Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 84 of 109
Found at i:26991898 original size:23 final size:23
Alignment explanation
Indices: 26991868--26991934 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
26991858 CCTTTTTGAA
26991868 CCATTTCCATTTCGTACCAAATT
1 CCATTTCCATTTCGTACCAAATT
26991891 CCATTTCCATTTCGTACCAAATT
1 CCATTTCCATTTCGTACCAAATT
* *
26991914 ACATTACCATTTCGTACCAAA
1 CCATTTCCATTTCGTACCAAA
26991935 CCCAAACCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.36
Consensus pattern (23 bp):
CCATTTCCATTTCGTACCAAATT
Found at i:26993058 original size:20 final size:19
Alignment explanation
Indices: 26993014--26993073 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
26993004 TTTGAAAGTT
* *
26993014 ATTTTAAAATATTTTTAAT
1 ATTTTAAATTATTTTTAAG
*
26993033 AATTTATAATTATTTTTAAG
1 ATTTTA-AATTATTTTTAAG
* *
26993053 ATTTTAGAATCATTGTTAAG
1 ATTTTA-AATTATTTTTAAG
26993073 A
1 A
26993074 AAAAAATGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.52
Consensus pattern (19 bp):
ATTTTAAATTATTTTTAAG
Found at i:26995710 original size:43 final size:43
Alignment explanation
Indices: 26995649--26995734 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
26995639 TTTAACCGGG
*
26995649 GAAGCTGCGCATGGTCCAAGGACCGAATTGAAACAGAGGCAAA
1 GAAGCTGCACATGGTCCAAGGACCGAATTGAAACAGAGGCAAA
26995692 GAAGCTGCACATGGTCCAAGGACCGAATTGAAACAGAGGCAAA
1 GAAGCTGCACATGGTCCAAGGACCGAATTGAAACAGAGGCAAA
26995735 ATTTGCGGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.21, G:0.29, T:0.12
Consensus pattern (43 bp):
GAAGCTGCACATGGTCCAAGGACCGAATTGAAACAGAGGCAAA
Found at i:26997292 original size:44 final size:43
Alignment explanation
Indices: 26997110--26997302 Score: 142
Period size: 44 Copynumber: 4.5 Consensus size: 43
26997100 GATCTGCTGT
* * ** * *
26997110 ACTGCAACTTCAGAGAAATAAGATCCATCATTTTAATCCGCTTC
1 ACTGCAACTTCAGAGAGATAAGAT-CTTGGTTTTAATCCACTCC
* * *
26997154 ACTGCAACTTCAG-GAAGATATGAT-TTGTTTCTTCAATCTACTCC
1 ACTGCAACTTCAGAG-AGATAAGATCTTGGTT-TT-AATCCACTCC
* * * *** ** *
26997198 ACTGTAACTTCAGGGAGATAAGA-C-TGGATGCGATCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGATCTTGGTTTTAATCCACTCC
26997239 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCC
1 ACTGCAACTTCAGAGAGATAAGATCT-TGGTTTTAATCCACTCC
*
26997283 ACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGAGAGATA
26997303 GGATTGGTTT
Statistics
Matches: 114, Mismatches: 27, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
41 28 0.25
42 4 0.04
43 6 0.05
44 75 0.66
45 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (43 bp):
ACTGCAACTTCAGAGAGATAAGATCTTGGTTTTAATCCACTCC
Found at i:26997404 original size:45 final size:45
Alignment explanation
Indices: 26997329--26997753 Score: 378
Period size: 45 Copynumber: 9.5 Consensus size: 45
26997319 ATCCACTTCA
*
26997329 CTGCCAATACAGGAAGACGAA-ATCTACTATCTTCAGTCTACTTTG
1 CTGCCAATACAGGAAGAC-AAGATCTGCTATCTTCAGTCTACTTTG
* ***
26997374 CTGCCAATACAAGAAGACAAGA-CTTGCTATCTTC-GATCTACTCCA
1 CTGCCAATACAGGAAGACAAGATC-TGCTATCTTCAG-TCTACTTTG
*** * * *
26997419 CTGCTGCT-TAGGGAGATAAGATCTGCTATCTTC-GATCTACTTTG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG-TCTACTTTG
* *
26997463 CTGCCAATACAGGAAGACAAGATCTGCAATCTTCAGTCCACTTTG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTTG
* * *
26997508 CTTCCAATACAGGAAGACAAGA-CTTGTTATCTTCAGTCTACTTCG
1 CTGCCAATACAGGAAGACAAGATC-TGCTATCTTCAGTCTACTTTG
* * * *
26997553 CTGCCAATATAGGAAGACAAGA-CTTGATATATTCAGTCTACTTTA
1 CTGCCAATACAGGAAGACAAGATC-TGCTATCTTCAGTCTACTTTG
** *
26997598 AGGCCCATACAGGAAGACAAGA-CTTGCTATCTTC-GATCTACTCCATTG
1 CTGCCAATACAGGAAGACAAGATC-TGCTATCTTCAG-TCTACT---TTG
*
26997646 CTG-C--T-CAAGG-AGACAAGATCTGCTATCTTC-GATCTACTTCG
1 CTGCCAATAC-AGGAAGACAAGATCTGCTATCTTCAG-TCTACTTTG
*
26997687 CTGCCAATACAGGAAGACAAGATCTGCAATCTTCAGTCTA-TTTCG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTT-G
*
26997732 CTCCCAATACAGGAAGACAAGA
1 CTGCCAATACAGGAAGACAAGA
26997754 CTTGACATGA
Statistics
Matches: 313, Mismatches: 47, Indels: 40
0.78 0.12 0.10
Matches are distributed among these distances:
41 5 0.02
42 1 0.00
44 71 0.23
45 230 0.73
46 2 0.01
47 1 0.00
48 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (45 bp):
CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTTG
Found at i:26997567 original size:90 final size:90
Alignment explanation
Indices: 26997329--26997753 Score: 322
Period size: 89 Copynumber: 4.7 Consensus size: 90
26997319 ATCCACTTCA
* * *
26997329 CTGCCAATACAGGAAGACGAA-A-TCTACTATCTTC-AGTCTACTTTGCTGCCAATACAAGAAGA
1 CTGCCAATACAGGAAGAC-AAGACT-TGCTATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGA
* ***
26997391 CAAGA-CTTGCTATCTTC-GATCTACTCCA
63 CAAGATC-TGCAATCTTCAG-TCTACTTTG
*** * * * *
26997419 CTGCTGCT-TAGGGAGATAAGA-TCTGCTATCTTCGATCTACTTTGCTGCCAATACAGGAAGACA
1 CTGCCAATACAGGAAGACAAGACT-TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACA
*
26997482 AGATCTGCAATCTTCAGTCCACTTTG
65 AGATCTGCAATCTTCAGTCTACTTTG
* * *
26997508 CTTCCAATACAGGAAGACAAGACTTGTTATCTTC-AGTCTACTTCGCTGCCAATATAGGAAGACA
1 CTGCCAATACAGGAAGACAAGACTTGCTATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACA
* *
26997572 AGA-CTTG-ATATATTCAGTCTACTTTA
65 AGATC-TGCA-ATCTTCAGTCTACTTTG
** * * ** ***
26997598 AGGCCCATACAGGAAGACAAGACTTGCTATCTTCGATCTACTCCATTGCTGCT-CAAGG-AGACA
1 CTGCCAATACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTGCCAATAC-AGGAAGACA
* *
26997661 AGATCTGCTATCTTC-GATCTACTTCG
65 AGATCTGCAATCTTCAG-TCTACTTTG
* * *
26997687 CTGCCAATACAGGAAGACAAGA-TCTGCAATCTTC-AGTCTATTTCGCTCCCAATACAGGAAGAC
1 CTGCCAATACAGGAAGACAAGACT-TGCTATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGAC
26997750 AAGA
64 AAGA
26997754 CTTGACATGA
Statistics
Matches: 263, Mismatches: 54, Indels: 36
0.75 0.15 0.10
Matches are distributed among these distances:
88 5 0.02
89 131 0.50
90 125 0.48
91 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (90 bp):
CTGCCAATACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAA
GATCTGCAATCTTCAGTCTACTTTG
Found at i:27011773 original size:5 final size:5
Alignment explanation
Indices: 27011758--27011789 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
27011748 AAATATGGAA
27011758 CCCGAG CCCGG CCCGG CCCGG CCCGG CCCGG C
1 CCCG-G CCCGG CCCGG CCCGG CCCGG CCCGG C
27011790 TCGTTTTNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.03, C:0.59, G:0.38, T:0.00
Consensus pattern (5 bp):
CCCGG
Found at i:27012648 original size:19 final size:18
Alignment explanation
Indices: 27012626--27012673 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
27012616 ATTAGAATTT
27012626 TTTTTATAAATATTTTGAA
1 TTTTTATAAATATTTT-AA
*
27012645 -TTTTAAAAATTATTTTAA
1 TTTTTATAAA-TATTTTAA
*
27012663 TTTTTTTAAAT
1 TTTTTATAAAT
27012674 TTTGGTTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTTATAAATATTTTAA
Found at i:27012654 original size:18 final size:18
Alignment explanation
Indices: 27012627--27012666 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
27012617 TTAGAATTTT
*
27012627 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTT-AA
27012645 TTTTAAAAATTATTTTAA
1 TTTTAAAAATTATTTTAA
27012663 TTTT
1 TTTT
27012667 TTTAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTAAAAATTATTTTAA
Found at i:27019531 original size:26 final size:25
Alignment explanation
Indices: 27019487--27019563 Score: 84
Period size: 25 Copynumber: 3.0 Consensus size: 25
27019477 TACAAGCTGA
*
27019487 TGTATTTAGGTTGCTAACACTAGCT
1 TGTAATTAGGTTGCTAACACTAGCT
*
27019512 TGTAATTAGGATTGCTAACACTATCT
1 TGTAATTAGG-TTGCTAACACTAGCT
** *
27019538 TGGT-ACGATGTTGCTAACACTAGCT
1 T-GTAATTAGGTTGCTAACACTAGCT
27019563 T
1 T
27019564 CAGAGAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
25 24 0.55
26 18 0.41
27 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (25 bp):
TGTAATTAGGTTGCTAACACTAGCT
Found at i:27031273 original size:41 final size:42
Alignment explanation
Indices: 27031200--27031280 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 42
27031190 AAAAGAGGAC
27031200 TATGTTTGCTTGCTGAAAAAAATCCCTTTACGGTTTGAAAAT
1 TATGTTTGCTTGCTGAAAAAAATCCCTTTACGGTTTGAAAAT
*
27031242 TATGTTTGCTTGCTG-AAAAAGTCCCTTTACGGTTTGAAA
1 TATGTTTGCTTGCTGAAAAAAATCCCTTTACGGTTTGAAA
27031281 CAGTCACCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 23 0.61
42 15 0.39
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (42 bp):
TATGTTTGCTTGCTGAAAAAAATCCCTTTACGGTTTGAAAAT
Found at i:27040965 original size:41 final size:43
Alignment explanation
Indices: 27040903--27041016 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
27040893 NNNNNNNNNN
* * *
27040903 GTCCCAGACAGGGTCTTACACG-AATCA-AA-TACGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAACACAAGT-CGATGCCAAC
* *
27040944 GTCCTAGACATGGTCTTACACGTAAACACAAGTCGATGCCGAC
1 GTCCCAGACATGGTCTTACACGTAAACACAAGTCGATGCCAAC
* **
27040987 GTCCCAGACGTGGTCTTACACAAAAACACA
1 GTCCCAGACATGGTCTTACACGTAAACACA
27041017 TATCAGAGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
41 20 0.33
42 4 0.07
43 36 0.59
44 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.19
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAACACAAGTCGATGCCAAC
Found at i:27045769 original size:174 final size:175
Alignment explanation
Indices: 27045568--27045919 Score: 697
Period size: 174 Copynumber: 2.0 Consensus size: 175
27045558 AAAAAGATTT
27045568 AAATTTTGAAAATATTTTTTATTTTCCTTTTTCCTTTTCCATTTTCTTTTTAGAAAACATTTTTC
1 AAATTTTGAAAATATTTTTTATTTTCCTTTTTCCTTTTCCATTTTCTTTTTAGAAAACATTTTTC
27045633 ATTTTCTATATTTTAAAAATTGAAAATGTATTTGGTAAATAGAAATAAAAATTTATTTTCAATAA
66 ATTTTCTATATTTTAAAAATTGAAAATGTATTTGGTAAATAGAAATAAAAATTTATTTTCAATAA
27045698 TGAAAAGATGATTGATAATTATTTTTCTATAATAGAAACATGAGA
131 TGAAAAGATGATTGATAATTATTTTTCTATAATAGAAACATGAGA
27045743 AAATTTTGAAAAT-TTTTTTATTTTCCTTTTTCCTTTTCCATTTTCTTTTTAGAAAACATTTTTC
1 AAATTTTGAAAATATTTTTTATTTTCCTTTTTCCTTTTCCATTTTCTTTTTAGAAAACATTTTTC
27045807 ATTTTCTATATTTTAAAAATTGAAAATGTATTTGGTAAATAGAAATAAAAATTTATTTTCAATAA
66 ATTTTCTATATTTTAAAAATTGAAAATGTATTTGGTAAATAGAAATAAAAATTTATTTTCAATAA
27045872 TGAAAAGATGATTGATAATTATTTTTCTATAATAGAAACATGAGA
131 TGAAAAGATGATTGATAATTATTTTTCTATAATAGAAACATGAGA
27045917 AAA
1 AAA
27045920 ATAAATAAAT
Statistics
Matches: 177, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
174 164 0.93
175 13 0.07
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (175 bp):
AAATTTTGAAAATATTTTTTATTTTCCTTTTTCCTTTTCCATTTTCTTTTTAGAAAACATTTTTC
ATTTTCTATATTTTAAAAATTGAAAATGTATTTGGTAAATAGAAATAAAAATTTATTTTCAATAA
TGAAAAGATGATTGATAATTATTTTTCTATAATAGAAACATGAGA
Found at i:27051169 original size:29 final size:30
Alignment explanation
Indices: 27051137--27051193 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
27051127 TAAGCCCTCT
27051137 TAAAATT-TAAA-AAAATTATTTAAAAATCA
1 TAAAATTATAAACAAAATT-TTTAAAAATCA
*
27051166 TAAAATTATAAACAAGATTTTTAAAAAT
1 TAAAATTATAAACAAAATTTTTAAAAAT
27051194 AAAGTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 13 0.52
31 5 0.20
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (30 bp):
TAAAATTATAAACAAAATTTTTAAAAATCA
