Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 85 of 163
Found at i:23830600 original size:26 final size:26
Alignment explanation
Indices: 23830571--23830629 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
23830561 CACCCAGTAA
*
23830571 TGTCACTGCATCAACATGTCTAAAAT
1 TGTCACTGCATCAACATGTCCAAAAT
* * *
23830597 TGTCGCTGCATGAACATGTCCAGAAT
1 TGTCACTGCATCAACATGTCCAAAAT
23830623 TGTCACT
1 TGTCACT
23830630 CAGAATTGTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (26 bp):
TGTCACTGCATCAACATGTCCAAAAT
Found at i:23831437 original size:16 final size:16
Alignment explanation
Indices: 23831416--23831446 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23831406 TTGTGGATCC
23831416 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
23831432 CATTTTATCTTTATT
1 CATTTTACCTTTATT
23831447 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:23834390 original size:37 final size:36
Alignment explanation
Indices: 23834339--23834436 Score: 124
Period size: 37 Copynumber: 2.7 Consensus size: 36
23834329 TAATGTCACT
*
23834339 ACATGAGCACTTCTAGATTGCGCCCAAAACTGTCGTC
1 ACATGAGCACTTCTAGATTGCACCCAAAACTGTCG-C
*
23834376 ACATGAGCAGTTCTAGATTGCACCCAAAACTGTCGC
1 ACATGAGCACTTCTAGATTGCACCCAAAACTGTCGC
** * *
23834412 AGCATGAATATTTCTAGAATGCACC
1 A-CATGAGCACTTCTAGATTGCACC
23834437 GAAGACTATC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 2 0.04
37 52 0.96
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (36 bp):
ACATGAGCACTTCTAGATTGCACCCAAAACTGTCGC
Found at i:23834449 original size:37 final size:35
Alignment explanation
Indices: 23834386--23834499 Score: 95
Period size: 37 Copynumber: 3.1 Consensus size: 35
23834376 ACATGAGCAG
* * * *
23834386 TTCTAGATTGCACCCAAAACTGTCGCAGCATGAATA
1 TTCTAGAATGCA-CCAAGACTATCGCAGCATAAATA
*
23834422 TTTCTAGAATGCACCGAAGACTATCGCATCATAAATA
1 -TTCTAGAATGCACC-AAGACTATCGCAGCATAAATA
** *
23834459 TTCTTCAATTGCATCCAAGACTATCGCTA-CATAAGTA
1 TTCTAGAA-TGCA-CCAAGACTATCGC-AGCATAAATA
23834496 TTCT
1 TTCT
23834500 TCAATTGCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
36 8 0.12
37 54 0.83
38 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (35 bp):
TTCTAGAATGCACCAAGACTATCGCAGCATAAATA
Found at i:23834500 original size:37 final size:37
Alignment explanation
Indices: 23834438--23834508 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
23834428 GAATGCACCG
23834438 AAGACTATCGCATCATAAATATTCTTCAATTGCATCC
1 AAGACTATCGCATCATAAATATTCTTCAATTGCATCC
*
23834475 AAGACTATCGC-TACATAAGTATTCTTCAATTGCA
1 AAGACTATCGCAT-CATAAATATTCTTCAATTGCA
23834509 CCCAGGAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 1 0.03
37 31 0.97
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (37 bp):
AAGACTATCGCATCATAAATATTCTTCAATTGCATCC
Found at i:23834523 original size:37 final size:37
Alignment explanation
Indices: 23834431--23834523 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
23834421 ATTTCTAGAA
* *
23834431 TGCACCGAAGACTATCGC-ATCATAAATATTCTTCAAT
1 TGCACCCAAGAATATCGCTA-CATAAATATTCTTCAAT
* * *
23834468 TGCATCCAAGACTATCGCTACATAAGTATTCTTCAAT
1 TGCACCCAAGAATATCGCTACATAAATATTCTTCAAT
* *
23834505 TGCACCCAGGAATGTCGCT
1 TGCACCCAAGAATATCGCT
23834524 GGATGAACAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 47 0.98
38 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (37 bp):
TGCACCCAAGAATATCGCTACATAAATATTCTTCAAT
Found at i:23834546 original size:26 final size:26
Alignment explanation
Indices: 23834517--23834570 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
23834507 CACCCAGGAA
* *
23834517 TGTCGCTGGATGAACATGTCCAGAAT
1 TGTCACTGCATGAACATGTCCAGAAT
* *
23834543 TGTCACTGCATGAACGTGTCTAGAAT
1 TGTCACTGCATGAACATGTCCAGAAT
23834569 TG
1 TG
23834571 GGCCCAGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (26 bp):
TGTCACTGCATGAACATGTCCAGAAT
Found at i:23835398 original size:16 final size:16
Alignment explanation
Indices: 23835377--23835407 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23835367 TTGTGGATCC
23835377 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
23835393 CATTTTATCTTTATT
1 CATTTTACCTTTATT
23835408 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:23837478 original size:156 final size:156
Alignment explanation
Indices: 23837194--23837506 Score: 563
Period size: 156 Copynumber: 2.0 Consensus size: 156
23837184 CAATTTTGAG
* *
23837194 TTAAAAATTGATTATGTTTCAAATGTTAAATTCAAATAGGTAGTATGTTGGTTTGCTTCATGAGG
1 TTAAAAACTGATTATGTTTCAAATGTTAAATTCAAATAGGTAGTATGTTGGTTTGCCTCATGAGG
*
23837259 ATGTGAGAGAACATCTTAAATCTTTTCTACTAATTTGTGCTTCTTTTAGTCAGCATGGCGTTCCT
66 ATGCGAGAGAACATCTTAAATCTTTTCTACTAATTTGTGCTTCTTTTAGTCAGCATGGCGTTCCT
**
23837324 AATGATGTGTTGAAAATGCAACTATT
131 AATGATGCATTGAAAATGCAACTATT
*
23837350 TTAAAAACTGATTATGTTTCAAATGTTAAATTCGAATAGGTAGTATGTTGGTTTGCCTCATGAGG
1 TTAAAAACTGATTATGTTTCAAATGTTAAATTCAAATAGGTAGTATGTTGGTTTGCCTCATGAGG
*
23837415 ATGCGAGAGAGCATCTTAAATCTTTTCTACTAATTTGTGCTTCTTTTAGTCAGCATGGCGTTCCT
66 ATGCGAGAGAACATCTTAAATCTTTTCTACTAATTTGTGCTTCTTTTAGTCAGCATGGCGTTCCT
23837480 AATGATGCATTGAAAATGCAACTATT
131 AATGATGCATTGAAAATGCAACTATT
23837506 T
1 T
23837507 CCTTACTCAT
Statistics
Matches: 150, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 150 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (156 bp):
TTAAAAACTGATTATGTTTCAAATGTTAAATTCAAATAGGTAGTATGTTGGTTTGCCTCATGAGG
ATGCGAGAGAACATCTTAAATCTTTTCTACTAATTTGTGCTTCTTTTAGTCAGCATGGCGTTCCT
AATGATGCATTGAAAATGCAACTATT
Found at i:23850022 original size:25 final size:25
Alignment explanation
Indices: 23849994--23850043 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
23849984 AATCTTTGGC
23849994 ATAGAAATCATTCATTGAAAAAACT
1 ATAGAAATCATTCATTGAAAAAACT
*
23850019 ATAGAAATCATTCGTTGAAAAAACT
1 ATAGAAATCATTCATTGAAAAAACT
23850044 TACATAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (25 bp):
ATAGAAATCATTCATTGAAAAAACT
Found at i:23860323 original size:40 final size:40
Alignment explanation
Indices: 23860268--23860346 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
23860258 TACACTCTCA
23860268 TGGTCAAGCAGTTAAATCCAAGAATAAACAGATGAGAAGG
1 TGGTCAAGCAGTTAAATCCAAGAATAAACAGATGAGAAGG
23860308 TGGTCAAGCAGTTAAATCCAAGAATAAACAGATGAGAAG
1 TGGTCAAGCAGTTAAATCCAAGAATAAACAGATGAGAAG
23860347 AATTAAGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.18
Consensus pattern (40 bp):
TGGTCAAGCAGTTAAATCCAAGAATAAACAGATGAGAAGG
Found at i:23868268 original size:15 final size:14
Alignment explanation
Indices: 23868244--23868273 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
23868234 AAAATTCCTC
23868244 ATAGCAAGGGAGTT
1 ATAGCAAGGGAGTT
23868258 ATAGACAAGGGAGTT
1 ATAG-CAAGGGAGTT
23868273 A
1 A
23868274 CAACAACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (14 bp):
ATAGCAAGGGAGTT
Found at i:23874135 original size:15 final size:16
Alignment explanation
Indices: 23874110--23874146 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
23874100 AAAATCACAA
23874110 AAAGA-AAGAAAA-AG
1 AAAGAGAAGAAAAGAG
23874124 AAAGAGAAGAAAAGAG
1 AAAGAGAAGAAAAGAG
23874140 AAA-AGAA
1 AAAGAGAA
23874147 AAGGAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 11 0.52
16 5 0.24
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
AAAGAGAAGAAAAGAG
Found at i:23874149 original size:12 final size:11
Alignment explanation
Indices: 23874109--23874147 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
23874099 AAAAATCACA
23874109 AAAAGAAAGA-
1 AAAAGAAAGAG
23874119 AAAAGAAAGAG
1 AAAAGAAAGAG
*
23874130 AAGA-AAAGAG
1 AAAAGAAAGAG
23874140 AAAAGAAA
1 AAAAGAAA
23874148 AGGAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 19 0.76
11 6 0.24
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAAAGAAAGAG
Found at i:23886463 original size:11 final size:11
Alignment explanation
Indices: 23886447--23886471 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23886437 TAATTTTTTA
23886447 AATTTTGACAT
1 AATTTTGACAT
23886458 AATTTTGACAT
1 AATTTTGACAT
23886469 AAT
1 AAT
23886472 CTTTCCCAAG
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:0.08, T:0.44
Consensus pattern (11 bp):
AATTTTGACAT
Found at i:23888755 original size:26 final size:26
Alignment explanation
Indices: 23888695--23888748 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
23888685 ATTTTTGGTG
23888695 CAATTCTGGACACGTTCATGCAGCGA
1 CAATTCTGGACACGTTCATGCAGCGA
* *
23888721 CAATTCTGGACATGTTCATGCAGTGA
1 CAATTCTGGACACGTTCATGCAGCGA
23888747 CA
1 CA
23888749 TTCCTGGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
CAATTCTGGACACGTTCATGCAGCGA
Found at i:23891012 original size:26 final size:26
Alignment explanation
Indices: 23890974--23891027 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
23890964 TTACTACTAA
* *
23890974 TGTCGCTGTATGAGCATGTCCAGAAT
1 TGTCGCTGCATGAGCACGTCCAGAAT
*
23891000 TGTCGCTGCATGAGCACGTCTAGAAT
1 TGTCGCTGCATGAGCACGTCCAGAAT
23891026 TG
1 TG
23891028 CGTCTAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (26 bp):
TGTCGCTGCATGAGCACGTCCAGAAT
Found at i:23891033 original size:12 final size:13
Alignment explanation
Indices: 23891016--23891044 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
23891006 TGCATGAGCA
23891016 CGTCTAGAATTG-
1 CGTCTAGAATTGT
23891028 CGTCTAGAATTGT
1 CGTCTAGAATTGT
23891041 CGTC
1 CGTC
23891045 GCATCTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (13 bp):
CGTCTAGAATTGT
Found at i:23900469 original size:26 final size:26
Alignment explanation
Indices: 23900431--23900510 Score: 106
Period size: 26 Copynumber: 3.1 Consensus size: 26
23900421 TTACTACTAA
* * *
23900431 TGTCACTGTATGAACATGTCTAGAAT
1 TGTCGCTGCATGAACATGTCCAGAAT
23900457 TGTCGCTGCATGAACATGTCCAGAAT
1 TGTCGCTGCATGAACATGTCCAGAAT
* * *
23900483 TGTCGTTGCATGAGCACGTCCAGAAT
1 TGTCGCTGCATGAACATGTCCAGAAT
23900509 TG
1 TG
23900511 CGTCCAGAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (26 bp):
TGTCGCTGCATGAACATGTCCAGAAT
Found at i:23900516 original size:12 final size:13
Alignment explanation
Indices: 23900499--23900527 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
23900489 TGCATGAGCA
23900499 CGTCCAGAATTG-
1 CGTCCAGAATTGT
23900511 CGTCCAGAATTGT
1 CGTCCAGAATTGT
23900524 CGTC
1 CGTC
23900528 GCAATTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.28
Consensus pattern (13 bp):
CGTCCAGAATTGT
Found at i:23905457 original size:18 final size:18
Alignment explanation
Indices: 23905434--23905472 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
23905424 ATGTTTAGCT
23905434 TTTATAAGGAATTAAAAG
1 TTTATAAGGAATTAAAAG
23905452 TTTATAAGGAATTAAAAG
1 TTTATAAGGAATTAAAAG
23905470 TTT
1 TTT
23905473 TATGGTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (18 bp):
TTTATAAGGAATTAAAAG
Found at i:23908468 original size:53 final size:52
