Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 87 of 204
Found at i:26712985 original size:34 final size:35
Alignment explanation
Indices: 26712928--26712994 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
26712918 CAAACACCAG
*
26712928 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
26712963 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
26712995 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:26713001 original size:14 final size:14
Alignment explanation
Indices: 26712963--26713002 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
26712953 ACAGAAAAGT
*
26712963 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
26712977 AAATCATTTTACGG
1 AAAACATTTTACAG
26712991 AAAACATTTTAC
1 AAAACATTTTAC
26713003 TGGCTATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:26720251 original size:185 final size:186
Alignment explanation
Indices: 26719935--26720311 Score: 684
Period size: 185 Copynumber: 2.0 Consensus size: 186
26719925 AAAAGGTGAT
*
26719935 ATCCAGAGTCTTATAACTTTCTTATAATTTAATATTGACCCACCCACAATATTACGTGAGATTTG
1 ATCCAGAGTCTTATAACTTTCTCATAATTTAATATTG---CACCCACAATATTACGTGAGATTTG
*
26720000 ATAAACATCATACTTATACAATCGGGTCACTTCTATCTTCTGTATAAATTGATCTCAACTTGAGT
63 ATAAACATCATACTTATACAATCGGATCACTTCTATCTTCTGTATAAATTGATCTCAACTTGAGT
26720065 ACTCCCAACATTAGCCATCAATGACTTCTCTTTTTGGAGAGAACAATCAAAGTCAATAC
128 ACTCCCAACATTAGCCATCAATGACTTCTCTTTTTGGAGAGAACAATCAAAGTCAATAC
26720124 ATCCAGAGTCTTATAACTTTCTCATAATTTAATATTG-ACCCACAATATTACGTGAGATTTGATA
1 ATCCAGAGTCTTATAACTTTCTCATAATTTAATATTGCACCCACAATATTACGTGAGATTTGATA
*
26720188 AACATCATACTTATACAATCGGATCACTTCTATCTTTTGTATAAATTGATCTCAACTTGAGTACT
66 AACATCATACTTATACAATCGGATCACTTCTATCTTCTGTATAAATTGATCTCAACTTGAGTACT
*
26720253 CCCAACATTAGCCATCAATGACTTCTCTTTTTTGAGAGAACAATCAAAGTCAATAC
131 CCCAACATTAGCCATCAATGACTTCTCTTTTTGGAGAGAACAATCAAAGTCAATAC
26720309 ATC
1 ATC
26720312 AAGACAACCT
Statistics
Matches: 184, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
185 148 0.80
189 36 0.20
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (186 bp):
ATCCAGAGTCTTATAACTTTCTCATAATTTAATATTGCACCCACAATATTACGTGAGATTTGATA
AACATCATACTTATACAATCGGATCACTTCTATCTTCTGTATAAATTGATCTCAACTTGAGTACT
CCCAACATTAGCCATCAATGACTTCTCTTTTTGGAGAGAACAATCAAAGTCAATAC
Found at i:26721509 original size:18 final size:19
Alignment explanation
Indices: 26721474--26721515 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
26721464 GAAAATTAAT
*
26721474 AAAAGAAAATACAAAAAAA
1 AAAAGAAAAGACAAAAAAA
* *
26721493 AAAAG-AAAGACAGAAAAG
1 AAAAGAAAAGACAAAAAAA
26721511 AAAAG
1 AAAAG
26721516 TTTGGAAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.79, C:0.05, G:0.14, T:0.02
Consensus pattern (19 bp):
AAAAGAAAAGACAAAAAAA
Found at i:26721509 original size:19 final size:20
Alignment explanation
Indices: 26721474--26721514 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
26721464 GAAAATTAAT
*
26721474 AAAAGAAAATACAAAAA-AA
1 AAAAGAAAAGACAAAAAGAA
26721493 AAAAG-AAAGACAGAAAAGAA
1 AAAAGAAAAGACA-AAAAGAA
26721513 AA
1 AA
26721515 GTTTGGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 6 0.32
19 9 0.47
20 4 0.21
ACGTcount: A:0.80, C:0.05, G:0.12, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAGACAAAAAGAA
Found at i:26722153 original size:3 final size:3
Alignment explanation
Indices: 26722145--26722204 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
26722135 ATTGAATTGA
26722145 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
26722193 TAT TAT TAT TAT
1 TAT TAT TAT TAT
26722205 GCATATACAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:26725375 original size:18 final size:17
Alignment explanation
Indices: 26725345--26725387 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
26725335 CAAATAACCT
26725345 AAAAATAAT--TAATTA
1 AAAAATAATCCTAATTA
*
26725360 CATAAATAATCCTAATTA
1 -AAAAATAATCCTAATTA
26725378 AAAAATAATC
1 AAAAATAATC
26725388 ATTTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATAATCCTAATTA
Found at i:26725385 original size:17 final size:17
Alignment explanation
Indices: 26725345--26725387 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
26725335 CAAATAACCT
26725345 AAAAATAAT-TAATTAC
1 AAAAATAATCTAATTAC
*
26725361 ATAAATAATCCTAATTA-
1 AAAAATAAT-CTAATTAC
26725378 AAAAATAATC
1 AAAAATAATC
26725388 ATTTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATAATCTAATTAC
Found at i:26741673 original size:18 final size:17
Alignment explanation
Indices: 26741640--26741678 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
26741630 TTGTATAAAT
26741640 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
26741658 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
26741675 TGTG
1 TGTG
26741679 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:26741796 original size:8 final size:8
Alignment explanation
Indices: 26741783--26741811 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
26741773 CACTAGAGAC
26741783 CAGTGTTA
1 CAGTGTTA
26741791 CAGTGTTA
1 CAGTGTTA
26741799 CAGTGTTA
1 CAGTGTTA
26741807 CAGTG
1 CAGTG
26741812 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:26741925 original size:23 final size:23
Alignment explanation
Indices: 26741898--26741973 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
26741888 AGTGTTATTG
26741898 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
26741921 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
26741944 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
26741967 ATCAGTG
1 ATCAGTG
26741974 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:26747703 original size:19 final size:19
Alignment explanation
Indices: 26747675--26747711 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26747665 TACTCATCCT
*
26747675 ATCAATTAAAAAAAATTTG
1 ATCAACTAAAAAAAATTTG
*
26747694 ATCAACTAAAAATAATTT
1 ATCAACTAAAAAAAATTT
26747712 CACAAATTTA
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:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (19 bp):
ATCAACTAAAAAAAATTTG
Found at i:26748222 original size:114 final size:111
Alignment explanation
Indices: 26748033--26748352 Score: 351
Period size: 113 Copynumber: 2.8 Consensus size: 111
26748023 TTAATCAAAC
** * * * * *
26748033 CTAATAAAACACAACAACAAAAATAAT-TTTTCCTTCAATACGAAAAACTAATATAAGATACCAC
1 CTAATAAAACACAACAAC-AAAA-AATCTTCCCCTTAAATACAAAAAAGTGATATAAGATACAAC
* *
26748097 AAAAATATTAATAAAACAAATTAATCATACCTTTAATACAAATCTAAAAT
64 -AAAACATTAATAAAACAAATTAATCATACATTTAATACAAA-CTAAAAT
*
26748147 -TAGTAAAACACAACAA-AAAAATATCCTTCCCCTTAAATACAAAAAAGTTGATATAAGATACAA
1 CTAATAAAACACAACAACAAAAA-AT-CTTCCCCTTAAATACAAAAAAG-TGATATAAGATACAA
* *
26748210 CAAAAGCATTAATAAAACAAACTAATCATACATTTAATACAAACTTAAAT
63 CAAAA-CATTAATAAAACAAATTAATCATACATTTAATACAAACTAAAAT
* ** *
26748260 CTAATAAAACACAACAACAAAAAATCTTTCTTTTAAATACAAAAAAGTGTTATAAGATATCATA-
1 CTAATAAAACACAACAACAAAAAATCTTCCCCTTAAATACAAAAAAGTGATATAAGATA-CA-AC
* * *
26748324 AAAACAATAGTAAAACAAATAAATCATAC
64 AAAACATTAATAAAACAAATTAATCATAC
26748353 TTTTTTTGTG
Statistics
Matches: 176, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
110 1 0.01
111 6 0.03
112 32 0.18
113 66 0.38
114 66 0.38
115 5 0.03
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (111 bp):
CTAATAAAACACAACAACAAAAAATCTTCCCCTTAAATACAAAAAAGTGATATAAGATACAACAA
AACATTAATAAAACAAATTAATCATACATTTAATACAAACTAAAAT
Found at i:26749037 original size:24 final size:24
Alignment explanation
Indices: 26749010--26749061 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
26749000 TCCCGAATAG
*
26749010 ACAAGACCAATCAACCCCACTCGA
1 ACAACACCAATCAACCCCACTCGA
26749034 ACAACACCAATCAACCCCACTCGA
1 ACAACACCAATCAACCCCACTCGA
26749058 ACAA
1 ACAA
26749062 AATGAGTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.42, G:0.06, T:0.08
Consensus pattern (24 bp):
ACAACACCAATCAACCCCACTCGA
Found at i:26755922 original size:28 final size:28
Alignment explanation
Indices: 26755891--26755952 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
26755881 GATACTAGGG
*
26755891 TATTTTCATAATTTTTTAATATTTTAGT
1 TATTTACATAATTTTTTAATATTTTAGT
26755919 TATTTACATAATTTTTTAATATTTTAGT
1 TATTTACATAATTTTTTAATATTTTAGT
26755947 TATTTA
1 TATTTA
26755953 TCTAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (28 bp):
TATTTACATAATTTTTTAATATTTTAGT
Found at i:26756400 original size:18 final size:18
Alignment explanation
Indices: 26756379--26756423 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
26756369 CATTCTTCTC
* *
26756379 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTACCCCTT
26756397 CCCTTTCCCCTACCCCTT
1 CCCTTTCCCCTACCCCTT
26756415 CCCTTTCCC
1 CCCTTTCCC
26756424 GTTTCGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.02, C:0.60, G:0.00, T:0.38
Consensus pattern (18 bp):
CCCTTTCCCCTACCCCTT
Found at i:26757900 original size:30 final size:30
Alignment explanation
Indices: 26757864--26757921 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
26757854 GCATTTGTAC
26757864 AAGACCATAAGTACCAATTTGCTATGACAT
1 AAGACCATAAGTACCAATTTGCTATGACAT
26757894 AAGACCATAAGTACCAATTTGCTATGAC
1 AAGACCATAAGTACCAATTTGCTATGAC
26757922 TGGCATGGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (30 bp):
AAGACCATAAGTACCAATTTGCTATGACAT
Found at i:26759115 original size:34 final size:35
Alignment explanation
Indices: 26759049--26759115 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
26759039 CAAACACCAG
* * *
26759049 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
*
26759084 AAAACATTTTCCA-AAAATCATTTTACGGAAAA
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAA
26759116 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
Found at i:26761212 original size:19 final size:18
Alignment explanation
Indices: 26761183--26761246 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 18
26761173 AATTTTTATT
26761183 ATAAAATTAAAAATGAATTG
1 ATAAAA-TAAAAAT-AATTG
*
26761203 ATAAAATAAATATTACA-TG
1 ATAAAATAAA-AATA-ATTG
*
26761222 A-AAAATGAAAAATAATTA
1 ATAAAAT-AAAAATAATTG
26761240 ATAAAAT
1 ATAAAAT
26761247 TATTATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
17 1 0.03
18 10 0.28
19 16 0.44
20 9 0.25
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (18 bp):
ATAAAATAAAAATAATTG
Found at i:26769551 original size:33 final size:33
Alignment explanation
Indices: 26769449--26769566 Score: 111
Period size: 33 Copynumber: 3.6 Consensus size: 33
