Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 82 of 349
Found at i:24375572 original size:12 final size:10
Alignment explanation
Indices: 24375423--24375572 Score: 55
Period size: 10 Copynumber: 14.9 Consensus size: 10
24375413 TTTTAGTACG
24375423 ATAA-TTTTT
1 ATAATTTTTT
24375432 ATAATTTTTTT
1 ATAA-TTTTTT
24375443 ATGAA--TTTT
1 AT-AATTTTTT
24375452 AT-ATTTCTTT
1 ATAATTT-TTT
*
24375462 A-CATTTTTT
1 ATAATTTTTT
24375471 ATAATTTTCTT
1 ATAATTTT-TT
** * *
24375482 AGGACTTTAT
1 ATAATTTTTT
* *
24375492 AAAATTTTAT
1 ATAATTTTTT
24375502 A-AATTTTTT
1 ATAATTTTTT
* *
24375511 CT-ATATTTCT
1 ATAAT-TTTTT
*
24375521 AT-ATATTTT
1 ATAATTTTTT
24375530 ATAAATTTTCTT
1 AT-AATTTT-TT
* *
24375542 TTACTATTTTT
1 ATAAT-TTTTT
24375553 ATAATTTTTT
1 ATAATTTTTT
24375563 ATATATTTTT
1 ATA-ATTTTT
24375573 ATTAAAATTT
Statistics
Matches: 106, Mismatches: 19, Indels: 30
0.68 0.12 0.19
Matches are distributed among these distances:
7 1 0.01
9 29 0.27
10 37 0.35
11 31 0.29
12 8 0.08
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:24375582 original size:23 final size:22
Alignment explanation
Indices: 24375516--24375574 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 22
24375506 TTTTTCTATA
24375516 TTTC-TATATA-TTTTATAAAT
1 TTTCTTATATATTTTTATAAAT
*
24375536 TTTCTTTTACTATTTTTAT-AAT
1 TTTCTTATA-TATTTTTATAAAT
24375558 TTT-TTATATATTTTTAT
1 TTTCTTATATATTTTTAT
24375575 TAAAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 13 0.38
21 7 0.21
22 8 0.24
23 6 0.18
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTCTTATATATTTTTATAAAT
Found at i:24375602 original size:19 final size:18
Alignment explanation
Indices: 24375540--24375613 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 18
24375530 ATAAATTTTC
* *
24375540 TTTTACTATTTTTATAATT
1 TTTTAATATTTTTATAA-A
24375559 TTTTATATATTTTTATTAAA
1 TTTTA-ATATTTTTA-TAAA
* *
24375579 ATTTAATCATTTTTATAAC
1 TTTTAAT-ATTTTTATAAA
*
24375598 TTTTATTGATTTTTAT
1 TTTTAAT-ATTTTTAT
24375614 TTTTTATCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 23 0.51
20 19 0.42
21 3 0.07
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTTAATATTTTTATAAA
Found at i:24376245 original size:36 final size:36
Alignment explanation
Indices: 24376158--24376320 Score: 123
Period size: 36 Copynumber: 4.4 Consensus size: 36
24376148 ATAGAAATTT
* *
24376158 GTAAATCAGAGAATTGTAAAAATGACCA-TTGCAATA
1 GTAAATCAGCGAACTGTAAAAATGA-CAGTTGCAATA
* * * * *