Found at i:27054902 original size:18 final size:17
Alignment explanation
Indices: 27054876--27054914 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
27054866 ATTTTCCTTC
27054876 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
27054893 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
27054911 CACA
1 CACA
27054915 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:27076669 original size:63 final size:63
Alignment explanation
Indices: 27076533--27076699 Score: 158
Period size: 63 Copynumber: 2.6 Consensus size: 63
27076523 GGCCTAGATA
* * * * * *
27076533 CTTGCCTGTGTGACTCTAATTCGAAGTCAGTGCGTTACATGGCCTGGACACACGCCCGTGTCT
1 CTTGCCTGTGTGACTCTAATTCAAACTCAGCGAGTTACACGGCCTAGACACACGCCCGTGTCT
* * * * *
27076596 CTCGCATGTGTGCCTCTAATAT-AAACTCAGCGAGTTACACGGCCTAGACACAGGCCCGTGTGGT
1 CTTGCCTGTGTGACTCTAAT-TCAAACTCAGCGAGTTACACGGCCTAGACACACGCCCGTGT-CT
* * * *
27076660 -TTGCCTGTGTGACTACAAATTCGAAGTCAGGGAGTTACAC
1 CTTGCCTGTGTGACT-CTAATTCAAACTCAGCGAGTTACAC
27076700 AGTCCACCAC
Statistics
Matches: 82, Mismatches: 18, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
63 61 0.74
64 21 0.26
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (63 bp):
CTTGCCTGTGTGACTCTAATTCAAACTCAGCGAGTTACACGGCCTAGACACACGCCCGTGTCT
Found at i:27079246 original size:22 final size:20
Alignment explanation
Indices: 27079229--27079266 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
27079219 TTAAATTTAT
27079229 ATTATAAA-AAATAAAAATA
1 ATTATAAATAAATAAAAATA
27079248 ATTATAAATTAAATAAAAA
1 ATTATAAA-TAAATAAAAA
27079267 CAAATTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
ATTATAAATAAATAAAAATA
Found at i:27086201 original size:16 final size:16
Alignment explanation
Indices: 27086177--27086218 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
27086167 TTTGGTTCGC
* *
27086177 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
27086193 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
27086209 TGTAATGGAA
1 TGTAATGGAA
27086219 AAGCTGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:27086531 original size:14 final size:15
Alignment explanation
Indices: 27086452--27086533 Score: 63
Period size: 15 Copynumber: 5.9 Consensus size: 15
27086442 TTTAAACATA
*
27086452 ATTATTATTAAATAT
1 ATTATAATTAAATAT
*
27086467 ATTTTAATT--A-AT
1 ATTATAATTAAATAT
27086479 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
27086492 ATTATTATTAAATAT
1 ATTATAATTAAATAT
27086507 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
27086521 A-TATAATTTAATA
1 ATTATAATTAAATA
27086534 AAATTCTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
10 4 0.08
11 1 0.02
12 3 0.06
13 12 0.23
14 10 0.19
15 23 0.43
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:27086705 original size:101 final size:93
Alignment explanation
Indices: 27086599--27086886 Score: 325
Period size: 91 Copynumber: 3.0 Consensus size: 93
27086589 ACTATAAAAG
* * * *
27086599 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
27086663 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
27086700 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
27086763 CATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
27086791 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
27086854 AATAATAAAATATTCTTATATGAATTCAT
66 AATAATAAATTA-TCTTATATGAATTTAT
27086883 ATAA
1 ATAA
27086887 GATAATTTAT
Statistics
Matches: 166, Mismatches: 19, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
91 92 0.55
92 20 0.12
93 1 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:27086728 original size:26 final size:28
Alignment explanation
Indices: 27086699--27086759 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
27086689 TATGAATTTG
*
27086699 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
27086725 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
27086753 TAAAATT
1 TATAATT
27086760 CTTCATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:27086757 original size:47 final size:46
Alignment explanation
Indices: 27086706--27086849 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
27086696 TTGTATAATT
27086706 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
27086753 TAAAAT--TCT-TCA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
27086797 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
27086844 TAAAAT
1 TAAAAT
27086850 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:27086769 original size:91 final size:91
Alignment explanation
Indices: 27086674--27086879 Score: 331
Period size: 91 Copynumber: 2.3 Consensus size: 91
27086664 TAATTATAAC
* * * *
27086674 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
27086739 AATATATAATTTCATAAAATTCTTCA
66 AATATATAATTTCATAAAATTCTTAA
*
27086765 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
27086830 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
27086856 TAATAAAATATTCTTATATGAATT
1 TAATAAATTA-TCTTATATGAATT
27086880 CATATAAGAT
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 92 0.88
92 13 0.12
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (91 bp):
TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:27086841 original size:44 final size:43
Alignment explanation
Indices: 27086699--27086841 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
27086689 TATGAATTTG
* *
27086699 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
27086743 TATAATTTCATAAAATTCTTCATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
27086790 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
27086834 TATAATTT
1 TATAATTT
27086842 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:27086856 original size:47 final size:47
Alignment explanation
Indices: 27086724--27086862 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
27086714 TTATTATTAC
* *
27086724 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTCATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
27086771 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
27086815 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
27086862 A
1 A
27086863 ATATTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:27091002 original size:10 final size:11
Alignment explanation
Indices: 27090972--27091002 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
27090962 GTAAATGAAA
27090972 TAATAAAAAAG
1 TAATAAAAAAG
27090983 TAATAAAAAAG
1 TAATAAAAAAG
27090994 TAATTAAAA
1 TAA-TAAAA
27091003 CAAAATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (11 bp):
TAATAAAAAAG
Found at i:27091051 original size:17 final size:18
Alignment explanation
Indices: 27091031--27091065 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
27091021 GAGAAGGAAA
27091031 GAAAGAAA-AGAAAAAGG
1 GAAAGAAAGAGAAAAAGG
27091048 GAAAGAAAGGAGAAAAAG
1 GAAAGAAA-GAGAAAAAG
27091066 TTAGGGTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGAGAAAAAGG
Found at i:27092032 original size:37 final size:38
Alignment explanation
Indices: 27091933--27092056 Score: 108
Period size: 37 Copynumber: 3.2 Consensus size: 38
27091923 ACTTCGAGTT
* **
27091933 GATGAGACACTGGGTGTCAATTTACTACTTCTGATTATTTC
1 GATGAGACACTGGGTGTCAA-TT--TACTTCGGATTATGCC
* * * *
27091974 GATAAGGCACTGGGTGCCAATTTACTTCGGTTTA-GCC
1 GATGAGACACTGGGTGTCAATTTACTTCGGATTATGCC
*
27092011 GATGAGACACTGGGTGTCAATTTATTTCTTCGAATTAT-CC
1 GATGAGACACTGGGTGTCAATTTA---CTTCGGATTATGCC
27092051 GATGAG
1 GATGAG
27092057 GTATTGGATA
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
37 22 0.33
38 10 0.15
40 18 0.27
41 17 0.25
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (38 bp):
GATGAGACACTGGGTGTCAATTTACTTCGGATTATGCC
Found at i:27095566 original size:25 final size:25
Alignment explanation
Indices: 27095538--27095588 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
27095528 AAGACCATAT
* *
27095538 ATAATCATATCAAAATATGTCTTTC
1 ATAATCACATCAAAATATATCTTTC
27095563 ATAATCACATCAAAATATATCTTTC
1 ATAATCACATCAAAATATATCTTTC
27095588 A
1 A
27095589 CAAGCCATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (25 bp):
ATAATCACATCAAAATATATCTTTC
Found at i:27096334 original size:25 final size:25
Alignment explanation
Indices: 27096283--27096381 Score: 80
Period size: 25 Copynumber: 4.0 Consensus size: 25
27096273 AATATTAGGT
* *
27096283 AGCTTCGAAGAACCAT-TAATCGAGA
1 AGCTTCGAAGAGCCATAT-ATCGGGA
*
27096308 AGCTTCGAATAGCCATATATCGGGA
1 AGCTTCGAAGAGCCATATATCGGGA
*
27096333 AG-TTC-AAGCGAGCCA-ATATCGGAA
1 AGCTTCGAA--GAGCCATATATCGGGA
* * *
27096357 AGCTCCAAAGAGCCATATAACGGGA
1 AGCTTCGAAGAGCCATATATCGGGA
27096382 CGCTCATAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
23 2 0.03
24 19 0.32
25 36 0.60
26 3 0.05
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.18
Consensus pattern (25 bp):
AGCTTCGAAGAGCCATATATCGGGA
Found at i:27107560 original size:43 final size:43
Alignment explanation
Indices: 27107512--27107634 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
27107502 GGCTCGTACA
* * * *
27107512 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAC-AGATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAG-TCG
27107555 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAAACACAAGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAAACACAAGTCG
27107598 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACAC
27107635 TTTTCGAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
42 3 0.04
43 63 0.89
44 5 0.07
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAGTCG
Found at i:27118353 original size:43 final size:43
Alignment explanation
Indices: 27118286--27118394 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 43
27118276 CTAGCATCAT
*
27118286 AATGCATCATCAGATAAAACCGAAACAATCATACTAGCACATAC
1 AATGCATCATCAGATAAAACCGAAACAATCATACTAGCACA-AA
* * * * *
27118330 AATGCATCATCGGAT-ATATCGAAACAATTATACTATCACAAA
1 AATGCATCATCAGATAAAACCGAAACAATCATACTAGCACAAA
* *
27118372 AATGCATCTTCTGAT-AAACCGAA
1 AATGCATCATCAGATAAAACCGAA
27118395 GCAACTATGC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 20 0.36
43 21 0.38
44 14 0.25
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.23
Consensus pattern (43 bp):
AATGCATCATCAGATAAAACCGAAACAATCATACTAGCACAAA
Found at i:27118431 original size:85 final size:86
Alignment explanation
Indices: 27118286--27118446 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 86
27118276 CTAGCATCAT
* *
27118286 AATGCATCATCAGATAAAACCGAAACAATCATACTAGCACATACAATGCATCATCGGATATATC-
1 AATGCATCATCAGATAAAACCGAAACAATCATACTAGCACATACAATGCATCACCAGATATATCA
27118350 GAAACAATTATACTATCACAAA
66 G-AACAATTATACTATCACAAA
* * * * * * *
27118372 AATGCATCTTCTGAT-AAACCGAAGCAA-CTATGCTGGCACATATAGTGCATCACCAGATATATC
1 AATGCATCATCAGATAAAACCGAAACAATC-ATACTAGCACATACAATGCATCACCAGATATATC
27118435 AGAACAATTATA
65 AGAACAATTATA
27118447 TTGGCATACA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
84 1 0.02
85 49 0.77
86 14 0.22
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.24
Consensus pattern (86 bp):
AATGCATCATCAGATAAAACCGAAACAATCATACTAGCACATACAATGCATCACCAGATATATCA
GAACAATTATACTATCACAAA
Found at i:27118496 original size:85 final size:87