26769439 ATTGACGGAT
26769449 AAGACCATAACTGGGCTATGGCATTTTAATGAA
1 AAGACCATAACTGGGCTATGGCATTTTAATGAA
* ** * *
26769482 AAGACCATAGAAAT-GTTTAAAT-G--TTTAAATG-T
1 AAGACCAT--AACTGGGCT--ATGGCATTTTAATGAA
26769514 AAGACCATAACTGGGCTATGGCATTTTAATGAA
1 AAGACCATAACTGGGCTATGGCATTTTAATGAA
*
26769547 AAGACCATAACTGGGTTATG
1 AAGACCATAACTGGGCTATG
26769567 ACACCTTGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
29 2 0.03
30 4 0.06
31 2 0.03
32 15 0.23
33 34 0.52
34 2 0.03
35 4 0.06
36 2 0.03
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (33 bp):
AAGACCATAACTGGGCTATGGCATTTTAATGAA
Found at i:26769584 original size:33 final size:32
Alignment explanation
Indices: 26769512--26769587 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 32
26769502 ATGTTTAAAT
* * * *
26769512 GTAAGACCATAACTGGGCTATGGCATTTTAAT
1 GTAAGACCATAACTGGGCTATGACACTTGAAC
* *
26769544 GAAAAGACCATAACTGGGTTATGACACCTTGAAC
1 G-TAAGACCATAACTGGGCTATGACA-CTTGAAC
26769578 GTAAGACCAT
1 GTAAGACCAT
26769588 GGTTGGACAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
32 1 0.03
33 29 0.83
34 5 0.14
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (32 bp):
GTAAGACCATAACTGGGCTATGACACTTGAAC
Found at i:26769688 original size:33 final size:32
Alignment explanation
Indices: 26769616--26769692 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
26769606 TAGATACATG
* * * **
26769616 TGTAAGACCATAGCTGGGCTATGGCATTCTGA
1 TGTAAGACCATAACTGGGCTATGACATACAAA
*
26769648 TGATAAGACCATAACTGGGTTATGACACTACAAA
1 TG-TAAGACCATAACTGGGCTATGACA-TACAAA
26769682 TGTAAGACCAT
1 TGTAAGACCAT
26769693 GGCAAGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGACATACAAA
Found at i:26780962 original size:21 final size:21
Alignment explanation
Indices: 26780936--26780982 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
26780926 GAGAAGAGAA
26780936 TGATAAGAATAGATTGTGTTT
1 TGATAAGAATAGATTGTGTTT
26780957 TGATAAGAATAGATTGTGTTT
1 TGATAAGAATAGATTGTGTTT
26780978 TGATA
1 TGATA
26780983 GGGACCCGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (21 bp):
TGATAAGAATAGATTGTGTTT
Found at i:26787631 original size:30 final size:30
Alignment explanation
Indices: 26787597--26787659 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
26787587 ATTTATTTTA
26787597 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
26787627 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
26787657 TTG
1 TTG
26787660 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:26788400 original size:29 final size:30
Alignment explanation
Indices: 26788365--26788428 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
26788355 TAGCAAAAAA
26788365 CTCTCAAATTTC-CCCTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
*
26788394 CTCTCAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
26788424 CTCTC
1 CTCTC
26788429 TTTAATTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.28, C:0.31, G:0.03, T:0.38
Consensus pattern (30 bp):
CTCTCAAATTTCTCCCTAAATTTCTCAAAG
Found at i:26796616 original size:17 final size:16
Alignment explanation
Indices: 26796594--26796638 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
26796584 TAGAATCAAG
*
26796594 TTGAGAAAATTATTTAA
1 TTGAG-AAATTAATTAA
26796611 TTGAGAAATTAATTAA
1 TTGAGAAATTAATTAA
26796627 TT-A-AAATTAATT
1 TTGAGAAATTAATT
26796639 TATGATGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.33
15 1 0.04
16 12 0.44
17 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
TTGAGAAATTAATTAA
Found at i:26798889 original size:12 final size:12
Alignment explanation
Indices: 26798872--26798896 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26798862 AACCAGAGCA
26798872 ATAGAATGCTAC
1 ATAGAATGCTAC
26798884 ATAGAATGCTAC
1 ATAGAATGCTAC
26798896 A
1 A
26798897 GATGGTTACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (12 bp):
ATAGAATGCTAC
Found at i:26804726 original size:13 final size:13
Alignment explanation
Indices: 26804708--26804733 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26804698 CAAAGGATTT
26804708 ATTTCTTTTATTG
1 ATTTCTTTTATTG
26804721 ATTTCTTTTATTG
1 ATTTCTTTTATTG
26804734 GTTTAGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
ATTTCTTTTATTG
Found at i:26807283 original size:13 final size:13
Alignment explanation
Indices: 26807265--26807292 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
26807255 TCTAAGTGGA
26807265 TAGAAGCAAAGCC
1 TAGAAGCAAAGCC
26807278 TAGAAGCAAAGCC
1 TAGAAGCAAAGCC
26807291 TA
1 TA
26807293 CTCATAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (13 bp):
TAGAAGCAAAGCC
Found at i:26811312 original size:41 final size:41
Alignment explanation
Indices: 26811267--26811474 Score: 290
Period size: 41 Copynumber: 5.1 Consensus size: 41
26811257 CGTACATCTG
* * *
26811267 TTTGTACTTCGGTACTCTTGAATTGCACATACATGCCCCTA
1 TTTGTACTTTGGTACCCCTGAATTGCACATACATGCCCCTA
26811308 TTTGTACTTTGGTACCCCTGAATTGCACATACATGCCCCTA
1 TTTGTACTTTGGTACCCCTGAATTGCACATACATGCCCCTA
* *
26811349 TTTGTACTTTGGTACCCCTAAATTGCACATACATGCCCCTG
1 TTTGTACTTTGGTACCCCTGAATTGCACATACATGCCCCTA
* * *
26811390 TTTGTACTTTGGTACCCGTGAATTGCACATAAATGCCCTTA
1 TTTGTACTTTGGTACCCCTGAATTGCACATACATGCCCCTA
* * ** * *
26811431 TTTGTACTTCGGTACCCTTGAATAACATATACGTGCCCCTA
1 TTTGTACTTTGGTACCCCTGAATTGCACATACATGCCCCTA
26811472 TTT
1 TTT
26811475 ACACTTCAGT
Statistics
Matches: 149, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 149 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (41 bp):
TTTGTACTTTGGTACCCCTGAATTGCACATACATGCCCCTA
Found at i:26811368 original size:20 final size:20
Alignment explanation
Indices: 26811302--26811368 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
26811292 CACATACATG
26811302 CCCCTATTTGTACTTTGGTA
1 CCCCTATTTGTACTTTGGTA
* * * *** *
26811322 CCCCTGAATTGCACATACATG
1 CCCCT-ATTTGTACTTTGGTA
26811343 CCCCTATTTGTACTTTGGTA
1 CCCCTATTTGTACTTTGGTA
26811363 CCCCTA
1 CCCCTA
26811369 AATTGCACAT
Statistics
Matches: 32, Mismatches: 14, Indels: 2
0.67 0.29 0.04
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.19, C:0.31, G:0.13, T:0.36
Consensus pattern (20 bp):
CCCCTATTTGTACTTTGGTA
Found at i:26820326 original size:30 final size:30
Alignment explanation
Indices: 26820292--26820354 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
26820282 ACTTAACAAG
26820292 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
26820322 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
26820352 CAA
1 CAA
26820355 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:26822014 original size:92 final size:92
Alignment explanation
Indices: 26821871--26822469 Score: 950
Period size: 92 Copynumber: 6.5 Consensus size: 92
26821861 ATCCAATGCT
* * * *
26821871 CAAATCAA-TTCAACAATATATATTCATATACGAATCAAATTCGGCAACTTATCTTCATATACAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATC-AATTCGGCAACTTATCTTCATATACAA
* *
26821935 ATCGATTTCGATAATGTATAATCATATA
65 ATCAATTTCGATAATGTATAACCATATA
* *
26821963 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTTGGCAACTTATCTTCATATATAAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
26822028 TCAATTTCGATAATGTATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
* * *
26822055 CAAATAAATTTCAGCAATGTATAATTATATACGAATCAATTTGGCAACTTATCTTCACATACAAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
* * *
26822120 TCAATTTCTATAATATATAACCATACA
66 TCAATTTCGATAATGTATAACCATATA
* * *
26822147 CAAATAAATTTCAGCAATGTATAATTATATACAAATCAATTCGACAACTTATCTTCATATACAAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
*
26822212 TCACTTTCGATAATAG-ATAACCATATA
66 TCAATTTCGATAAT-GTATAACCATATA
26822239 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
*
26822304 TCAATTTCGATAATATATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
*
26822331 TAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
26822396 TCAATTTCGATAATGTATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
* ** *
26822423 CAAATAAATTTCAACAATGTATAATTGTATACGAATTAATTCGGCAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAA
26822470 TGTATAAAAC
Statistics
Matches: 470, Mismatches: 34, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
92 445 0.95
93 25 0.05
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (92 bp):
CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
TCAATTTCGATAATGTATAACCATATA
Found at i:26823983 original size:25 final size:25
Alignment explanation
Indices: 26823952--26824062 Score: 84
Period size: 25 Copynumber: 4.5 Consensus size: 25
26823942 AGTCCTCTCT
26823952 CGAGCCATATAACAGGAAGCTCATG
1 CGAGCCATATAACAGGAAGCTCATG
* * * * *
26823977 TGAGCCATGTAACGGGAAGCTTATC
1 CGAGCCATATAACAGGAAGCTCATG
** *
26824002 CGAGCTGTATAAC-GTGAAGCTCATA
1 CGAGCCATATAACAG-GAAGCTCATG
* * * *
26824027 AGAGTCATAT-TCAGGAAACTCATG
1 CGAGCCATATAACAGGAAGCTCATG
26824051 CGAGCCA-ATAAC
1 CGAGCCATATAAC
26824063 GGGTAGCTTC
Statistics
Matches: 62, Mismatches: 21, Indels: 7
0.69 0.23 0.08
Matches are distributed among these distances:
23 2 0.03
24 16 0.26
25 44 0.71
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTCATG
Found at i:26824095 original size:73 final size:72
Alignment explanation
Indices: 26824017--26824179 Score: 166
Period size: 73 Copynumber: 2.2 Consensus size: 72
26824007 TGTATAACGT
* * * *
26824017 GAAGCTCATAAGAGTCATAT-TCAGGAAACTCATGCGAGCCAATAACGGGTAGCTTCAAAGAGCC
1 GAAGCTCA-AAGAGCCATATATCAGGAAACTCAAGCGAGCC-ATAACGGGAAGCTCCAAAGAGCC
26824081 ATTAATCAG
64 ATTAATCAG
* ** ** * *
26824090 GAAGCTTCAAATAGCCATATATTGGGAAGTTCAAGCGAGCCATATCGGGAAGCTCCGAAGAGCCA
1 GAAGC-TCAAAGAGCCATATATCAGGAAACTCAAGCGAGCCATAACGGGAAGCTCCAAAGAGCCA
*
26824155 TTAATTAG
65 TTAATCAG
26824163 GAAGCTTACAAAGAGCC
1 GAAGC-T-CAAAGAGCC
26824180 TTTAATCGGG
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
73 48 0.65
74 26 0.35
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (72 bp):
GAAGCTCAAAGAGCCATATATCAGGAAACTCAAGCGAGCCATAACGGGAAGCTCCAAAGAGCCAT
TAATCAG
Found at i:26824097 original size:25 final size:25
Alignment explanation
Indices: 26824052--26824207 Score: 126
Period size: 25 Copynumber: 6.3 Consensus size: 25
26824042 AAACTCATGC
* *
26824052 GAGCCAATAA-CGGGTAGCTTCAAA
1 GAGCCATTAATCGGGAAGCTTCAAA
*
26824076 GAGCCATTAATCAGGAAGCTTCAAA
1 GAGCCATTAATCGGGAAGCTTCAAA
* * *
26824101 TAGCCA-TATATTGGGAAG-TTCAAGC
1 GAGCCATTA-ATCGGGAAGCTTCAA-A
* *
26824126 GAGCCA-T-ATCGGGAAGCTCCGAA
1 GAGCCATTAATCGGGAAGCTTCAAA