24376194 CTAAATTAGCAAACTGTAAAAATGACAGTCGCGATA
1 GTAAATCAGCGAACTGTAAAAATGACAGTTGCAATA
* * *
24376230 ATAAATCAGTGAACTGCTAGAAAACCGA-AGGTTGCAATA
1 GTAAATCAGCGAACTG-TA-AAAA-TGACA-GTTGCAATA
* * * * *
24376269 GTAAATTAGCGGACCGTAAAAATGAAAGTTGCGATA
1 GTAAATCAGCGAACTGTAAAAATGACAGTTGCAATA
*
24376305 GTAAATCAGTGAACTG
1 GTAAATCAGCGAACTG
24376321 ATAGAAACTT
Statistics
Matches: 96, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
35 2 0.02
36 60 0.62
37 7 0.07
38 7 0.07
39 20 0.21
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (36 bp):
GTAAATCAGCGAACTGTAAAAATGACAGTTGCAATA
Found at i:24376336 original size:75 final size:75
Alignment explanation
Indices: 24376186--24376327 Score: 212
Period size: 75 Copynumber: 1.9 Consensus size: 75
24376176 AAAATGACCA
* * *
24376186 TTGCAATACTAAATTAGCAAACTGTAAAAATGACAGTCGCGATAATAAATCAGTGAACTGCTAGA
1 TTGCAATACTAAATTAGCAAACCGTAAAAATGAAAGTCGCGATAATAAATCAGTGAACTGATAGA
24376251 AAACCGAAGG
66 AAACCGAAGG
* ** * *
24376261 TTGCAATAGTAAATTAGCGGACCGTAAAAATGAAAGTTGCGATAGTAAATCAGTGAACTGATAGA
1 TTGCAATACTAAATTAGCAAACCGTAAAAATGAAAGTCGCGATAATAAATCAGTGAACTGATAGA
24376326 AA
66 AA
24376328 CTTGAAGGTC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 59 1.00
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (75 bp):
TTGCAATACTAAATTAGCAAACCGTAAAAATGAAAGTCGCGATAATAAATCAGTGAACTGATAGA
AAACCGAAGG
Found at i:24376350 original size:75 final size:75
Alignment explanation
Indices: 24376209--24376351 Score: 189
Period size: 75 Copynumber: 1.9 Consensus size: 75
24376199 TTAGCAAACT
* * * *
24376209 GTAAAAATGACAGTCGCGATAATAAATCAGTGAACTGCTAGAAAACCGAAGGTTGCAATAGTAAA
1 GTAAAAATGAAAGTCGCGATAATAAATCAGTGAACTGATAGAAAACCGAAGGTCGCAATAGAAAA
24376274 TTAGCGGACC
66 TTAGCGGACC
* * * * *
24376284 GTAAAAATGAAAGTTGCGATAGTAAATCAGTGAACTGATAG-AAACTTGAAGGTCGCGATCGAAA
1 GTAAAAATGAAAGTCGCGATAATAAATCAGTGAACTGATAGAAAAC-CGAAGGTCGCAATAGAAA
24376348 ATTA
65 ATTA
24376352 ATAGGTATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
74 4 0.07
75 54 0.93
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (75 bp):
GTAAAAATGAAAGTCGCGATAATAAATCAGTGAACTGATAGAAAACCGAAGGTCGCAATAGAAAA
TTAGCGGACC
Found at i:24376445 original size:36 final size:35
Alignment explanation
Indices: 24376381--24376810 Score: 224
Period size: 36 Copynumber: 11.7 Consensus size: 35
24376371 AAAACCAAAG
* *
24376381 GTCGCGATGGTAAATCAGC-AGACCGTAAAAATAACA
1 GTCGCGATAGTAAATCAGCGA-ACTGTAAAAATAA-A
* *