Alignment explanation
Indices: 27118384--27118564 Score: 233
Period size: 85 Copynumber: 2.1 Consensus size: 87
27118374 TGCATCTTCT
* * * * * * *
27118384 GATAAACCGAAGCAACTATGCTGGCACATATAGTGCATCACCAGATATATCAGAA-CAATTATAT
1 GATAAACCAAAGCAACTATGATGGCACACACAGTGCATCACCAAATAAATCA-AAGCAACTATAT
*
27118448 TGGCAT-ACACAGTGTATCATCG
65 TGGCATAACACAATGTATCATCG
* *
27118470 GATAAACCAAAGCAACTAT-ATTGCACACACAGTGCATCATCAAATAAATCAAAGCAACTATATT
1 GATAAACCAAAGCAACTATGATGGCACACACAGTGCATCACCAAATAAATCAAAGCAACTATATT
27118534 GGCATACACACAATGTATCATCG
66 GGCATA-ACACAATGTATCATCG
27118557 GATAAACC
1 GATAAACC
27118565 GAACCCCTTA
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
84 2 0.02
85 39 0.48
86 18 0.22
87 23 0.28
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (87 bp):
GATAAACCAAAGCAACTATGATGGCACACACAGTGCATCACCAAATAAATCAAAGCAACTATATT
GGCATAACACAATGTATCATCG
Found at i:27118503 original size:42 final size:43
Alignment explanation
Indices: 27118384--27118564 Score: 168
Period size: 43 Copynumber: 4.2 Consensus size: 43
27118374 TGCATCTTCT
* ** * * * * *
27118384 GATAAACCGAAGCAACTATGCTGGCACATATAGTGCATCACCA
1 GATAAACCAAAGCAACTATATTGGCACACACAGTGTATCATCG
* * * *
27118427 GATATATCAGAA-CAATTATATTGGCATACACAGTGTATCATCG
1 GATAAACCA-AAGCAACTATATTGGCACACACAGTGTATCATCG
* *
27118470 GATAAACCAAAGCAACTATATT-GCACACACAGTGCATCATCA
1 GATAAACCAAAGCAACTATATTGGCACACACAGTGTATCATCG
* * *
27118512 AATAAATCAAAGCAACTATATTGGCATACACACAATGTATCATCG
1 GATAAACCAAAGCAACTATATTGGC--ACACACAGTGTATCATCG
27118557 GATAAACC
1 GATAAACC
27118565 GAACCCCTTA
Statistics
Matches: 108, Mismatches: 25, Indels: 8
0.77 0.18 0.06
Matches are distributed among these distances:
42 39 0.36
43 46 0.43
44 2 0.02
45 21 0.19
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (43 bp):
GATAAACCAAAGCAACTATATTGGCACACACAGTGTATCATCG
Found at i:27118562 original size:45 final size:45
Alignment explanation
Indices: 27118443--27118564 Score: 164
Period size: 42 Copynumber: 2.8 Consensus size: 45
27118433 TCAGAACAAT
27118443 TATATTGGCAT--ACACAGTGTATCATCGGATAAACCAAAGCAAC
1 TATATTGGCATACACACAGTGTATCATCGGATAAACCAAAGCAAC
* ** *
27118486 TATATT-GC--ACACACAGTGCATCATCAAATAAATCAAAGCAAC
1 TATATTGGCATACACACAGTGTATCATCGGATAAACCAAAGCAAC
*
27118528 TATATTGGCATACACACAATGTATCATCGGATAAACC
1 TATATTGGCATACACACAGTGTATCATCGGATAAACC
27118565 GAACCCCTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
42 36 0.55
43 8 0.12
45 21 0.32
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (45 bp):
TATATTGGCATACACACAGTGTATCATCGGATAAACCAAAGCAAC
Found at i:27118620 original size:47 final size:47
Alignment explanation
Indices: 27118564--27118853 Score: 282
Period size: 47 Copynumber: 6.2 Consensus size: 47
27118554 TCGGATAAAC
* *
27118564 CGAACCCCTTAGTGAATATTTTTGCAAACCCCCTTAGTGAATGTTATG
1 CGAACCCCTCAGTGAATATTTTTGCGAA-CCCCTTAGTGAATGTTATG
* * * * *
27118612 C-AACCCCTTAATGAATATTTATACGAACCCCTCAGTGAATGTTATG
1 CGAACCCCTCAGTGAATATTTTTGCGAACCCCTTAGTGAATGTTATG
*
27118658 CGAACCCCTCAGTGAATATTTTTGTGAACCCCTTAGTGAATGTTATG
1 CGAACCCCTCAGTGAATATTTTTGCGAACCCCTTAGTGAATGTTATG
** * * * *
27118705 CGAACCCCTCAGTGAATATTCATGTGAACCCCTTAATGAATATTTGTG
1 CGAACCCCTCAGTGAATATTTTTGCGAACCCCTTAGTGAAT-GTTATG
* * * * *
27118753 CGAACCCCTTAGT-AA-ATGTTGTGTGAACCTCTTAGTGAATGTTGTG
1 CGAACCCCTCAGTGAATAT-TTTTGCGAACCCCTTAGTGAATGTTATG
* * * * * * * *
27118799 TGAGCCTCTTAGTGAAT-GTTATGCGAACCCCTTAGTGAACGATATG
1 CGAACCCCTCAGTGAATATTTTTGCGAACCCCTTAGTGAATGTTATG
27118845 CGAACCCCT
1 CGAACCCCT
27118854 TTTATAAACT
Statistics
Matches: 202, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
46 64 0.32
47 121 0.60
48 17 0.08
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (47 bp):
CGAACCCCTCAGTGAATATTTTTGCGAACCCCTTAGTGAATGTTATG
Found at i:27118688 original size:71 final size:71
Alignment explanation
Indices: 27118564--27118772 Score: 208
Period size: 71 Copynumber: 3.0 Consensus size: 71
27118554 TCGGATAAAC
* ** * * * * *
27118564 CGAACCCCTTAGTGAATATTTTTGCAAACCCCCTTAGTGAAT-GTTATGC-AACCCCTTAATGAA
1 CGAACCCCTCAGTGAATATTCATGCGAA-CCCCTCAATGAATATTTGTGCGAACCCCTTAATGAA
*
27118627 TATTTATA
65 T-GTTATA
* * * * *
27118635 CGAACCCCTCAGTGAATGTT-ATGCGAACCCCTCAGTGAATATTTTTGTGAACCCCTTAGTGAAT
1 CGAACCCCTCAGTGAATATTCATGCGAACCCCTCAATGAATATTTGTGCGAACCCCTTAATGAAT
*
27118699 GTTATG
66 GTTATA
* * * *
27118705 CGAACCCCTCAGTGAATATTCATGTGAACCCCTTAATGAATATTTGTGCGAACCCCTTAGTAAAT
1 CGAACCCCTCAGTGAATATTCATGCGAACCCCTCAATGAATATTTGTGCGAACCCCTTAATGAAT
27118770 GTT
66 GTT
27118773 GTGTGAACCT
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
69 12 0.10
70 32 0.27
71 73 0.62
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (71 bp):
CGAACCCCTCAGTGAATATTCATGCGAACCCCTCAATGAATATTTGTGCGAACCCCTTAATGAAT
GTTATA
Found at i:27118734 original size:94 final size:93
Alignment explanation
Indices: 27118564--27118854 Score: 336
Period size: 94 Copynumber: 3.1 Consensus size: 93
27118554 TCGGATAAAC
** *
27118564 CGAACCCCTTAGTGAATATTTTTGCAAACCCCCTTAGTGAATGTTATGC-AACCCCTTAATGAAT
1 CGAACCCCTTAGTGAATATTTTTGTGAA-CCCCTTAGTGAATGTTATGCGAACCCCTTAGTGAAT
* *
27118628 ATTTATACGAACCCCTCAGTGAATGTTATG
65 A-TTATGCGAACCCCTTAGTGAATGTTATG
* *
27118658 CGAACCCCTCAGTGAATATTTTTGTGAACCCCTTAGTGAATGTTATGCGAACCCCTCAGTGAATA
1 CGAACCCCTTAGTGAATATTTTTGTGAACCCCTTAGTGAATGTTATGCGAACCCCTTAGTGAATA
* * * *
27118723 TTCATGTGAACCCCTTAATGAATATTTGTG
66 TT-ATGCGAACCCCTTAGTGAAT-GTTATG
* * * * * *
27118753 CGAACCCCTTAGT-AA-ATGTTGTGTGAACCTCTTAGTGAATGTTGTGTGAGCCTCTTAGTGAAT
1 CGAACCCCTTAGTGAATAT-TTTTGTGAACCCCTTAGTGAATGTTATGCGAACCCCTTAGTGAAT
* * *
27118816 GTTATGCGAACCCCTTAGTGAACGATATG
65 ATTATGCGAACCCCTTAGTGAATGTTATG
27118845 CGAACCCCTT
1 CGAACCCCTT
27118855 TTATAAACTG
Statistics
Matches: 167, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
92 13 0.08
93 41 0.25
94 97 0.58
95 16 0.10
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (93 bp):
CGAACCCCTTAGTGAATATTTTTGTGAACCCCTTAGTGAATGTTATGCGAACCCCTTAGTGAATA
TTATGCGAACCCCTTAGTGAATGTTATG
Found at i:27118780 original size:23 final size:23
Alignment explanation
Indices: 27118564--27118854 Score: 278
Period size: 23 Copynumber: 12.4 Consensus size: 23
27118554 TCGGATAAAC
* *
27118564 CGAACCCCTTAGTGAATATTTTTG
1 CGAACCCCTTAGTGAAT-GTTATG
*
27118588 CAAACCCCCTTAGTGAATGTTATG
1 CGAA-CCCCTTAGTGAATGTTATG
* * *
27118612 C-AACCCCTTAATGAATATTTATA
1 CGAACCCCTTAGTGAAT-GTTATG
*
27118635 CGAACCCCTCAGTGAATGTTATG
1 CGAACCCCTTAGTGAATGTTATG
* * *
27118658 CGAACCCCTCAGTGAATATTTTTG
1 CGAACCCCTTAGTGAAT-GTTATG
*
27118682 TGAACCCCTTAGTGAATGTTATG
1 CGAACCCCTTAGTGAATGTTATG
* *
27118705 CGAACCCCTCAGTGAATATTCATG
1 CGAACCCCTTAGTGAATGTT-ATG
* * * *
27118729 TGAACCCCTTAATGAATATTTGTG
1 CGAACCCCTTAGTGAAT-GTTATG
* *
27118753 CGAACCCCTTAGTAAATGTTGTG
1 CGAACCCCTTAGTGAATGTTATG
* * *
27118776 TGAACCTCTTAGTGAATGTTGTG
1 CGAACCCCTTAGTGAATGTTATG
* * *
27118799 TGAGCCTCTTAGTGAATGTTATG
1 CGAACCCCTTAGTGAATGTTATG
* *
27118822 CGAACCCCTTAGTGAACGATATG
1 CGAACCCCTTAGTGAATGTTATG
27118845 CGAACCCCTT
1 CGAACCCCTT
27118855 TTATAAACTG
Statistics
Matches: 223, Mismatches: 38, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
22 12 0.05
23 123 0.55
24 73 0.33
25 15 0.07
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (23 bp):
CGAACCCCTTAGTGAATGTTATG
Found at i:27118781 original size:71 final size:70
Alignment explanation
Indices: 27118593--27118853 Score: 269
Period size: 71 Copynumber: 3.7 Consensus size: 70
27118583 TTTTGCAAAC
* * *
27118593 CCCCTTAGTGAAT-GTTATGC-AACCCCTTAATGAATAT-TTATACGAACCCCTCAGTGAATGTT
1 CCCCTTAGTGAATATTTATGCGAACCCCTTAGT-AA-ATGTTATGCGAACCCCTCAGTGAATGTT
*
27118655 ATGCGAA
64 ATGTGAA
* * * * *
27118662 CCCCTCAGTGAATATTTTTGTGAACCCCTTAGTGAATGTTATGCGAACCCCTCAGTGAATATTCA
1 CCCCTTAGTGAATATTTATGCGAACCCCTTAGTAAATGTTATGCGAACCCCTCAGTGAATGTT-A
27118727 TGTGAA
65 TGTGAA
* * * * * * *
27118733 CCCCTTAATGAATATTTGTGCGAACCCCTTAGTAAATGTTGTGTGAACCTCTTAGTGAATGTTGT
1 CCCCTTAGTGAATATTTATGCGAACCCCTTAGTAAATGTTATGCGAACCCCTCAGTGAATGTTAT
*
27118798 GTGAG
66 GTGAA
* * * * *
27118803 CCTCTTAGTGAAT-GTTATGCGAACCCCTTAGTGAACGATATGCGAACCCCT
1 CCCCTTAGTGAATATTTATGCGAACCCCTTAGTAAATGTTATGCGAACCCCT
27118854 TTTATAAACT
Statistics
Matches: 157, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
69 44 0.28
70 44 0.28
71 69 0.44
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (70 bp):
CCCCTTAGTGAATATTTATGCGAACCCCTTAGTAAATGTTATGCGAACCCCTCAGTGAATGTTAT
GTGAA
Found at i:27118929 original size:25 final size:25
Alignment explanation
Indices: 27118881--27118929 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
27118871 GATCCCTTTT
* *
27118881 AACTATTATACGAACCTTTTTGTAA
1 AACTATTATACGAACCCTTATGTAA
*
27118906 AACTATTATGCGAACCCTTATGTA
1 AACTATTATACGAACCCTTATGTA
27118930 TATTGTACTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (25 bp):
AACTATTATACGAACCCTTATGTAA
Found at i:27120490 original size:18 final size:18
Alignment explanation
Indices: 27120446--27120511 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
27120436 ATTTAACCCT
*
27120446 AATTATATACAAAAATCAA
1 AATTATA-AAAAAAATCAA
*
27120465 AA-TCTAAAAAAAATCAA
1 AATTATAAAAAAAATCAA
* *
27120482 AATTTTAAAAAATTAT-AA
1 AATTATAAAAAA-AATCAA
27120500 AATTATAAAAAA
1 AATTATAAAAAA
27120512 TAAAATATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 12 0.30
18 24 0.60
19 4 0.10
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (18 bp):
AATTATAAAAAAAATCAA
Found at i:27120522 original size:16 final size:17
Alignment explanation
Indices: 27120449--27120522 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
27120439 TAACCCTAAT
27120449 TATATACAAAAATCAAAA
1 TATATA-AAAAATCAAAA
* *
27120467 TCTAAAAAAAATCAAAA
1 TATATAAAAAATCAAAA
* *
27120484 T-TTTAAAAAATTATAAA
1 TATATAAAAAATCA-AAA
27120501 -ATTATAAAAAAT-AAAA
1 TA-TATAAAAAATCAAAA
27120517 TATATA
1 TATATA
27120523 CATATATACA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
16 16 0.35
17 17 0.37
18 13 0.28
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.28
Consensus pattern (17 bp):
TATATAAAAAATCAAAA
Found at i:27122017 original size:38 final size:37
Alignment explanation
Indices: 27121961--27122039 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 37
27121951 GGTTTCTCCA
*
27121961 AAAAGCTCTTGTTCAACCAATCAAATTACTGGATGAGG
1 AAAAGCTCTTGTTCAACCAATCAAATTACTGG-CGAGG
* * *
27121999 AAAAGCGT-TTGTTGAACCAATTAAATTGCTGGCGAGG
1 AAAAGC-TCTTGTTCAACCAATCAAATTACTGGCGAGG
27122036 AAAA
1 AAAA
27122040 TTTATAGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 8 0.22
38 27 0.75
39 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (37 bp):
AAAAGCTCTTGTTCAACCAATCAAATTACTGGCGAGG
Found at i:27138499 original size:17 final size:17
Alignment explanation
Indices: 27138466--27138499 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27138456 TCATATATTT
*
27138466 GGAATTTAATTTTTCTA
1 GGAATTTAATTTCTCTA
*
27138483 GGAATTTAGTTTCTCTA
1 GGAATTTAATTTCTCTA
27138500 TTTTTTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (17 bp):
GGAATTTAATTTCTCTA
Found at i:27154460 original size:15 final size:16