**
26824149 GAGCCATTAATTAGGAAGCTTACAAA
1 GAGCCATTAATCGGGAAGCTT-CAAA
*
26824175 GAGCCTTTAATCGGGAAGC-TCATGAA
1 GAGCCATTAATCGGGAAGCTTCA--AA
26824201 GAGCCAT
1 GAGCCAT
26824208 ATAACATGAT
Statistics
Matches: 103, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
23 14 0.14
24 22 0.21
25 40 0.39
26 27 0.26
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (25 bp):
GAGCCATTAATCGGGAAGCTTCAAA
Found at i:26827405 original size:9 final size:8
Alignment explanation
Indices: 26827391--26827465 Score: 53
Period size: 9 Copynumber: 8.8 Consensus size: 8
26827381 ACATAGTGGA
26827391 AAAAATGAT
1 AAAAAT-AT
26827400 AAAAATAT
1 AAAAATAT
**
26827408 TTAAATCAAT
1 AAAAAT--AT
*
26827418 AAAAATTTT
1 AAAAA-TAT
26827427 AAAAATATT
1 AAAAATA-T
26827436 AAAAATAT
1 AAAAATAT
26827444 -AAAATAT
1 AAAAATAT
26827451 AAAAAATAT
1 -AAAAATAT
*
26827460 TAAAAT
1 AAAAAT
26827466 TATAGAAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
7 7 0.13
8 13 0.25
9 27 0.51
10 5 0.09
11 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (8 bp):
AAAAATAT
Found at i:26827431 original size:10 final size:9
Alignment explanation
Indices: 26827399--26827464 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
26827389 GAAAAAATGA
26827399 TAAAAATAT
1 TAAAAATAT
* *
26827408 T-TAAATCAA
1 TAAAAAT-AT
*
26827417 TAAAAATTT
1 TAAAAATAT
26827426 TAAAAATAT
1 TAAAAATAT
26827435 TAAAAATA-
1 TAAAAATAT
26827443 T-AAAATAT
1 TAAAAATAT
*
26827451 AAAAAATAT
1 TAAAAATAT
26827460 TAAAA
1 TAAAA
26827465 TTATAGAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
7 6 0.13
8 5 0.11
9 30 0.67
10 4 0.09
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
TAAAAATAT
Found at i:26827449 original size:16 final size:17
Alignment explanation
Indices: 26827418--26827465 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
26827408 TTAAATCAAT
* *
26827418 AAAAATTTTAAAAATATT
1 AAAAATATT-AAAATATA
26827436 AAAAATA-TAAAATATA
1 AAAAATATTAAAATATA
26827452 AAAAATATTAAAAT
1 AAAAATATTAAAAT
26827466 TATAGAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 14 0.52
17 7 0.26
18 6 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATATTAAAATATA
Found at i:26827474 original size:17 final size:17
Alignment explanation
Indices: 26827392--26827474 Score: 71
Period size: 18 Copynumber: 4.8 Consensus size: 17
26827382 CATAGTGGAA
*
26827392 AAAATGATAAAAATATT
1 AAAATTATAAAAATATT
* * *
26827409 TAAATCAATAAAAATTTT
1 AAAAT-TATAAAAATATT
*
26827427 AAAAATATTAAAAATA-T
1 AAAATTA-TAAAAATATT
26827444 AAAA-TATAAAAAATATT
1 AAAATTAT-AAAAATATT
*
26827461 AAAATTATAGAAAT
1 AAAATTATAAAAAT
26827475 TATTTTAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
15 1 0.02
16 9 0.17
17 20 0.38
18 23 0.43
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAATTATAAAAATATT
Found at i:26827694 original size:10 final size:9
Alignment explanation
Indices: 26827673--26827809 Score: 69
Period size: 9 Copynumber: 14.0 Consensus size: 9
26827663 ATAAAAGGCG
26827673 ATAAAAATT
1 ATAAAAATT
26827682 ATAAAAATAT
1 ATAAAAAT-T
*
26827692 ATAGGAAAAAT
1 ATA--AAAATT
* *
26827703 GTATAAATT
1 ATAAAAATT
**
26827712 ATTAAATTTTT
1 A-TAAA-AATT
26827723 ATACAAAATT
1 ATA-AAAATT
*
26827733 ATTTAAAATTTT
1 A--TAAAA-ATT
*
26827745 AGAAAAAATT
1 ATAA-AAATT
*
26827755 ATAAAAGTT
1 ATAAAAATT
26827764 ATAATAAA-T
1 ATAA-AAATT
26827773 ATAATAAATT
1 ATAA-AAATT
* *
26827783 ATTAAAAGT
1 ATAAAAATT
26827792 ATAAAAATT
1 ATAAAAATT
26827801 ATAAAAATT
1 ATAAAAATT
26827810 TATGTCAAAG
Statistics
Matches: 96, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
9 49 0.51
10 25 0.26
11 13 0.14
12 9 0.09
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (9 bp):
ATAAAAATT
Found at i:26827744 original size:22 final size:22
Alignment explanation
Indices: 26827707--26827756 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
26827697 AAAAATGTAT
* * *
26827707 AAATTA-TTAAATTTTTATACA
1 AAATTATTTAAAATTTTAGAAA
26827728 AAATTATTTAAAATTTTAGAAA
1 AAATTATTTAAAATTTTAGAAA
26827750 AAATTAT
1 AAATTAT
26827757 AAAAGTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATTATTTAAAATTTTAGAAA
Found at i:26827784 original size:19 final size:17
Alignment explanation
Indices: 26827748--26827808 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 17
26827738 AAATTTTAGA
*
26827748 AAAAATTATAAAAGTTAT
1 AAAAA-TATAAAAATTAT
26827766 AATAAATATAATAAATTATT
1 AA-AAATATAA-AAATTA-T
*
26827786 AAAAGTATAAAAATTAT
1 AAAAATATAAAAATTAT
26827803 AAAAAT
1 AAAAAT
26827809 TTATGTCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.16
18 13 0.35
19 15 0.41
20 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAAATATAAAAATTAT
Found at i:26827812 original size:10 final size:9
Alignment explanation
Indices: 26827748--26827809 Score: 72
Period size: 9 Copynumber: 6.8 Consensus size: 9
26827738 AAATTTTAGA
26827748 AAAAATTAT
1 AAAAATTAT
*
26827757 AAAAGTTAT
1 AAAAATTAT
26827766 AATAAA-TAT
1 AA-AAATTAT
26827775 AATAAATTAT
1 AA-AAATTAT
* *
26827785 TAAAAGTAT
1 AAAAATTAT
26827794 AAAAATTAT
1 AAAAATTAT
26827803 AAAAATT
1 AAAAATT
26827810 TATGTCAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
9 39 0.87
10 6 0.13
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:26827812 original size:28 final size:28
Alignment explanation
Indices: 26827748--26827809 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 28
26827738 AAATTTTAGA
26827748 AAAAATTA-TAAAAGTTATAATAAATAT
1 AAAAATTATTAAAAGTTATAATAAATAT
26827775 AATAAATTATTAAAAG-TATAA-AAATTAT
1 AA-AAATTATTAAAAGTTATAATAAA-TAT
26827803 AAAAATT
1 AAAAATT
26827810 TATGTCAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
27 10 0.31
28 16 0.50
29 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (28 bp):
AAAAATTATTAAAAGTTATAATAAATAT
Found at i:26827992 original size:24 final size:24
Alignment explanation
Indices: 26827965--26828014 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
26827955 TCTATATTGT
26827965 TAATAAACCTTCTACATTTATATA
1 TAATAAACCTTCTACATTTATATA
*
26827989 TAATAAACTTTCTACATTTATATA
1 TAATAAACCTTCTACATTTATATA
26828013 TA
1 TA
26828015 TATATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (24 bp):
TAATAAACCTTCTACATTTATATA
Found at i:26828060 original size:21 final size:20
Alignment explanation
Indices: 26828035--26828081 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
26828025 TATATAACAT
*
26828035 TTTTTTTAACATTTTTTCTAA
1 TTTTTTTAACATTTTTTAT-A
* *
26828056 TTTTTTTGATATTTTTTATA
1 TTTTTTTAACATTTTTTATA
26828076 TTTTTT
1 TTTTTT
26828082 CTGTATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTTTTAACATTTTTTATA
Found at i:26828070 original size:20 final size:20
Alignment explanation
Indices: 26828045--26828092 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
26828035 TTTTTTTAAC
*
26828045 ATTTTTTCTAATTTTTT-TGAT
1 ATTTTTTAT-ATTTTTTCTG-T
26828066 ATTTTTTATATTTTTTCTGT
1 ATTTTTTATATTTTTTCTGT
26828086 ATTTTTT
1 ATTTTTT
26828093 TAACATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (20 bp):
ATTTTTTATATTTTTTCTGT
Found at i:26832031 original size:44 final size:45
Alignment explanation
Indices: 26831944--26832041 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 45
26831934 GAGACTTGTA
* * * *
26831944 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCGACACCAATATAGGAAGACAAAATCTGCTT
* *
26831989 TCTTCGATCTACTTC-ACGCCAATATATGAAGACAAAATCTGCTT
1 TCTTCGATCTACTTCGACACCAATATAGGAAGACAAAATCTGCTT
26832033 TCTTCGATC
1 TCTTCGATC
26832042 GATTCCACTG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 32 0.68
45 15 0.32
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (45 bp):
TCTTCGATCTACTTCGACACCAATATAGGAAGACAAAATCTGCTT
Found at i:26832284 original size:88 final size:87
Alignment explanation
Indices: 26832231--26832601 Score: 410
Period size: 88 Copynumber: 4.2 Consensus size: 87
26832221 TCGCTACTGA
* * * *
26832231 TATAGGAAGACAGGACCTGCTATCTTTAATCTACTTCACGCCAGTACATGAAGATAAAATCTGCT
1 TATAGGAAGACAAGATCTG-TATCTTTAATCTACTTCACGCCAGTACATGAAGACAAGATCTG-T
*
26832296 CTCTTCGATCTACTCCACCACTAG
64 CTATTCGATCTACTCCACCACTAG
* * * *
26832320 TATGGGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-CT
1 TATAGGAAGACAAGATCTGTATCTTTAATCTACTTCACGCCAGTACATGAAGACAAGATCTGTC-
26832384 TACTTCGATCTACTCCACCACTAG
65 TA-TTCGATCTACTCCACCACTAG
* * * *
26832408 TATGGGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-CT
1 TATAGGAAGACAAGATCTGTATCTTTAATCTACTTCACGCCAGTACATGAAGACAAGATCTGTCT
* *
26832472 ATCTTCGATCTACTTCACGC-C-AA
66 A--TTCGATCTACTCCAC-CACTAG
* *
26832495 TACATGAAGACAAGATCTAGTATCTTTAATCTACTTCACGCCAGTACATGAAGACAAGATCTGT-
1 TATAGGAAGACAAGATCT-GTATCTTTAATCTACTTCACGCCAGTACATGAAGACAAGATCTGTC
* * * * *
26832559 TTTCTACGATCTGCTTCGCCACCAG
65 TAT-T-CGATCTACTCCACCACTAG
*
26832584 TATGGGAAGACAAGATCT
1 TATAGGAAGACAAGATCT
26832602 TTTGTATTCA
Statistics
Matches: 248, Mismatches: 24, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
86 2 0.01
87 20 0.08
88 194 0.78
89 32 0.13
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (87 bp):
TATAGGAAGACAAGATCTGTATCTTTAATCTACTTCACGCCAGTACATGAAGACAAGATCTGTCT
ATTCGATCTACTCCACCACTAG
Found at i:26832295 original size:44 final size:44
Alignment explanation
Indices: 26832236--26832557 Score: 341
Period size: 44 Copynumber: 7.3 Consensus size: 44
26832226 ACTGATATAG
* * *
26832236 GAAGACAGGACCTGCTATCTTTAATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * * * * ***
26832280 GAAGATAAAATCTGCTCTCTTCGATCTACTCCAC-CACTAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGC-C-AGTACAT
* *
26832325 GGAGACAAGATCTG-TTTCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * ***
26832368 GAAGACAAGATCTGCT-TACTTCGATCTACTCCAC-CACTAGTATGG
1 GAAGACAAGATCTGCTAT-CTTTGATCTACTTCACGC-C-AGTACAT
* *
26832413 GGAGACAAGATCTG-TTTCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* *
26832456 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
*
26832500 GAAGACAAGATCTAG-TATCTTTAATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCT-GCTATCTTTGATCTACTTCACGCCAGTACAT
26832544 GAAGACAAGATCTG
1 GAAGACAAGATCTG
26832558 TTTTCTACGA
Statistics
Matches: 228, Mismatches: 39, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
43 38 0.17
44 154 0.68
45 36 0.16
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:26832455 original size:176 final size:176
Alignment explanation
Indices: 26832235--26832601 Score: 488