24376417 GTCGTGATAGTAAATCAGCGAATTGT-AAAATGAAA
1 GTCGCGATAGTAAATCAGCGAACTGTAAAAAT-AAA
* * * * *
24376452 GTCACAACAGTAAATTAGCGAACTGTAAAAATGGCAA
1 GTCGCGATAGTAAATCAGCGAACTGTAAAAAT--AAA
* * ** *
24376489 -TTGCAATAGTAAATCAATGAACTGTTAGAAAACTGAAG
1 GTCGCGATAGTAAATCAGCGAACTG-TA-AAAA-T-AAA
* *
24376527 GTCGCGATAGTAAATCAGC-AGACCGTAAAAATGACA
1 GTCGCGATAGTAAATCAGCGA-ACTGTAAAAAT-AAA
* * *
24376563 GTCGCGATTGTAAATCAACGAATTGTAAAAATGAAA
1 GTCGCGATAGTAAATCAGCGAACTGTAAAAAT-AAA
* * *
24376599 GTCACGATAGTAAATTAGCGAACTATAAAAATGACAA
1 GTCGCGATAGTAAATCAGCGAACTGTAAAAAT-A-AA
* * * *
24376636 -TCGCAATAGGAAATCAACTAACTGTTAGAAAATCAAA
1 GTCGCGATAGTAAATCAGCGAACTG-TA-AAAAT-AAA
* * * * * *
24376673 GGTCGCGATAATAAATCAACGGATTGCAAAAATGACA
1 -GTCGCGATAGTAAATCAGCGAACTGTAAAAAT-AAA
*
24376710 GTCGCGATAGTAAATCAGCGAACTGTTAGAAAACTGAAG
1 GTCGCGATAGTAAATCAGCGAACTG-TA-AAAA-T-AAA
** * * * * *
24376749 GTCATGATA-AAATATTAACGAATTGTAAAAATGATA
1 GTCGCGATAGTAA-ATCAGCGAACTGTAAAAAT-AAA
*
24376785 GTCGCGATAATAAATCAGCGAACTGT
1 GTCGCGATAGTAAATCAGCGAACTGT
24376811 TAGAAAATCG
Statistics
Matches: 299, Mismatches: 75, Indels: 40
0.72 0.18 0.10
Matches are distributed among these distances:
35 26 0.09
36 163 0.55
37 31 0.10
38 24 0.08
39 55 0.18
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (35 bp):
GTCGCGATAGTAAATCAGCGAACTGTAAAAATAAA
Found at i:24376667 original size:147 final size:147
Alignment explanation
Indices: 24376365--24376826 Score: 554
Period size: 147 Copynumber: 3.1 Consensus size: 147
24376355 GGTATAAAAT
* * * *
24376365 TGTTAGAAAACCAAAGGTCGCGATGGTAAATCAGCAGACCGTAAAAATAACAGTCGTGATAGTAA
1 TGTTAGAAAATCAAAGGTCGCGATAGTAAATCAGCAGACCGTAAAAATGACAGTCGCGATAGTAA
* * * *
24376430 ATCAGCGAATTGT-AAAATGAAAGTCACAACAGTAAATTAGCGAACTGTAAAAATGGCAATTGCA
66 ATCAGCGAATTGTAAAAATGAAAGTCACGATAGTAAATTAGCGAACTGTAAAAATGACAATCGCA
24376494 ATAGTAAATCAA-TGAAC
131 ATAGTAAATCAACT-AAC
* *
24376511 TGTTAGAAAA-CTGAAGGTCGCGATAGTAAATCAGCAGACCGTAAAAATGACAGTCGCGATTGTA
1 TGTTAGAAAATC-AAAGGTCGCGATAGTAAATCAGCAGACCGTAAAAATGACAGTCGCGATAGTA
* *
24376575 AATCAACGAATTGTAAAAATGAAAGTCACGATAGTAAATTAGCGAACTATAAAAATGACAATCGC
65 AATCAGCGAATTGTAAAAATGAAAGTCACGATAGTAAATTAGCGAACTGTAAAAATGACAATCGC
*
24376640 AATAGGAAATCAACTAAC
130 AATAGTAAATCAACTAAC
* * * ** *
24376658 TGTTAGAAAATCAAAGGTCGCGATAATAAATCAACGGATTGCAAAAATGACAGTCGCGATAGTAA
1 TGTTAGAAAATCAAAGGTCGCGATAGTAAATCAGCAGACCGTAAAAATGACAGTCGCGATAGTAA
* * * * * * * *
24376723 ATCAGCGAACTGTTAGAAAACTGAAGGTCATGATA-AAATATTAACGAATTGTAAAAATGATAGT