Alignment explanation
Indices: 27154430--27154462 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27154420 ATTCAATTAG
*
27154430 ATTTTATTATAATTTT
1 ATTTTATTAAAATTTT
27154446 ATTTT-TTAAAATTTT
1 ATTTTATTAAAATTTT
27154461 AT
1 AT
27154463 ACAACTTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTATTAAAATTTT
Found at i:27154777 original size:13 final size:13
Alignment explanation
Indices: 27154759--27154783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27154749 ATGATAATTT
27154759 CATACATTTTTTA
1 CATACATTTTTTA
27154772 CATACATTTTTT
1 CATACATTTTTT
27154784 TCAAAATTTA
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:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (13 bp):
CATACATTTTTTA
Found at i:27155359 original size:16 final size:16
Alignment explanation
Indices: 27155338--27155392 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
27155328 ATACAATTCT
27155338 AAAAAATTTAAACCCG
1 AAAAAATTTAAACCCG
*
27155354 AAAAAATTTGAATCCC-
1 AAAAAATTT-AAACCCG
* * *
27155370 AAAAATTTTAAATCTG
1 AAAAAATTTAAACCCG
27155386 AAAAAAT
1 AAAAAAT
27155393 CCAAACTCGA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 3 0.10
16 23 0.74
17 5 0.16
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.25
Consensus pattern (16 bp):
AAAAAATTTAAACCCG
Found at i:27163345 original size:27 final size:27
Alignment explanation
Indices: 27163284--27163361 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
27163274 TCAATAAATA
* *
27163284 ACCGAAATACCCCCATAAGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAACG
***
27163311 AAAAAAATACCCCCATAGGGTAAAACG
1 ACCGAAATACCCCCATAGGGTAAAACG
* *
27163338 ACCGAAATA-CGCCATAGAGTAAAA
1 ACCGAAATACCCCCATAGGGTAAAA
27163362 TGATTGAAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 13 0.32
27 28 0.68
ACGTcount: A:0.49, C:0.23, G:0.15, T:0.13
Consensus pattern (27 bp):
ACCGAAATACCCCCATAGGGTAAAACG
Found at i:27163607 original size:26 final size:26
Alignment explanation
Indices: 27163571--27163647 Score: 127
Period size: 26 Copynumber: 3.0 Consensus size: 26
27163561 ACATATACTG
*
27163571 TTACTGACAGCTTCGCTGCGATATTA
1 TTACTGGCAGCTTCGCTGCGATATTA
27163597 TTACTGGCAGCTTCGCTGCGATATTA
1 TTACTGGCAGCTTCGCTGCGATATTA
* *
27163623 TTACTGGCAGTTTTGCTGCGATATT
1 TTACTGGCAGCTTCGCTGCGATATT
27163648 GGTGTGTTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (26 bp):
TTACTGGCAGCTTCGCTGCGATATTA
Found at i:27163778 original size:28 final size:28
Alignment explanation
Indices: 27163742--27163799 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
27163732 TGCATTATTG
*
27163742 CACTATTACTGTATTGGGCTAAGGCCCA
1 CACTATTACTGTATCGGGCTAAGGCCCA
*
27163770 CACTGTTACTGTATCGGGCTAAGGCCCA
1 CACTATTACTGTATCGGGCTAAGGCCCA
27163798 CA
1 CA
27163800 TTGTACTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (28 bp):
CACTATTACTGTATCGGGCTAAGGCCCA
Found at i:27163822 original size:33 final size:32
Alignment explanation
Indices: 27163738--27163830 Score: 88
Period size: 28 Copynumber: 3.0 Consensus size: 32
27163728 GGGTTGCATT
*
27163738 ATTGCACTATTACTGTATTGGGCTAAGGCCCAC
1 ATTG-ACTATTACTGTATAGGGCTAAGGCCCAC
* *
27163771 ----ACTGTTACTGTATCGGGCTAAGGCCCAC
1 ATTGACTATTACTGTATAGGGCTAAGGCCCAC
*
27163799 ATTGTACTATTACTGAATAGGGCTCAA-GCCCA
1 ATTG-ACTATTACTGTATAGGGCT-AAGGCCCA
27163831 GACTGTTACT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
28 26 0.53
33 21 0.43
34 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (32 bp):
ATTGACTATTACTGTATAGGGCTAAGGCCCAC
Found at i:27169017 original size:54 final size:53
Alignment explanation
Indices: 27168959--27169070 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 53
27168949 ATAAATGATT
* *
27168959 GAAATAACCTCATAGGT-TAAAATGATCGAAATACCCCTATAAGGTAAAATGACC
1 GAAATAACCTCATA-ATATAAAATGACCGAAATACCCC-ATAAGGTAAAATGACC
* *
27169013 GAAATACCCTCATAATATAAAATGACCGAAATACCCCATAGGGTAAAATGACC
1 GAAATAACCTCATAATATAAAATGACCGAAATACCCCATAAGGTAAAATGACC
27169066 GAAAT
1 GAAAT
27169071 TGACTATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 21 0.40
54 32 0.60
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.21
Consensus pattern (53 bp):
GAAATAACCTCATAATATAAAATGACCGAAATACCCCATAAGGTAAAATGACC
Found at i:27169059 original size:26 final size:26
Alignment explanation
Indices: 27168959--27169070 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
27168949 ATAAATGATT
* *
27168959 GAAATAACCTCAT-AGGTTAAAATGATC
1 GAAAT-ACCCCATAAGG-TAAAATGACC
27168986 GAAATACCCCTATAAGGTAAAATGACC
1 GAAATACCCC-ATAAGGTAAAATGACC
**
27169013 GAAATACCCTCATAATATAAAATGACC
1 GAAATACCC-CATAAGGTAAAATGACC
*
27169040 GAAATACCCCATAGGGTAAAATGACC
1 GAAATACCCCATAAGGTAAAATGACC
27169066 GAAAT
1 GAAAT
27169071 TGACTATTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 23 0.31
27 48 0.64
28 4 0.05
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.21
Consensus pattern (26 bp):
GAAATACCCCATAAGGTAAAATGACC
Found at i:27169293 original size:26 final size:26
Alignment explanation
Indices: 27169264--27169318 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
27169254 TTTGCCACAT
*
27169264 ATACTGTTACTGGCAGCTTCGCTGCG
1 ATACTATTACTGGCAGCTTCGCTGCG
* *
27169290 ATACTATTATTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTCGCTGCG
27169316 ATA
1 ATA
27169319 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTCGCTGCG
Found at i:27169450 original size:28 final size:28
Alignment explanation
Indices: 27169418--27169476 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
27169408 ATTATTGCAA
*
27169418 TGTTACTGTATTGGGCTAAGACCCACAC
1 TGTTACTGTATCGGGCTAAGACCCACAC
**
27169446 TGTTACTGTATCGGGCTAAGGTCCACAC
1 TGTTACTGTATCGGGCTAAGACCCACAC
27169474 TGT
1 TGT
27169477 ACTATTACTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (28 bp):
TGTTACTGTATCGGGCTAAGACCCACAC
Found at i:27181738 original size:27 final size:24
Alignment explanation
Indices: 27181707--27181762 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
27181697 TCAATTATTT
27181707 AAAATAAAAATTATTATAATATTATAA
1 AAAATAAAAA-TA-TAT-ATATTATAA
* **
27181734 TAAATTTAAATATATATATTATAA
1 AAAATAAAAATATATATATTATAA
27181758 AAAAT
1 AAAAT
27181763 TGTTAACATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 13 0.52
25 3 0.12
26 2 0.08
27 7 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AAAATAAAAATATATATATTATAA
Found at i:27181775 original size:16 final size:16
Alignment explanation
Indices: 27181754--27181784 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
27181744 TATATATATT
27181754 ATAAAAAATTGTTAAC
1 ATAAAAAATTGTTAAC
27181770 ATAAAAAATTGTTAA
1 ATAAAAAATTGTTAA
27181785 TATACTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (16 bp):
ATAAAAAATTGTTAAC
Found at i:27185935 original size:25 final size:25
Alignment explanation
Indices: 27185907--27185986 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
27185897 ACACTCTCTC
*
27185907 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGA
* * *
27185932 GAGCCATGTAAAGGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATGA
* * *
27185957 GAGCCATAT-TCAGGAAGCTCATGC
1 GAGCCATATAACGGGAAGCTCATGA
27185981 GAGCCA
1 GAGCCA
27185987 ATATCGAGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 16 0.36
25 29 0.64
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGA
Found at i:27186594 original size:21 final size:21
Alignment explanation
Indices: 27186570--27186609 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27186560 TAAATTTAAC
*
27186570 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATTCATAT
*
27186591 TCAATTCAATCCAATTCAT
1 TCAATTCAATACAATTCAT
27186610 GTTTTAGGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (21 bp):
TCAATTCAATACAATTCATAT
Found at i:27187663 original size:15 final size:15
Alignment explanation
Indices: 27187643--27187680 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
27187633 AATGAAGGAG
27187643 TAAAATAAATAAAAA
1 TAAAATAAATAAAAA
*
27187658 TAAAATAAATAGAAA
1 TAAAATAAATAAAAA
*
27187673 GAAAATAA
1 TAAAATAA
27187681 GGATAGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (15 bp):
TAAAATAAATAAAAA
Found at i:27193193 original size:17 final size:17
Alignment explanation
Indices: 27193173--27193210 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
27193163 ATTCAAAAAA
27193173 TAAAAAC-ACTAAATTCT
1 TAAAAACAACTAAATT-T
*
27193190 TAAAAGCAACTAAATTT
1 TAAAAACAACTAAATTT
27193207 TAAA
1 TAAA
27193211 TATATAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (17 bp):
TAAAAACAACTAAATTT
Found at i:27196518 original size:148 final size:149
Alignment explanation
Indices: 27196227--27196528 Score: 498
Period size: 148 Copynumber: 2.0 Consensus size: 149
27196217 GTTGTGGAGT
*
27196227 GTGCTTTGTATTTATGAGCTGACATTTCGATGAGGAAGAGCCGACATTGTGACGAAACGACTACA
1 GTGCTTTGCATTTATGA-C-GACATTTCGATGAGGAAGAGCCGACATTGTGACGAAACGACTACA
* * *
27196292 ATGTCTTAACAAGAAGATTGGCCACGTCCTGACGATGTGAAGAATGGCGTCTCGACAAGGTGCAT
64 ACGTCTTAACAAGAAGATTGGCCACGTCCCGACGATGTAAAGAATGGCGTCTCGACAAGGTGCAT
27196357 GCGACGTTGCGACATGGCAAC
129 GCGACGTTGCGACATGGCAAC
* * *
27196378 GTGCTTTGCATTTATGA-GATATTTCGATGAGGAAGAGCCGACATTGTGACGAACCGACTACGAC
1 GTGCTTTGCATTTATGACGACATTTCGATGAGGAAGAGCCGACATTGTGACGAAACGACTACAAC
* *
27196442 GTCTTGACAAGAAGATTGGCCACGTCCCGACGATGTAAAGAATGGCGTCTCGACGAGGTGCATGC
66 GTCTTAACAAGAAGATTGGCCACGTCCCGACGATGTAAAGAATGGCGTCTCGACAAGGTGCATGC
27196507 GACGTTGCGACATGGCAAC
131 GACGTTGCGACATGGCAAC
27196526 GTG
1 GTG
27196529 TTCCACAATT
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
148 126 0.89
151 16 0.11
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (149 bp):
GTGCTTTGCATTTATGACGACATTTCGATGAGGAAGAGCCGACATTGTGACGAAACGACTACAAC
GTCTTAACAAGAAGATTGGCCACGTCCCGACGATGTAAAGAATGGCGTCTCGACAAGGTGCATGC
GACGTTGCGACATGGCAAC
Found at i:27198378 original size:21 final size:22
Alignment explanation
Indices: 27198354--27198396 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
27198344 TATATATATA
27198354 TATGT-ATATTTATTGTTTTCT
1 TATGTAATATTTATTGTTTTCT
*
27198375 TATGTACATATTTATTTTTTTC
1 TATGTA-ATATTTATTGTTTTC
27198397 AACTAATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
23 14 0.74
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.65
Consensus pattern (22 bp):
TATGTAATATTTATTGTTTTCT
Found at i:27203889 original size:25 final size:26
Alignment explanation
Indices: 27203843--27203891 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
27203833 TGAATTTGTT
27203843 TGTTCTTGAAATACTTTATTCTTTGC
1 TGTTCTTGAAATACTTTATTCTTTGC
* *
27203869 TGTTCTTG-AATATTTTTTTCTTT
1 TGTTCTTGAAATACTTTATTCTTT
27203892 TCAAGACACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.16, C:0.12, G:0.10, T:0.61
Consensus pattern (26 bp):
TGTTCTTGAAATACTTTATTCTTTGC
Found at i:27204926 original size:44 final size:44
Alignment explanation
Indices: 27204765--27204930 Score: 244
Period size: 44 Copynumber: 3.8 Consensus size: 44
27204755 ATCACAAAAC
* *
27204765 CCTATCTCCCTGGTCAACAGTGGAATAGATTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