Alignment explanation
Indices: 23908359--23908472 Score: 126
Period size: 53 Copynumber: 2.2 Consensus size: 52
23908349 GCTCTAGGAG
* * * *
23908359 GACTGATTCGGTGTATATAAGGGAGTGTTGAGCTTATGTCTCCACTCAATGG
1 GACTGATTCGATGTATATAAAGGAGTGTTGAGCTTATGGCTCCACTCAATGA
*
23908411 GACTGATTTGATGTGATATAAAGGAGTGTGTG-GCTT-TGGC-CCACTCAATCCGA
1 GACTGATTCGATGT-ATATAAAGGAGTGT-TGAGCTTATGGCTCCACTCAAT--GA
23908464 GACTGATTC
1 GACTGATTC
23908473 TAATTCTGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
51 9 0.17
52 15 0.29
53 26 0.50
54 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (52 bp):
GACTGATTCGATGTATATAAAGGAGTGTTGAGCTTATGGCTCCACTCAATGA
Found at i:23922604 original size:34 final size:35
Alignment explanation
Indices: 23922566--23922638 Score: 98
Period size: 34 Copynumber: 2.1 Consensus size: 35
23922556 TTATTTCCAA
23922566 AAAAAAAAGAGAAAAA-AAAAAAAAAAAGAAAAAG
1 AAAAAAAAGAGAAAAAGAAAAAAAAAAAGAAAAAG
* *
23922600 --AAAAAAGGGAAAAAGGAAAAAAAGAAAGAAAAAG
1 AAAAAAAAGAGAAAAA-GAAAAAAAAAAAGAAAAAG
23922634 AAAAA
1 AAAAA
23922639 GGAGAGGTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
32 13 0.39
34 17 0.52
36 3 0.09
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (35 bp):
AAAAAAAAGAGAAAAAGAAAAAAAAAAAGAAAAAG
Found at i:23923684 original size:49 final size:50
Alignment explanation
Indices: 23923536--23924147 Score: 198
Period size: 50 Copynumber: 12.4 Consensus size: 50
23923526 ACCGAGGAAA
* ** * * * **
23923536 CATAG-AGATATAAAGGGAAAGGTTGAGGCCGTAATGGTGAACCTTATAC
1 CATAGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGTAAATCTGGTAC
* ** * * * **** *
23923585 CTTAGAAGACGTGAAGGGAAAGATCGAGGCCGCAACGACGGATCTAGTAC
1 CATAGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGTAAATCTGGTAC
*
23923635 CATAG-AGATATAAAGGGAAAGGTTGAGGCCACAACGG-AGAA-CTCGGTAC
1 CATAGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGTA-AATCT-GGTAC
* * * *
23923684 CTTAGAAGATGTGATGGG-AAGGATTGAGGCTACAACGGTAAATCTGGTAC
1 CATAGAAGATATGAAGGGAAAGG-TTGAGGCCACAACGGTAAATCTGGTAC
* * *** * * *
23923734 AAT-GAAGATATGAAGGGAAAGGTTGATGCTGTAACGGTGAACCCGGTAC
1 CATAGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGTAAATCTGGTAC
* * * *** * ** *
23923783 CTTAGAAGATGTGATGGG-AAGGATTGAGGTTGCTACGGCGAATCTGATAC
1 CATAGAAGATATGAAGGGAAAGG-TTGAGGCCACAACGGTAAATCTGGTAC
* * * *
23923833 CGT-GAAG--A-GAAGGGAAAGGTTGAGGTCGCAACGGCAAA-CTCGGTAC
1 CATAGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGTAAATCT-GGTAC
* * * * * ** ** * *
23923879 CTTAGAAGATGTGATGGGAACGATTGATCCCGTAACGGTGAATTTGGTAC
1 CATAGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGTAAATCTGGTAC
* * *** * **
23923929 CAT-GAAGATATGAAGGGAAAGGTTGAGGTCGCAACGACGAACCCAGTAC
1 CATAGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGTAAATCTGGTAC
* * * * * ** * * *
23923978 CTTAGAAGTTGTGATGGG-AAGGATCGAGGCCGGAACGATGAATCTAGTAC
1 CATAGAAGATATGAAGGGAAAGG-TTGAGGCCACAACGGTAAATCTGGTAC
* * *** ** * *
23924028 CATGGAA-ATATAAAAGGGAAAGGTTGAGGTTGCAACGGCGAACCTTGTAC
1 CATAGAAGATAT-GAAGGGAAAGGTTGAGGCCACAACGGTAAATCTGGTAC
* * * * * * *
23924078 CCTAGAA-ATAAAT-ATGGGAAAGATTGAGGCCGCGATGGTAAATCTGATAC
1 CATAGAAGAT--ATGAAGGGAAAGGTTGAGGCCACAACGGTAAATCTGGTAC
23924128 CAT-GAAGATATGAAGGGAAA
1 CATAGAAGATATGAAGGGAAA
23924148 AAGGTTAAAG
Statistics
Matches: 413, Mismatches: 125, Indels: 50
0.70 0.21 0.09
Matches are distributed among these distances:
45 2 0.00
46 27 0.07
47 8 0.02
48 4 0.01
49 134 0.32
50 228 0.55
51 8 0.02
52 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.20
Consensus pattern (50 bp):
CATAGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGTAAATCTGGTAC
Found at i:23923713 original size:50 final size:49
Alignment explanation
Indices: 23923653--23924014 Score: 215
Period size: 50 Copynumber: 7.4 Consensus size: 49
23923643 TATAAAGGGA
*
23923653 AAGGTTGAGGCCACAACGGAGAACTCGGTACCTTAGAAGATGTGATGGG
1 AAGGTTGAGGCCGCAACGGAGAACTCGGTACCTTAGAAGATGTGATGGG
** ** * *
23923702 AAGGATTGAGGCTACAACGGTA-AA-TCTGGTACAAT-GAAGATATGAAGGG
1 AAGG-TTGAGGCCGCAACGG-AGAACTC-GGTACCTTAGAAGATGTGATGGG
* * * * *
23923751 AAAGGTTGATGCTGTAACGGTGAACCCGGTACCTTAGAAGATGTGATGGG
1 -AAGGTTGAGGCCGCAACGGAGAACTCGGTACCTTAGAAGATGTGATGGG
** * * * * *
23923801 AAGGATTGAGGTTGCTACGGCGAA-TCTGATACCGT-GAAGA---GAAGGG
1 AAGG-TTGAGGCCGCAACGGAGAACTC-GGTACCTTAGAAGATGTGATGGG
*
23923847 AAAGGTTGAGGTCGCAACGGCA-AACTCGGTACCTTAGAAGATGTGATGGG
1 -AAGGTTGAGGCCGCAACGG-AGAACTCGGTACCTTAGAAGATGTGATGGG
* ** * * * * * * *
23923897 AACGATTGATCCCGTAACGGTGAATTTGGTACCAT-GAAGATATGAAGGG
1 AA-GGTTGAGGCCGCAACGGAGAACTCGGTACCTTAGAAGATGTGATGGG
* * * *
23923946 AAAGGTTGAGGTCGCAAC-GACGAACCCAGTACCTTAGAAGTTGTGATGGG
1 -AAGGTTGAGGCCGCAACGGA-GAACTCGGTACCTTAGAAGATGTGATGGG
* *
23923996 AAGGATCGAGGCCGGAACG
1 AAGG-TTGAGGCCGCAACG
23924015 ATGAATCTAG
Statistics
Matches: 233, Mismatches: 57, Indels: 44
0.70 0.17 0.13
Matches are distributed among these distances:
46 26 0.11
47 11 0.05
48 1 0.00
49 85 0.36
50 109 0.47
51 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.20
Consensus pattern (49 bp):
AAGGTTGAGGCCGCAACGGAGAACTCGGTACCTTAGAAGATGTGATGGG
Found at i:23923713 original size:99 final size:98
Alignment explanation
Indices: 23923540--23924147 Score: 512
Period size: 99 Copynumber: 6.2 Consensus size: 98
23923530 AGGAAACATA
* * * *** * *
23923540 GAGATATAAAGGGAAAGGTTGAGGCCGTAATGGTGAACCTTATACCTTAGAAGACGTGAAGGGAA
1 GAGATATAAAGGGAAAGGTTGAGGCCGCAACGGAGAACCCGGTACCTTAGAAGATGTGATGGGAA
* * ** *
23923605 AGATCGAGGCCGCAACGACGGATCTAGTACCAT
66 GGATTGAGGCCGCAACGGTGAATCTAGTACCAT
* *
23923638 AGAGATATAAAGGGAAAGGTTGAGGCCACAACGGAGAACTCGGTACCTTAGAAGATGTGATGGGA
1 -GAGATATAAAGGGAAAGGTTGAGGCCGCAACGGAGAACCCGGTACCTTAGAAGATGTGATGGGA
** * * *
23923703 AGGATTGAGGCTACAACGGTAAATCTGGTACAAT
65 AGGATTGAGGCCGCAACGGTGAATCTAGTACCAT
* * * * *
23923737 GAAGATATGAAGGGAAAGGTTGATGCTGTAACGGTGAACCCGGTACCTTAGAAGATGTGATGGGA
1 G-AGATATAAAGGGAAAGGTTGAGGCCGCAACGGAGAACCCGGTACCTTAGAAGATGTGATGGGA
** * * *
23923802 AGGATTGAGGTTGCTACGGCGAATCT-GATACCGT
65 AGGATTGAGGCCGCAACGGTGAATCTAG-TACCAT
* * * *
23923836 GA-AGA-GAAGGGAAAGGTTGAGGTCGCAACGGCA-AACTCGGTACCTTAGAAGATGTGATGGGA
1 GAGATATAAAGGGAAAGGTTGAGGCCGCAACGG-AGAACCCGGTACCTTAGAAGATGTGATGGGA
* ** * * *
23923898 ACGATTGATCCCGTAACGGTGAATTTGGTACCAT
65 AGGATTGAGGCCGCAACGGTGAATCTAGTACCAT
* * * *
23923932 GAAGATATGAAGGGAAAGGTTGAGGTCGCAAC-GACGAACCCAGTACCTTAGAAGTTGTGATGGG
1 G-AGATATAAAGGGAAAGGTTGAGGCCGCAACGGA-GAACCCGGTACCTTAGAAGATGTGATGGG
* * *
23923996 AAGGATCGAGGCCGGAACGATGAATCTAGTACCAT
64 AAGGATTGAGGCCGCAACGGTGAATCTAGTACCAT
* ** * ** * *
23924031 GGAAATATAAAAGGGAAAGGTTGAGGTTGCAACGGCGAACCTTGTACCCTAGAA-ATAAAT-ATG
1 -GAGATAT-AAAGGGAAAGGTTGAGGCCGCAACGGAGAACCCGGTACCTTAGAAGAT--GTGATG
* * * *
23924094 GGAAAGATTGAGGCCGCGATGGTAAATCT-GATACCAT
62 GGAAGGATTGAGGCCGCAACGGTGAATCTAG-TACCAT
*
23924131 GAAGATATGAAGGGAAA
1 G-AGATATAAAGGGAAA
23924148 AAGGTTAAAG
Statistics
Matches: 412, Mismatches: 81, Indels: 32
0.78 0.15 0.06
Matches are distributed among these distances:
96 73 0.18
97 5 0.01
98 6 0.01
99 252 0.61
100 74 0.18
101 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (98 bp):
GAGATATAAAGGGAAAGGTTGAGGCCGCAACGGAGAACCCGGTACCTTAGAAGATGTGATGGGAA
GGATTGAGGCCGCAACGGTGAATCTAGTACCAT
Found at i:23923886 original size:195 final size:195
Alignment explanation
Indices: 23923647--23924006 Score: 526
Period size: 195 Copynumber: 1.8 Consensus size: 195
23923637 TAGAGATATA
*
23923647 AAGGGAAAGGTTGAGGCCACAACGGAGAACTCGGTACCTTAGAAGATGTGATGGGAAGGATTGAG
1 AAGGGAAAGGTTGAGGCCACAACGGAGAACTCGGTACCTTAGAAGATGTGATGGGAACGATTGAG
* * * **
23923712 GCTACAACGGTAAATCTGGTACAATGAAGATATGAAGGGAAAGGTTGATGCT-GTAACGGTGAAC
66 CCCACAACGGTAAATCTGGTACAATGAAGATATGAAGGGAAAGGTTGA-GCTCGCAACGACGAAC
* *
23923776 CCGGTACCTTAGAAGATGTGATGGGAAGGATTGAGGTTGCTACGGCGAATCTGATACCGTGAAGA
130 CCAGTACCTTAGAAGATGTGATGGGAAGGATCGAGGTTGCTACGGCGAATCTGATACCGTGAAGA
23923841 G
195 G
* *
23923842 AAGGGAAAGGTTGAGGTCGCAACGGCA-AACTCGGTACCTTAGAAGATGTGATGGGAACGATTGA
1 AAGGGAAAGGTTGAGGCCACAACGG-AGAACTCGGTACCTTAGAAGATGTGATGGGAACGATTGA
* ** * * * *
23923906 TCCCGTAACGGTGAATTTGGTACCATGAAGATATGAAGGGAAAGGTTGAGGTCGCAACGACGAAC
65 GCCCACAACGGTAAATCTGGTACAATGAAGATATGAAGGGAAAGGTTGAGCTCGCAACGACGAAC
*
23923971 CCAGTACCTTAGAAGTTGTGATGGGAAGGATCGAGG
130 CCAGTACCTTAGAAGATGTGATGGGAAGGATCGAGG
23924007 CCGGAACGAT
Statistics
Matches: 145, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
194 2 0.01
195 142 0.98
196 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (195 bp):
AAGGGAAAGGTTGAGGCCACAACGGAGAACTCGGTACCTTAGAAGATGTGATGGGAACGATTGAG
CCCACAACGGTAAATCTGGTACAATGAAGATATGAAGGGAAAGGTTGAGCTCGCAACGACGAACC
CAGTACCTTAGAAGATGTGATGGGAAGGATCGAGGTTGCTACGGCGAATCTGATACCGTGAAGAG
Found at i:23924027 original size:50 final size:50
Alignment explanation
Indices: 23923582--23924028 Score: 206
Period size: 50 Copynumber: 9.1 Consensus size: 50
23923572 GTGAACCTTA
* * * * * *
23923582 TACCTTAGAAGACGTGAAGGGAAAGATCGAGGCCGCAACGACGGATCTAG
1 TACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGATGAATCTAG
* * * * * *
23923632 TACCATAG-AGATATAAAGGGAAAGG-TTGAGGCCACAACGGA-GAA-CTCGG
1 TACCTTAGAAGATGTGATGGG-AAGGATTGAGGCCGCAAC-GATGAATCT-AG
** * * *
23923681 TACCTTAGAAGATGTGATGGGAAGGATTGAGGCTACAACGGTAAATCTGG
1 TACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGATGAATCTAG
** * * * * * * * **
23923731 TACAAT-GAAGATATGAAGGGAAAGG-TTGATGCTGTAACGGTGAACCCGG
1 TACCTTAGAAGATGTGATGGG-AAGGATTGAGGCCGCAACGATGAATCTAG
** * **
23923780 TACCTTAGAAGATGTGATGGGAAGGATTGAGGTTGCTACGGCGAATCT-G
1 TACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGATGAATCTAG
* * * * *
23923829 ATACCGT-GAAGA---GAAGGGAAAGG-TTGAGGTCGCAACG--GCAAACTCGG
1 -TACCTTAGAAGATGTGATGGG-AAGGATTGAGGCCGCAACGATG-AATCT-AG
* ** * * * *
23923876 TACCTTAGAAGATGTGATGGGAACGATTGATCCCGTAACGGTGAATTTGG
1 TACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGATGAATCTAG
* * * * * * *
23923926 TACCAT-GAAGATATGAAGGGAAAGG-TTGAGGTCGCAACGACGAACCCAG
1 TACCTTAGAAGATGTGATGGG-AAGGATTGAGGCCGCAACGATGAATCTAG
* * *
23923975 TACCTTAGAAGTTGTGATGGGAAGGATCGAGGCCGGAACGATGAATCTAG
1 TACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGATGAATCTAG
23924025 TACC
1 TACC
23924029 ATGGAAATAT
Statistics
Matches: 297, Mismatches: 75, Indels: 50
0.70 0.18 0.12
Matches are distributed among these distances:
44 1 0.00
45 4 0.01
46 22 0.07
47 10 0.03
48 2 0.01
49 117 0.39
50 135 0.45
51 5 0.02
52 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.32, T:0.20
Consensus pattern (50 bp):
TACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGATGAATCTAG
Found at i:23924411 original size:38 final size:38
Alignment explanation
Indices: 23924369--23925455 Score: 742
Period size: 38 Copynumber: 27.8 Consensus size: 38