66 ATCAGCGAATTG-TA-AAAA-TGAAAGTCACGATAGTAA-ATTAGCGAACTGTAAAAATGACAAT
* * * *
24376787 CGCGATAATAAATCAGCGAAC
127 CGCAATAGTAAATCAACTAAC
*
24376808 TGTTAGAAAATCGAAGGTC
1 TGTTAGAAAATCAAAGGTC
24376827 ATCATCGAAA
Statistics
Matches: 272, Mismatches: 36, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
145 1 0.00
146 70 0.26
147 125 0.46
148 4 0.01
149 6 0.02
150 66 0.24
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (147 bp):
TGTTAGAAAATCAAAGGTCGCGATAGTAAATCAGCAGACCGTAAAAATGACAGTCGCGATAGTAA
ATCAGCGAATTGTAAAAATGAAAGTCACGATAGTAAATTAGCGAACTGTAAAAATGACAATCGCA
ATAGTAAATCAACTAAC
Found at i:24376758 original size:75 final size:74
Alignment explanation
Indices: 24376405--24376827 Score: 365
Period size: 75 Copynumber: 5.7 Consensus size: 74
24376395 TCAGCAGACC
* * * * * * * *
24376405 GTAAAAATAACAGTCGTGATAGTAAATCAGCGAATTG-T--AAAATGAAAGTCACAACAGTAAAT
1 GTAAAAATGACAGTCGCGATAGTAAATCAACGAACTGTTAGAAAATGAAGGTCACGATAATAAAT
* *
24376467 TAGCGAACT
66 CAACGAACT
* * * * * * *
24376476 GTAAAAATGGCAATTGCAATAGTAAATCAATGAACTGTTAGAAAACTGAAGGTCGCGATAGTAAA
1 GTAAAAATGACAGTCGCGATAGTAAATCAACGAACTGTTAGAAAA-TGAAGGTCACGATAATAAA
* *
24376541 TCAGC-AGACC
65 TCAACGA-ACT
* * * *
24376551 GTAAAAATGACAGTCGCGATTGTAAATCAACGAATTG-TA-AAAATGAAAGTCACGATAGTAAAT
1 GTAAAAATGACAGTCGCGATAGTAAATCAACGAACTGTTAGAAAATGAAGGTCACGATAATAAAT
* *
24376614 TAGCGAACT
66 CAACGAACT
* * * * * * *
24376623 ATAAAAATGACAATCGCAATAGGAAATCAACTAACTGTTAGAAAATCAAAGGTCGCGATAATAAA
1 GTAAAAATGACAGTCGCGATAGTAAATCAACGAACTGTTAGAAAAT-GAAGGTCACGATAATAAA
* *
24376688 TCAACGGATT
65 TCAACGAACT
* * *
24376698 GCAAAAATGACAGTCGCGATAGTAAATCAGCGAACTGTTAGAAAACTGAAGGTCATGATAA-AAT
1 GTAAAAATGACAGTCGCGATAGTAAATCAACGAACTGTTAGAAAA-TGAAGGTCACGATAATAA-
* *
24376762 ATTAACGAATT
64 ATCAACGAACT
* * *
24376773 GTAAAAATGATAGTCGCGATAATAAATCAGCGAACTGTTAGAAAATCGAAGGTCA
1 GTAAAAATGACAGTCGCGATAGTAAATCAACGAACTGTTAGAAAAT-GAAGGTCA
24376828 TCATCGAAAA
Statistics
Matches: 284, Mismatches: 56, Indels: 20
0.79 0.16 0.06
Matches are distributed among these distances:
71 28 0.10
72 54 0.19
73 7 0.02
74 15 0.05
75 179 0.63
76 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.22
Consensus pattern (74 bp):
GTAAAAATGACAGTCGCGATAGTAAATCAACGAACTGTTAGAAAATGAAGGTCACGATAATAAAT
CAACGAACT
Found at i:24376853 original size:75 final size:75
Alignment explanation
Indices: 24376406--24376885 Score: 299
Period size: 75 Copynumber: 6.5 Consensus size: 75