27204809 CCTATCTCCCTGGTCAGCAATGGAATAAGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
27204853 CGTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
27204897 CTTATCTCCCTGAG-CAGCAGTAGAGTAGGTTGAA
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
27204931 AATAGCAGAT
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 110 0.99
45 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:27205362 original size:100 final size:100
Alignment explanation
Indices: 27205179--27205362 Score: 233
Period size: 100 Copynumber: 1.8 Consensus size: 100
27205169 ACAGTGGAGC
* *
27205179 AGATTAAAGCCGCAACGGCGAATCTTACTTCCCTAGCGGTGTAGGGGAACAGATTGAAGCTACGA
1 AGATTAAAGCCGCAACGGCGAATCTTACTTCCCTAGCGGTGTAGCGGAACAGATTGAAGCCACGA
* *
27205244 CAGCGAATCTCGTTTCCCTAACATTGCAATTTAAA
66 CAGCGAATCTCATCTCCCTAACATTGCAATTTAAA
* * * * * * * * *
27205279 AGATTGAAGCCGCAACGGTGAATCTTATTTCCCTGGCGTTGTAGCGGAGCAGGTTGAAGCCATGT
1 AGATTAAAGCCGCAACGGCGAATCTTACTTCCCTAGCGGTGTAGCGGAACAGATTGAAGCCACGA
* *
27205344 CGGCGAATCTTATCTCCCT
66 CAGCGAATCTCATCTCCCT
27205363 GGCGTTAAGG
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
100 69 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (100 bp):
AGATTAAAGCCGCAACGGCGAATCTTACTTCCCTAGCGGTGTAGCGGAACAGATTGAAGCCACGA
CAGCGAATCTCATCTCCCTAACATTGCAATTTAAA
Found at i:27205487 original size:267 final size:267
Alignment explanation
Indices: 27205009--27205821 Score: 1257
Period size: 267 Copynumber: 3.0 Consensus size: 267
27204999 GTTGCAAAGA
* * * *
27205009 AAAAGATTGAAACCACAACGGTGAATCTTATTTCCCTAGCGTTGTAGCGGAACAGATTGAAGCCA
1 AAAAGATTGAAGCCGCAACGGTGAATCTTATTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
* *
27205074 CGACGGCGAATCTAATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCAGATTAAAGCT
66 CGACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTAGAGCAGATTAAAGCT
*
27205139 GTGGGTAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATTAAAGCCGCAACGGCGAATCT
131 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATTAAAGCCGCAACGGCGAATCT
* * *
27205204 TACTTCCCTAGCGGTGTAGGGGAACAGATTGAAGCTACGACAGCGAATCTCGTTTCCCTAACATT
196 TACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACAGCGAATCTCGTTTCCCCAACATT
27205269 GCAATTT
261 GCAATTT
*
27205276 AAAAGATTGAAGCCGCAACGGTGAATCTTATTTCCCTGGCGTTGTAGCGGAGCAGGTTGAAGCCA
1 AAAAGATTGAAGCCGCAACGGTGAATCTTATTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
* * *
27205341 TGTCGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTAGAGCGGATTAAAGCT
66 CGACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTAGAGCAGATTAAAGCT
* ** * *
27205406 GTGGGCAGCGAATCTTATCTCTTTGGCATTACAGTGGAATAGATTAAAGCCGCGACGGTGAATCT
131 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATTAAAGCCGCAACGGCGAATCT
* * *
27205471 TACTTCACTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATCTCGTTTCCCCAACATT
196 TACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACAGCGAATCTCGTTTCCCCAACATT
*
27205536 GTAATTT
261 GCAATTT
* * **
27205543 AAAAGATTGAAGCAGCAACGGCGAATCTTATTTCCCTGATGTTGTAGCGGAGCAGATTGAAGCCA
1 AAAAGATTGAAGCCGCAACGGTGAATCTTATTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
* * *
27205608 CAACGGCGAATCTTATCTCCTTGGCGTTAAGGCTTGGATTAGCTGAAGTAGAGCAGATTGAAGCT
66 CGACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTAGAGCAGATTAAAGCT
* * * *
27205673 GTGGGCAGCGGATCCTATCTCTTTGGCGTTACAGTGGAGCAGATTAAAGCTGCAACGACGAATCT
131 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATTAAAGCCGCAACGGCGAATCT
* * * ** *
27205738 TACTTCCCTGGTGGTGTAGTGGAACAGATTAAAGCTATGACAGCGAATCTTATTTCCCCCACATT
196 TACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACAGCGAATCTCGTTTCCCCAACATT
*
27205803 GCAATTA
261 GCAATTT
27205810 AAAAGATTGAAG
1 AAAAGATTGAAG
27205822 ATATCAGGTC
Statistics
Matches: 492, Mismatches: 54, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
267 492 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (267 bp):
AAAAGATTGAAGCCGCAACGGTGAATCTTATTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
CGACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTAGAGCAGATTAAAGCT
GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATTAAAGCCGCAACGGCGAATCT
TACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACAGCGAATCTCGTTTCCCCAACATT
GCAATTT
Found at i:27205880 original size:44 final size:46
Alignment explanation
Indices: 27205829--27205948 Score: 138
Period size: 44 Copynumber: 2.7 Consensus size: 46
27205819 AAGATATCAG
* *
27205829 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACCGAATA-AAC-AA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGAAGATAACGAA
* * * * **
27205873 GTCTTATCCCCCTGAAGTTGCAGTGGGGTAGACTGAAGATGGCGAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGAAGATAACGAA
*
27205919 -TATTATCTCCCTGAAGTTGCAGTGGAGCAG
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
27205949 GTTAAAACTA
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
44 33 0.53
45 27 0.44
46 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (46 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGAAGATAACGAA
Found at i:27210155 original size:38 final size:38
Alignment explanation
Indices: 27210104--27210182 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
27210094 ACCAACCGTC
*
27210104 CCCCAAAAGACAAATCCAACAATAGGACTTAAACCTTA
1 CCCCAAAAGACAAATCCAACAATAGAACTTAAACCTTA
*
27210142 CCCCAAGAGACAAATCCAACAATAGAACTTAAACCTTA
1 CCCCAAAAGACAAATCCAACAATAGAACTTAAACCTTA
27210180 CCC
1 CCC
27210183 AACACCACGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.46, C:0.32, G:0.08, T:0.15
Consensus pattern (38 bp):
CCCCAAAAGACAAATCCAACAATAGAACTTAAACCTTA
Found at i:27210383 original size:16 final size:15
Alignment explanation
Indices: 27210351--27210393 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
27210341 GAATGAAGGG
*
27210351 AAAAAAAATAAGCAA
1 AAAAAAAAAAAGCAA
*
27210366 AACAAAAAAAAAGTAA
1 AA-AAAAAAAAAGCAA
27210382 AAAATAAAAAAA
1 AAAA-AAAAAAA
27210394 TTTCAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.84, C:0.05, G:0.05, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAAAGCAA
Found at i:27210385 original size:18 final size:18
Alignment explanation
Indices: 27210351--27210393 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
27210341 GAATGAAGGG
27210351 AAAAAAAATAAGCAAAACA
1 AAAAAAAATAA-CAAAACA
*
27210370 AAAAAAAAGTAA-AAAATA
1 AAAAAAAA-TAACAAAACA
27210388 AAAAAA
1 AAAAAA
27210394 TTTCAAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 11 0.50
19 8 0.36
20 3 0.14
ACGTcount: A:0.84, C:0.05, G:0.05, T:0.07
Consensus pattern (18 bp):
AAAAAAAATAACAAAACA
Found at i:27215566 original size:27 final size:27
Alignment explanation
Indices: 27215536--27215597 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
27215526 ATAATAATAC
*
27215536 AAATATTGAAAGT-TCAGATATCACATT
1 AAATATTGAAAGTATAAG-TATCACATT
*
27215563 AAATATTTTAAAGTATAAGTATCACATT
1 AAATA-TTGAAAGTATAAGTATCACATT
*
27215591 AGATATT
1 AAATATT
27215598 TTATAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 7 0.23
28 20 0.67
29 3 0.10
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (27 bp):
AAATATTGAAAGTATAAGTATCACATT
Found at i:27217262 original size:15 final size:15
Alignment explanation
Indices: 27217242--27217275 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27217232 GAAAATGATA
27217242 TATTCTT-TAATATCT
1 TATTCTTCTAA-ATCT
27217257 TATTCTTCTAAATCT
1 TATTCTTCTAAATCT
27217272 TATT
1 TATT
27217276 ATTTTGTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTCTTCTAAATCT
Found at i:27221739 original size:24 final size:24
Alignment explanation
Indices: 27221712--27221897 Score: 153
Period size: 24 Copynumber: 7.6 Consensus size: 24
27221702 CAGCTCGCAA
* *
27221712 GAGCGTCCCGTTATTAGCTCTTAT
1 GAGCTTCCCGTTATTGGCTCTTAT
* * *
27221736 GAGCATCTCGATATTGGCTCTCT-T
1 GAGCTTCCCGTTATTGGCTCT-TAT
* * * * *
27221760 GAGCTTCCTGATATTTGGGTCTCAC
1 GAGCTTCCCGTTA-TTGGCTCTTAT
*
27221785 GAGCTTCCCGTTATTTAGCTCTTAT
1 GAGCTTCCCGTTA-TTGGCTCTTAT
*
27221810 GAGCATT-CTGTTATATGGCTCTTAT
1 GAGC-TTCCCGTTAT-TGGCTCTTAT
* **
27221835 GAGCTTCCCGATATTGGCTCACAT
1 GAGCTTCCCGTTATTGGCTCTTAT
27221859 GAGCTTCCCGATTA-TGGCTCTTAT
1 GAGCTTCCCG-TTATTGGCTCTTAT
27221883 GAGCTTCCCGATTAT
1 GAGCTTCCCG-TTAT
27221898 ATGCTCACAT
Statistics
Matches: 129, Mismatches: 25, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
24 71 0.55
25 56 0.43
26 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCTTAT
Found at i:27221850 original size:99 final size:98
Alignment explanation
Indices: 27221728--27221915 Score: 243
Period size: 99 Copynumber: 1.9 Consensus size: 98
27221718 CCCGTTATTA
* * * * * *
27221728 GCTCTTATGAGCATCTCGATATTGGCTCTCTTGAGCTTCCTGATATTTGGGTCTCACGAGCTTCC
1 GCTCTTATGAGCATCCCGATATTGGCTCACATGAGCTTCCCGAT-TATGGCTCTCACGAGCTTCC
* **
27221793 CG-TTATTTAGCTCTTATGAGCATTCTGTTATATG
65 CGATTATAT-GCTCACATGAGCATTCTGTTATATG
* * *
27221827 GCTCTTATGAGCTTCCCGATATTGGCTCACATGAGCTTCCCGATTATGGCTCTTATGAGCTTCCC
1 GCTCTTATGAGCATCCCGATATTGGCTCACATGAGCTTCCCGATTATGGCTCTCACGAGCTTCCC
27221892 GATTATATGCTCACATGAGCATTC
66 GATTATATGCTCACATGAGCATTC
27221916 CTGAATATGA
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
98 32 0.42
99 44 0.58
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (98 bp):
GCTCTTATGAGCATCCCGATATTGGCTCACATGAGCTTCCCGATTATGGCTCTCACGAGCTTCCC
GATTATATGCTCACATGAGCATTCTGTTATATG
Found at i:27221907 original size:49 final size:49
Alignment explanation
Indices: 27221728--27221916 Score: 170
Period size: 49 Copynumber: 3.8 Consensus size: 49
27221718 CCCGTTATTA
* * * * * *
27221728 GCTCTTATGAGCATCTCGATATTGGCTCTCTTGAGC-TTCCTGATATTTG
1 GCTCTTATGAGCTTCCCGATATTGGCTCACATGAGCATTCCCGAT-TATG
* * * * * ** * *
27221777 GGTCTCACGAGCTTCCCGTTATTTAGCTCTTATGAGCATT-CTGTTATATG
1 GCTCTTATGAGCTTCCCGATA-TTGGCTCACATGAGCATTCCCGAT-TATG
27221827 GCTCTTATGAGCTTCCCGATATTGGCTCACATGAGC-TTCCCGATTATG
1 GCTCTTATGAGCTTCCCGATATTGGCTCACATGAGCATTCCCGATTATG
27221875 GCTCTTATGAGCTTCCCGATTATAT-GCTCACATGAGCATTCC
1 GCTCTTATGAGCTTCCCGA-TAT-TGGCTCACATGAGCATTCC
27221917 TGAATATGAA
Statistics
Matches: 114, Mismatches: 20, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
48 25 0.22
49 45 0.39
50 42 0.37
51 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.37
Consensus pattern (49 bp):
GCTCTTATGAGCTTCCCGATATTGGCTCACATGAGCATTCCCGATTATG
Found at i:27225606 original size:18 final size:18
Alignment explanation
Indices: 27225585--27225621 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
27225575 TGAGTTTTCG
27225585 AATTTGAATAACTCGAAT
1 AATTTGAATAACTCGAAT
*
27225603 AATTTGAATAATTCGAAT
1 AATTTGAATAACTCGAAT
27225621 A
1 A
27225622 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (18 bp):
AATTTGAATAACTCGAAT
Found at i:27247293 original size:328 final size:328
Alignment explanation
Indices: 27246914--27249390 Score: 4954
Period size: 328 Copynumber: 7.6 Consensus size: 328
27246904 GCCCGAATAT
27246914 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
1 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
27246979 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