23924359 ACACACCAGC
23924369 CTCTTACCCTAATCATGAGGCAGATTGAAGCATCCAAT
1 CTCTTACCCTAATCATGAGGCAGATTGAAGCATCCAAT
** *
23924407 CTCTTACCCCGATCATGAGGCAGATTGAAGACACACCAAT
1 CTCTTACCCTAATCATGAGGCAGATTGAAG-CA-TCCAAT
* * * * *
23924447 CTCATACCCTGATCATGGGGCAGATTGAAACATCAAAT
1 CTCTTACCCTAATCATGAGGCAGATTGAAGCATCCAAT
23924485 CT-TTACCCTAATCA-GAGGGCAGATTGAAGACATCATCCAAT
1 CTCTTACCCTAATCATGA-GGCAGATTGAAG----CATCCAAT
* ** *
23924526 CTTTTACCCCGATCAT-AGGACAAATTGAAGCATCCAAT
1 CTCTTACCCTAATCATGAGG-CAGATTGAAGCATCCAAT
*
23924564 CTTTTACCCTAATCA-GAGGGCAGATTGAAGACA-CACAAT
1 CTCTTACCCTAATCATGA-GGCAGATTGAAG-CATC-CAAT
** * ** *
23924603 CTCTTACCCCGAGCATGAGGCAGATCAAAGCATCCGAT
1 CTCTTACCCTAATCATGAGGCAGATTGAAGCATCCAAT
* * * *
23924641 CTTTTACCCTAATTA-GATGACAGATTGAAGACATCATCCGAT
1 CTCTTACCCTAATCATGA-GGCAGATTGAAG----CATCCAAT
* * * * * *
23924683 CTCTTACCTTGATCATGGGGTAGATTAAAGCATCCAGT
1 CTCTTACCCTAATCATGAGGCAGATTGAAGCATCCAAT
* * * *
23924721 CTTTTACCCTAATCA-GAGGGTAGATTAAAGACACACCAAT
1 CTCTTACCCTAATCATGA-GGCAGATTGAAG-CA-TCCAAT
** *
23924761 CTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAAT
1 CTCTTACCCTAATCATGAGGCAGATTGAAGCATCCAAT
* * *
23924799 CTTTTACCCTAATTA-GAGGGCAGATTGAAGACACACCAAT
1 CTCTTACCCTAATCATGA-GGCAGATTGAAG-CA-TCCAAT
*
23924839 CTCTTACCCCAATCATGAGGCAGATTGAAGCATCCAAT
1 CTCTTACCCTAATCATGAGGCAGATTGAAGCATCCAAT
* * * *
23924877 CTTTTACCCTAATTA-GAGGGTAGATTGAAGACACACCAAT
1 CTCTTACCCTAATCATGA-GGCAGATTGAAG-CA-TCCAAT
* * * *
23924917 CTTTTACTCTTATCATGGGGCAGATTGAAGCATCCAAT
1 CTCTTACCCTAATCATGAGGCAGATTGAAGCATCCAAT
* *
23924955 CT-TTACCCTAATCA-AAGGGCAGACTGAAGACATCATCCAAT
1 CTCTTACCCTAATCATGA-GGCAGATTGAAG----CATCCAAT
** * *
23924996 CTCTTACCCCGATCATGGGGCAGATTGAAGCATCTAAT
1 CTCTTACCCTAATCATGAGGCAGATTGAAGCATCCAAT
* * *
23925034 CTTTTACCTTAATCA-GAGGGCAAATTGAAGACA-CATCAAT
1 CTCTTACCCTAATCATGA-GGCAGATTGAAG-CATC--CAAT
* *
23925074 CTCTTACCCCAATCAT-AGAGCAGATTGAAGCATCCGAT
1 CTCTTACCCTAATCATGAG-GCAGATTGAAGCATCCAAT
* * * *
23925112 CTTTTACCCTAATCA-AAGGATAGATTGAAAAAATCATCCAAT
1 CTCTTACCCTAATCATGAGG-CAGATTG----AAGCATCCAAT
**
23925154 CTCTTACCCCGATCATG-GGCCAGATTGAAGCATCCAAT
1 CTCTTACCCTAATCATGAGG-CAGATTGAAGCATCCAAT
* * ** *
23925192 CTTTTACTCTAATCAAAAGGTAGATTGAAGACATACCAAT
1 CTCTTACCCTAATCATGAGGCAGATTGAAG-CAT-CCAAT
* ** *
23925232 CTCTTAACCGGATCATGGGGCAGATTGAAGCATCCAAT
1 CTCTTACCCTAATCATGAGGCAGATTGAAGCATCCAAT
* * * * *
23925270 ATTTTACCCTAATCA-GAGGGTAGATTGAAGACAAACAAAT
1 CTCTTACCCTAATCATGA-GGCAGATTGAAG-C-ATCCAAT
**
23925310 CTCTTACCCCGATCAT-AGGGCAGATTGAAGCATCCAAT
1 CTCTTACCCTAATCATGA-GGCAGATTGAAGCATCCAAT
* *
23925348 CT-TCTACCCTAATCA-GAGGGTAGATTGAAAACATACCAAT
1 CTCT-TACCCTAATCATGA-GGCAGATTG-AAGCAT-CCAAT
* * * *
23925388 CTCTTACCCTGACCATGGGGCAGATTAAAGCATCCAAT
1 CTCTTACCCTAATCATGAGGCAGATTGAAGCATCCAAT
* *
23925426 CAT-TTACCTTAATCA-GAGGGTAGATTGAAG
1 C-TCTTACCCTAATCATGA-GGCAGATTGAAG
23925456 ACACACAGAT
Statistics
Matches: 817, Mismatches: 162, Indels: 140
0.73 0.14 0.13
Matches are distributed among these distances:
36 1 0.00
37 53 0.06
38 344 0.42
39 72 0.09
40 221 0.27
41 27 0.03
42 98 0.12
43 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (38 bp):
CTCTTACCCTAATCATGAGGCAGATTGAAGCATCCAAT
Found at i:23924796 original size:78 final size:78
Alignment explanation
Indices: 23924359--23925474 Score: 1387
Period size: 78 Copynumber: 14.2 Consensus size: 78
23924349 AAGCGAAGCT
** ** * * **
23924359 ACACACCAGCCTCTTACCCTAATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCCGATCATG
1 ACACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCA-G
23924424 A-GGCAGATTGAAG
65 AGGGCAGATTGAAG
* * * *
23924437 ACACACCAATCTCATACCCTGATCATGGGGCAGATTGAAACATCAAATC-TTTACCCTAATCAGA
1 ACACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGA
23924501 GGGCAGATTGAAG
66 GGGCAGATTGAAG
* * * *
23924514 ACATCATCCAATCTTTTACCCCGATCATAGGACAAATTGAAGCATCCAATCTTTTACCCTAATCA
1 ACA-CA-CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCA
23924579 GAGGGCAGATTGAAG
64 GAGGGCAGATTGAAG
* * ** * *
23924594 ACACA-CAATCTCTTACCCCGAGCATGAGGCAGATCAAAGCATCCGATCTTTTACCCTAATTAGA
1 ACACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGA
* *
23924658 TGACAGATTGAAG
66 GGGCAGATTGAAG
* ** * * *
23924671 ACATCATCCGATCTCTTACCTTGATCATGGGGTAGATTAAAGCATCCAGTCTTTTACCCTAATCA
1 ACA-CA-CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCA
* *
23924736 GAGGGTAGATTAAAG
64 GAGGGCAGATTGAAG
*
23924751 ACACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATTAGA
1 ACACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGA
23924816 GGGCAGATTGAAG
66 GGGCAGATTGAAG
* * *
23924829 ACACACCAATCTCTTACCCCAATCATGAGGCAGATTGAAGCATCCAATCTTTTACCCTAATTAGA
1 ACACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGA
*
23924894 GGGTAGATTGAAG
66 GGGCAGATTGAAG
* * ** *
23924907 ACACACCAATCTTTTACTCTTATCATGGGGCAGATTGAAGCATCCAATC-TTTACCCTAATCAAA
1 ACACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGA
*
23924971 GGGCAGACTGAAG
66 GGGCAGATTGAAG
* *
23924984 ACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCTAATCTTTTACCTTAATCA
1 ACA-CA-CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCA
*
23925049 GAGGGCAAATTGAAG
64 GAGGGCAGATTGAAG
* * * * * *
23925064 ACACATCAATCTCTTACCCCAATCATAGAGCAGATTGAAGCATCCGATCTTTTACCCTAATCAAA
1 ACACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGA
** *
23925129 GGATAGATTGAAA
66 GGGCAGATTGAAG
* * *
23925142 AAATCATCCAATCTCTTACCCCGATCATGGGCCAGATTGAAGCATCCAATCTTTTACTCTAATCA
1 ACA-CA-CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCA
* * *
23925207 AAAGGTAGATTGAAG
64 GAGGGCAGATTGAAG
* * * *
23925222 ACATACCAATCTCTTAACCGGATCATGGGGCAGATTGAAGCATCCAATATTTTACCCTAATCAGA
1 ACACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGA
*
23925287 GGGTAGATTGAAG
66 GGGCAGATTGAAG
* * * *
23925300 ACAAACAAATCTCTTACCCCGATCATAGGGCAGATTGAAGCATCCAATCTTCTACCCTAATCAGA
1 ACACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGA
* *
23925365 GGGTAGATTGAAA
66 GGGCAGATTGAAG
* * * * * *
23925378 ACATACCAATCTCTTACCCTGACCATGGGGCAGATTAAAGCATCCAATCATTTACCTTAATCAGA
1 ACACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGA
*
23925443 GGGTAGATTGAAG
66 GGGCAGATTGAAG
*
23925456 ACACA-CAGATCTTTTACCC
1 ACACACCA-ATCTCTTACCC
23925475 AAAGAGGGGC
Statistics
Matches: 899, Mismatches: 126, Indels: 26
0.86 0.12 0.02
Matches are distributed among these distances:
76 2 0.00
77 117 0.13
78 512 0.57
79 84 0.09
80 184 0.20
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (78 bp):
ACACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGA
GGGCAGATTGAAG
Found at i:23925317 original size:471 final size:470
Alignment explanation
Indices: 23924369--23925458 Score: 1592
Period size: 471 Copynumber: 2.3 Consensus size: 470
23924359 ACACACCAGC
* * ** *
23924369 CTCTTACCCTAATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCCGATCATGA-GGCAGATT
1 CTCTTACCCCAATCATGAGGCAGATTGAAGCATCCAATCTTTTACCCTAATCA-GAGGGTAGATT
* * *
23924433 GAAGACACACCAATCTCATACCCTGATCATGGGGCAGATTGAAACATCAAATCTTTACCCTAATC
65 GAAGACACACCAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTACCCTAATC
*
23924498 AGAGGGCAGATTGAAGACATCATCCAATCTTTTACCCCGATCATAGGACAAATTGAAGCATCCAA
130 AGAGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATAGGACAAATTGAAGCATCCAA
* *
23924563 TCTTTTACCCTAATCAGAGGGCAGATTGAAGACACACAATCTCTTACCCCGAGCATGAGGCAGAT
195 TCTTTTACCCTAATCAGAGGGCAAATTGAAGACACACAATCTCTTACCCCAAGCATGAGGCAGAT
* * * * * * **
23924628 CAAAGCATCCGATCTTTTACCCTAATTAGATGACAGATTGAAGACATCATCCGATCTCTTACCTT
260 CAAAGCATCCGATCTTTTACCCTAATCAAAGGACAGATTGAAAAAATCATCCAATCTCTTACCCC
** * * *
23924693 GATCATGGGGTAGATTAAAGCATCCAGTCTTTTACCCTAATCAGAGGGTAGATTAAAGACACACC
325 GATCATGGGCCAGATTAAAGCATCCAATCTTTTACCCTAATCAAAAGGTAGATTAAAGACACACC
* * *
23924758 AATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATTAGAGGGCAGA
390 AATCTCTTAACCCGATCATGGGGCAGATTGAAGCATCCAATATTTTACCCTAATCAGAGGGCAGA
* *
23924823 TTGAAGACACACCAAT
455 TTGAAGACAAACAAAT
*
23924839 CTCTTACCCCAATCATGAGGCAGATTGAAGCATCCAATCTTTTACCCTAATTAGAGGGTAGATTG
1 CTCTTACCCCAATCATGAGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGTAGATTG
* * *
23924904 AAGACACACCAATCTTTTACTCTTATCATGGGGCAGATTGAAGCATCCAATCTTTACCCTAATCA
66 AAGACACACCAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTACCCTAATCA
* * * * * *
23924969 AAGGGCAGACTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCTAAT
131 GAGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATAGGACAAATTGAAGCATCCAAT
* *
23925034 CTTTTACCTTAATCAGAGGGCAAATTGAAGACACATCAATCTCTTACCCCAATCAT-AGAGCAGA
196 CTTTTACCCTAATCAGAGGGCAAATTGAAGACACA-CAATCTCTTACCCCAAGCATGAG-GCAGA
** *
23925098 TTGAAGCATCCGATCTTTTACCCTAATCAAAGGATAGATTGAAAAAATCATCCAATCTCTTACCC
259 TCAAAGCATCCGATCTTTTACCCTAATCAAAGGACAGATTGAAAAAATCATCCAATCTCTTACCC
* * * *
23925163 CGATCATGGGCCAGATTGAAGCATCCAATCTTTTACTCTAATCAAAAGGTAGATTGAAGACATAC
324 CGATCATGGGCCAGATTAAAGCATCCAATCTTTTACCCTAATCAAAAGGTAGATTAAAGACACAC
* *
23925228 CAATCTCTTAACCGGATCATGGGGCAGATTGAAGCATCCAATATTTTACCCTAATCAGAGGGTAG
389 CAATCTCTTAACCCGATCATGGGGCAGATTGAAGCATCCAATATTTTACCCTAATCAGAGGGCAG
23925293 ATTGAAGACAAACAAAT
454 ATTGAAGACAAACAAAT
* *
23925310 CTCTTACCCCGATCAT-AGGGCAGATTGAAGCATCCAATCTTCTACCCTAATCAGAGGGTAGATT
1 CTCTTACCCCAATCATGA-GGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGTAGATT
* * * * *
23925374 GAAAACATACCAATCTCTTACCCTGACCATGGGGCAGATTAAAGCATCCAATCATTTACCTTAAT
65 GAAGACACACCAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATC-TTTACCCTAAT
*
23925439 CAGAGGGTAGATTGAAGACA
129 CAGAGGGCAGATTGAAGACA
23925459 CACAGATCTT
Statistics
Matches: 551, Mismatches: 64, Indels: 8
0.88 0.10 0.01
Matches are distributed among these distances:
469 2 0.00
470 209 0.38
471 313 0.57
472 27 0.05
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (470 bp):
CTCTTACCCCAATCATGAGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGTAGATTG
AAGACACACCAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTACCCTAATCA
GAGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATAGGACAAATTGAAGCATCCAAT
CTTTTACCCTAATCAGAGGGCAAATTGAAGACACACAATCTCTTACCCCAAGCATGAGGCAGATC
AAAGCATCCGATCTTTTACCCTAATCAAAGGACAGATTGAAAAAATCATCCAATCTCTTACCCCG
ATCATGGGCCAGATTAAAGCATCCAATCTTTTACCCTAATCAAAAGGTAGATTAAAGACACACCA
ATCTCTTAACCCGATCATGGGGCAGATTGAAGCATCCAATATTTTACCCTAATCAGAGGGCAGAT
TGAAGACAAACAAAT
Found at i:23944380 original size:24 final size:21
Alignment explanation
Indices: 23944351--23944406 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
23944341 GCATTACTGA
23944351 AGTATCGGTAGTTCTGGAAATAGT
1 AGTATCGGTAG-TCT-G-AATAGT
* *
23944375 AGTATCGGCAGTCTGAATATT
1 AGTATCGGTAGTCTGAATAGT
*
23944396 TGTATCGGTAG
1 AGTATCGGTAG
23944407 AAGCTACAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 14 0.50