24376396 CAGCAGACCG
* * * * * * *
24376406 TAAAAATAACAGTCGTGATAGTAAATCAGCGAATTG-T--AAAAT-GAAAGTCA-CAACAGTAAA
1 TAAAAATGACAGTCGCGATAGTAAATCAGCGAACTGTTAGAAAATCGAAGGTCATCGATA-AAAA
* *
24376466 TTAGCGAACTG
65 TTAACGAACTA
* * * * ** * *
24376477 TAAAAATGGCAATTGCAATAGTAAATCAATGAACTGTTAGAAAA-CTGAAGGTC-GCGATAGTAA
1 TAAAAATGACAGTCGCGATAGTAAATCAGCGAACTGTTAGAAAATC-GAAGGTCATCGATA-AAA
* * **
24376540 ATCAGC-AGACCG
64 ATTAACGA-ACTA
* * * * *
24376552 TAAAAATGACAGTCGCGATTGTAAATCAACGAATTG-TA-AAAAT-GAAAGTCA-CGATAGTAAA
1 TAAAAATGACAGTCGCGATAGTAAATCAGCGAACTGTTAGAAAATCGAAGGTCATCGATA-AAAA
*
24376613 TTAGCGAACTA
65 TTAACGAACTA
* * * * * * *
24376624 TAAAAATGACAATCGCAATAGGAAATCAACTAACTGTTAGAAAATCAAAGGTC-GCGATAATAAA
1 TAAAAATGACAGTCGCGATAGTAAATCAGCGAACTGTTAGAAAATCGAAGGTCATCGATAA-AAA
* * * *
24376688 TCAACGGATTG
65 TTAACGAACTA
*
24376699 CAAAAATGACAGTCGCGATAGTAAATCAGCGAACTGTTAGAAAA-CTGAAGGTCAT-GATAAAAT
1 TAAAAATGACAGTCGCGATAGTAAATCAGCGAACTGTTAGAAAATC-GAAGGTCATCGATAAAA-
* *
24376762 ATTAACGAATTG
64 ATTAACGAACTA
* * *
24376774 TAAAAATGATAGTCGCGATAATAAATCAGCGAACTGTTAGAAAATCGAAGGTCATC-ATCGAAAA
1 TAAAAATGACAGTCGCGATAGTAAATCAGCGAACTGTTAGAAAATCGAAGGTCATCGAT-AAAAA
* *
24376838 TTAGCGGACTA
65 TTAACGAACTA
* * * * * *
24376849 TAAAAATAATAGTTGCAATATTAAATCAGCAAACTGT
1 TAAAAATGACAGTCGCGATAGTAAATCAGCGAACTGT
24376886 AAAATTGACA
Statistics
Matches: 326, Mismatches: 62, Indels: 38
0.77 0.15 0.09
Matches are distributed among these distances:
71 27 0.08
72 53 0.16
73 7 0.02
74 15 0.05
75 220 0.67
76 4 0.01
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.23
Consensus pattern (75 bp):
TAAAAATGACAGTCGCGATAGTAAATCAGCGAACTGTTAGAAAATCGAAGGTCATCGATAAAAAT
TAACGAACTA
Found at i:24376854 original size:150 final size:148
Alignment explanation
Indices: 24376365--24376918 Score: 444
Period size: 147 Copynumber: 3.8 Consensus size: 148
24376355 GGTATAAAAT
* ** * * ** * *
24376365 TGTTAGAAAACCAAAGGTCGCGATGGTAAATCAGCAGACCGTAAAAATAACAGTCGTGATAGTAA
1 TGTTAGAAAATCAAAGGTCGCGATAATAAATCAACGGACTATAAAAATGACAGTCGCGATAGTAA
* * * * * * * *
24376430 ATCAGCGAATTG-T-AAAATGAAAGTCACAACAGTAAATTAGCGAACTGTAAAAATGGCAATTGC
66 ATCAGCGAACTGTTAAAAATGAAAGTCACGATAGAAAATTAACGAACTATAAAAATGACAATCGC
*
24376493 AAT-AGTAAATCAATGAAC
131 AATAAG-AAATCAACGAAC
* * * * ** *
24376511 TGTTAGAAAA-CTGAAGGTCGCGATAGTAAATCAGCAGACCGTAAAAATGACAGTCGCGATTGTA
1 TGTTAGAAAATC-AAAGGTCGCGATAATAAATCAACGGACTATAAAAATGACAGTCGCGATAGTA