66 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
27247044 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
131 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
27247109 AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
196 AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
27247174 TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
261 TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
27247239 AAA
326 AAA
27247242 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
1 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
27247307 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
66 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
27247372 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
131 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
27247437 AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
196 AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
27247502 TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
261 TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
27247567 AAA
326 AAA
27247570 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
1 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
27247635 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
66 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
27247700 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
131 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
27247765 AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
196 AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
27247830 TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
261 TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
27247895 AAA
326 AAA
27247898 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
1 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
27247963 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
66 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
27248028 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
131 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
27248093 AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
196 AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
27248158 TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
261 TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
27248223 AAA
326 AAA
27248226 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
1 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
27248291 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
66 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
27248356 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
131 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
27248421 AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
196 AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
27248486 TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
261 TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
27248551 AAA
326 AAA
27248554 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
1 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
27248619 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
66 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
27248684 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
131 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
27248749 AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
196 AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
27248814 TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
261 TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
27248879 AAA
326 AAA
27248882 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
1 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
27248947 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
66 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
27249012 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
131 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
27249077 AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
196 AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
27249142 TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
261 TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
27249207 AAA
326 AAA
27249210 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
1 AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
27249275 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
66 ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
27249340 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCC
131 GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCC
27249391 AGGCCTAGGA
Statistics
Matches: 2149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
328 2149 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (328 bp):
AATAAATATATATTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTATTTTTAAAATAA
ATTTTTGGTGTTTATTAAAAAATGGGTCGGGCTGGGCCGAGATCGGGCTTAAAATTTTTTTCTTG
GGCCGGGTTTGGATAAAATTTCAAGCCCATATTTCGGGCCGGGCCCGGCCCGAAATATGGGCTTG
AAATTTTATCCAAACCCGGCCCAAGAAAAAAATTTTAAGCCCGATCTCGGCCCAGCCCGACCCAT
TTTTTAATAAACACCAAAAATTTATTTTAAAAATAAAAAAATATTTTAAAAGTATTTTAAAATTA
AAA
Found at i:27249893 original size:11 final size:11
Alignment explanation
Indices: 27249877--27249911 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
27249867 AACTAATCCT
27249877 CTCTCAATTTC
1 CTCTCAATTTC
*
27249888 CTCTCAATTTG
1 CTCTCAATTTC
*
27249899 CTCTCAAATTC
1 CTCTCAATTTC
27249910 CT
1 CT
27249912 TCCAAATTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.20, C:0.34, G:0.03, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:27249902 original size:22 final size:22
Alignment explanation
Indices: 27249876--27249929 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
27249866 AAACTAATCC
*
27249876 TCTCTCAATTTCC-TCTC-AATT
1 TCTCTCAAATTCCTTC-CAAATT
27249897 TGCTCTCAAATTCCTTCCAAATT
1 T-CTCTCAAATTCCTTCCAAATT
27249920 TCTCTCAAAT
1 TCTCTCAAAT
27249930 CCATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 1 0.03
22 21 0.72
23 7 0.24
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (22 bp):
TCTCTCAAATTCCTTCCAAATT
Found at i:27249928 original size:11 final size:11
Alignment explanation
Indices: 27249876--27249929 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
27249866 AAACTAATCC
27249876 TCTCTC-AATT
1 TCTCTCAAATT
27249886 TCCTCTC-AATT
1 T-CTCTCAAATT
27249897 TGCTCTCAAATT
1 T-CTCTCAAATT
*
27249909 CCT-TCCAAATT
1 TCTCT-CAAATT
27249920 TCTCTCAAAT
1 TCTCTCAAAT
27249930 CCATATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 2 0.05
11 30 0.81
12 5 0.14
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:27251289 original size:11 final size:11
Alignment explanation
Indices: 27251273--27251307 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
27251263 AACTAATCCT
27251273 CTCTCAATTTC
1 CTCTCAATTTC
*
27251284 CTCTCAATTTG
1 CTCTCAATTTC
*
27251295 CTCTCAAATTC
1 CTCTCAATTTC
27251306 CT
1 CT
27251308 TCCAAATTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.20, C:0.34, G:0.03, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:27251298 original size:22 final size:22
Alignment explanation
Indices: 27251272--27251325 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
27251262 CAACTAATCC
*
27251272 TCTCTCAATTTCC-TCTC-AATT
1 TCTCTCAAATTCCTTC-CAAATT
27251293 TGCTCTCAAATTCCTTCCAAATT
1 T-CTCTCAAATTCCTTCCAAATT
27251316 TCTCTCAAAT
1 TCTCTCAAAT
27251326 CCATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 1 0.03
22 21 0.72
23 7 0.24
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (22 bp):
TCTCTCAAATTCCTTCCAAATT
Found at i:27251324 original size:11 final size:11
Alignment explanation
Indices: 27251272--27251325 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
27251262 CAACTAATCC
27251272 TCTCTC-AATT
1 TCTCTCAAATT
27251282 TCCTCTC-AATT
1 T-CTCTCAAATT
27251293 TGCTCTCAAATT
1 T-CTCTCAAATT
*
27251305 CCT-TCCAAATT
1 TCTCT-CAAATT
27251316 TCTCTCAAAT
1 TCTCTCAAAT
27251326 CCATATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 2 0.05
11 30 0.81
12 5 0.14
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:27251493 original size:21 final size:22
Alignment explanation
Indices: 27251450--27251896 Score: 418
Period size: 21 Copynumber: 20.2 Consensus size: 22
27251440 TTTCAGCACT
*
27251450 AACCCT-AACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
27251471 AACTCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
27251493 AACCAT-AACCCTTAACTTAAT
1 AACCCTAAACCCTTAACTTAAA
* * * *
27251514 AACTCT-AACCCTAAAATTAAT
1 AACCCTAAACCCTTAACTTAAA
27251535 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
27251557 AACCATAAA-CCTTCAACTTAAAA
1 AACCCTAAACCCTT-AACTT-AAA
* * *
27251580 ACCCACTCCTTAACCATTAAATTAAA
1 A---AC-CCTAAACCCTTAACTTAAA
* *
27251606 AACCTTAAA-CCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
27251627 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
27251649 AACCCT-AGCCCTTAA-TTAAA
1 AACCCTAAACCCTTAACTTAAA
*
27251669 AACCCT-AACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
27251690 AACCCTAAACCCTTAA-TAAAA
1 AACCCTAAACCCTTAACTTAAA
*
27251711 TTATACCCTAAACCTTTAACTTAAA
1 --A-ACCCTAAACCCTTAACTTAAA
*
27251736 AACCCTAAACGTAACCATTAAATTAAA
1 AACCCTAAAC----CC-TTAACTTAAA
* *
27251763 AACCTTAAA-CCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
27251784 AACACT-AACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
27251805 AACCCTAAA-CCTTAACTTATTA
1 AACCCTAAACCCTTAACTTA-AA
27251827 AACCCT-AACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
*
27251847 AACCACTAAAACCTTAACTTAAAA
1 AACC-CTAAACCCTTAACTT-AAA
27251871 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
27251893 AACC
1 AACC
27251897 TTGAGGTTTT
Statistics
Matches: 358, Mismatches: 39, Indels: 57
0.79 0.09 0.13
Matches are distributed among these distances:
20 26 0.07
21 131 0.37
22 120 0.34
23 22 0.06
24 20 0.06
25 4 0.01
26 7 0.02
27 25 0.07
28 3 0.01
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.25
Consensus pattern (22 bp):
AACCCTAAACCCTTAACTTAAA
Found at i:27251751 original size:27 final size:27
Alignment explanation
Indices: 27251721--27251772 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
27251711 TTATACCCTA
* *
27251721 AACCTTTAACTTAAAAACCCTAAACGT
1 AACCATTAAATTAAAAACCCTAAACGT
*
27251748 AACCATTAAATTAAAAACCTTAAAC
1 AACCATTAAATTAAAAACCCTAAAC
27251773 CTTAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (27 bp):
AACCATTAAATTAAAAACCCTAAACGT
Found at i:27251769 original size:157 final size:156
Alignment explanation
Indices: 27251450--27251896 Score: 598
Period size: 157 Copynumber: 2.9 Consensus size: 156
27251440 TTTCAGCACT
* * * * *
27251450 AACCCTAACCCTTAAATTAAAAACTCTAAACCCTTAACTTAAAAACCATAACCCTTAACTTAATA
1 AACCTTAAACCTTAAATTAAAAACACTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAA
* * * * * *
27251515 ACTCTAACCCTAAAATTAATAACCCTAAACCCTTAACTTAAAAACCATAAACCTTCAACTTAAAA
