GAG-ATTGGGCC-AAGTGGGCCATAT
1 GTGAATTGGGCCTAA-TGGGCCATAT
53168437 GCAAGTATGT
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
27 1 0.01
28 18 0.18
29 80 0.81
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
GTGAATTGGGCCTAATGGGCCATATAAAT
Found at i:53170587 original size:28 final size:28
Alignment explanation
Indices: 53170555--53170653 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
53170545 ATAGTAAGTC
*
53170555 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
53170583 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
53170611 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
53170640 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53170654 AAATCTCATG
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 45 0.71
29 18 0.29
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53182441 original size:27 final size:27
Alignment explanation
Indices: 53182418--53182704 Score: 376
Period size: 27 Copynumber: 10.6 Consensus size: 27
53182408 TTAGTTTACC
*
53182418 AAATTACCAAAATATCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
53182445 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
53182472 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * **
53182499 AAATTACCAAAACACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
53182526 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
53182553 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
53182580 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
53182607 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
53182634 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
53182661 AAATTACCAAAATATCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
53182688 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
53182705 TCGACCTATA
Statistics
Matches: 224, Mismatches: 36, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 224 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:53182717 original size:81 final size:81
Alignment explanation
Indices: 53182418--53182752 Score: 363
Period size: 81 Copynumber: 4.1 Consensus size: 81
53182408 TTAGTTTACC
* * * * *
53182418 AAATTACCAAAATATCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATATCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTATAAAATTATCAAA
*
53182483 ATACCCCTGGTTTGTA
66 ATACCCCTAGTTTGTA
* ** *
53182499 AAATTACCAAAACA-CCCTTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTA-CTA
1 AAATTACCAAAATATCCC-TAGTTTGTAAAATTACCAAAATACCCCTGGTTTATAAAATTATC-A
* * *
53182562 AAATACCCTTTGTTTATA
64 AAATACCCCTAGTTTGTA
* * *
53182580 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATATCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTATAAAATTATCAAA
53182645 ATACCCCTAGTTTGTA
66 ATACCCCTAGTTTGTA
* * ** *** **
53182661 AAATTACCAAAATATCCCTAATTTGTGAAATTACTGAAATA-CCCTCGACCTATAAAATTATTGA
1 AAATTACCAAAATATCCCTAGTTTGTAAAATTACCAAAATACCCCT-GGTTTATAAAATTATCAA
* *
53182725 AATA-CCCTCGACTTGTA
65 AATACCCCTAG-TTTGTA
53182742 AAATTACCAAA
1 AAATTACCAAA
53182753 GTACCATTGA
Statistics
Matches: 216, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
80 13 0.06
81 199 0.92
82 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATATCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTATAAAATTATCAAA
ATACCCCTAGTTTGTA
Found at i:53182757 original size:27 final size:26
Alignment explanation
Indices: 53182418--53182757 Score: 250
Period size: 27 Copynumber: 12.6 Consensus size: 26
53182408 TTAGTTTACC
* *
53182418 AAATTACCAAAATATCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCCGATTTGTA
* * * *
53182445 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCC-CGATTTGTA
* *
53182472 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCC-GATTTGTA
* ** **
53182499 AAATTACCAAAACACCCTTAGTTTACA
1 AAATTACCAAAATACCCCGA-TTTGTA
*
53182526 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCC-GATTTGTA
* * *
53182553 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC--CGATTTGTA
*
53182580 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCC-GATTTGTA
*
53182607 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCC-GATTTGTA
* *
53182634 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTA
** *
53182661 AAATTACCAAAATATCCCTAATTTGTG
1 AAATTACCAAAATA-CCCCGATTTGTA
** ** *
53182688 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACCAAAATACCC-CGATTTGTA
*** *
53182715 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCC-CGATTTGTA
*
53182742 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
53182758 ATTGATTTAC
Statistics
Matches: 255, Mismatches: 47, Indels: 22
0.79 0.15 0.07
Matches are distributed among these distances:
26 7 0.03
27 243 0.95
28 5 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATTACCAAAATACCCCGATTTGTA
Found at i:53183162 original size:27 final size:27
Alignment explanation
Indices: 53183132--53183233 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
53183122 ATTCTGTTAA
* * *
53183132 GTGGCTTTGCCACATTATTTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
53183159 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
53183186 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
53183213 GTGACTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
53183234 ATAACTGAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.79
28 6 0.09
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:53183190 original size:54 final size:53
Alignment explanation
Indices: 53183132--53183233 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
53183122 ATTCTGTTAA
* * * * *
53183132 GTGGCTTTGCCACATTATTTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCAC-AATATCTGTTCTG
* *
53183186 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTG
53183234 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTGTTCTG
Found at i:53183443 original size:12 final size:12
Alignment explanation
Indices: 53183393--53183458 Score: 62
Period size: 12 Copynumber: 5.4 Consensus size: 12
53183383 TTACCTGATA
*
53183393 CTGATTCTGGTT
1 CTGATTCTAGTT
*
53183405 TTGATTCT-GTT
1 CTGATTCTAGTT
*
53183416 ACCTGATACTAGTT
1 --CTGATTCTAGTT
*
53183430 CTGATTCTAATT
1 CTGATTCTAGTT
*
53183442 CTAATTCTAGTT
1 CTGATTCTAGTT
53183454 CTGAT
1 CTGAT
53183459 AATATTTCTT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
11 3 0.07
12 31 0.72
13 6 0.14
14 3 0.07
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (12 bp):
CTGATTCTAGTT
Found at i:53183443 original size:31 final size:31
Alignment explanation
Indices: 53183377--53183443 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
53183367 TCTAATTTTG
* * *
53183377 ATTCTGTTACCTGATACTGATTCTGGTTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTA
53183408 ATTCTGTTACCTGATACT-AGTTCTGATTCTA
1 ATTCTGTTACCTGATACTGA-TTCTGATTCTA
53183439 ATTCT
1 ATTCT
53183444 AATTCTAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTA
Found at i:53183467 original size:24 final size:24
Alignment explanation
Indices: 53183424--53183474 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
53183414 TTACCTGATA
**
53183424 CTAGTTCTGATTCTAATTCTAATT
1 CTAGTTCTGATAATAATTCTAATT
* *
53183448 CTAGTTCTGATAATATTTCTTATT
1 CTAGTTCTGATAATAATTCTAATT
53183472 CTA
1 CTA
53183475 TAATGGGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (24 bp):
CTAGTTCTGATAATAATTCTAATT
Done.