* * * *
24376575 AATCAACGAATTG-TAAAAATGAAAGTCACGATAGTAAATTAGCGAACTATAAAAATGACAATCG
65 AATCAGCGAACTGTTAAAAATGAAAGTCACGATAGAAAATTAACGAACTATAAAAATGACAATCG
* *
24376639 CAATAGGAAATCAACTAAC
130 CAATAAGAAATCAACGAAC
* **
24376658 TGTTAGAAAATCAAAGGTCGCGATAATAAATCAACGGATTGCAAAAATGACAGTCGCGATAGTAA
1 TGTTAGAAAATCAAAGGTCGCGATAATAAATCAACGGACTATAAAAATGACAGTCGCGATAGTAA
* * * * * *
24376723 ATCAGCGAACTGTTAGAAAACTGAAGGTCATGATA-AAATATTAACGAATTGTAAAAATGATAGT
66 ATCAGCGAACTGTTA-AAAA-TGAAAGTCACGATAGAAA-ATTAACGAACTATAAAAATGACAAT
* * *
24376787 CGCGATAATAAATCAGCGAAC
128 CGCAATAAGAAATCAACGAAC
* * * * * * * * * *
24376808 TGTTAGAAAATCGAAGGTCATC-ATCGA-AAATTAGCGGACTATAAAAATAATAGTTGCAATATT
1 TGTTAGAAAATCAAAGGTC-GCGAT-AATAAATCAACGGACTATAAAAATGACAGTCGCGATAGT
* * * * *
24376871 AAATCAGCAAACTG-TAAAATTGACAGTCGCAATA-ATAAATTAACGAAC
64 AAATCAGCGAACTGTTAAAAATGAAAGTCACGATAGA-AAATTAACGAAC
24376919 GATTAGAAAA
Statistics
Matches: 339, Mismatches: 58, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
145 1 0.00
146 70 0.21
147 142 0.42
148 9 0.03
149 8 0.02
150 107 0.32
151 2 0.01
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (148 bp):
TGTTAGAAAATCAAAGGTCGCGATAATAAATCAACGGACTATAAAAATGACAGTCGCGATAGTAA
ATCAGCGAACTGTTAAAAATGAAAGTCACGATAGAAAATTAACGAACTATAAAAATGACAATCGC
AATAAGAAATCAACGAAC
Found at i:24376990 original size:36 final size:35
Alignment explanation
Indices: 24376950--24377141 Score: 120
Period size: 39 Copynumber: 5.2 Consensus size: 35
24376940 GTGGCGATAA
24376950 TAAATCAACGAACCATAAAAATGACAGTCGCAATAG
1 TAAATCAAC-AACCATAAAAATGACAGTCGCAATAG
* * *
24376986 TAAATCAACGAACTGTTAGAAAAATGA-AGGTCGCGATAG
1 TAAATCAAC-AAC---CATAAAAATGACA-GTCGCAATAG
** * **
24377025 TAAAT-TGCATACCGTAAAAATGACAGTCATAATAG
1 TAAATCAACA-ACCATAAAAATGACAGTCGCAATAG
** * *
24377060 TAAATCAACAAACTGTTAGAAAACTGA-AGGTCGCGATAC
1 TAAATCAAC-AAC-CATA-AAAA-TGACA-GTCGCAATAG
* *
24377099 TAAATCAGCAGACCATAAAAATGACAATCGCAATAG
1 TAAATCAACA-ACCATAAAAATGACAGTCGCAATAG
24377135 TAAATCA
1 TAAATCA
24377142 GCAAACTGTT
Statistics
Matches: 117, Mismatches: 25, Indels: 28
0.69 0.15 0.16
Matches are distributed among these distances:
35 20 0.17
36 34 0.29
37 9 0.08
38 12 0.10
39 42 0.36
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.20
Consensus pattern (35 bp):
TAAATCAACAACCATAAAAATGACAGTCGCAATAG
Found at i:24377064 original size:74 final size:75
Alignment explanation
Indices: 24376870--24377157 Score: 312