66 ACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAACTAAAAAACCCTAAACCTTTAACTTAAAA
** *
27251580 ACCCACTCCTTAACCATTAAATTAAA
131 ACCCACAACGTAACCATTAAATTAAA
* *
27251606 AACCTTAAACCTTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAGCCCTTAA-TTAAAA
1 AACCTTAAACCTTAAATTAAAAACACTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAA
27251670 ACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAA-TAAAATTATACCCTAAACCTTTAACTTA
66 ACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAACTAAAA--A-ACCCTAAACCTTTAACTTA
27251734 AAAACCCTA-AACGTAACCATTAAATTAAA
128 AAAACCC-ACAACGTAACCATTAAATTAAA
* * *
27251763 AACCTTAAACCTTAAATTAAAAACACT-AACCCTTAAATTAAAAACCCTAAACCTTAACTTATTA
1 AACCTTAAACCTTAAATTAAAAACACTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTA-AA
* * *
27251827 AACCCTAACCCTTAACTT-AAAACCACTAAAACCTTAACTTAAAAAACCCTAAACCCTTAACTTA
65 AACCCTAACCCTTAAATTAAAAACC-CTAAACCCTTAAC-TAAAAAACCCTAAACCTTTAACTTA
27251891 AAAACC
128 AAAACC
27251897 TTGAGGTTTT
Statistics
Matches: 259, Mismatches: 23, Indels: 17
0.87 0.08 0.06
Matches are distributed among these distances:
154 4 0.02
155 38 0.15
156 81 0.31
157 100 0.39
158 31 0.12
160 5 0.02
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.25
Consensus pattern (156 bp):
AACCTTAAACCTTAAATTAAAAACACTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAA
ACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAACTAAAAAACCCTAAACCTTTAACTTAAAA
ACCCACAACGTAACCATTAAATTAAA
Found at i:27252020 original size:21 final size:21
Alignment explanation
Indices: 27251980--27252198 Score: 224
Period size: 21 Copynumber: 10.0 Consensus size: 21
27251970 AATGTTTTGA
27251980 CTAAACCCTTAACTTAAAAACC
1 CTAAA-CCTTAACTTAAAAACC
*
27252002 ATAAACCTTTAACTTAAAAACCTTAACC
1 CTAAACC-TTAACTT--AAA----AACC
* * *
27252030 CTAATCATTAAATTAAAAACC
1 CTAAACCTTAACTTAAAAACC
* *
27252051 CCAAACCTTAAATTAAAAACC
1 CTAAACCTTAACTTAAAAACC
*
27252072 CTAAACCTTAAATTAAAAACC
1 CTAAACCTTAACTTAAAAACC
*
27252093 CT-AACCATTAACTTTAAAACC
1 CTAAACC-TTAACTTAAAAACC
* *
27252114 CTAACCCTTAAATTAAAAACC
1 CTAAACCTTAACTTAAAAACC
* *
27252135 CTAAACCTTAACTTAATAATC
1 CTAAACCTTAACTTAAAAACC
*
27252156 CTAACCCTTAACTTAAAAACC
1 CTAAACCTTAACTTAAAAACC
27252177 CTAAAACCTTAACTTAAAAACC
1 CT-AAACCTTAACTTAAAAACC
27252199 TTAAGATTTT
Statistics
Matches: 165, Mismatches: 22, Indels: 20
0.80 0.11 0.10
Matches are distributed among these distances:
20 4 0.02
21 109 0.66
22 32 0.19
24 3 0.02
25 3 0.02
27 6 0.04
28 8 0.05
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (21 bp):
CTAAACCTTAACTTAAAAACC
Found at i:27252406 original size:114 final size:113
Alignment explanation
Indices: 27252206--27252476 Score: 472
Period size: 114 Copynumber: 2.4 Consensus size: 113
27252196 ACCTTAAGAT
27252206 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
*
27252271 AAATATTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
66 AAAAATTTT-ACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
*
27252320 TTTTACTAACCATTAATACAATTATTAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
27252385 AAAAACTGTTT-CTGGTACTAACAATTAATAATTTGATATAATTTGATAA
66 AAAAA-T-TTTACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
*
27252434 TTTTACTAACCATTAATACAATTTATCAATTAATAATTTTACA
1 TTTTACTAACCATTAATACAA-TTATCAGTTAATAATTTTACA
27252477 AATATAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
114 127 0.85
115 20 0.13
116 3 0.02
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (113 bp):
TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
AAAAATTTTACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
Found at i:27255700 original size:124 final size:125
Alignment explanation
Indices: 27255480--27256011 Score: 780
Period size: 125 Copynumber: 4.3 Consensus size: 125
27255470 CCCAAACATG
** * *
27255480 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTAATTTCTCAAATTCTTCTCAAATGGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
27255545 TAGAAGCGATTTTATACTATTTGCTCAAAAACATCAAGTCGAAATTATTT-TTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAGTCGAAATTATTTCTTTCAGGAC
* * * *
27255604 CTACTTTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCATAAAATCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
27255669 TAAAAGCGATTTTATACTATTTGCTCAAAAACGTCAAGTCGAAATTATTTCTTTCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAGTCGAAATTATTTCTTTCAGGAC
* ** *
27255729 TTACTGTAGCAAAAGCATGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
27255794 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTTCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAGTCGAAATTATTTCTTTCAGGAC
* ** * *
27255854 TTACTGTAGCAAAAGCATGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
27255919 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTT-TTTCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAGTCGAAATTATTTCTTTCAGGAC
* * * * *
27255978 CTCCTGTAGTAAAAGTGCGTACACGTGGGCGCGA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA
27256012 CTTATTTGTT
Statistics
Matches: 371, Mismatches: 36, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
124 140 0.38
125 231 0.62
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAGTCGAAATTATTTCTTTCAGGAC
Found at i:27256010 original size:249 final size:249
Alignment explanation
Indices: 27255480--27256011 Score: 778
Period size: 249 Copynumber: 2.1 Consensus size: 249
27255470 CCCAAACATG
** * * *
27255480 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTAATTTCTCAAATTCTTCTCAAATGGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
* *
27255545 TAGAAGCGATTTTATACTATTTGCTCAAAAACATCAAGTCGAAATTATTTTTCCAGGACCTACTT
66 TAGAAGCAATTTTATACTATTTGCTCAAAAACATCAAGTCGAAATTATTTTTCCAGGACCTACTG
* * * *
27255610 TAGCAAAAGCGCGTCCACGAAGGCGCGATTTCATAAAATCTTCTCAAATAGCATCCTGCTAAAAG
131 TAGCAAAAGCACGTCCACGAAGGCGCGATTTCACAAAATCTTATCAAACAGCATCCTGCTAAAAG
* *
27255675 CGATTTTATACTATTTGCTCAAAAACGTCAAGTCGAAATTATTTCTTTCAGGAC
196 CGATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTATTTCTTTCAGGAC
* **
27255729 TTACTGTAGCAAAAGCATGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
* * * *
27255794 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTTCAGGACTTACT
66 TAGAAGCAATTTTATACTATTTGCTCAAAAACATCAAGTCGAAATTATTT-TTCCAGGACCTACT
* * * *
27255859 GTAGCAAAAGCATGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAA
130 GTAGCAAAAGCACGTCCACGAAGGCGCGATTTCACAAAATCTTATCAAACAGCATCCTGCTAAAA
*
27255924 GCGATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTT-TTTCAGGAC
195 GCGATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTATTTCTTTCAGGAC
* * * * *
27255978 CTCCTGTAGTAAAAGTGCGTACACGTGGGCGCGA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA
27256012 CTTATTTGTT
Statistics
Matches: 249, Mismatches: 33, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
249 139 0.56
250 110 0.44
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (249 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
TAGAAGCAATTTTATACTATTTGCTCAAAAACATCAAGTCGAAATTATTTTTCCAGGACCTACTG
TAGCAAAAGCACGTCCACGAAGGCGCGATTTCACAAAATCTTATCAAACAGCATCCTGCTAAAAG
CGATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTATTTCTTTCAGGAC
Found at i:27256057 original size:7 final size:7
Alignment explanation
Indices: 27256045--27256075 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
27256035 AAAACCCTAA
27256045 AAACCCT
1 AAACCCT
*
27256052 AAACCCC
1 AAACCCT
27256059 AAACCCT
1 AAACCCT
27256066 AAACCCT
1 AAACCCT
27256073 AAA
1 AAA
27256076 ATCCAAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.48, C:0.42, G:0.00, T:0.10
Consensus pattern (7 bp):
AAACCCT
Found at i:27256081 original size:21 final size:22
Alignment explanation
Indices: 27256036--27256082 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
27256026 TTTTTCTCCA
*
27256036 AAACCCTAAAAACCCTAAACCCC
1 AAACCCT-AAAACCCTAAAACCC
*
27256059 AAACCCT-AAACCCTAAAATCC
1 AAACCCTAAAACCCTAAAACCC
27256080 AAA
1 AAA
27256083 AACCTAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.68
23 7 0.32
ACGTcount: A:0.51, C:0.38, G:0.00, T:0.11
Consensus pattern (22 bp):
AAACCCTAAAACCCTAAAACCC
Found at i:27256940 original size:12 final size:12
Alignment explanation
Indices: 27256923--27256997 Score: 54
Period size: 12 Copynumber: 6.6 Consensus size: 12
27256913 CTATAAGATA
27256923 AATATTAAATTT
1 AATATTAAATTT
*
27256935 AATATTAAA-AT
1 AATATTAAATTT
*
27256946 -A-ATT-ACTTT
1 AATATTAAATTT
27256955 AATATTAAATTT
1 AATATTAAATTT
*
27256967 AAT-TTAATATTA
1 AATATTAA-ATTT
*
27256979 AACTATTAAA-AT
1 AA-TATTAAATTT
27256991 AATATTA
1 AATATTA
27256998 TTTTTGGAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
8 1 0.02
9 4 0.08
10 2 0.04
11 13 0.27
12 23 0.47
13 2 0.04
14 4 0.08
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
AATATTAAATTT
Found at i:27256955 original size:20 final size:18
Alignment explanation
Indices: 27256930--27256980 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
27256920 ATAAATATTA
27256930 AATTTAATATTAAAATAATT
1 AATTTAATATTAAAAT--TT
*
27256950 ACTTTAATATT-AAATTT
1 AATTTAATATTAAAATTT
27256967 AATTTAATATTAAA
1 AATTTAATATTAAA
27256981 CTATTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 12 0.43
18 2 0.07
19 4 0.14
20 10 0.36
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTAATATTAAAATTT
Found at i:27258610 original size:14 final size:14
Alignment explanation
Indices: 27258591--27258625 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
27258581 GCTATACATG
*
27258591 CAAAATACGAAAGA
1 CAAAATACAAAAGA
27258605 CAAAATACAAAAGA
1 CAAAATACAAAAGA
*
27258619 CATAATA
1 CAAAATA
27258626 GTGAAATGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.66, C:0.14, G:0.09, T:0.11
Consensus pattern (14 bp):
CAAAATACAAAAGA
Found at i:27261143 original size:117 final size:117
Alignment explanation
Indices: 27260976--27261192 Score: 312
Period size: 117 Copynumber: 1.9 Consensus size: 117
27260966 CAGTAATACC
* * * * *
27260976 TTTATGGTGAATTTTGTTTGGCCTTTGTGGCACATTCTATTGGCCATTGTGGCGTACTTT-TGCT
1 TTTATGGTAAATTATGTTTGGCATTTGTGACACATTCTATTGGCCATTGTGACGT-CTTTCTGCT
*
27261040 AAGCCTATATGGTGTATCCTATATGTCGCCTTTGTGGCATATTCTGTTTGATG
65 AAGCCTATATGGCGTATCCTATATGTCGCCTTTGTGGCATATTCTGTTTGATG
* * *
27261093 TTTATGGTAAATTATGTTTGGCATTTGTGACGCATTCTGTTGGTCC-TTGTGACGTTTTTCTGCT
1 TTTATGGTAAATTATGTTTGGCATTTGTGACACATTCTATTGG-CCATTGTGACGTCTTTCTGCT
*
27261157 AAGCCTATGTGGCGTATCCTATATGTCGCCTTTGTG
65 AAGCCTATATGGCGTATCCTATATGTCGCCTTTGTG
27261193 ACGCATTATA
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
116 3 0.03
117 83 0.94
118 2 0.02
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.44
Consensus pattern (117 bp):
TTTATGGTAAATTATGTTTGGCATTTGTGACACATTCTATTGGCCATTGTGACGTCTTTCTGCTA
AGCCTATATGGCGTATCCTATATGTCGCCTTTGTGGCATATTCTGTTTGATG
Found at i:27261195 original size:71 final size:71
Alignment explanation
Indices: 27261116--27261260 Score: 209
Period size: 71 Copynumber: 2.0 Consensus size: 71
27261106 ATGTTTGGCA
* * ** *
27261116 TTTGTGACGCATTCTGTTGGTCCTTGTGACGTTTTTCTGCTAAGCCTATGTGGCGTATCCTATAT