Period size: 176 Copynumber: 2.1 Consensus size: 176
26832225 TACTGATATA
* * * * *
26832235 GGAAGACAGGACCTGCTATCTTTAATCTACTTCACGCCAGTACATGAAGATAAAATCTGCTCTCT
1 GGAAGACAAGATCTG-TTTCTTTAATCTACTTCACGCCAGTACATGAAGACAAAATCTGCTATCT
* * * * *
26832300 TCGATCTAC-TC-CACCACTAGTATGGGGAGACAAGATCT-GTTTCTTTGATCTACTTCACGCCA
65 TCGATCTACTTCACACCAATA-CAT--GAAGACAAGATCTAGTATCTTTAATCTACTTCACGCCA
* *
26832362 GTACATGAAGACAAGATCTGCTTACTTCGATCTACTCCACCACTAGTATG
127 GTACATGAAGACAAGATCTGCTTACTACGATCTACTCCACCACCAGTATG
* * *
26832412 GGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATCTT
1 GGAAGACAAGATCTGTTTCTTTAATCTACTTCACGCCAGTACATGAAGACAAAATCTGCTATCTT
*
26832477 CGATCTACTTCACGCCAATACATGAAGACAAGATCTAGTATCTTTAATCTACTTCACGCCAGTAC
66 CGATCTACTTCACACCAATACATGAAGACAAGATCTAGTATCTTTAATCTACTTCACGCCAGTAC
* * * * *
26832542 ATGAAGACAAGATCTGTTTTCTACGATCTGCTTCGCCACCAGTATG
131 ATGAAGACAAGATCTGCTTACTACGATCTACTCCACCACCAGTATG
26832588 GGAAGACAAGATCT
1 GGAAGACAAGATCT
26832602 TTTGTATTCA
Statistics
Matches: 165, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
175 12 0.07
176 131 0.79
177 16 0.10
178 6 0.04
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (176 bp):
GGAAGACAAGATCTGTTTCTTTAATCTACTTCACGCCAGTACATGAAGACAAAATCTGCTATCTT
CGATCTACTTCACACCAATACATGAAGACAAGATCTAGTATCTTTAATCTACTTCACGCCAGTAC
ATGAAGACAAGATCTGCTTACTACGATCTACTCCACCACCAGTATG
Found at i:26836738 original size:19 final size:19
Alignment explanation
Indices: 26836698--26836740 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
26836688 ATAATCTTTG
* *
26836698 ATGCATATGATGTAATGAA
1 ATGCAAATGATGAAATGAA
26836717 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGAA
26836736 ATGCA
1 ATGCA
26836741 TAAAGAGACG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (19 bp):
ATGCAAATGATGAAATGAA
Found at i:26838935 original size:3 final size:3
Alignment explanation
Indices: 26838914--26838992 Score: 51
Period size: 3 Copynumber: 26.7 Consensus size: 3
26838904 TGTACATGAA
* *
26838914 AAT AAT GAAT AAT ATT AAT AAT AAT -AT GCAAT AAT AGT AAT AAT AA-
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT --AAT AAT AAT AAT AAT AAT
* *
26838960 ACA- AAT AAT AGT -AT CAT AA- AAT AAT AAT AAT AA
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26838993 AAAGTCTAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
2 7 0.11
3 49 0.80
4 3 0.05
5 2 0.03
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:26838938 original size:19 final size:20
Alignment explanation
Indices: 26838914--26838972 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 20
26838904 TGTACATGAA
*
26838914 AATAATG-AATAATATTAAT
1 AATAATGCAATAATAGTAAT
26838933 AATAATATGCAATAATAGTAAT
1 AAT-A-ATGCAATAATAGTAAT
*
26838955 AATAA-ACAAATAATAGTA
1 AATAATGC-AATAATAGTA
26838973 TCATAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 4 0.12
20 12 0.35
21 4 0.12
22 14 0.41
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (20 bp):
AATAATGCAATAATAGTAAT
Found at i:26838969 original size:33 final size:33
Alignment explanation
Indices: 26838930--26838993 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
26838920 GAATAATATT
* *
26838930 AATAATAATATGCA-ATAATAGTAATAATAAACA
1 AATAATAATAT-CATAAAATAATAATAATAAACA
*
26838963 AATAATAGTATCATAAAATAATAATAATAAA
1 AATAATAATATCATAAAATAATAATAATAAA
26838994 AAGTCTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 25 0.93
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (33 bp):
AATAATAATATCATAAAATAATAATAATAAACA
Found at i:26838988 original size:19 final size:20
Alignment explanation
Indices: 26838921--26838972 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
26838911 GAAAATAATG
*
26838921 AATAATATTAATAATAATATGC-
1 AATAATAGTAATAATAA-A--CA
26838943 AATAATAGTAATAATAAACA
1 AATAATAGTAATAATAAACA
26838963 AATAATAGTA
1 AATAATAGTA
26838973 TCATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 10 0.36
21 1 0.04
22 16 0.57
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (20 bp):
AATAATAGTAATAATAAACA
Found at i:26840339 original size:14 final size:15
Alignment explanation
Indices: 26840320--26840350 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
26840310 ATGTGAGTTT
26840320 TAAATATATTT-TTA
1 TAAATATATTTGTTA
26840334 TAAATATATTTGTTA
1 TAAATATATTTGTTA
26840349 TA
1 TA
26840351 TAAAATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TAAATATATTTGTTA
Found at i:26840639 original size:33 final size:33
Alignment explanation
Indices: 26840597--26840666 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
26840587 ATGATTAATT
***
26840597 TTTTTAAAAAATTTTATG-AATATTTTTGAATA
1 TTTTTAAAAAAAAATATGTAATATTTTTGAATA
* *
26840629 TTTTTAAAAAAAAATATGTAATTTTTTTGAATT
1 TTTTTAAAAAAAAATATGTAATATTTTTGAATA
26840662 TTTTT
1 TTTTT
26840667 GAAATATGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (33 bp):
TTTTTAAAAAAAAATATGTAATATTTTTGAATA
Found at i:26840894 original size:27 final size:27
Alignment explanation
Indices: 26840845--26840911 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
26840835 GATGAAGCCA
*
26840845 AAATTTTTTTAG-GAAAGTTAAATTAT
1 AAATTTTATTAGAGAAAGTTAAATTAT
26840871 AAATTTTATTAGAGAAAGTTAAATTAT
1 AAATTTTATTAGAGAAAGTTAAATTAT
26840898 AAATTTTATTAGAG
1 AAATTTTATTAGAG
26840912 GTATAATGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 11 0.28
27 28 0.72
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (27 bp):
AAATTTTATTAGAGAAAGTTAAATTAT
Found at i:26846139 original size:507 final size:507
Alignment explanation
Indices: 26845186--26846173 Score: 1922
Period size: 507 Copynumber: 1.9 Consensus size: 507
26845176 ACCTTTCTAC
26845186 CATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTAAAATCTTCAAACTTACCCCTGT
1 CATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTAAAATCTTCAAACTTACCCCTGT
26845251 TCTGATGTCTAACAGCTTCATCCCTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAATTTTTG
66 TCTGATGTCTAACAGCTTCATCCCTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAATTTTTG
26845316 ATGATGTTTCCATTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAACT
131 ATGATGTTTCCATTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAACT
26845381 CCTAATTATTTTTCTCCAATTTTTGATGATTTTCCAAAGTCAGAATACGGGAACCCAAATTCAAT
196 CCTAATTATTTTTCTCCAATTTTTGATGATTTTCCAAAGTCAGAATACGGGAACCCAAATTCAAT
26845446 CTGACCTTGTCTCACAAAGTTTATTATACCTCACAATTTACAATTCCATTACTTACACCGTTTCT
261 CTGACCTTGTCTCACAAAGTTTATTATACCTCACAATTTACAATTCCATTACTTACACCGTTTCT
*
26845511 TCTATGAAAAACTAGACTCAATAAGATTTAATTTCATATTTTTTTCATCCTCTAATTCGATTTCT
326 TCTATGAAAAACTAGACTCAATAAGATTTAATTTCATATTTTTTTCATCCTCTAATTCAATTTCT
* *
26845576 ACAATTTATGGAAATTTTTCAAAGTTAGCCAACTCTTGCTATCCAAACAACAAGCAATTTTGGCT
391 ACAATTTATGGAAAATTTTCAAAGTTAACCAACTCTTGCTATCCAAACAACAAGCAATTTTGGCT
26845641 TTTCGCCGAATCCCTTTTTTTGTTGTCTCATAAAAAAATTTTGACCTTGTCT
456 TTTCGCCGAATCCCTTTTTTTGTTGTCTCATAAAAAAATTTTGACCTTGTCT
26845693 CATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTAAAATCTTCAAACTTACCCCTGT
1 CATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTAAAATCTTCAAACTTACCCCTGT
26845758 TCTGATGTCTAACAGCTTCATCCCTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAATTTTTG
66 TCTGATGTCTAACAGCTTCATCCCTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAATTTTTG
26845823 ATGATGTTTCCATTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAACT
131 ATGATGTTTCCATTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAACT
* *
26845888 CCTAATTATTTTTCTCCAATTTTTGATGATTTTCCAAAGTCAGAATAGGGGAACCCGAATTCAAT
196 CCTAATTATTTTTCTCCAATTTTTGATGATTTTCCAAAGTCAGAATACGGGAACCCAAATTCAAT
26845953 CTGACCTTGTCTCACAAAGTTTATTATACCTCACAATTTACAATTCCATTACTTACACCGTTTCT
261 CTGACCTTGTCTCACAAAGTTTATTATACCTCACAATTTACAATTCCATTACTTACACCGTTTCT
26846018 TCTATGAAAAACTAGACTCAATAAGATTTAATTTCATATTTTTTTCATCCTCTAATTCAATTTCT
326 TCTATGAAAAACTAGACTCAATAAGATTTAATTTCATATTTTTTTCATCCTCTAATTCAATTTCT
*
26846083 ACAATTTATGGAAAATTTTCAAAGTTAACCTACTCTTGCTATCCAAACAACAAGCAATTTTGGCT
391 ACAATTTATGGAAAATTTTCAAAGTTAACCAACTCTTGCTATCCAAACAACAAGCAATTTTGGCT
26846148 TTTCGCCGAATCCCTTTTTTTGTTGT
456 TTTCGCCGAATCCCTTTTTTTGTTGT
26846174 GTTTCGGGTA
Statistics
Matches: 475, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
507 475 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (507 bp):
CATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTAAAATCTTCAAACTTACCCCTGT
TCTGATGTCTAACAGCTTCATCCCTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAATTTTTG
ATGATGTTTCCATTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAACT
CCTAATTATTTTTCTCCAATTTTTGATGATTTTCCAAAGTCAGAATACGGGAACCCAAATTCAAT
CTGACCTTGTCTCACAAAGTTTATTATACCTCACAATTTACAATTCCATTACTTACACCGTTTCT
TCTATGAAAAACTAGACTCAATAAGATTTAATTTCATATTTTTTTCATCCTCTAATTCAATTTCT
ACAATTTATGGAAAATTTTCAAAGTTAACCAACTCTTGCTATCCAAACAACAAGCAATTTTGGCT
TTTCGCCGAATCCCTTTTTTTGTTGTCTCATAAAAAAATTTTGACCTTGTCT
Found at i:26847507 original size:26 final size:26
Alignment explanation
Indices: 26847478--26847527 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
26847468 CAGTGGCTGG
26847478 TTTGACCAACTGATTCTATTAACTAA
1 TTTGACCAACTGATTCTATTAACTAA
26847504 TTTGACCAACTGATTCTATTAACT
1 TTTGACCAACTGATTCTATTAACT
26847528 GTTTATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (26 bp):
TTTGACCAACTGATTCTATTAACTAA
Found at i:26849608 original size:10 final size:10
Alignment explanation
Indices: 26849593--26849640 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
26849583 CTCTCACAAC
26849593 AAAAATTATA
1 AAAAATTATA
26849603 AAAAATTA-A
1 AAAAATTATA
26849612 AATAAATT-TA
1 AA-AAATTATA
*
26849622 AAAAATT-CA
1 AAAAATTATA
26849631 AAAAATTATA
1 AAAAATTATA
26849641 GAAATTCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 16 0.48
10 17 0.52
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:26849625 original size:19 final size:19
Alignment explanation
Indices: 26849593--26849640 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
26849583 CTCTCACAAC
26849593 AAAAATTATAAAAAATTAA
1 AAAAATTATAAAAAATTAA
*
26849612 AATAAATT-TAAAAAATTCA
1 AA-AAATTATAAAAAATTAA
26849631 AAAAATTATA
1 AAAAATTATA
26849641 GAAATTCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 5 0.19
19 16 0.62
20 5 0.19
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAATTATAAAAAATTAA
Found at i:26849633 original size:9 final size:9
Alignment explanation
Indices: 26849593--26849638 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