Period size: 74 Copynumber: 3.8 Consensus size: 75
24376860 GTTGCAATAT
* ** * * * *
24376870 TAAATCAGCAAACTGTAAAATTGACAGTCGCAATAATAAATTAACGAAC-GATTAGAAAATCGAA
1 TAAATCAGCAGACCATAAAAATGACAGTCGCAATAGTAAATCAACAAACTG-TTAG-AAA---AA
* *
24376934 TGTAAGGTGGCGATAA
61 TG-AAGGTCGCGATAC
* *
24376950 TAAATCAAC-GAACCATAAAAATGACAGTCGCAATAGTAAATCAACGAACTGTTAGAAAAATGAA
1 TAAATCAGCAG-ACCATAAAAATGACAGTCGCAATAGTAAATCAACAAACTGTTAGAAAAATGAA
*
24377014 GGTCGCGATAG
65 GGTCGCGATAC
* * * ** *
24377025 TAAAT-TGCATACCGTAAAAATGACAGTCATAATAGTAAATCAACAAACTGTTAGAAAACTGAAG
1 TAAATCAGCAGACCATAAAAATGACAGTCGCAATAGTAAATCAACAAACTGTTAGAAAAATGAAG
24377089 GTCGCGATAC
66 GTCGCGATAC
* *
24377099 TAAATCAGCAGACCATAAAAATGACAATCGCAATAGTAAATCAGCAAACTGTTAGAAAA
1 TAAATCAGCAGACCATAAAAATGACAGTCGCAATAGTAAATCAACAAACTGTTAGAAAA
24377158 CCGAAGGTAA
Statistics
Matches: 179, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
74 64 0.36
75 62 0.35
76 4 0.02
79 3 0.02
80 45 0.25
81 1 0.01
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (75 bp):
TAAATCAGCAGACCATAAAAATGACAGTCGCAATAGTAAATCAACAAACTGTTAGAAAAATGAAG
GTCGCGATAC
Found at i:24377151 original size:75 final size:75
Alignment explanation
Indices: 24376870--24377165 Score: 319
Period size: 75 Copynumber: 3.9 Consensus size: 75
24376860 GTTGCAATAT
* ** * * * *
24376870 TAAATCAGCAAACTGTAAAATTGACAGTCGCAATAATAAATTAACGAAC-GATTAGAAAATCGAA
1 TAAATCAGCAGACCATAAAAATGACAGTCGCAATAGTAAATCAACAAACTG-TTAGAAAA-C---
*
24376934 TGTAAGGTGGCGATAA
61 TG-AAGGTCGCGATAA
* * *
24376950 TAAATCAAC-GAACCATAAAAATGACAGTCGCAATAGTAAATCAACGAACTGTTAGAAAAATGAA
1 TAAATCAGCAG-ACCATAAAAATGACAGTCGCAATAGTAAATCAACAAACTGTTAGAAAACTGAA
*
24377014 GGTCGCGATAG
65 GGTCGCGATAA
* * * **
24377025 TAAAT-TGCATACCGTAAAAATGACAGTCATAATAGTAAATCAACAAACTGTTAGAAAACTGAAG
1 TAAATCAGCAGACCATAAAAATGACAGTCGCAATAGTAAATCAACAAACTGTTAGAAAACTGAAG
*
24377089 GTCGCGATAC
66 GTCGCGATAA
* * *
24377099 TAAATCAGCAGACCATAAAAATGACAATCGCAATAGTAAATCAGCAAACTGTTAGAAAACCGAAG
1 TAAATCAGCAGACCATAAAAATGACAGTCGCAATAGTAAATCAACAAACTGTTAGAAAACTGAAG
24377164 GT
66 GT
24377166 AATGTCGCTG
Statistics
Matches: 185, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
74 64 0.35
75 69 0.37
76 2 0.01
80 49 0.26
81 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.21
Consensus pattern (75 bp):
TAAATCAGCAGACCATAAAAATGACAGTCGCAATAGTAAATCAACAAACTGTTAGAAAACTGAAG
GTCGCGATAA
Found at i:24378014 original size:25 final size:26
Alignment explanation