1 TTTGTGACGCATTATATTGGTCCTTGTGACGTACTTCTGCTAAGCCTATGTGGCGTATCATATAT
*
27261181 GTCGCC
66 GTCACC
* * *
27261187 TTTGTGACGCATTATATTGGTTCTTGTGGCGTACTTCTGCTAAGCTTATGTGGCGTATCATATAT
1 TTTGTGACGCATTATATTGGTCCTTGTGACGTACTTCTGCTAAGCCTATGTGGCGTATCATATAT
27261252 GTCACC
66 GTCACC
27261258 TTT
1 TTT
27261261 ATGGTGTATT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (71 bp):
TTTGTGACGCATTATATTGGTCCTTGTGACGTACTTCTGCTAAGCCTATGTGGCGTATCATATAT
GTCACC
Found at i:27262200 original size:161 final size:161
Alignment explanation
Indices: 27261931--27262252 Score: 565
Period size: 161 Copynumber: 2.0 Consensus size: 161
27261921 AATTCACTAA
* *
27261931 GCTCATGTAACTTATAAATGTTTTTTTTATGTTTCAGGTTATGCTGTATGAATGAGACCACCTGG
1 GCTCATGTAACTTATAAATGTTTTGTTTATGTTTCAGGTTATGCTGTATGAATGAGACCACCTAG
** * *
27261996 AGAGACAAGTCAGCTGTACACCATAGAAACGGCGATTTGGGATATTATGCATATAGTGGACATCT
66 AGAGACAAGTCAGCTGTACACCATAGAAACGAAGATCTGGGATATTATGCATACAGTGGACATCT
27262061 TTAGATTTTGGCATATTGTAGGATTATGTCC
131 TTAGATTTTGGCATATTGTAGGATTATGTCC
*
27262092 GCTCATGTAACTTATAAATGTTTTGTTTATGTTTCAGGTTATGCTGTATGAATGAGACCGCCTAG
1 GCTCATGTAACTTATAAATGTTTTGTTTATGTTTCAGGTTATGCTGTATGAATGAGACCACCTAG
27262157 AGAGACAAGTCAG-TAGTACACCATAGAAACGAAGATCTGGGATATTATGCATACAGTGGACATC
66 AGAGACAAGTCAGCT-GTACACCATAGAAACGAAGATCTGGGATATTATGCATACAGTGGACATC
27262221 TTTAGATTTTGGCATATTGTAGGATTATGTCC
130 TTTAGATTTTGGCATATTGTAGGATTATGTCC
27262253 TGAGAGTCTG
Statistics
Matches: 153, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
160 1 0.01
161 152 0.99
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.34
Consensus pattern (161 bp):
GCTCATGTAACTTATAAATGTTTTGTTTATGTTTCAGGTTATGCTGTATGAATGAGACCACCTAG
AGAGACAAGTCAGCTGTACACCATAGAAACGAAGATCTGGGATATTATGCATACAGTGGACATCT
TTAGATTTTGGCATATTGTAGGATTATGTCC
Found at i:27265356 original size:26 final size:25
Alignment explanation
Indices: 27265334--27265382 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
27265324 AAACTTCCCT
*
27265334 ATTAAAGGCTCTTTGTGAGCTTCCAG
1 ATTAAAGGCTCTCT-TGAGCTTCCAG
*
27265360 ATTAATGGCTCTCTTGAGCTTCC
1 ATTAAAGGCTCTCTTGAGCTTCC
27265383 TAATATGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (25 bp):
ATTAAAGGCTCTCTTGAGCTTCCAG
Found at i:27265411 original size:23 final size:23
Alignment explanation
Indices: 27265364--27265417 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
27265354 TTCCAGATTA
* * *
27265364 ATGGCTCTCTTGAGCTTCCTAAT
1 ATGGCTCGCTTGAACTTCCCAAT
27265387 ATGGCTCGCTTGAACTTCCCGATAT
1 ATGGCTCGCTTGAACTTCCC-A-AT
27265412 ATGGCT
1 ATGGCT
27265418 ATCCGGAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 17 0.65
24 1 0.04
25 8 0.31
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (23 bp):
ATGGCTCGCTTGAACTTCCCAAT
Found at i:27265429 original size:25 final size:25
Alignment explanation
Indices: 27265401--27265466 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
27265391 CTCGCTTGAA
*
27265401 CTTCCCGA-TATATGGCTATCCGGAG
1 CTTCCCGATTA-ATGGCTATCCGAAG
* *
27265426 CTTCCCGATTAATGGCTCTTCGAAG
1 CTTCCCGATTAATGGCTATCCGAAG
*
27265451 CTTCCC-ATTATTGGCT
1 CTTCCCGATTAATGGCT
27265467 CGCATGAGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 9 0.25
25 25 0.69
26 2 0.06
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.33
Consensus pattern (25 bp):
CTTCCCGATTAATGGCTATCCGAAG
Found at i:27266194 original size:2 final size:2
Alignment explanation
Indices: 27266187--27266223 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
27266177 ACATTTTGAG
*
27266187 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27266224 AGTATATGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27267073 original size:26 final size:25
Alignment explanation
Indices: 27267051--27267099 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
27267041 AAACTTCCCT
*
27267051 ATTAAAGGCTCTTTGTGAGCTTCCAG
1 ATTAAAGGCTCTCT-TGAGCTTCCAG
*
27267077 ATTAATGGCTCTCTTGAGCTTCC
1 ATTAAAGGCTCTCTTGAGCTTCC
27267100 TAATATGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (25 bp):
ATTAAAGGCTCTCTTGAGCTTCCAG
Found at i:27267128 original size:23 final size:23
Alignment explanation
Indices: 27267081--27267134 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
27267071 TTCCAGATTA
* * *
27267081 ATGGCTCTCTTGAGCTTCCTAAT
1 ATGGCTCGCTTGAACTTCCCAAT
27267104 ATGGCTCGCTTGAACTTCCCGATAT
1 ATGGCTCGCTTGAACTTCCC-A-AT
27267129 ATGGCT
1 ATGGCT
27267135 ATCCGGAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 17 0.65
24 1 0.04
25 8 0.31
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (23 bp):
ATGGCTCGCTTGAACTTCCCAAT
Found at i:27267146 original size:25 final size:25
Alignment explanation
Indices: 27267118--27267183 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
27267108 CTCGCTTGAA
*
27267118 CTTCCCGA-TATATGGCTATCCGGAG
1 CTTCCCGATTA-ATGGCTATCCGAAG
* *
27267143 CTTCCCGATTAATGGCTCTTCGAAG
1 CTTCCCGATTAATGGCTATCCGAAG
*
27267168 CTTCCC-ATTATTGGCT
1 CTTCCCGATTAATGGCT
27267184 CGCATGAGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 9 0.25
25 25 0.69
26 2 0.06
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.33
Consensus pattern (25 bp):
CTTCCCGATTAATGGCTATCCGAAG
Found at i:27272542 original size:16 final size:16
Alignment explanation
Indices: 27272514--27272546 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27272504 AGAAAATCCC
27272514 TTTTTTTTCATTTTCA
1 TTTTTTTTCATTTTCA
27272530 TTTTCTTTT-ATTTTCA
1 TTTT-TTTTCATTTTCA
27272546 T
1 T
27272547 CATTTCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTTTCATTTTCA
Found at i:27272570 original size:24 final size:24
Alignment explanation
Indices: 27272525--27272570 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
27272515 TTTTTTTCAT
* *
27272525 TTTCATTTTCTTTTATTTTCATCA
1 TTTCATTTTCTTTTACTATCATCA
* *
27272549 TTTCATTTTTTTTTCCTATCAT
1 TTTCATTTTCTTTTACTATCAT
27272571 TCTAATTTTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTCATTTTCTTTTACTATCATCA
Found at i:27273771 original size:25 final size:25
Alignment explanation
Indices: 27273739--27273789 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
27273729 TGCAAAAAAG
27273739 AATATGAGAAATGCAGTGAAGTGAA
1 AATATGAGAAATGCAGTGAAGTGAA
27273764 AATATGAGAAATGCAGTGAAGTGAA
1 AATATGAGAAATGCAGTGAAGTGAA
27273789 A
1 A
27273790 CTAGACTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.04, G:0.27, T:0.20
Consensus pattern (25 bp):
AATATGAGAAATGCAGTGAAGTGAA
Found at i:27275033 original size:2 final size:2
Alignment explanation
Indices: 27275026--27275050 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27275016 ATCAATCAAC
27275026 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
27275051 TTCTTTTTGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27276824 original size:38 final size:38
Alignment explanation
Indices: 27276757--27276834 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 38
27276747 TATCCTTTAT
27276757 TAAAAAAAAGCAAATGATAATCCTTAGTAATGCCTTCCA
1 TAAAAAAAAGCAAATGATAAT-CTTAGTAATGCCTTCCA
* * *
27276796 TAAAAAAAATCGAATGATAAT-TTAAGTAATGTCTTCCA
1 TAAAAAAAAGCAAATGATAATCTT-AGTAATGCCTTCCA
27276834 T
1 T
27276835 GAATTAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 2 0.06
38 14 0.40
39 19 0.54
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.29
Consensus pattern (38 bp):
TAAAAAAAAGCAAATGATAATCTTAGTAATGCCTTCCA
Found at i:27278562 original size:20 final size:20
Alignment explanation
Indices: 27278520--27278565 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
27278510 ATATTTTACG
* **
27278520 ATTTTT-ATAATTTTTTTCT
1 ATTTTTAATAAATTTTTTAA
27278539 ATTTTTAATAAATTTTTTAA
1 ATTTTTAATAAATTTTTTAA
27278559 ATTTTTA
1 ATTTTTA
27278566 TTATAAGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTTAATAAATTTTTTAA
Found at i:27278593 original size:8 final size:9
Alignment explanation
Indices: 27278520--27278614 Score: 52
Period size: 9 Copynumber: 10.2 Consensus size: 9
27278510 ATATTTTACG
27278520 ATTTTTATA
1 ATTTTTATA
* *
27278529 ATTTTTTTCT
1 ATTTTTAT-A
27278539 ATTTTTAATAA
1 ATTTTT-AT-A
27278550 ATTTTT-TAA
1 ATTTTTAT-A
*
27278559 ATTTTTATT
1 ATTTTTATA
**
27278568 ATAAGTTATA
1 AT-TTTTATA
27278578 ATTTTTATA
1 ATTTTTATA
*
27278587 A-TTTTATTG
1 ATTTTTA-TA
27278596 ATTTTTAT-
1 ATTTTTATA
*
27278604 ATTTTTTTA
1 ATTTTTATA
27278613 AT
1 AT
27278615 AAATTTTTGT
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
8 12 0.18
9 29 0.44
10 18 0.27
11 7 0.11
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (9 bp):
ATTTTTATA
Found at i:27282872 original size:23 final size:23
Alignment explanation
Indices: 27282842--27282885 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
27282832 CAGTGCCATT
27282842 AGTGCCACTTTCATTTGCACCGA
1 AGTGCCACTTTCATTTGCACCGA
27282865 AGTGCCACTTTCATTTGCACC
1 AGTGCCACTTTCATTTGCACC
27282886 AATCATGTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (23 bp):
AGTGCCACTTTCATTTGCACCGA
Found at i:27283238 original size:17 final size:17
Alignment explanation
Indices: 27283216--27283251 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
27283206 AATCTAGATA
27283216 TTTTATACCTTGGCATG
1 TTTTATACCTTGGCATG
27283233 TTTTATACCTTGGCATG
1 TTTTATACCTTGGCATG
27283250 TT
1 TT
27283252 AAAGACATAG
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:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (17 bp):
TTTTATACCTTGGCATG
Found at i:27283547 original size:11 final size:11
Alignment explanation
Indices: 27283531--27283555 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27283521 ATTTTTTAAC
27283531 TTTAAAATACT
1 TTTAAAATACT
27283542 TTTAAAATACT
1 TTTAAAATACT
27283553 TTT
1 TTT
27283556 TTTTAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAATACT
Found at i:27283576 original size:41 final size:40
Alignment explanation
Indices: 27283515--27283664 Score: 214
Period size: 40 Copynumber: 3.7 Consensus size: 40
27283505 AATATTTTTA
* *
27283515 TTTTTT-A-TTTTTTAACTTTAAAATACTTTTAAAATACTT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC-T
*
27283554 TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
27283594 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
27283634 TTTTTTAATTTTTATTTTAATTTTTAAAATA
1 TTTTTTAA--TTT-TTTTAA-TTTTAAAATA
27283665 AATTTTTGGT
Statistics
Matches: 101, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
39 6 0.06
40 49 0.49
41 27 0.27
42 3 0.03
43 6 0.06
44 10 0.10
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (40 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:27283607 original size:8 final size:9
Alignment explanation
Indices: 27283553--27283614 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 9
27283543 TTAAAATACT
27283553 TTTTTTTAA
1 TTTTTTTAA
27283562 TTTTTTTAA
1 TTTTTTTAA
**
27283571 -TTTTAAAA
1 TTTTTTTAA
27283579 TTTTTTTAAAATA
1 TTTTTTT---A-A
27283592 CTTTTTTTAA
1 -TTTTTTTAA
27283602 TTTTTTTAA
1 TTTTTTTAA
27283611 TTTT
1 TTTT
27283615 AAAATATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
8 6 0.14
9 26 0.60
10 1 0.02
11 1 0.02
12 1 0.02
13 1 0.02
14 7 0.16
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTTTAA
Done.