26849583 CTCTCACAAC
26849593 AAAAATTATA
1 AAAAATTA-A
26849603 AAAAATTAA
1 AAAAATTAA
*
26849612 AATAAATTTA
1 AA-AAATTAA
*
26849622 AAAAATTCA
1 AAAAATTAA
26849631 AAAAATTA
1 AAAAATTA
26849639 TAGAAATTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 16 0.50
10 16 0.50
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATTAA
Found at i:26849645 original size:18 final size:19
Alignment explanation
Indices: 26849593--26849658 Score: 73
Period size: 18 Copynumber: 3.5 Consensus size: 19
26849583 CTCTCACAAC
*
26849593 AAAAATTATAAAAAATTAA
1 AAAAATTATAAAAAATTCA
26849612 AATAAATT-TAAAAAATTCA
1 AA-AAATTATAAAAAATTCA
* *
26849631 AAAAATTAT-AGAAATTCT
1 AAAAATTATAAAAAATTCA
*
26849649 AAAATTTATA
1 AAAAATTATA
26849659 TTTTAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 20 0.50
19 15 0.38
20 5 0.12
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAAATTATAAAAAATTCA
Found at i:26856491 original size:11 final size:11
Alignment explanation
Indices: 26856475--26856500 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26856465 TTTTTTAATA
26856475 TTATTTAATTT
1 TTATTTAATTT
26856486 TTATTTAATTT
1 TTATTTAATTT
26856497 TTAT
1 TTAT
26856501 AATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTAATTT
Found at i:26856511 original size:29 final size:30
Alignment explanation
Indices: 26856459--26856530 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
26856449 ATAAGGGTTA
* *
26856459 ATTTCATTTTTTAATATTATTTAAT-TTTT
1 ATTTAATTTTTTAATATTAATTAATATTTT
26856488 ATTTAATTTTTATAAT-TTAATTAATATTTT
1 ATTTAATTTTT-TAATATTAATTAATATTTT
*
26856518 TTTATAATTTTTT
1 ATT-TAATTTTTT
26856531 TATAATAGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 18 0.49
30 11 0.30
31 8 0.22
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (30 bp):
ATTTAATTTTTTAATATTAATTAATATTTT
Found at i:26856527 original size:11 final size:11
Alignment explanation
Indices: 26856494--26856536 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
26856484 TTTTATTTAA
26856494 TTTTTATAATT
1 TTTTTATAATT
**
26856505 TAATTA-ATATT
1 TTTTTATA-ATT
26856516 TTTTTATAATT
1 TTTTTATAATT
26856527 TTTTTATAAT
1 TTTTTATAAT
26856537 AGCCGGTAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.04
11 24 0.92
12 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:26856607 original size:41 final size:41
Alignment explanation
Indices: 26856552--26856630 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
26856542 GTAGATCCAA
* * * *
26856552 TGTTGCAATGTTTTATTCGTAATCTACCTGGTCCTCCAGAG
1 TGTTACAACGTTTTAGTCATAATCTACCTGGTCCTCCAGAG
26856593 TGTTACAACGTTTTAGTCATAATCTACCTGGTCCTCCA
1 TGTTACAACGTTTTAGTCATAATCTACCTGGTCCTCCA
26856631 TCACTGTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (41 bp):
TGTTACAACGTTTTAGTCATAATCTACCTGGTCCTCCAGAG
Found at i:26858668 original size:29 final size:29
Alignment explanation
Indices: 26858636--26858724 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 29
26858626 AAAACAAAAT
*
26858636 ACATCTTGTCAAAATAATTTTTTCAGAAC
1 ACATCTTGTCAAAATTATTTTTTCAGAAC
** *
26858665 ACATCACGTCAAATTTATTTTTTCAGAAC
1 ACATCTTGTCAAAATTATTTTTTCAGAAC
* *
26858694 -CTATCTTGTTAAAATTATTTTTCCCAGAAC
1 AC-ATCTTGTCAAAATTATTTTT-TCAGAAC
26858724 A
1 A
26858725 ATACTTAGCA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
28 1 0.02
29 41 0.85
30 6 0.12
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (29 bp):
ACATCTTGTCAAAATTATTTTTTCAGAAC
Found at i:26862059 original size:21 final size:21
Alignment explanation
Indices: 26862020--26862059 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
26862010 TTTGATTTTT
*
26862020 TTTAAGATGAAAATCTTGAAA
1 TTTAAGATGAAAATATTGAAA
* *
26862041 TTTAGGATGAAATTATTGA
1 TTTAAGATGAAAATATTGA
26862060 TGTGACATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (21 bp):
TTTAAGATGAAAATATTGAAA
Found at i:26867579 original size:13 final size:13
Alignment explanation
Indices: 26867561--26867585 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26867551 CTAAATCGTA
26867561 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
26867574 ATTTTAGTAAAA
1 ATTTTAGTAAAA
26867586 CCTTTTTGGT
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:26871732 original size:25 final size:25
Alignment explanation
Indices: 26871684--26871749 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
26871674 TTATTATGCA
* *
26871684 CTAATGAA-CAGAGAGCATCGACATG
1 CTAAT-AATCAGAGAGCACCAACATG
*
26871709 CTAGTAATCAGAGAGCACCAACATG
1 CTAATAATCAGAGAGCACCAACATG
26871734 CTAATAATCAGAGAGC
1 CTAATAATCAGAGAGC
26871750 GCGCTAAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
24 2 0.06
25 34 0.94
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACCAACATG
Found at i:26872720 original size:5 final size:5
Alignment explanation
Indices: 26872710--26872748 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
26872700 TTATTTCTTT
26872710 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
26872749 TAACTTAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:26877971 original size:2 final size:2
Alignment explanation
Indices: 26877966--26877990 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26877956 ATAAAAATAG
26877966 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
26877991 AAATATGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26880325 original size:44 final size:44
Alignment explanation
Indices: 26880277--26880601 Score: 205
Period size: 44 Copynumber: 7.5 Consensus size: 44
26880267 TAATCCACTT
* *
26880277 CACTGCAACTTCAGGAAAATAAGATTGGTTTCTTCAATCTGCTC
1 CACTGCAACTTCAGGAAGATAAGATTAGTTTCTTCAATCTGCTC
* * ** * * *
26880321 CACTGCAACTTCAGGGAGATCAGATT-G-GAC-GCGATCTGATC
1 CACTGCAACTTCAGGAAGATAAGATTAGTTTCTTCAATCTGCTC
* *
26880362 TACTGCAACTTCA-GAGAGATAAGATCTATGATT-TT-AATCTGCTC
1 CACTGCAACTTCAGGA-AGATAAGAT-TA-GTTTCTTCAATCTGCTC
* *
26880406 CACTGCAACTTCAAGG-AGATAGGATTAGTTTCTTTC-GTCTGCTC
1 CACTGCAACTTC-AGGAAGATAAGATTAGTTTC-TTCAATCTGCTC
* * * ** * * *
26880450 TACTACAACTTCAGGGAGATAAGACCAG---ATGCGATCTGCTC
1 CACTGCAACTTCAGGAAGATAAGATTAGTTTCTTCAATCTGCTC
* *
26880491 TACTGCAACTTCA-GAGAGATACGATCT-GTGATT-TT-AATCTGCTC
1 CACTGCAACTTCAGGA-AGATAAGAT-TAGT--TTCTTCAATCTGCTC
* *
26880535 CACTGCAACTTCAGGGAGATAAGATTAGTTTCTTTC-GTCTGCTC
1 CACTGCAACTTCAGGAAGATAAGATTAGTTTC-TTCAATCTGCTC
* *
26880579 CACTACAACTTCAGGGAGATAAG
1 CACTGCAACTTCAGGAAGATAAG
26880602 GCTGGATGCG
Statistics
Matches: 216, Mismatches: 40, Indels: 50
0.71 0.13 0.16
Matches are distributed among these distances:
40 4 0.02
41 55 0.25
42 7 0.03
43 7 0.03
44 139 0.64
45 3 0.01
46 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CACTGCAACTTCAGGAAGATAAGATTAGTTTCTTCAATCTGCTC
Found at i:26880487 original size:85 final size:85
Alignment explanation
Indices: 26880398--26880558 Score: 211
Period size: 85 Copynumber: 1.9 Consensus size: 85
26880388 TATGATTTTA
* * ** *
26880398 ATCTGCTCCACTGCAACTTCA-AGGAGATAGGAT-TAGT-TTCTTTCGTCTGCTCTACTACAACT
1 ATCTGCTCCACTGCAACTTCAGA-GAGATACGATCT-GTGAT-TTTAATCTGCTCCACTACAACT
26880460 TCAGGGAGATAAGACCAGATGCG
63 TCAGGGAGATAAGACCAGATGCG
* *
26880483 ATCTGCTCTACTGCAACTTCAGAGAGATACGATCTGTGATTTTAATCTGCTCCACTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATACGATCTGTGATTTTAATCTGCTCCACTACAACTTCA
26880548 GGGAGATAAGA
66 GGGAGATAAGA
26880559 TTAGTTTCTT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
85 63 0.95
86 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (85 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATACGATCTGTGATTTTAATCTGCTCCACTACAACTTCA
GGGAGATAAGACCAGATGCG
Found at i:26880610 original size:129 final size:129
Alignment explanation
Indices: 26880219--26880623 Score: 587
Period size: 129 Copynumber: 3.1 Consensus size: 129
26880209 AATAAAATTT
* * ** *
26880219 GATGCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTATCATTTTAATCCACTTCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCTGCTCCACTGCA
* * * * * * *
26880284 ACTTCAGGAAAATAAGATTGGTTTC-TTCAATCTGCTCCACTGCAACTTCAGGGAGATCAGATTG
66 ACTTCAGGGAGATAAGATTAGTTTCTTTC-GTCTGCTCCACTACAACTTCAGGGAGATAAGACTG
* *
26880348 GACGCGATCTGATCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCTGCTCCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCTGCTCCACTGCA
* * * **
26880413 ACTTCAAGGAGATAGGATTAGTTTCTTTCGTCTGCTCTACTACAACTTCAGGGAGATAAGACCA
66 ACTTCAGGGAGATAAGATTAGTTTCTTTCGTCTGCTCCACTACAACTTCAGGGAGATAAGACTG
* *
26880477 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATACGATCTGTGATTTTAATCTGCTCCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCTGCTCCACTGCA
*
26880542 ACTTCAGGGAGATAAGATTAGTTTCTTTCGTCTGCTCCACTACAACTTCAGGGAGATAAGGCTG
66 ACTTCAGGGAGATAAGATTAGTTTCTTTCGTCTGCTCCACTACAACTTCAGGGAGATAAGACTG
*
26880606 GATGCGATCTACTCTACT
1 GATGCGATCTGCTCTACT
26880624 ACTGCTTAGG
Statistics
Matches: 245, Mismatches: 30, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
129 242 0.99
130 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (129 bp):
GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCTGCTCCACTGCA
ACTTCAGGGAGATAAGATTAGTTTCTTTCGTCTGCTCCACTACAACTTCAGGGAGATAAGACTG
Found at i:26880667 original size:258 final size:257
Alignment explanation
Indices: 26880219--26880691 Score: 619
Period size: 258 Copynumber: 1.8 Consensus size: 257
26880209 AATAAAATTT
*
26880219 GATGCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTATCATTTTAATCCACTTCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTATCATTTTAATCCACTCCACTGCA
* * * *
26880284 ACTTCAGGAAAATAAGATTGGTTTCTTCAATCTGCTCCACTGCAACTTCAGGGAGATCAGATTGG
66 ACTTCAGGAAAATAAGATTAGTTTCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTGG
* ** * * *
26880349 ACGCGATCTGATCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCTGCTCCACTGCAA
131 ACGCGATCTGATCTACTACAACTTCAGAGAGATAAGATCTACAATTTAAACCTACTCCACTGCAA
*
26880414 CTTCAAGGAGATAGGATTAGTTTCTTTCGTCTGCTCTACTACAACTTCAGGGAGATAAGACCA
196 C-TCAAGGAGATAGGACTAGTTTCTTTCGTCTGCTCTACTACAACTTCAGGGAGATAAGACCA
* * * * **
26880477 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATACGATCTGTGATTTTAATCTGCTCCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTATCATTTTAATCCACTCCACTGCA
* * * *
26880542 ACTTCAGGGAGATAAGATTAGTTTCTTTC-GTCTGCTCCACTACAACTTCAGGGAGATAAGGCTG
66 ACTTCAGGAAAATAAGATTAGTTTC-TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTG
* ** * *
26880606 GATGCGATCT-ACTCTACTACTGCTT-AGGGAGATAATATCTACAATCTTAAACCTACTCCACTG