22 1 0.04
23 3 0.11
24 10 0.36
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.34
Consensus pattern (21 bp):
AGTATCGGTAGTCTGAATAGT
Found at i:23947973 original size:22 final size:22
Alignment explanation
Indices: 23947948--23948018 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
23947938 GTTTTGATAG
23947948 AATTTAAGGAGATATTGAGACA
1 AATTTAAGGAGATATTGAGACA
* * * * * *
23947970 AATTTGATGAAATAATGATAGA
1 AATTTAAGGAGATATTGAGACA
* *
23947992 AA-TCAAGGAGTTAATTGAGACA
1 AATTTAAGGAGAT-ATTGAGACA
23948014 AATTT
1 AATTT
23948019 GATGAGATTT
Statistics
Matches: 32, Mismatches: 15, Indels: 3
0.64 0.30 0.06
Matches are distributed among these distances:
21 5 0.16
22 26 0.81
23 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (22 bp):
AATTTAAGGAGATATTGAGACA
Found at i:23953528 original size:56 final size:56
Alignment explanation
Indices: 23953447--23953559 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
23953437 GATTGGGACA
* *
23953447 AATTTGATGAGATTTTATTTATTTCTTTCTTTAGGATTGAGTGAATCCATGATTAT
1 AATTTGATGAGATTTTATTTATTTCTTTCTCTAGGATTGAGTCAATCCATGATTAT
* *
23953503 AATTTGAAT-AGATTTTATTTCTTTCTTTCTCTAGGATTGAGTCAATCCTTGATTAT
1 AATTTG-ATGAGATTTTATTTATTTCTTTCTCTAGGATTGAGTCAATCCATGATTAT
23953559 A
1 A
23953560 GGGATTTTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 50 0.96
57 2 0.04
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.50
Consensus pattern (56 bp):
AATTTGATGAGATTTTATTTATTTCTTTCTCTAGGATTGAGTCAATCCATGATTAT
Found at i:23955549 original size:15 final size:15
Alignment explanation
Indices: 23955529--23955558 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23955519 TTTATTATTG
23955529 ATATTTAAAAATTAT
1 ATATTTAAAAATTAT
*
23955544 ATATTTTAAAATTAT
1 ATATTTAAAAATTAT
23955559 TTTAATATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTTAAAAATTAT
Found at i:23959555 original size:17 final size:15
Alignment explanation
Indices: 23959530--23959568 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
23959520 TTATGACATG
23959530 TAATATTTTTAATTAAA
1 TAATATTTTT-A-TAAA
*
23959547 TAATTTTTTTATAAA
1 TAATATTTTTATAAA
23959562 TAATATT
1 TAATATT
23959569 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.50
16 1 0.05
17 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATATTTTTATAAA
Found at i:23962005 original size:30 final size:30
Alignment explanation
Indices: 23961956--23962016 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
23961946 CTTACGAGAA
23961956 CGTTTAAGAACTTGAGAAGAC-CAGATATCT
1 CGTTTAAGAACTTGAGAAGACTC-GATATCT
* * *
23961986 CGTTTAGGAGCTTGGGAAGACTCGATATCT
1 CGTTTAAGAACTTGAGAAGACTCGATATCT
23962016 C
1 C
23962017 ATTCAGGATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (30 bp):
CGTTTAAGAACTTGAGAAGACTCGATATCT
Found at i:23966239 original size:14 final size:15
Alignment explanation
Indices: 23966220--23966248 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23966210 TCGGTGTTTT
23966220 ATTGTTCAT-TTATC
1 ATTGTTCATCTTATC
23966234 ATTGTTCATCTTATC
1 ATTGTTCATCTTATC
23966249 GTTATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (15 bp):
ATTGTTCATCTTATC
Found at i:23967281 original size:51 final size:51
Alignment explanation
Indices: 23967162--23967316 Score: 197
Period size: 51 Copynumber: 3.0 Consensus size: 51
23967152 TTTCATTTAA
** * *
23967162 TACTCACGATGACA-TATAGTCATCAGACCTCTTGTTTCGTATAGGAATTCATG
1 TACTCACGATGACACT-TAGTCATCAGACCTCTTAATCCGTA-AGG-ATTCATT
* **
23967215 TACTCACGATGACACTTAGTCATCGGACCTCACAATCCGTAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCAGACCTCTTAATCCGTAAGGATTCATT
23967266 TACTCACGATGACACTTAGTCATCAGACCT-TTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCAGACCTCTTAATCCGT-AAGGATTCATT
23967317 CTAGTCATCG
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
50 7 0.08
51 46 0.51
52 3 0.03
53 33 0.37
54 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCAGACCTCTTAATCCGTAAGGATTCATT
Found at i:23990344 original size:45 final size:43
Alignment explanation
Indices: 23990276--23990443 Score: 149
Period size: 45 Copynumber: 3.8 Consensus size: 43
23990266 CCGGAATGTT
* *
23990276 TAAGACCATAATTGAAAGATACTATGGCATCAAACCGAAAATATG
1 TAAGACCATAGTTGAAAGATACTATGGCATCAAACCG-GAATA-G
* * * *** **
23990321 TAAAACCATAGTTGAAAGATACTAGGGCATTATGTCGGCTTAAG
1 TAAGACCATAGTTGAAAGATACTATGGCATCAAACCGGAAT-AG
*
23990365 TAAGACCATAGTTGAAAGATACTATGGCAT-TAACTCGGGAATGAG
1 TAAGACCATAGTTGAAAGATACTATGGCATCAAAC-C-GGAAT-AG
* * *
23990410 TAAGATCGTAGTTGAAAGTTACTATGGCATCAAA
1 TAAGACCATAGTTGAAAGATACTATGGCATCAAA
23990444 TCATATATGT
Statistics
Matches: 96, Mismatches: 23, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
44 31 0.32
45 63 0.66
46 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (43 bp):
TAAGACCATAGTTGAAAGATACTATGGCATCAAACCGGAATAG
Found at i:23996564 original size:23 final size:24
Alignment explanation
Indices: 23996538--23996584 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
23996528 ACAATTCATT
23996538 TTTATCTTA-ATTTGC-TCTGACAA
1 TTTATCTTATATTTGCAT-TGACAA
*
23996561 TTTATTTTATATTTGCATTGACAA
1 TTTATCTTATATTTGCATTGACAA
23996585 ATTAACTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 12 0.57
25 1 0.05
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.51
Consensus pattern (24 bp):
TTTATCTTATATTTGCATTGACAA
Found at i:23998229 original size:18 final size:18
Alignment explanation
Indices: 23998205--23998255 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
23998195 GCAATCGGAT
23998205 CAGATGCAATCACAAAAC
1 CAGATGCAATCACAAAAC
* * * *
23998223 TAGATGCAGTCATACAAC
1 CAGATGCAATCACAAAAC
*
23998241 CAGATGCAACCACAA
1 CAGATGCAATCACAA
23998256 GTTCGAATGT
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.45, C:0.27, G:0.14, T:0.14
Consensus pattern (18 bp):
CAGATGCAATCACAAAAC
Found at i:24004135 original size:17 final size:18
Alignment explanation
Indices: 24004115--24004154 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
24004105 TGTATTTTAC
24004115 TTGTTAGTT-CATTTCCA
1 TTGTTAGTTGCATTTCCA
24004132 TTG-TAGTTGCATTTCCA
1 TTGTTAGTTGCATTTCCA
24004149 TTGTTA
1 TTGTTA
24004155 TTTGTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 14 0.67
18 2 0.10
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.53
Consensus pattern (18 bp):
TTGTTAGTTGCATTTCCA
Found at i:24009848 original size:67 final size:67
Alignment explanation
Indices: 24009771--24009898 Score: 247
Period size: 67 Copynumber: 1.9 Consensus size: 67
24009761 AAAATTACTA
24009771 AAATTGAGGTGTTAAAAATCAAAGAGAAAGAGAAAGGAAAAATTATTGAGAGAAAATGATATTGC
1 AAATTGAGGTGTTAAAAATCAAAGAGAAAGAGAAAGGAAAAATTATTGAGAGAAAATGATATTGC
24009836 TG
66 TG
*
24009838 AAATTGAGGTGTTAAAAATCGAAGAGAAAGAGAAAGGAAAAATTATTGAGAGAAAATGATA
1 AAATTGAGGTGTTAAAAATCAAAGAGAAAGAGAAAGGAAAAATTATTGAGAGAAAATGATA
24009899 GGATTAGAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.52, C:0.02, G:0.24, T:0.21
Consensus pattern (67 bp):
AAATTGAGGTGTTAAAAATCAAAGAGAAAGAGAAAGGAAAAATTATTGAGAGAAAATGATATTGC
TG
Found at i:24011988 original size:12 final size:12
Alignment explanation
Indices: 24011971--24011995 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24011961 TTGAAGATGC
24011971 AGTTATTCCATT
1 AGTTATTCCATT
24011983 AGTTATTCCATT
1 AGTTATTCCATT
24011995 A
1 A
24011996 TTCTTTGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (12 bp):
AGTTATTCCATT
Found at i:24023340 original size:52 final size:52
Alignment explanation
Indices: 24023265--24023515 Score: 376
Period size: 52 Copynumber: 4.8 Consensus size: 52
24023255 TCCTGTTCCA
* **
24023265 TAAAGGAATTCATGTACTCACGATGACACTTAGTCATCGGACCTCACCATCCG
1 TAAAGG-ATTCATTTACTCACGATGACACTTAGTCATCGGACCTCATAATCCG
* * * *
24023318 TAAAGGATTCATATACTCACGATGACACTTAGCCATCGGACCTTATAATCTG
1 TAAAGGATTCATTTACTCACGATGACACTTAGTCATCGGACCTCATAATCCG
*
24023370 TAAAGGATTCATTTACTCACGATGACACTTAGTCATTGGACCTCATAATCCG
1 TAAAGGATTCATTTACTCACGATGACACTTAGTCATCGGACCTCATAATCCG
* * *
24023422 TAAAAGATTCATTTACTCATGATGACACTTAGTCATCGGACCTCATAATCTG
1 TAAAGGATTCATTTACTCACGATGACACTTAGTCATCGGACCTCATAATCCG
* *
24023474 TAAAGGATTCATTTACTCACGATGACACTTAATCATCTGACC
1 TAAAGGATTCATTTACTCACGATGACACTTAGTCATCGGACC
24023516 CTTTTCATTT
Statistics
Matches: 179, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
52 173 0.97
53 6 0.03
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (52 bp):
TAAAGGATTCATTTACTCACGATGACACTTAGTCATCGGACCTCATAATCCG
Found at i:24024392 original size:20 final size:20
Alignment explanation
Indices: 24024361--24024402 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
24024351 GCTTTTATAA
24024361 TTAACCTAATTAATC-CACT
1 TTAACCTAATTAATCTCACT
24024380 TTAACCTTAATTAATCTCACT
1 TTAACC-TAATTAATCTCACT
24024401 TT
1 TT
24024403 TAAGAACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
20 9 0.43
21 6 0.29
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAACCTAATTAATCTCACT
Found at i:24027364 original size:3 final size:3
Alignment explanation
Indices: 24027356--24027394 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
24027346 GTAGTGTAGA
24027356 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24027395 TATTATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:24027399 original size:3 final size:3
Alignment explanation
Indices: 24027393--24027430 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
24027383 AATAATAATA
24027393 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
24027431 GAAAATGAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:24030118 original size:27 final size:26
Alignment explanation
Indices: 24030077--24030135 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
24030067 ATATTTGGAG
*
24030077 ATATTTTTCATTAATAAATTAGTTAA
1 ATATTTTTCATTAATAAATTACTTAA
* **
24030103 ATATTATTTTATTAATATTTTACTTAA
1 ATATT-TTTCATTAATAAATTACTTAA
24030130 ATATTT
1 ATATTT
24030136 ATTAACCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (26 bp):
ATATTTTTCATTAATAAATTACTTAA
Found at i:24035464 original size:19 final size:17
Alignment explanation
Indices: 24035429--24035467 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
24035419 GGGTGTTGAG
*
24035429 GAAGAGGAGGAAGAAGA
1 GAAGAGGAAGAAGAAGA
24035446 GAAGAGAGAAGAAGCAAGA
1 GAAGAG-GAAGAAG-AAGA
24035465 GAA
1 GAA
24035468 AAAGAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 6 0.32
19 7 0.37
ACGTcount: A:0.56, C:0.03, G:0.41, T:0.00
Consensus pattern (17 bp):
GAAGAGGAAGAAGAAGA
Found at i:24039722 original size:20 final size:21
Alignment explanation
Indices: 24039693--24039745 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
24039683 AAATCAACTT
* *
24039693 AAAATGATTTTAAAC-ATGTC
1 AAAATCATTTTAAACTAAGTC
* *
24039713 AAAATTA-TTTGAACTAAGTC
1 AAAATCATTTTAAACTAAGTC