130 GACGCGATCTGA-TCTACTACAACTTCAGAGAGATAAGATCTACAAT-TTAAACCTACTCCACTG
** *
26880669 CTGCTCAGGGAGATAGGACTAGT
193 CAACTCAAGGAGATAGGACTAGT
26880692 GGGTTAAATC
Statistics
Matches: 182, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
257 34 0.19
258 145 0.80
259 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (257 bp):
GATGCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTATCATTTTAATCCACTCCACTGCA
ACTTCAGGAAAATAAGATTAGTTTCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTGG
ACGCGATCTGATCTACTACAACTTCAGAGAGATAAGATCTACAATTTAAACCTACTCCACTGCAA
CTCAAGGAGATAGGACTAGTTTCTTTCGTCTGCTCTACTACAACTTCAGGGAGATAAGACCA
Found at i:26880768 original size:131 final size:131
Alignment explanation
Indices: 26880621--26881474 Score: 1377
Period size: 131 Copynumber: 6.5 Consensus size: 131
26880611 GATCTACTCT
* *
26880621 ACTACTGCTTAGGGAGATAATATCTACAATCTTAAACCTACTCCACTGCTGCTCAGGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
* * * * *
26880686 ACTAGTGGGTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTACTT
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTT
26880751 C
131 C
* * *
26880752 ACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTATTCCACTACTGCTCAGGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
* * *
26880817 ACTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCATCTTCGATCTGCTC
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTT
26880882 C
131 C
* * *
26880883 ACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGA
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
* * * *
26880948 ACTGGTGGCTTAAATCTGCTTACTGCTATCTTGGGAAGATATGATTCGCCGTCTTTGATCTG-TT
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTT
26881012 CC
131 -C
26881014 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
* * *
26881079 ACTGGTGGCTTAAATCTGTTTCCTACTATCTTGGGAAGATAAGATTCACCGTCTTCGATCTGTTT
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTT
26881144 C
131 C
*
26881145 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
* * *
26881210 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCTGTCTTCGATATGCTC
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTT
26881275 C
131 C
* * * *
26881276 ACTATTGTTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAAGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
* * *
26881341 ACTGGTGGCTTAAATTTGCTTCCTACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTC
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTT
26881406 C
131 C
*
26881407 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACCGCTGCTCAGGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
26881472 ACT
66 ACT
26881475 TGTAGTTTCA
Statistics
Matches: 667, Mismatches: 54, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
130 1 0.00
131 664 1.00
132 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (131 bp):
ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTT
C
Found at i:26881059 original size:44 final size:44
Alignment explanation
Indices: 26880612--26881469 Score: 282
Period size: 44 Copynumber: 19.6 Consensus size: 44
26880602 GCTGGATGCG
* * * * *
26880612 ATCTACTCTACTACTGCTTAGGGAGATAATATCTACAATCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * * * * ** ** *
26880656 ACCTACTCCACTGCTGCTCAGGGAGATAGGA-CTAGTGGGTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
*
26880699 ATCTGCTTCCTACTA-T-CTT-GGGAAGATAAGAT-TCACCA-TCTTCG
1 ATCTGC-TCC-ACTACTGCTTAGGG-AGATAAGATCT-A-CAGTCTTCA
* * * *
26880743 ATCTACTTCACTACTGCTTAAGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* ** * * *** * *
26880787 ACCTATTCCACTACTGCTCAGGGAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* ** *
26880830 ATCTGCTTCCTACTA-T-C-TCGGGAAGATAAGATTCGCCA-TCTTCG
1 ATCTGC-TCC-ACTACTGCTTAGGG-AGATAAGA-TCTACAGTCTTCA
* *
26880874 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * * * * * *** * *
26880918 ACCTACTCCACTGCTGCTCAAGGAGAT-AGAACTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * * * * * **
26880961 ATCTGCT-TACTGCTATCTT-GGGAAGATATGAT-TCGCCGTCTTTG
1 ATCTGCTCCACTACT-GCTTAGGG-AGATAAGATCT-ACAGTCTTCA
* *
26881005 ATCTGTTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * * * * *** * *
26881049 ACCTACTCCACTGCTGCTCAGGGAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * *
26881092 ATCTGTTTCCTACTA-T-CTT-GGGAAGATAAGAT-TCACCGTCTTCG
1 ATCTG-CTCC-ACTACTGCTTAGGG-AGATAAGATCT-ACAGTCTTCA
* * *
26881136 ATCTGTTTCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * * * *** * *
26881180 ACCTACTCCACTACTGCTCAGGGAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * *
26881223 ATCTGCTTCCTACTA-T-CTT-GGGAAGATAAGAT-TCGCTGTCTTCG
1 ATCTGC-TCC-ACTACTGCTTAGGG-AGATAAGATCT-ACAGTCTTCA
* * * * *
26881267 ATATGCTCCACTATTGTTTAGGGAGATAAGATCTACAATTTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * * * * * *** * *
26881311 ACCTACTCCACTGCTGCTCAAGGAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * * * *
26881354 ATTTGCTTCCTACTA-T-CTT-GGAAAGATAAGAT-TCGCCGTCTTCG
1 ATCTGC-TCC-ACTACTGCTTAGG-GAGATAAGATCT-ACAGTCTTCA
*
26881398 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * ** *
26881442 ACCTACTCCACCGCTGCTCAGGGAGATA
1 ATCTGCTCCACTACTGCTTAGGGAGATA
26881470 GGACTTGTAG
Statistics
Matches: 574, Mismatches: 186, Indels: 108
0.66 0.21 0.12
Matches are distributed among these distances:
42 41 0.07
43 140 0.24
44 348 0.61
45 45 0.08
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
Found at i:26882370 original size:17 final size:17
Alignment explanation
Indices: 26882350--26882385 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
26882340 TTTTTCGTTC
26882350 TTCTTTTCATTTCTTTT
1 TTCTTTTCATTTCTTTT
26882367 TTCTTTTCATTTCTTTT
1 TTCTTTTCATTTCTTTT
26882384 TT
1 TT
26882386 TTTCAAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCTTTTCATTTCTTTT
Found at i:26889862 original size:48 final size:48
Alignment explanation
Indices: 26889807--26889955 Score: 266
Period size: 48 Copynumber: 3.1 Consensus size: 48
26889797 TCATTATTTA
*
26889807 CAGTGCATTATTTTCGAACATTTAGATAGGTTCAGTGTATTAGTTTTC
1 CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGTATTAGTTTTC
26889855 CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGTATTAGTTTTC
1 CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGTATTAGTTTTC
*
26889903 CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGCATTA-TTTT-
1 CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGTATTAGTTTTC
26889949 CAGTGCA
1 CAGTGCA
26889956 CTATAAAAAA
Statistics
Matches: 99, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
46 7 0.07
47 4 0.04
48 88 0.89
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (48 bp):
CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGTATTAGTTTTC
Found at i:26890017 original size:21 final size:21
Alignment explanation
Indices: 26889991--26890031 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
26889981 TCCATACTCA
26889991 TATTTATTAATATTTTTAACC
1 TATTTATTAATATTTTTAACC
*
26890012 TATTTATTAATTTTTTTAAC
1 TATTTATTAATATTTTTAAC
26890032 TGCAATCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTATTAATATTTTTAACC
Found at i:26893160 original size:22 final size:23
Alignment explanation
Indices: 26893118--26893160 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
26893108 CACTTTTCAA
* *
26893118 AATAATGTAGTCAAACTGCCACC
1 AATAATGCAGTCAAACCGCCACC
26893141 AATAATGCAGT-AAACCGCCA
1 AATAATGCAGTCAAACCGCCA
26893161 GAATCACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.42, C:0.26, G:0.14, T:0.19
Consensus pattern (23 bp):
AATAATGCAGTCAAACCGCCACC
Found at i:26894111 original size:21 final size:21
Alignment explanation
Indices: 26894064--26894107 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
26894054 TGGCTGATTG
*
26894064 AGAA-AACAAAATATAGGAGA
1 AGAAGAACAAAAAATAGGAGA
*
26894084 AGAAGAACAAAAAATTGG-GA
1 AGAAGAACAAAAAATAGGAGA
26894104 AGAA
1 AGAA
26894108 AGAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.64, C:0.05, G:0.23, T:0.09
Consensus pattern (21 bp):
AGAAGAACAAAAAATAGGAGA
Found at i:26894118 original size:21 final size:22
Alignment explanation
Indices: 26894064--26894118 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 22
26894054 TGGCTGATTG
26894064 AGAAAACAAAATATAGGAGAAGA
1 AGAAAA-AAAATATAGGAGAAGA
26894087 AGAACAAAAAAT-T-GG-GAAGAA
1 AGAA-AAAAAATATAGGAGAAG-A
26894108 AGAAAAGAAAA
1 AGAAAA-AAAA
26894119 GGAAAAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 6 0.21
21 11 0.38
22 1 0.03
23 9 0.31
24 2 0.07
ACGTcount: A:0.67, C:0.04, G:0.22, T:0.07
Consensus pattern (22 bp):
AGAAAAAAAATATAGGAGAAGA
Found at i:26896536 original size:18 final size:19
Alignment explanation
Indices: 26896505--26896552 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
26896495 AAATAATTCA
*
26896505 AAATAATTTTTAAAAA-TAT
1 AAAT-ATTTATAAAAATTAT
*
26896524 AAATATTTATAAAAATTCT
1 AAATATTTATAAAAATTAT
26896543 AAA-ATTTATA
1 AAATATTTATA
26896553 TTTTAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATATTTATAAAAATTAT
Found at i:26902298 original size:24 final size:24
Alignment explanation
Indices: 26902235--26902286 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
26902225 TTTCTAGAAG
* *
26902235 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATTAGCATAATAT
26902259 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATTAGCATAATAT
26902283 ATTT
1 ATTT
26902287 GACTTTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:26907590 original size:42 final size:43
Alignment explanation
Indices: 26907543--26907651 Score: 159
Period size: 42 Copynumber: 2.5 Consensus size: 43
26907533 TCCAGTTTGT
26907543 TTCCACGTTGCTTTCTTTTTTGTCTAGATT-AGTTGTGACTGC
1 TTCCACGTTGCTTTCTTTTTTGTCTAGATTCAGTTGTGACTGC
* **
26907585 TTCCACGTTGCTTCTTTTTTTTTGTCTAGATTCAGTTGTGGTTGC
1 TTCCACGTTGC-T-TTCTTTTTTGTCTAGATTCAGTTGTGACTGC
26907630 TTCCACGTTGC-TTCTTTTTTGT
1 TTCCACGTTGCTTTCTTTTTTGT
26907652 ATTTTTCTTG
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
42 21 0.35
43 1 0.02
44 17 0.28
45 21 0.35
ACGTcount: A:0.09, C:0.19, G:0.18, T:0.53
Consensus pattern (43 bp):
TTCCACGTTGCTTTCTTTTTTGTCTAGATTCAGTTGTGACTGC
Found at i:26907624 original size:45 final size:44
Alignment explanation
Indices: 26907543--26907649 Score: 164
Period size: 45 Copynumber: 2.5 Consensus size: 44
26907533 TCCAGTTTGT
*
26907543 TTCCACGTTGC-T-TTCTTTTTTGTCTAGATTAGTTGTGACTGC
1 TTCCACGTTGCTTCTTTTTTTTTGTCTAGATTAGTTGTGACTGC
**
26907585 TTCCACGTTGCTTCTTTTTTTTTGTCTAGATTCAGTTGTGGTTGC
1 TTCCACGTTGCTTCTTTTTTTTTGTCTAGATT-AGTTGTGACTGC
26907630 TTCCACGTTGCTTCTTTTTT
1 TTCCACGTTGCTTCTTTTTT
26907650 GTATTTTTCT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
42 11 0.19
43 1 0.02
44 17 0.29
45 30 0.51
ACGTcount: A:0.09, C:0.20, G:0.18, T:0.53
Consensus pattern (44 bp):
TTCCACGTTGCTTCTTTTTTTTTGTCTAGATTAGTTGTGACTGC
Found at i:26914470 original size:96 final size:96
Alignment explanation
Indices: 26914337--26914532 Score: 320
Period size: 96 Copynumber: 2.0 Consensus size: 96
26914327 TTGAAATGGA
* * * *
26914337 AGAGAATGATGAAGTAAGCTATTGATAAAGCCTGTGTTCTGAACGCTTGTTTTCAGTTTTGGGTC
1 AGAGAATGATGAAGAAAGCTATTAATAAAACCTGTGTTCCGAACGCTTGTTTTCAGTTTTGGGTC
26914402 TAGGGTAAAGTTCTAATTTTTGAATTGTTTT
66 TAGGGTAAAGTTCTAATTTTTGAATTGTTTT
* *
26914433 AGAGAGTGATGAAGAAAGCTATTAATAAAACCTGTGTTCCGAAGGCTTGTTTTCAGTTTTGGGTC
1 AGAGAATGATGAAGAAAGCTATTAATAAAACCTGTGTTCCGAACGCTTGTTTTCAGTTTTGGGTC
* *
26914498 TAGGGTAAAGTTCTAATTTTTGGATTTTTTT
66 TAGGGTAAAGTTCTAATTTTTGAATTGTTTT
26914529 AGAG
1 AGAG
26914533 TTTGGGCCTT
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 92 1.00
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.39
Consensus pattern (96 bp):
AGAGAATGATGAAGAAAGCTATTAATAAAACCTGTGTTCCGAACGCTTGTTTTCAGTTTTGGGTC
TAGGGTAAAGTTCTAATTTTTGAATTGTTTT
Found at i:26927811 original size:14 final size:15
Alignment explanation
Indices: 26927786--26927814 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26927776 TTGCAAGCAC
26927786 TAATACTTTTTATTG
1 TAATACTTTTTATTG
26927801 TAATA-TTTTTATTG
1 TAATACTTTTTATTG
26927815 GGTAAACAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (15 bp):
TAATACTTTTTATTG
Found at i:26928049 original size:23 final size:23
Alignment explanation
Indices: 26928005--26928049 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
26927995 TAATAATGAG
* *
26928005 TTATAATAAATTATATTTATATT
1 TTATAATAAATTAAATTGATATT
* *
26928028 TTATTATAATTTAAATTGATAT
1 TTATAATAAATTAAATTGATAT
26928050 ATTTCATATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTATAATAAATTAAATTGATATT
Found at i:26932906 original size:133 final size:135
Alignment explanation
Indices: 26932660--26933094 Score: 563
Period size: 133 Copynumber: 3.2 Consensus size: 135
26932650 GATAAGTGTA
**
26932660 CTCATACCTTAAATATGAAAAA-CTGATATAACTTAAATACGAAATAATAAATTAATAAATTAAT
1 CTCATACCTTAAATACAAAAAATC-GATATAACTTAAATACGAAATAAT--A--AAT-AA-TAAT
*
26932724 ATAACATATCAATTATATTAATAAACACAATTCCCTAAACATTAAATAAACTCAAATAACCAATT
59 ATAACATATCAATTATATTAATAAACACAATTCCCAAAACATTAAATAAACTCAAATAACCAATT
26932789 ATAAAAAATATG
124 ATAAAAAATATG
26932801 CTCATACCTTAAATACAAAAAATCGATATAACTTAAATACGAAATAATAAAT-A-AATATAACAT
1 CTCATACCTTAAATACAAAAAATCGATATAACTTAAATACGAAATAATAAATAATAATATAACAT
* * *
26932864 GTCAATTATATTAATAAATACAATTCCCAAAACATTAAATAAACTCAAACAACCAATTATAAAAA
66 ATCAATTATATTAATAAACACAATTCCCAAAACATTAAATAAACTCAAATAACCAATTAT--AAA
26932929 AAATATG
129 AAATATG
* * * * **
26932936 CTTATATCTTAAAAACGAAAAATAAATATAACTTAAATACGAAATAATAAATAAATTAATATAAC
1 CTCATACCTTAAATACAAAAAATCGATATAACTTAAATACGAAATAATAAAT-AA-TAATATAAC
* * * * * *
26933001 ATATGAATTATATCAATAAACA-AACTCCCCAAACATGAAATAAACTCAAATAACCAATAATAAA
64 ATATCAATTATATTAATAAACACAATTCCCAAAACATTAAATAAACTCAAATAACCAATTATAAA
*
26933065 AAATATA
129 AAATATG
*
26933072 TTCATACCTTAAATACAAAAAAT
1 CTCATACCTTAAATACAAAAAAT
26933095 ATTGTGGAAT
Statistics
Matches: 260, Mismatches: 27, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
133 66 0.25
135 57 0.22
136 27 0.10
137 4 0.02
138 34 0.13
139 27 0.10
141 44 0.17
142 1 0.00
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.28
Consensus pattern (135 bp):
CTCATACCTTAAATACAAAAAATCGATATAACTTAAATACGAAATAATAAATAATAATATAACAT
ATCAATTATATTAATAAACACAATTCCCAAAACATTAAATAAACTCAAATAACCAATTATAAAAA
ATATG
Found at i:26932970 original size:24 final size:25
Alignment explanation
Indices: 26932938--26932988 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
26932928 AAAATATGCT
*
26932938 TATATCTTAAAAACGAAA-AATAAA
1 TATAACTTAAAAACGAAATAATAAA
*
26932962 TATAACTTAAATACGAAATAATAAA
1 TATAACTTAAAAACGAAATAATAAA
26932987 TA
1 TA
26932989 AATTAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (25 bp):
TATAACTTAAAAACGAAATAATAAA
Found at i:26933247 original size:115 final size:116
Alignment explanation
Indices: 26933116--26933406 Score: 320
Period size: 115 Copynumber: 2.5 Consensus size: 116
26933106 TAACATTCTT
* * * * * *
26933116 CAAAAATATTAATAAAAAAAATTAATCAAAC-CTAAATACTAACTTAAAGCTAATAAAACACAAC
1 CAAAAACATTAATAAAACAAATTAATCATACATTAAATACAAACTTAAAACTAATAAAACAC-AC
* * *
26933180 AACAAAAAAACAACATTTCAAGTAAATACG-AAAAACTAATATAAGATACCA
65 AACAAAAAAACAACATTCCAAGTAAATACGAAAAAAATAATATAAGATACAA
* * *
26933231 CAAAAACATTAATAAAACAAATTAATCATACTTTCAATACAAACCTAAAACT-A-AAAACACACA
1 CAAAAACATTAATAAAACAAATTAATCATACATTAAATACAAACTTAAAACTAATAAAACACACA
* * * *** *
26933294 ACAAAAAAATATCCTTCCCCTTAAATACGAAAAAAAATTATATAAGATACAA
66 ACAAAAAAACAACATTCCAAGTAAATACG-AAAAAAATAATATAAGATACAA
* * * * *
26933346 CAATAACATTAATAAAACAAACTAATCATACATTTAATACAAATTTAAATCTAATAAAACA
1 CAAAAACATTAATAAAACAAATTAATCATACATTAAATACAAACTTAAAACTAATAAAACA
26933407 TATAAAAAAT
Statistics
Matches: 146, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
113 25 0.17
114 7 0.05
115 92 0.63
116 16 0.11
117 6 0.04
ACGTcount: A:0.59, C:0.17, G:0.02, T:0.22
Consensus pattern (116 bp):
CAAAAACATTAATAAAACAAATTAATCATACATTAAATACAAACTTAAAACTAATAAAACACACA
ACAAAAAAACAACATTCCAAGTAAATACGAAAAAAATAATATAAGATACAA
Found at i:26933439 original size:34 final size:36
Alignment explanation
Indices: 26933389--26933455 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 36
26933379 TTAATACAAA
* *
26933389 TTTAAATCTAATAAAAC-A-TATAAAAAATCATTCT
1 TTTAAATATAAAAAAACTATTATAAAAAATCATTCT
*
26933423 TTTAAATATAAAAAAACTATTATAAAATATCAT
1 TTTAAATATAAAAAAACTATTATAAAAAATCAT
26933456 ACAAACAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 15 0.54
35 1 0.04
36 12 0.43
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (36 bp):
TTTAAATATAAAAAAACTATTATAAAAAATCATTCT
Found at i:26934101 original size:11 final size:11
Alignment explanation
Indices: 26934068--26934135 Score: 77
Period size: 11 Copynumber: 6.2 Consensus size: 11
26934058 AACAAATCCT
26934068 CTCTCATATTTC
1 CTCTCA-ATTTC
*
26934080 CTCTCTA-TTC
1 CTCTCAATTTC
26934090 CTCTCAATTTC
1 CTCTCAATTTC
* *
26934101 CTTCTAAAATT-
1 C-TCTCAATTTC
26934112 CTCTCAATTTC
1 CTCTCAATTTC
26934123 CTCTCAATTTC
1 CTCTCAATTTC
26934134 CT
1 CT
26934136 TAAAAAATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
10 16 0.34
11 19 0.40
12 12 0.26
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:26934124 original size:33 final size:33
Alignment explanation
Indices: 26934087--26934151 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
26934077 TTCCTCTCTA
**
26934087 TTCCTCTCAATTTCCTTCTAAAATTCTCTCAAT
1 TTCCTCTCAATTTCCTTAAAAAATTCTCTCAAT
26934120 TTCCTCTCAATTTCCTTAAAAAATTCTCTCAA
1 TTCCTCTCAATTTCCTTAAAAAATTCTCTCAA
26934152 ATCCATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.28, C:0.29, G:0.00, T:0.43
Consensus pattern (33 bp):
TTCCTCTCAATTTCCTTAAAAAATTCTCTCAAT
Found at i:26936024 original size:18 final size:18
Alignment explanation
Indices: 26935998--26936032 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26935988 AGGTGCGTTT
*
26935998 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
26936016 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
26936033 TCCTTTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:26936508 original size:44 final size:45
Alignment explanation
Indices: 26936459--26936545 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
26936449 ATATTTTGAA
*
26936459 TATTTTGATATTATTTTATGTAAAAAAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
* *
26936503 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGA
26936546 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
Found at i:26936634 original size:53 final size:53
Alignment explanation
Indices: 26936560--26936664 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
26936550 ATAAAAACTC
* *
26936560 TAACCTAATTTAACCCTAAACCCTAACCTAAAATAATTAAAAATCCAAAACCA
1 TAACCTAATTTAACACTAAACCCTAACCTAAAATAATTAAAAACCCAAAACCA
* * ** *
26936613 TAACCTAATTTAATTAC-AAACCCTAGCCTAATTTAATTAAAAACCCTAAACC
1 TAACCTAATTTAA-CACTAAACCCTAACCTAAAATAATTAAAAACCCAAAACC
26936665 TTTAATTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 43 0.98
54 1 0.02
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.26
Consensus pattern (53 bp):
TAACCTAATTTAACACTAAACCCTAACCTAAAATAATTAAAAACCCAAAACCA
Found at i:26936642 original size:23 final size:23
Alignment explanation
Indices: 26936606--26936937 Score: 437
Period size: 23 Copynumber: 14.4 Consensus size: 23
26936596 TTAAAAATCC
*
26936606 AAAACCATAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
* *
26936629 CAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
26936652 AAAACCCTAAACC---TTTAATTA
1 AAAACCCT-AACCTAATTTAATTA
26936673 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
26936696 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
26936719 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
26936742 AAAACCCTAACCTAATTTAGTTA
1 AAAACCCTAACCTAATTTAATTA
*
26936765 AAAGCCCTAACCTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
*
26936787 AAATCCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
26936810 AAAACCCTAAACCCTTAA-TTAA--A
1 AAAACCCT-AA-CC-TAATTTAATTA
26936833 AACCCTAACCCTAACCTAATTTAATTA
1 AA----AACCCTAACCTAATTTAATTA
* *
26936860 AAAATCCTAGCCTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
26936882 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
26936905 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
26936928 AAACCCCTAA
1 AAAACCCTAA
26936938 AACATTAATT
Statistics
Matches: 276, Mismatches: 17, Indels: 32
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.01
21 16 0.06
22 41 0.15
23 181 0.66
24 8 0.03
25 12 0.04
26 5 0.02
27 9 0.03
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAACCCTAACCTAATTTAATTA
Found at i:26936874 original size:118 final size:118
Alignment explanation
Indices: 26936593--26936970 Score: 490
Period size: 118 Copynumber: 3.2 Consensus size: 118