24039733 AAAATCATTTTAA
1 AAAATCATTTTAA
24039746 CACTTAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 6 0.23
20 16 0.62
21 4 0.15
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (21 bp):
AAAATCATTTTAAACTAAGTC
Found at i:24045178 original size:6 final size:6
Alignment explanation
Indices: 24045167--24045199 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
24045157 ACATAAAAAG
24045167 AAAGAA AAAG-A AAAGAA AAAGAGA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGA-A AAAGAA AAA
24045200 AATATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.20
6 14 0.56
7 6 0.24
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:24045181 original size:11 final size:11
Alignment explanation
Indices: 24045161--24045199 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
24045151 TCAGTCACAT
24045161 AAAAAG-AAAG
1 AAAAAGAAAAG
24045171 AAAAAGAAAAG
1 AAAAAGAAAAG
24045182 AAAAAGAGAAAAG
1 -AAAA-AGAAAAG
24045195 AAAAA
1 AAAAA
24045200 AATATTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.23
11 5 0.19
12 8 0.31
13 7 0.27
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:24045193 original size:13 final size:12
Alignment explanation
Indices: 24045161--24045200 Score: 57
Period size: 13 Copynumber: 3.4 Consensus size: 12
24045151 TCAGTCACAT
24045161 AAAAAG-AAAG-
1 AAAAAGAAAAGA
24045171 AAAAAGAAAAGA
1 AAAAAGAAAAGA
24045183 AAAAGAGAAAAGA
1 AAAA-AGAAAAGA
24045196 AAAAA
1 AAAAA
24045201 ATATTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.22
11 4 0.15
12 5 0.19
13 12 0.44
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:24049094 original size:17 final size:17
Alignment explanation
Indices: 24049055--24049094 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
24049045 CTATAGTATA
*
24049055 ATTGTCCTTGCATTATT
1 ATTGTCATTGCATTATT
* *
24049072 AATGTCATTGCATTTTT
1 ATTGTCATTGCATTATT
24049089 ATTGTC
1 ATTGTC
24049095 GTTGTATGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.53
Consensus pattern (17 bp):
ATTGTCATTGCATTATT
Found at i:24069480 original size:3 final size:3
Alignment explanation
Indices: 24069466--24069499 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
24069456 AGGTATTGAG
* *
24069466 GAA GAG GAA GAA GAA GAA GAA AAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
24069500 GAATTACCCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:24075982 original size:12 final size:14
Alignment explanation
Indices: 24075950--24075986 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
24075940 GACAGAAGAG
24075950 GAAAAAGAAGAGGAA
1 GAAAAAGAAGA-GAA
24075965 GAAAAAGAAGA-AA
1 GAAAAAGAAGAGAA
24075978 G-AAAAGAAG
1 GAAAAAGAAG
24075987 GATCTGATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.36
13 3 0.14
15 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
GAAAAAGAAGAGAA
Found at i:24089021 original size:13 final size:14
Alignment explanation
Indices: 24088985--24089026 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
24088975 TAGAAAATAC
*
24088985 AAATGCTAAACATG
1 AAATGCTAAAAATG
24088999 AAATGCTAAAAATG
1 AAATGCTAAAAATG
* *
24089013 TAA-GCTAAATATG
1 AAATGCTAAAAATG
24089026 A
1 A
24089027 TACAAAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (14 bp):
AAATGCTAAAAATG
Found at i:24097255 original size:26 final size:26
Alignment explanation
Indices: 24097189--24097290 Score: 84
Period size: 26 Copynumber: 3.9 Consensus size: 26
24097179 ACTGATGTCA
* * *
24097189 CTGCATGAGCAAGTCTAGAATTGTCG
1 CTGCATGAGCATGTCCAGAATTATCG
* * *
24097215 CTGTA-GAAACTTGTCCAGAATTATCG
1 CTGCATG-AGCATGTCCAGAATTATCG
*
24097241 CTGCATGAGCATGTCCA-AAGTTGTCG
1 CTGCATGAGCATGTCCAGAA-TTATCG
*
24097267 CTGTATGAGCATG-CACAGAATTAT
1 CTGCATGAGCATGTC-CAGAATTAT
24097291 AGCCACATCT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
25 4 0.07
26 52 0.88
27 3 0.05
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (26 bp):
CTGCATGAGCATGTCCAGAATTATCG
Found at i:24106297 original size:17 final size:17
Alignment explanation
Indices: 24106275--24106345 Score: 79
Period size: 17 Copynumber: 4.2 Consensus size: 17
24106265 GTTAATAAGT
*
24106275 ATTGTCATCGCATTCCC
1 ATTGTCATCGCATTTCC
** **
24106292 ATTGTCATTACATTTTA
1 ATTGTCATCGCATTTCC
*
24106309 ATTGTCATCGCATTTGC
1 ATTGTCATCGCATTTCC
*
24106326 ATTGTCATTGCATTTCC
1 ATTGTCATCGCATTTCC
24106343 ATT
1 ATT
24106346 TGTCCTTATA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 43 1.00
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (17 bp):
ATTGTCATCGCATTTCC
Found at i:24106318 original size:34 final size:34
Alignment explanation
Indices: 24106275--24106340 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
24106265 GTTAATAAGT
24106275 ATTGTCATCGCATTCCCATTGTCATTACATTTTA
1 ATTGTCATCGCATTCCCATTGTCATTACATTTTA
** *
24106309 ATTGTCATCGCATTTGCATTGTCATTGCATTT
1 ATTGTCATCGCATTCCCATTGTCATTACATTT
24106341 CCATTTGTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (34 bp):
ATTGTCATCGCATTCCCATTGTCATTACATTTTA
Found at i:24106681 original size:2 final size:2
Alignment explanation
Indices: 24106674--24106699 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24106664 TACTACTACT
24106674 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
24106700 GTTATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24115514 original size:15 final size:15
Alignment explanation
Indices: 24115483--24115564 Score: 58
Period size: 15 Copynumber: 5.3 Consensus size: 15
24115473 CATGAAAACT
*
24115483 AAATGC-AGAAATTTA
1 AAATGCAAGAAA-ATA
*
24115498 AAATGCGAGAAAATA
1 AAATGCAAGAAAATA
* * *
24115513 AATTGCAAGAAAGTG
1 AAATGCAAGAAAATA
*
24115528 AAGTGCAAGAAAATTA
1 AAATGCAAGAAAA-TA
* *
24115544 AACTGGAAGAAAAGTA
1 AAATGCAAGAAAA-TA
24115560 AAATG
1 AAATG
24115565 GGAAGAGTTG
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
15 30 0.57
16 23 0.43
ACGTcount: A:0.55, C:0.06, G:0.21, T:0.18
Consensus pattern (15 bp):
AAATGCAAGAAAATA
Found at i:24125424 original size:21 final size:20
Alignment explanation
Indices: 24125400--24125450 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
24125390 TGTGGGTATT
24125400 AAGGAAAAGAAAGAA-GAAGA
1 AAGGAAAAGAAA-AAGGAAGA
**
24125420 GAAGGAGGAGAAAAAGGAAGA
1 -AAGGAAAAGAAAAAGGAAGA
24125441 AA-GAAAAGAA
1 AAGGAAAAGAA
24125451 GGAGAATAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 6 0.24
20 4 0.16
21 15 0.60
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
AAGGAAAAGAAAAAGGAAGA
Found at i:24125466 original size:24 final size:25
Alignment explanation
Indices: 24125412--24125466 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
24125402 GGAAAAGAAA
* *
24125412 GAAG-AAGAGAAGGAGGAGAAAAAG
1 GAAGAAAGAAAAGAAGGAGAAAAAG
*
24125436 GAAGAAAGAAAAGAAGGAG-AATAG
1 GAAGAAAGAAAAGAAGGAGAAAAAG
24125460 GAAGAAA
1 GAAGAAA
24125467 TTTTTGTCGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (25 bp):
GAAGAAAGAAAAGAAGGAGAAAAAG
Found at i:24125929 original size:17 final size:17
Alignment explanation
Indices: 24125893--24125936 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
24125883 ATTGTCATCA
* *
24125893 CATTTTAATTATCCATG
1 CATTTTATTTATCCACG
*
24125910 CATTTTATTTATCGACG
1 CATTTTATTTATCCACG
24125927 CATTTGTATT
1 CATTT-TATT
24125937 GTAGTTGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (17 bp):
CATTTTATTTATCCACG
Found at i:24128230 original size:24 final size:24
Alignment explanation
Indices: 24128197--24128243 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
24128187 GTTAAGAGTA
*
24128197 AAAACTGTTAGTGCAAATGTAATAT
1 AAAACTGTTAGAGCAAAT-TAATAT
24128222 AAAA-TGTTAGAGCAAATTAATA
1 AAAACTGTTAGAGCAAATTAATA
24128244 AAAGACGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.49, C:0.06, G:0.15, T:0.30
Consensus pattern (24 bp):
AAAACTGTTAGAGCAAATTAATAT
Found at i:24148563 original size:15 final size:15
Alignment explanation
Indices: 24148540--24148584 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
24148530 GCTTGTCCTT
* *
24148540 CATCCATGCTCGCAA
1 CATCAATGCTCACAA
24148555 CATCAATGCTCACAA
1 CATCAATGCTCACAA
* *
24148570 CTTCAGTGCTCACAA
1 CATCAATGCTCACAA
24148585 TGTCCATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.31, C:0.36, G:0.11, T:0.22
Consensus pattern (15 bp):
CATCAATGCTCACAA
Found at i:24158441 original size:10 final size:10
Alignment explanation
Indices: 24158413--24158456 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
24158403 TCAGGGAGAG
24158413 AAGAGAAG-A
1 AAGAGAAGAA
**
24158422 AATTGAAGAA
1 AAGAGAAGAA
24158432 AAGAGAAGAA
1 AAGAGAAGAA
*
24158442 AAGAGATGAA
1 AAGAGAAGAA
24158452 AAGAG
1 AAGAG
24158457 GAGGGAAGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 6 0.21
10 23 0.79
ACGTcount: A:0.64, C:0.00, G:0.30, T:0.07
Consensus pattern (10 bp):
AAGAGAAGAA
Found at i:24173640 original size:15 final size:15
Alignment explanation
Indices: 24173589--24173640 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
24173579 GAACATTGGA
*
24173589 GTTGCGAACACTCAT
1 GTTGCGAACACTCAC
* *
24173604 GTTACGAACACACAC
1 GTTGCGAACACTCAC
** *
24173619 GACGCGAACACTCGC
1 GTTGCGAACACTCAC
24173634 GTTGCGA
1 GTTGCGA
24173641 GCATGGATGA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (15 bp):
GTTGCGAACACTCAC
Found at i:24175373 original size:15 final size:15
Alignment explanation
Indices: 24175322--24175373 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
24175312 GAACATTGGA
*
24175322 GTTGCGAACACTCAT
1 GTTGCGAACACTCAC
* *
24175337 GTTACGAACACACAC
1 GTTGCGAACACTCAC
** *
24175352 GACGCGAACACTCGC
1 GTTGCGAACACTCAC
24175367 GTTGCGA
1 GTTGCGA
24175374 GCATGGATGA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (15 bp):
GTTGCGAACACTCAC
Found at i:24177903 original size:25 final size:26
Alignment explanation
Indices: 24177857--24177910 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
24177847 TAGACAATTT
*
24177857 TAAAATAAAAATAAAAGAACATA-AA
1 TAAAATAAAAACAAAAGAACATAGAA
**
24177882 TAAAATAAAAACAAAATTACATAGAA
1 TAAAATAAAAACAAAAGAACATAGAA
24177908 TAA
1 TAA
24177911 TTTCACAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.19
Consensus pattern (26 bp):
TAAAATAAAAACAAAAGAACATAGAA
Found at i:24179683 original size:30 final size:30
Alignment explanation
Indices: 24179615--24179683 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 30
24179605 TTAATAGTCT
*
24179615 AAATCTTTATAATTTTTAAATGATTAAATCA
1 AAAT-TTTATAATTTTTAAATGATCAAATCA
* *
24179646 AATTTTTATCATTTTTGAAA-GATCAAAGT-A
1 AAATTTTATAATTTTT-AAATGATCAAA-TCA
24179676 AAATTTTA
1 AAATTTTA
24179684 CTATTACTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (30 bp):
AAATTTTATAATTTTTAAATGATCAAATCA
Found at i:24182076 original size:19 final size:18
Alignment explanation
Indices: 24182041--24182076 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