26936583 TAACCTAAAA
** * *
26936593 TAATTAAAAATCCAAAACCATAACCTAATTTAATTACAAACCCTAGCCTAATTTAATTAAAAACC
1 TAATTAAAAA-CCCTAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATT-AAAACC
*
26936658 CTAAACC---TTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT--AGCC-
64 CT-AACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAACCT
* * *
26936708 TAATTTAATTAAA----AACCCTAGCCTAATTTAATTAAAAACCCTAACCTAATTTAGTTAAAAG
1 TAA-TTAA--AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAA-
* *
26936769 CCCTAACCTAATTTAATT-AAATCCCTAACCTAATTTAATTAAAAACCCTAAACCCT
62 CCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAACCT
*
26936825 TAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAATCCTAGCCTAATTTAATTAAAACCCT
1 TAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAACCCT
* *
26936890 AACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAACCCCTAAAACAT
66 AACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAACCT
*
26936943 TAATTAAAAGCCCTAACCCTAACCTAAT
1 TAATTAAAAACCCTAACCCTAACCTAAT
26936971 GTTAGATTTG
Statistics
Matches: 232, Mismatches: 16, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
112 8 0.03
113 42 0.18
114 33 0.14
115 10 0.04
116 11 0.05
117 21 0.09
118 107 0.46
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (118 bp):
TAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAACCCT
AACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAACCT
Found at i:26940449 original size:124 final size:126
Alignment explanation
Indices: 26940276--26940627 Score: 491
Period size: 126 Copynumber: 2.8 Consensus size: 126
26940266 CCCAAACATG
*
26940276 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
26940341 TAGAAGCGATTTTATATTATTTACTCAGAAA-TGT-AAA-AAAAAATCATTTCTTACATGAC
66 TAGAAGCGATTTTATATTATTTACTCAGAAACT-TCAAACAAAAAATCATTTCTTACATGAC
* * * *
26940400 CTACTGTAGCAAAAGCGCG-CTGACGAGGCCGCAATTTCACAAATTCTTCTCACATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * * * * * *
26940464 CTAAAAGCGATTTTATACTATTTGCTCAGAAACTTCAAACAAATAATTATTTCTTCCGTGAC
65 CTAGAAGCGATTTTATATTATTTACTCAGAAACTTCAAACAAAAAATCATTTCTTACATGAC
* *
26940526 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAAATT-TTCTCAAATACCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAC-AAATTCTTCTCAAATAGCATCCTG
*
26940590 CTAGAAGCGATTTTATATTATTTTA-TCAGAAACGTCAA
65 CTAGAAGCGATTTTATATTA-TTTACTCAGAAACTTCAA
26940628 CTCGAAATTA
Statistics
Matches: 199, Mismatches: 22, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
123 1 0.01
124 87 0.44
125 4 0.02
126 98 0.49
127 9 0.05
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATATTATTTACTCAGAAACTTCAAACAAAAAATCATTTCTTACATGAC
Found at i:26944669 original size:125 final size:126
Alignment explanation
Indices: 26944436--26944738 Score: 339
Period size: 125 Copynumber: 2.4 Consensus size: 126
26944426 GTGTTTCGTG
* * * *
26944436 AATTCGAGGAATTGTACCCTAACTTACGGGGTTTCAATTTTCTCACTAAATCGAAACCACGAAGT
1 AATTCGAGGAATCGTACCCTAACTTACGGGGTTTCGATTTTCTCACTAAACCGAAACCACAAAGT
* * * * * *
26944501 ATCCTTTTAAGATTTCAAAAACGAAAGGAATCTCGACGAGGCAATATTTTGCATTTT-GGT
66 ACCCTTTTAAGACTTCAAAAACGAAAGAAATCTCGAAGAGGCAACATTTCGCATTTTGGGT
* * *
26944561 AATTCGAGGAATCGTACCCTAACTTACGGGGTTTCGATTTTCTC-GTCAAACCTAAA-TAGCAAA
1 AATTCGAGGAATCGTACCCTAACTTACGGGGTTTCGATTTTCTCACT-AAACCGAAACCA-CAAA
* * * *
26944624 GTACCCTTTTAAG-CTTCAAAATC-AAAGAAATTTCGATATACGGCAACATTTCGCGTTTTGGGT
64 GTACCCTTTTAAGACTTCAAAAACGAAAGAAATCTCGA-AGA-GGCAACATTTCGCATTTTGGGT
* *
26944687 AATTCGA-GAAGTCGTACCCTAACTCACGGGGTTTCGATCTTTCTCATTAAAC
1 AATTCGAGGAA-TCGTACCCTAACTTACGGGGTTTCGAT-TTTCTCACTAAAC
26944739 TTGAATGATG
Statistics
Matches: 151, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
123 11 0.07
124 11 0.07
125 82 0.54
126 36 0.24
127 10 0.07
128 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (126 bp):
AATTCGAGGAATCGTACCCTAACTTACGGGGTTTCGATTTTCTCACTAAACCGAAACCACAAAGT
ACCCTTTTAAGACTTCAAAAACGAAAGAAATCTCGAAGAGGCAACATTTCGCATTTTGGGT
Found at i:26951627 original size:21 final size:22
Alignment explanation
Indices: 26951601--26951642 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
26951591 AAAAAAATCA
*
26951601 AATTAAAATAAT-CTTAAAAAT
1 AATTAAAACAATCCTTAAAAAT
*
26951622 AATTAATACAATCCTTAAAAA
1 AATTAAAACAATCCTTAAAAA
26951643 CATTAAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (22 bp):
AATTAAAACAATCCTTAAAAAT
Found at i:26959323 original size:30 final size:29
Alignment explanation
Indices: 26959252--26959338 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 29
26959242 AAATAAACAC
*
26959252 TAAAAAAA-ATTTATAAAAATAAAAAGTATT
1 TAAAAAAATATTT-TAAAAATAAAAA-AATT
* *
26959282 T-TAAATATATTTTAAAAATAAAAAAATT
1 TAAAAAAATATTTTAAAAATAAAAAAATT
26959310 TAAAAAAAGTATTTTAAAAATAAAAAAAT
1 TAAAAAAA-TATTTTAAAAATAAAAAAAT
26959339 AAAAAATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 4 0.08
29 20 0.41
30 25 0.51
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (29 bp):
TAAAAAAATATTTTAAAAATAAAAAAATT
Found at i:26962200 original size:37 final size:37
Alignment explanation
Indices: 26962165--26962234 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
26962155 AAGAATGTTA
*
26962165 TTAAATTA-TT-TTTTAATTTTTATTAAATAATATGT
1 TTAAATTATTTATTTTAATTATTATTAAATAATATGT
* *
26962200 TTAAATTATTTATTTTTATTATTATTAAATTATAT
1 TTAAATTATTTATTTTAATTATTATTAAATAATAT
26962235 TTAATAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 8 0.27
36 2 0.07
37 20 0.67
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (37 bp):
TTAAATTATTTATTTTAATTATTATTAAATAATATGT
Found at i:26962795 original size:14 final size:14
Alignment explanation
Indices: 26962776--26962802 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26962766 TTCTAAACTA
26962776 AAAAGTAATAAATT
1 AAAAGTAATAAATT
26962790 AAAAGTAATAAAT
1 AAAAGTAATAAAT
26962803 AGCTTGAGAA
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:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAAAGTAATAAATT
Found at i:26965994 original size:59 final size:58
Alignment explanation
Indices: 26965890--26966006 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 58
26965880 TAAAAAAATC
*
26965890 CCGCCTAGTTATTCTTAAATTTAATTTAATTATGACAACTTTTTTTAATTTCAGAATAG
1 CCGCCTAATTATTCTTAAATTTAATTTAATTAT-ACAACTTTTTTTAATTTCAGAATAG
* *
26965949 CCGCCTAATTATTTCTTAAATTTAGTTTAATTAT-CAATTTTTTTTTAATTTCAGAATA
1 CCGCCTAATTA-TTCTTAAATTTAATTTAATTATACAA-CTTTTTTTAATTTCAGAATA
26966007 TAGTTGCAAC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 3 0.06
59 29 0.55
60 21 0.40
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.49
Consensus pattern (58 bp):
CCGCCTAATTATTCTTAAATTTAATTTAATTATACAACTTTTTTTAATTTCAGAATAG
Found at i:26968374 original size:58 final size:58
Alignment explanation
Indices: 26968288--26968448 Score: 162
Period size: 58 Copynumber: 2.8 Consensus size: 58
26968278 TATGAAGATT
* * * * * **
26968288 ATATGTCTCACCTCTGCCGAAAGTCCAAAGGGTTCACAAAGGGGCTTCAATGTTGAAG
1 ATATGCCTCACCTCTACTGAGAGCCCAAAGGGTTCACAAAGGGGCTTCAATAATGAAG
* * *
26968346 ATATGCCTCACCTCTACTGAGAGCCCAAAGGGTTCACAGAGGGGATTGAATAATGAAG
1 ATATGCCTCACCTCTACTGAGAGCCCAAAGGGTTCACAAAGGGGCTTCAATAATGAAG
* * * * **
26968404 ATATACCTCACCT-TAGTTAAGAGCCCAAAGGATTCATGAAGGGGC
1 ATATGCCTCACCTCTA-CTGAGAGCCCAAAGGGTTCACAAAGGGGC
26968449 CCAAATGTTG
Statistics
Matches: 84, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
57 2 0.02
58 82 0.98
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (58 bp):
ATATGCCTCACCTCTACTGAGAGCCCAAAGGGTTCACAAAGGGGCTTCAATAATGAAG
Found at i:26969235 original size:21 final size:21
Alignment explanation
Indices: 26969188--26969261 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
26969178 ACTGTTGTTT
* * * *
26969188 CTAATTTCACCGCTACAGTAT
1 CTAATCTCACCACTACAGCAA
* *
26969209 CCAATCTCACCACTATAGCAA
1 CTAATCTCACCACTACAGCAA
* *
26969230 CTAATCTCACCAGTACAGTAA
1 CTAATCTCACCACTACAGCAA
26969251 CTAATCTCACC
1 CTAATCTCACC
26969262 GCCACCACTG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.26
Consensus pattern (21 bp):
CTAATCTCACCACTACAGCAA
Found at i:26972023 original size:20 final size:20
Alignment explanation
Indices: 26971995--26972045 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
26971985 ATAGTATTTT
26971995 ATTAATTTAATATTAAATTG
1 ATTAATTTAATATTAAATTG
* *
26972015 ATTATTTTAATATTTAA-T-
1 ATTAATTTAATATTAAATTG
26972033 -TTAATTTAATATT
1 ATTAATTTAATATT
26972046 TATCTTTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 12 0.43
19 1 0.04
20 15 0.54
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTAATTTAATATTAAATTG
Found at i:26972045 original size:25 final size:28
Alignment explanation
Indices: 26971989--26972046 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 28
26971979 ATCTTTATAG
* *
26971989 TATTTTATTAATTTAATATTAAATTGAT
1 TATTTTAATAATTTAATATTAAATTGAA
*
26972017 TATTTTAAT-ATTTAAT-TT-AATTTAA
1 TATTTTAATAATTTAATATTAAATTGAA
26972042 TATTT
1 TATTT
26972047 ATCTTTATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 10 0.37
26 2 0.07
27 7 0.26
28 8 0.30
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (28 bp):
TATTTTAATAATTTAATATTAAATTGAA
Found at i:26986412 original size:23 final size:23
Alignment explanation
Indices: 26986385--26986428 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
26986375 CCGTTACACA
26986385 GCTCTTAGTGAGCTTCCCGATAG
1 GCTCTTAGTGAGCTTCCCGATAG
*
26986408 GCTCTTCGTGAGCTTCCCGAT
1 GCTCTTAGTGAGCTTCCCGAT
26986429 TAAATGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.14, C:0.30, G:0.25, T:0.32
Consensus pattern (23 bp):
GCTCTTAGTGAGCTTCCCGATAG
Found at i:26991733 original size:28 final size:28
Alignment explanation
Indices: 26991679--26991734 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
26991669 TCGATACTGG
***
26991679 ATCGATACTTAGTAAAATTTTTGGAAAA
1 ATCGATACTTAGTAAAAAAATTGGAAAA
26991707 ATCGATACTTAGTAAAAAAAATT-GAAAA
1 ATCGATACTTAGT-AAAAAAATTGGAAAA
26991735 CAGAATGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.30
Consensus pattern (28 bp):
ATCGATACTTAGTAAAAAAATTGGAAAA
Found at i:26993348 original size:13 final size:13
Alignment explanation
Indices: 26993330--26993354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26993320 ACCTAATGCG
26993330 AAAAAGAAATAGA
1 AAAAAGAAATAGA
26993343 AAAAAGAAATAG
1 AAAAAGAAATAG
26993355 CCCATTGCCT
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (13 bp):
AAAAAGAAATAGA
Done.