24182031 TTTATTTTAT
24182041 TTTATTACACTCTAAAAA
1 TTTATTACACTCTAAAAA
24182059 TTTATTACTACT-TAAAAA
1 TTTATTAC-ACTCTAAAAA
24182077 CAAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTATTACACTCTAAAAA
Found at i:24182586 original size:18 final size:18
Alignment explanation
Indices: 24182552--24182589 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
24182542 ATAGTTACAA
*
24182552 AAATTTAATTAATTTTTT
1 AAATTTAATAAATTTTTT
*
24182570 AAATTTAA-AAATATTTT
1 AAATTTAATAAATTTTTT
24182587 AAA
1 AAA
24182590 AATTCAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATTTAATAAATTTTTT
Found at i:24186593 original size:28 final size:29
Alignment explanation
Indices: 24186561--24186657 Score: 101
Period size: 28 Copynumber: 3.4 Consensus size: 29
24186551 GTAATGCAAA
* *
24186561 AATATGACCGTTGGAATC-TGATCGTTAC
1 AATATGATCGTTGGAATCTTGACCGTTAC
*
24186589 AATATGATCGTTGGAA-CTTGACCGTTGC
1 AATATGATCGTTGGAATCTTGACCGTTAC
* * * *
24186617 AATATGATCTTTGGAAT-TTGCCCATTGC
1 AATATGATCGTTGGAATCTTGACCGTTAC
*
24186645 AATATGGTCGTTG
1 AATATGATCGTTG
24186658 AATTTTTTTG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.02
28 58 0.98
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (29 bp):
AATATGATCGTTGGAATCTTGACCGTTAC
Found at i:24188713 original size:74 final size:73
Alignment explanation
Indices: 24188614--24188762 Score: 210
Period size: 75 Copynumber: 2.0 Consensus size: 73
24188604 AATATAAAAG
* * *
24188614 AAATGAAAATTAATATTCTTTTGGAAAGAATATAATT-CATTTTTTAACTTTTCATTTGCCTTCT
1 AAATGAAAATCAATATTCTTTTGGAAAGAATATAATTCCATTTTCTAACTTTTCATTTGCCTTAT
*
24188678 TTATTAAT
66 CTATTAAT
* * *
24188686 AAATGAATAATCATATATTCTTTTGGAAAGAATATCATTCCATTTTCTATCTTTTCGTTTGCCTT
1 AAATGAA-AATCA-ATATTCTTTTGGAAAGAATATAATTCCATTTTCTAACTTTTCATTTGCCTT
24188751 ATCTATTAAT
64 ATCTATTAAT
24188761 AA
1 AA
24188763 GGGTATAATC
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 7 0.10
73 4 0.06
74 24 0.36
75 32 0.48
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (73 bp):
AAATGAAAATCAATATTCTTTTGGAAAGAATATAATTCCATTTTCTAACTTTTCATTTGCCTTAT
CTATTAAT
Found at i:24190374 original size:40 final size:40
Alignment explanation
Indices: 24190318--24190397 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
24190308 TGTCCTCAAA
*
24190318 CAAGAACAAAAATTATATGTCATTAAAGAACCCGTTCCTT
1 CAAGAACAAAAATTATATGTCATTAAACAACCCGTTCCTT
* *
24190358 CAAGAACGAAAGTTATATGTCATTAAACAACCCGTTCCTT
1 CAAGAACAAAAATTATATGTCATTAAACAACCCGTTCCTT
24190398 TTGAACCAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (40 bp):
CAAGAACAAAAATTATATGTCATTAAACAACCCGTTCCTT
Found at i:24196832 original size:138 final size:138
Alignment explanation
Indices: 24196655--24196934 Score: 391
Period size: 138 Copynumber: 2.0 Consensus size: 138
24196645 ACATAGATAA
* * *
24196655 AATTAAAATATGAATTTGATTCATATAAAATATTAATTGTATATATTTGACCGAGTTTATTAATA
1 AATTAAAATATGAATTTGATTCATACAAAATATTAATTGTATATATTTGACCAAATTTATTAATA
* * *
24196720 TAAACAATTATATTAATTAATTTTGGTCAAAATATAAAAGACAT-GAAAATTAATATTCTTTTGG
66 TAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAAA-TAATACTCATTTGG
24196784 AAAGAATAT
130 AAAGAATAT
* * * * *
24196793 AATTAATATATGAATTTTATTTATACAAAATATTAATTGTATATATTTTATCAAATTTATTAATA
1 AATTAAAATATGAATTTGATTCATACAAAATATTAATTGTATATATTTGACCAAATTTATTAATA
* * * ** *
24196858 TAAATAGTTATATTAATTAATTTCGGTGAAAATATAAAATTCATGGAACATAATACTCATTTGGA
66 TAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAAATAATACTCATTTGGA
24196923 AAGAATAT
131 AAGAATAT
24196931 AATT
1 AATT
24196935 CATTTTTATA
Statistics
Matches: 124, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
138 120 0.97
139 4 0.03
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (138 bp):
AATTAAAATATGAATTTGATTCATACAAAATATTAATTGTATATATTTGACCAAATTTATTAATA
TAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAAATAATACTCATTTGGA
AAGAATAT
Found at i:24204502 original size:18 final size:19
Alignment explanation
Indices: 24204479--24204518 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
24204469 AACTAAATTA
24204479 ACAAAAAGAAA-TGCAATG
1 ACAAAAAGAAATTGCAATG
*
24204497 ACAAAATGAAATTGCAATG
1 ACAAAAAGAAATTGCAATG
24204516 ACA
1 ACA
24204519 GTAAAATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.57, C:0.12, G:0.15, T:0.15
Consensus pattern (19 bp):
ACAAAAAGAAATTGCAATG
Found at i:24219060 original size:21 final size:21
Alignment explanation
Indices: 24219009--24219062 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
24218999 AGTTGTAGTT
*
24219009 TACTACCGATAGAAGAGGAGG
1 TACTACCGATACAAGAGGAGG
* * *
24219030 TTCTATCGATACAAGGATG-GG
1 TACTACCGATACAA-GAGGAGG
24219051 TACTACCGATAC
1 TACTACCGATAC
24219063 TTCCCATACT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (21 bp):
TACTACCGATACAAGAGGAGG
Found at i:24223062 original size:193 final size:190
Alignment explanation
Indices: 24222776--24223139 Score: 507
Period size: 193 Copynumber: 1.9 Consensus size: 190
24222766 CTGTACGATA
* * * *
24222776 AACTGTTCCCTAACGATACTGCTCACATGAGCTGTCGAGAGTATGCAATAAGCATATCCCAACCA
1 AACTGTTCCCTAACGATACTGCTCACACGAGCTATCGAGAATATGCAATAAGCATAACCCAACCA
* * *
24222841 TCGTAGGGCTTATAAATCATTTAGGATCCATATCTCTTTCCCGAGTCACGATGCTGCTTACACGA
66 TCGTAGGGCCTATAAATCATTTAGGATCCATATCTCTTTCCCGAGTCACGATGCTACTCACACGA
24222906 GCTATCGAGGACTCGAAACATATGCT-GTACCTCAGCCATCGATACAGTATCTGTGCATAT
131 GCTATCGAGGACTCGAAACATATG-TGGTACCTCAGCCATCGATACAGTATCTGTGCATAT
* * * * * *
24222966 AACTGTTCCCTAATGATGCTGCTCACACGAGCTATCGAGAATATGCACTTATGCATAAACCTTAG
1 AACTGTTCCCTAACGATACTGCTCACACGAGCTATCGAGAATATGCA-ATAAGCAT-AACC-CAA
* * * *
24223031 CCATCGTAGGGCCTGT-AATCCATTTAGGATCCATATTTCTTTCTCGAGTCACTATGCTACTCAC
63 CCATCGTAGGGCCTATAAAT-CATTTAGGATCCATATCTCTTTCCCGAGTCACGATGCTACTCAC
*
24223095 ATGAGCTATCGAGGACTCGAAACATATGTGGTACCTCAGCCATCG
127 ACGAGCTATCGAGGACTCGAAACATATGTGGTACCTCAGCCATCG
24223140 CGTCGGTTTC
Statistics
Matches: 151, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
190 42 0.28
191 6 0.04
192 7 0.05
193 96 0.64
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (190 bp):
AACTGTTCCCTAACGATACTGCTCACACGAGCTATCGAGAATATGCAATAAGCATAACCCAACCA
TCGTAGGGCCTATAAATCATTTAGGATCCATATCTCTTTCCCGAGTCACGATGCTACTCACACGA
GCTATCGAGGACTCGAAACATATGTGGTACCTCAGCCATCGATACAGTATCTGTGCATAT
Found at i:24228231 original size:193 final size:194
Alignment explanation
Indices: 24227862--24228306 Score: 567
Period size: 193 Copynumber: 2.3 Consensus size: 194
24227852 ACTAGTACTT
* * * * * *
24227862 GATGCTGCTCACACGAGCTATCGAGGACTCGCAACGTATACGGTACCCCAGCCATTGATACGGTG
1 GATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCTGTACCTCAGCCATCGATACGGTG
* *
24227927 CCTATCTGTACTATAAACTGTTCCCTAATGATGCTGCCCACATGAGCTGTCGAGAGTATGCAATA
66 -CTATCTGTACTATAAACTGTTCCCTAATGATGCTGCCCACACGAGCTGTCGAGAATATGCAATA
* *
24227992 AGCATAGTCGCAGCCATCGTAGGGCCTGTAATCCATTTAAGATCCATATCTCTTTCTCGAGTCAC
130 AGCATAATCGCAGCCATCGTAGGGCCTGTAATCCATTTAAGATCCATATCTCTTTCCCGAGTCAC
* * *
24228057 GATGCTGCTCACGCGAGCTGTTGAGGACTCGTAACATATGCTGTACCTCAGCCATCGATAC-G-G
1 GATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCTGTACCTCAGCCATCGATACGGTG
* * * * *
24228120 -TATCTGTGC-ATATAATTGTTCCCTAATGATGCTGCTCACACGAGTTGTCGAGAATATGCACTT
66 CTATCTGTACTATA-AACTGTTCCCTAATGATGCTGCCCACACGAGCTGTCGAGAATATGCA-AT
* * * *
24228183 ATGCATAAATCTCAGCCATCGTAGGGCCTGTAATCCATTTAGGATCCATATTTCTTTCCCGAGTC
129 AAGCAT-AATCGCAGCCATCGTAGGGCCTGTAATCCATTTAAGATCCATATCTCTTTCCCGAGTC
*
24228248 AG
193 AC
* * * *
24228250 GATGCTACTCACATGAGCTGTCAAGGACTCGCAACATATG-TGGTACCTCATCCATCG
1 GATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCT-GTACCTCAGCCATCG
24228307 CGTCGATTTC
Statistics
Matches: 216, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
190 3 0.01
191 50 0.23
192 7 0.03
193 103 0.48
194 1 0.00
195 52 0.24
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (194 bp):
GATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCTGTACCTCAGCCATCGATACGGTG
CTATCTGTACTATAAACTGTTCCCTAATGATGCTGCCCACACGAGCTGTCGAGAATATGCAATAA
GCATAATCGCAGCCATCGTAGGGCCTGTAATCCATTTAAGATCCATATCTCTTTCCCGAGTCAC
Found at i:24230196 original size:21 final size:21
Alignment explanation
Indices: 24230172--24230223 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
24230162 GCCCAACGAC
*
24230172 TAAATTCCTATAATGAGTATT
1 TAAATTCATATAATGAGTATT
*
24230193 TAAATTCATATAATGTGTATT
1 TAAATTCATATAATGAGTATT
24230214 TAAATT-ATAT
1 TAAATTCATAT
24230224 GAGTCAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (21 bp):
TAAATTCATATAATGAGTATT
Found at i:24237887 original size:12 final size:12
Alignment explanation
Indices: 24237833--24237889 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
24237823 CTTCCTTATT
24237833 TTCTTCAGGATC
1 TTCTTCAGGATC
* *
24237845 TTTTTCAGGGTC
1 TTCTTCAGGATC
*
24237857 TTCCTCAGGATTTTC
1 TTCTTCAGGA---TC
24237872 TTCTTCAGGATC
1 TTCTTCAGGATC
24237884 TTCTTC
1 TTCTTC
24237890 TTCTTATTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
12 25 0.69
15 11 0.31
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (12 bp):
TTCTTCAGGATC
Found at i:24238809 original size:26 final size:25
Alignment explanation
Indices: 24238773--24238831 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
24238763 TTAATCAGTA
* *
24238773 TAAAATATTAACAATTTAAAATAAAT
1 TAAAATTTTAACAAATT-AAATAAAT
*
24238799 TAAAATTTTAATAAATTAAATAAAT
1 TAAAATTTTAACAAATTAAATAAAT
24238824 TGAAAATT
1 T-AAAATT
24238832 AGAAAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
TAAAATTTTAACAAATTAAATAAAT
Found at i:24238839 original size:25 final size:24
Alignment explanation
Indices: 24238791--24238843 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
24238781 TAACAATTTA
**
24238791 AAATAAATTAAAATTTTAATAAATT
1 AAATAAATTAAAATTAGAATAAA-T
24238816 AAATAAATTGAAAATTAGAA-AAAT
1 AAATAAATT-AAAATTAGAATAAAT
24238840 AAAT
1 AAAT
24238844 TTCTTACCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 12 0.48
26 8 0.32
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (24 bp):
AAATAAATTAAAATTAGAATAAAT
Found at i:24241415 original size:122 final size:123
Alignment explanation
Indices: 24241190--24241667 Score: 798
Period size: 123 Copynumber: 3.9 Consensus size: 123
24241180 CTTTTTATTT
* *
24241190 TAATATCTCATATTAAAATAGAAATATATATCTTTAGAGAAATATATGAAAGGTTTATTAAAACA
1 TAATATCTCATATTAAAATAGAAATAT-T-CCTTTAAAGAAATATATGAAAGGTTTATTAAAACA
*
24241255 TTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTATTATTCAATTTCCTTTTATA
64 TTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTTCCTTTTATA
*
24241315 TAATATCTCATATTAAAAT-GAAATATTCCTTTAAAGAAATATAT-AGAAGGTTTATTGAAACAT
1 TAATATCTCATATTAAAATAGAAATATTCCTTTAAAGAAATATATGA-AAGGTTTATTAAAACAT
* * *
24241378 TATATCATTTCCAAAAGGATATTAACTTCCATATTTTTAATATTCAATTTCTTTTTATA
65 TATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTTCCTTTTATA
* * *
24241437 TAATATCTTATATTAAAATAAAAATATTCCTTTAAAGAAATATATGAAAGGTTTATTAAAATATT
1 TAATATCTCATATTAAAATAGAAATATTCCTTTAAAGAAATATATGAAAGGTTTATTAAAACATT
24241502 ATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTTCCTTTTATA
66 ATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTTCCTTTTATA
* * *
24241560 TAATATCTCAAATTAAAATAGAAATATTCCTTTAAAGAAATATATGGAAGGTTTATTAAAATATT
1 TAATATCTCATATTAAAATAGAAATATTCCTTTAAAGAAATATATGAAAGGTTTATTAAAACATT
24241625 ATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATT
66 ATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATT
24241668 TGACGAAATC
Statistics
Matches: 332, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
121 1 0.00
122 104 0.31
123 200 0.60
124 8 0.02
125 19 0.06
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (123 bp):
TAATATCTCATATTAAAATAGAAATATTCCTTTAAAGAAATATATGAAAGGTTTATTAAAACATT
ATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTTCCTTTTATA
Found at i:24241724 original size:107 final size:106
Alignment explanation
Indices: 24241606--24241814 Score: 373
Period size: 107 Copynumber: 2.0 Consensus size: 106
24241596 GAAATATATG
* *
24241606 GAAGGTTTATTAAAATATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTTGA
1 GAAGGTTTATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATG-TTTTAATATTTAA
*
24241671 CGAAATCATTATAATTAATTATTATAATTACATTAAATAAGT
65 CGAAATCATTATAATTAATAATTATAATTACATTAAATAAGT
24241713 GAAGGTTTATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTAATATTTAAC
1 GAAGGTTTATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTAATATTTAAC
*
24241778 GAAATCATTATAATTAATAATTATAATTACGTTAAAT
66 GAAATCATTATAATTAATAATTATAATTACATTAAAT
24241815 TATATTCAAT
Statistics
Matches: 98, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
106 48 0.49
107 50 0.51
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (106 bp):
GAAGGTTTATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTAATATTTAAC
GAAATCATTATAATTAATAATTATAATTACATTAAATAAGT
Found at i:24244544 original size:16 final size:16
Alignment explanation
Indices: 24244523--24244558 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
24244513 AAATAATCCC
*
24244523 AAAATTACAAGTCTCA
1 AAAATTAAAAGTCTCA
24244539 AAAATTAAAAGTCTCA
1 AAAATTAAAAGTCTCA
24244555 AAAA
1 AAAA
24244559 AACTTTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.14, G:0.06, T:0.22
Consensus pattern (16 bp):
AAAATTAAAAGTCTCA
Found at i:24246231 original size:23 final size:23
Alignment explanation
Indices: 24246194--24246251 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
24246184 TAAACTTGAT
24246194 TAAAAAAAT-AA-AATAAACGAA-
1 TAAAAAAATAAATAATAAA-GAAC
24246215 TAAAAAAATAAATAATAAAGAAC
1 TAAAAAAATAAATAATAAAGAAC
*
24246238 TAACAAAATTAAAT
1 TAA-AAAAATAAAT
24246252 TAGGGAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 9 0.28
22 5 0.16
23 9 0.28
24 9 0.28
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.19
Consensus pattern (23 bp):
TAAAAAAATAAATAATAAAGAAC
Found at i:24247478 original size:17 final size:17
Alignment explanation
Indices: 24247456--24247504 Score: 89
Period size: 17 Copynumber: 2.9 Consensus size: 17
24247446 ACTAATATTA
24247456 AAATGCAATGACAATAG
1 AAATGCAATGACAATAG
24247473 AAATGCAATGACAATAG
1 AAATGCAATGACAATAG
*
24247490 AAATGCAACGACAAT
1 AAATGCAATGACAAT
24247505 TGTACTAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.16
Consensus pattern (17 bp):
AAATGCAATGACAATAG
Found at i:24247974 original size:21 final size:21
Alignment explanation
Indices: 24247950--24247992 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
24247940 CTCTTTCACA
**
24247950 TCTTCAACATGGACTTCCTCC
1 TCTTCAACATCAACTTCCTCC
24247971 TCTTCAACATCAACTTCCTCC
1 TCTTCAACATCAACTTCCTCC
24247992 T
1 T
24247993 TAACAGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.40, G:0.05, T:0.35
Consensus pattern (21 bp):
TCTTCAACATCAACTTCCTCC
Found at i:24251408 original size:23 final size:23
Alignment explanation
Indices: 24251378--24251423 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
24251368 GTCGAAAGCA
**
24251378 AAGATTACAGTTAACAATTCTTT
1 AAGATTACAGCCAACAATTCTTT
24251401 AAGATTACAGCCAACAATTCTTT
1 AAGATTACAGCCAACAATTCTTT
24251424 CTTTATAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (23 bp):
AAGATTACAGCCAACAATTCTTT
Found at i:24280059 original size:46 final size:46
Alignment explanation
Indices: 24279962--24280067 Score: 142
Period size: 46 Copynumber: 2.3 Consensus size: 46
24279952 TTTGTAACTT
* * *
24279962 TTTGTATTTTGCCATGATATTGTTTCTTTGTCATGACAATTTTGTA
1 TTTGCATTTTGCCATGATATTATTTCTTTGTCATGACAATTTTATA
* *
24280008 GTTGCATTTTTCCATGATATTATTTCTTTGTCATGAC-ATTTTCATA
1 TTTGCATTTTGCCATGATATTATTTCTTTGTCATGACAATTTT-ATA
*
24280054 TTTGCATATTGCCA
1 TTTGCATTTTGCCA
24280068 GGTATAGTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 5 0.10
46 46 0.90
ACGTcount: A:0.21, C:0.14, G:0.13, T:0.52
Consensus pattern (46 bp):
TTTGCATTTTGCCATGATATTATTTCTTTGTCATGACAATTTTATA
Found at i:24280946 original size:170 final size:169
Alignment explanation
Indices: 24280664--24281004 Score: 646
Period size: 170 Copynumber: 2.0 Consensus size: 169
24280654 TATGTGACAA
*
24280664 AATGAATCCTTTAAATGGAATAAATTGAGTAAATTTTTTTGTTAAAAACTAAACTAATAGAAAGA
1 AATGAATCCCTTAAATGGAATAAATTGAGTAAATTTTTTTGTTAAAAACTAAACTAATAGAAAGA
24280729 TAGACTATGTTAGTAAGAGAAATTTGGTATAAATAAAATTATCTTGATAATTAGAACTCTTTATT
66 TAGACTATGTTAGTAAGAGAAATTTGGTATAAATAAAATTATCTTGATAATTAGAACTCTTTATT
24280794 TTTGACAAAGAAAAGTTTTCTACATTTCTTTTGTTTAAT
131 TTTGACAAAGAAAAGTTTTCTACATTTCTTTTGTTTAAT
24280833 AATGAATCCCTTAAATGGAATAAATTGAGTAAATTTTTTTGTTAAAAACTAAACTAAGTAGAAAG
1 AATGAATCCCTTAAATGGAATAAATTGAGTAAATTTTTTTGTTAAAAACTAAACTAA-TAGAAAG
* *
24280898 ATAGACTATGTTAGTAAGAGAAATTTGGTATAAATAAAATTATCTTGATAGTTAGAACTTTTTAT
65 ATAGACTATGTTAGTAAGAGAAATTTGGTATAAATAAAATTATCTTGATAATTAGAACTCTTTAT
24280963 TTTTGACAAAGAAAAGTTTTCTACATTTCTTTTGTTTAAT
130 TTTTGACAAAGAAAAGTTTTCTACATTTCTTTTGTTTAAT
24281003 AA
1 AA
24281005 AGTTTATAAG
Statistics
Matches: 168, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
169 56 0.33
170 112 0.67
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (169 bp):
AATGAATCCCTTAAATGGAATAAATTGAGTAAATTTTTTTGTTAAAAACTAAACTAATAGAAAGA
TAGACTATGTTAGTAAGAGAAATTTGGTATAAATAAAATTATCTTGATAATTAGAACTCTTTATT
TTTGACAAAGAAAAGTTTTCTACATTTCTTTTGTTTAAT
Found at i:24281026 original size:19 final size:18
Alignment explanation
Indices: 24281004--24281039 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
24280994 TTGTTTAATA
24281004 AAGTTTATAAGACTTAAAC
1 AAGTTTATAAGA-TTAAAC
*
24281023 AAGTTTCTAAGATTAAA
1 AAGTTTATAAGATTAAA
24281040 AGATTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.33
Consensus pattern (18 bp):
AAGTTTATAAGATTAAAC
Found at i:24285067 original size:22 final size:22
Alignment explanation
Indices: 24285037--24285082 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
24285027 GAAATATTTA
* * *
24285037 TTTTCATTTCAATTTTTTTTGT
1 TTTTAATTTCAATTGTTTATGT
*
24285059 TTTTAATTTTAATTGTTTATGT
1 TTTTAATTTCAATTGTTTATGT
24285081 TT
1 TT
24285083 AATAAGGGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.17, C:0.04, G:0.07, T:0.72
Consensus pattern (22 bp):
TTTTAATTTCAATTGTTTATGT
Found at i:24287096 original size:30 final size:30
Alignment explanation
Indices: 24287060--24287119 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
24287050 AAAGTGCACC
24287060 TATCTAATCCTCGTGGGAACGATACTCACT
1 TATCTAATCCTCGTGGGAACGATACTCACT
24287090 TATCTAATCCTCGTGGGAACGATACTCACT
1 TATCTAATCCTCGTGGGAACGATACTCACT
24287120 CATCACTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (30 bp):
TATCTAATCCTCGTGGGAACGATACTCACT
Found at i:24290960 original size:25 final size:25
Alignment explanation
Indices: 24290926--24290975 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
24290916 TGCTTCCGGA
24290926 GAAAGTTTTTACTTTGAGGGAAAGT
1 GAAAGTTTTTACTTTGAGGGAAAGT
24290951 GAAAGTTTTTACTTTGAGGGAAAGT
1 GAAAGTTTTTACTTTGAGGGAAAGT
24290976 AATTATACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.36
Consensus pattern (25 bp):
GAAAGTTTTTACTTTGAGGGAAAGT
Found at i:24294780 original size:15 final size:15
Alignment explanation
Indices: 24294760--24294809 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
24294750 CTGATTACCA
24294760 ACTTTACTTTCTTGC
1 ACTTTACTTTCTTGC
*
24294775 ACTTTACTTTATTGC
1 ACTTTACTTTCTTGC
* **
24294790 AATTTAAATTCTTGC
1 ACTTTACTTTCTTGC
24294805 -CTTTA
1 ACTTTA
24294810 AATTTATGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
14 4 0.14
15 25 0.86
ACGTcount: A:0.22, C:0.20, G:0.06, T:0.52
Consensus pattern (15 bp):
ACTTTACTTTCTTGC
Found at i:24294816 original size:30 final size:28
Alignment explanation
Indices: 24294768--24294823 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
24294758 CAACTTTACT
*
24294768 TTCTTGCACTTTACTTTATTGCAATTTAAA
1 TTCTTGCACTTTAATTTA-TGC-ATTTAAA
24294798 TTCTTGC-CTTTAAATTTATGCATTTA
1 TTCTTGCACTTT-AATTTATGCATTTA
24294824 CTTTTCTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 5 0.21
29 7 0.29
30 12 0.50
ACGTcount: A:0.25, C:0.16, G:0.07, T:0.52
Consensus pattern (28 bp):
TTCTTGCACTTTAATTTATGCATTTAAA
Found at i:24294987 original size:17 final size:18
Alignment explanation
Indices: 24294965--24295031 Score: 70
Period size: 17 Copynumber: 3.9 Consensus size: 18
24294955 TTTGTTTATC
24294965 TTTATT-CTCTATATATT
1 TTTATTACTCTATATATT
*
24294982 TTTATTAC-ATATATATT
1 TTTATTACTCTATATATT
*
24294999 TCTATTACATCT-TATATT
1 TTTATTAC-TCTATATATT
*
24295017 TTTATT-CTTTATATA
1 TTTATTACTCTATATA
24295032 AATATAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 2 0.05
17 26 0.63
18 12 0.29
19 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATTACTCTATATATT
Found at i:24295058 original size:4 final size:4
Alignment explanation
Indices: 24295026--24295070 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
24295016 TTTTATTCTT
* * * *
24295026 TATA TAAA TATA AATA TAAA TACA TATA TATA TATA TATA TATA T
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA T
24295071 TACTTTATCG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (4 bp):
TATA
Found at i:24295068 original size:6 final size:6
Alignment explanation
Indices: 24295026--24295070 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
24295016 TTTTATTCTT
* * * *
24295026 TATATA AATATA AATATA AATACA TATATA TATATA TATATA TAT
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TAT
24295071 TACTTTATCG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (6 bp):
TATATA
Found at i:24297082 original size:36 final size:36
Alignment explanation
Indices: 24297042--24297115 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
24297032 CATTCACCAC
* *
24297042 TTCTAGTTTTGGTAAAACTGGTTCTAG-TTCAATTGG
1 TTCTAGTTCTGGTAAAACTAGTT-TAGATTCAATTGG
*
24297078 TTCTAGTTCTGGTAAAACTAGTTTTGATTCAATTGG
1 TTCTAGTTCTGGTAAAACTAGTTTAGATTCAATTGG
24297114 TT
1 TT
24297116 TTGGCAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 2 0.06
36 32 0.94
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (36 bp):
TTCTAGTTCTGGTAAAACTAGTTTAGATTCAATTGG
Found at i:24307449 original size:23 final size:24
Alignment explanation
Indices: 24307423--24307467 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
24307413 ACTTCCATCA
24307423 TTAAGCCTTAA-TTAATC-ATTTTT
1 TTAA-CCTTAATTTAATCTATTTTT
*
24307446 TTAATCTTAATTTAATCTATTT
1 TTAACCTTAATTTAATCTATTT
24307468 ACACTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 10 0.53
24 4 0.21
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (24 bp):
TTAACCTTAATTTAATCTATTTTT
Found at i:24311769 original size:51 final size:51
Alignment explanation
Indices: 24311513--24311784 Score: 330
Period size: 51 Copynumber: 5.3 Consensus size: 51
24311503 GGGTCCGGTC
* *
24311513 ACTAAGTGTCATCGTGAGTAAATGAATTCTTTACGGATTAAAGGTCTGGTG
1 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCTGATG
* * * * *
24311564 ACTAAGTATCATCGTGAGTAAATGAATCCTTTATGGATTAAATGTTTGCTG
1 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCTGATG
* *
24311615 ACTAAGTGTCATCGTGAGTAAATGAGTCCTTTACGGATTAAAGGTCCGATG
1 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCTGATG
* * * **
24311666 AGTAAATGTCATCGTAAGTAAATGAATCCTTTACGGATTAAAGGTCCAATG
1 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCTGATG
* * * * ***
24311717 ACTAAGTGTCTTTGTGAGTAAATGAATCCATGAAAAATTAAAGGTCTGATG
1 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCTGATG
*
24311768 AC-AATATGTCATCGTGA
1 ACTAA-GTGTCATCGTGA
24311785 CTATTAAATG
Statistics
Matches: 187, Mismatches: 33, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
50 2 0.01
51 185 0.99
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (51 bp):
ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCTGATG
Found at i:24318082 original size:17 final size:17
Alignment explanation
Indices: 24318062--24318145 Score: 91
Period size: 17 Copynumber: 4.9 Consensus size: 17
24318052 TTTGAAATTA
*
24318062 AATTTATTTTAATTTTG
1 AATTTATTTTAAATTTG
*
24318079 AATTTATTTTAAA-TTC
1 AATTTATTTTAAATTTG
*
24318095 AATTTTAATTTAAATTTG
1 AA-TTTATTTTAAATTTG
*
24318113 AATTTAATTTAAATTT-
1 AATTTATTTTAAATTTG
*
24318129 AATATTATTATAAATTT
1 AAT-TTATTTTAAATTT
24318146 TAAAAAAAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
16 7 0.12
17 47 0.81
18 4 0.07
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.57
Consensus pattern (17 bp):
AATTTATTTTAAATTTG
Found at i:24318088 original size:34 final size:33
Alignment explanation
Indices: 24318050--24318146 Score: 104
Period size: 34 Copynumber: 2.8 Consensus size: 33
24318040 GGCCCAAACC
24318050 ATTTTGAAATTAAATTTATTTTAATTTTGAATTT
1 ATTTT-AAATTAAATTTATTTTAATTTTGAATTT
* * *
24318084 ATTTTAAATTCAATTTTAATTTAAATTTGAATTT
1 ATTTTAAATT-AAATTTATTTTAATTTTGAATTT
* * *
24318118 AATTTAAATTTAATATTATTATAAATTTT
1 ATTTTAAATTAAAT-TTATT-TTAATTTT
24318147 AAAAAAAAGG
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
33 7 0.14
34 38 0.75
35 6 0.12
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (33 bp):
ATTTTAAATTAAATTTATTTTAATTTTGAATTT
Found at i:24318110 original size:6 final size:6
Alignment explanation
Indices: 24318059--24318130 Score: 53
Period size: 6 Copynumber: 12.7 Consensus size: 6
24318049 CATTTTGAAA
* * * * * *
24318059 TTAAAT TT-ATT TTAATT TTGAAT TT-ATT TTAAA- TTCAAT TTTAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
24318104 TTAAAT TTGAAT TT-AAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA
24318131 TATTATTATA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
5 17 0.32
6 36 0.68
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (6 bp):
TTAAAT
Found at i:24318116 original size:23 final size:23
Alignment explanation
Indices: 24318050--24318130 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 23
24318040 GGCCCAAACC
* *
24318050 ATTTTGAAATTAAATTTATTTTA
1 ATTTTGAATTTAAATTTAATTTA
* *
24318073 ATTTTGAATTT-ATTTTAAATTCA
1 ATTTTGAATTTAAATTT-AATTTA
24318096 ATTTT-AATTTAAATTTGAATTTA
1 ATTTTGAATTTAAATTT-AATTTA
*
24318119 A-TTTAAATTTAA
1 ATTTTGAATTTAA
24318131 TATTATTATA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
22 12 0.25
23 36 0.75
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.56
Consensus pattern (23 bp):
ATTTTGAATTTAAATTTAATTTA
Found at i:24318130 original size:11 final size:11
Alignment explanation
Indices: 24318056--24318131 Score: 64
Period size: 11 Copynumber: 6.8 Consensus size: 11
24318046 AACCATTTTG
*
24318056 AAATTAAATTT
1 AAATTTAATTT
*
24318067 -ATTTTAATTTT
1 AAATTTAA-TTT
* *
24318078 GAATTTATTTT
1 AAATTTAATTT
*
24318089 AAATTCAATTT
1 AAATTTAATTT
*
24318100 TAATTTAAATTT
1 AAATTT-AATTT
*
24318112 GAATTTAATTT
1 AAATTTAATTT
24318123 AAATTTAAT
1 AAATTTAAT
24318132 ATTATTATAA
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
10 5 0.10
11 31 0.61
12 15 0.29
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:24320049 original size:30 final size:29
Alignment explanation
Indices: 24320015--24320297 Score: 359
Period size: 30 Copynumber: 9.4 Consensus size: 29
24320005 AAACTGCCCA
* * * *
24320015 AAAATTATATTTTTACCCCAAAACTTTCTG
1 AAAATTACATTTTAACCCTAAAACTTT-TC
*
24320045 AAAATTACATTTTCACCCTAAAACTTTTCC
1 AAAATTACATTTTAACCCTAAAACTTTT-C
*
24320075 AAAATTACATTTTAACCCTAAAACTTTCTA
1 AAAATTACATTTTAACCCTAAAACTTT-TC
**
24320105 AAAATTACATTTTGCCCCTAAAACTTTTC
1 AAAATTACATTTTAACCCTAAAACTTTTC
*
24320134 TAAAATTACATTTTAACCCTAAAACTTTTTG
1 -AAAATTACATTTTAACCCTAAAAC-TTTTC
*
24320165 AAAATTACATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTAACCCTAAAACTTTT-C
*
24320195 AAAATTACATTTTAACCCTAAAACTTTTTG
1 AAAATTACATTTTAACCCTAAAAC-TTTTC
*
24320225 AAAATTACATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTAACCCTAAAACTTTT-C
*
24320255 AAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTAACCCTAAAACTTTT-C
*
24320285 AATATTACATTTT
1 AAAATTACATTTT
24320298 TTACCCCAAT
Statistics
Matches: 225, Mismatches: 21, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
29 10 0.04
30 206 0.92
31 9 0.04
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAATTACATTTTAACCCTAAAACTTTTC
Found at i:24320158 original size:90 final size:91
Alignment explanation
Indices: 24320013--24320297 Score: 409
Period size: 90 Copynumber: 3.2 Consensus size: 91
24320003 CTAAACTGCC
* *
24320013 CAAAAATTATATTTTTACCCC-AAAAC-TTTCTGAAAATTACATTTTCACCCTAAAACTTTTCCA
1 CAAAAATTACA-TTTTACCCCTAAAACTTTTCTGAAAATTACATTTTAACCCTAAAACTTTTCCA
24320076 AAATTACATTTTAACCCTAAAAC-TTT
65 AAATTACATTTTAACCCTAAAACTTTT
* **
24320102 CTAAAAATTACATTTTGCCCCTAAAACTTTTCT-AAAATTACATTTTAACCCTAAAACTTTTTGA
1 C-AAAAATTACATTTTACCCCTAAAACTTTTCTGAAAATTACATTTTAACCCTAAAACTTTTCCA
*
24320166 AAATTACATTTTAACCCCAAAACTTTT
65 AAATTACATTTTAACCCTAAAACTTTT
* * *
24320193 CCAAAATTACATTTTAACCCTAAAACTTTT-TGAAAATTACATTTTAACCCCAAAACTTTTCCAA
1 CAAAAATTACATTTTACCCCTAAAACTTTTCTGAAAATTACATTTTAACCCTAAAACTTTTCCAA
*
24320257 AATTACATTTTGACCCTAAAACTTTT
66 AATTACATTTTAACCCTAAAACTTTT
* *
24320283 CCAATATTACATTTT
1 CAAAAATTACATTTT
24320298 TTACCCCAAT
Statistics
Matches: 176, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
89 10 0.06
90 157 0.89
91 9 0.05
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.38
Consensus pattern (91 bp):
CAAAAATTACATTTTACCCCTAAAACTTTTCTGAAAATTACATTTTAACCCTAAAACTTTTCCAA
AATTACATTTTAACCCTAAAACTTTT
Found at i:24320282 original size:60 final size:60
Alignment explanation
Indices: 24320015--24320306 Score: 424
Period size: 60 Copynumber: 4.8 Consensus size: 60
24320005 AAACTGCCCA
* * * * * *
24320015 AAAATTATATTTTTACCCCAAAACTTTCTGAAAATTACATTTTCACCCTAAAACTTTTCC
1 AAAATTACATTTTAACCCTAAAACTTTTTGAAAATTACATTTTAACCCCAAAACTTTTCC
* * * *
24320075 AAAATTACATTTTAACCCTAAAACTTTCTAAAAATTACATTTT-GCCCCTAAAACTTTTCT
1 AAAATTACATTTTAACCCTAAAACTTTTTGAAAATTACATTTTAACCCC-AAAACTTTTCC
24320135 AAAATTACATTTTAACCCTAAAACTTTTTGAAAATTACATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTAACCCTAAAACTTTTTGAAAATTACATTTTAACCCCAAAACTTTTCC
24320195 AAAATTACATTTTAACCCTAAAACTTTTTGAAAATTACATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTAACCCTAAAACTTTTTGAAAATTACATTTTAACCCCAAAACTTTTCC
* ** * *
24320255 AAAATTACATTTTGACCCTAAAACTTTTCCAATATTACATTTTTTACCCCAA
1 AAAATTACATTTTAACCCTAAAACTTTTTGAAAATTACA-TTTTAACCCCAA
24320307 TTTTGCCAAA
Statistics
Matches: 213, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
59 3 0.01
60 195 0.92
61 15 0.07
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.38
Consensus pattern (60 bp):
AAAATTACATTTTAACCCTAAAACTTTTTGAAAATTACATTTTAACCCCAAAACTTTTCC
Found at i:24323689 original size:51 final size:51
Alignment explanation
Indices: 24323616--24323899 Score: 408
Period size: 51 Copynumber: 5.6 Consensus size: 51
24323606 TAAACGAAAG
* * *
24323616 GGTCCGGTGACTAAATGTCATCGTGAGTAAATGAATCCTTTATGGATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
24323667 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
** *
24323718 CATCCGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
* **
24323769 GGTCCGATGACGAAGTGTCATCGTGAGTAAATGAATCCTTTACAAATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
* * * * *
24323820 GATTCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
* *
24323871 GGTTCGATGAC-AATATGTCATCGTGAGTA
1 GGTCCGATGACTAA-GTGTCATCGTGAGTA
24323900 TTAAATGAAA
Statistics
Matches: 212, Mismatches: 20, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
50 2 0.01
51 210 0.99
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
Found at i:24331006 original size:24 final size:24
Alignment explanation
Indices: 24330979--24331035 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
24330969 TAGCCCATAT
*
24330979 GAGCCCAGATAGGTTAGCTC-TTAC
1 GAGCCCAGATAAGTTAGCTCATT-C
24331003 GAGCCCAGATAAGTTAGCTCATTC
1 GAGCCCAGATAAGTTAGCTCATTC
24331027 GAGCCCAGA
1 GAGCCCAGA
24331036 CGGAGTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 29 0.94
25 2 0.06
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (24 bp):
GAGCCCAGATAAGTTAGCTCATTC
Found at i:24333528 original size:12 final size:12
Alignment explanation
Indices: 24333513--24333537 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24333503 ATTAAATAAT
24333513 TAATAGCATTCA
1 TAATAGCATTCA
24333525 TAATAGCATTCA
1 TAATAGCATTCA
24333537 T
1 T
24333538 CATATAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATAGCATTCA
Done.