Indices: 24377960--24378014 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
24377950 AAATATTAAA
*
24377960 ATTAATTTAATATTAAGAGAATCACT
1 ATTAATTTAATATTAAGAAAATCACT
*
24377986 -TTAATATTAA-ATTAATAAAAT-ACT
1 ATTAAT-TTAATATTAAGAAAATCACT
24378010 ATTAA
1 ATTAA
24378015 GATAAGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 3 0.12
25 18 0.72
26 4 0.16
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (26 bp):
ATTAATTTAATATTAAGAAAATCACT
Found at i:24378037 original size:68 final size:71
Alignment explanation
Indices: 24377907--24378043 Score: 199
Period size: 68 Copynumber: 2.0 Consensus size: 71
24377897 AATTAAACTT
* * *
24377907 AATCATTTTAATATTAAATTAATAGAATATTTATTTACAAGATAAATATTAAAATTAATTTAATA
1 AATCACTTTAATATTAAATTAATAAAATATCTATTTA-AAGATAAATATTAAAATTAATTTAATA
24377972 TTAAGAG
65 TTAAGAG
* *
24377979 AATCACTTTAATATTAAATTAATAAAATA-CTA-TT-AAGATAAGTATTAAATTTAATTTAATAT
1 AATCACTTTAATATTAAATTAATAAAATATCTATTTAAAGATAAATATTAAAATTAATTTAATAT
24378041 TAA
66 TAA
24378044 ATCTATTAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
68 29 0.48
70 2 0.03
71 2 0.03
72 27 0.45
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (71 bp):
AATCACTTTAATATTAAATTAATAAAATATCTATTTAAAGATAAATATTAAAATTAATTTAATAT
TAAGAG
Found at i:24378059 original size:68 final size:71
Alignment explanation
Indices: 24377915--24378062 Score: 160
Period size: 68 Copynumber: 2.1 Consensus size: 71
24377905 TTAATCATTT
* * *
24377915 TAATATTAAATTAATAGAATATTTATTTACAAGATAAATATTAAAATTAATTTAATATTAAGAGA
1 TAATATTAAATTAATAAAATATCTATTTA-AAGATAAATATTAAAATTAATTTAATATTAAGACA
***
24377980 ATCACTT
65 ATCAAAA
* * *
24377987 TAATATTAAATTAATAAAATA-CTA-TT-AAGATAAGTATTAAATTTAATTTAATATTAA-ATCT
1 TAATATTAAATTAATAAAATATCTATTTAAAGATAAATATTAAAATTAATTTAATATTAAGA-CA
*
24378048 ATTAAAA
65 ATCAAAA
24378055 TAATATTA
1 TAATATTA
24378063 TTTTTGGCAG
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
67 1 0.02
68 40 0.62
70 2 0.03
71 2 0.03
72 20 0.31
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.41
Consensus pattern (71 bp):
TAATATTAAATTAATAAAATATCTATTTAAAGATAAATATTAAAATTAATTTAATATTAAGACAA
TCAAAA
Found at i:24385352 original size:102 final size:102
Alignment explanation
Indices: 24385176--24385380 Score: 313
Period size: 102 Copynumber: 2.0 Consensus size: 102
24385166 GTCTCTTTAT
* *
24385176 TTTTCTTGAAAATGTCCTTTTTTCCACATTCCACCCAAATCCAAGTAACATAAATGCCAACGATC
1 TTTTCTTGAAAATATCCTTTTTTCCACATTCCACCCAAATCCAAGTAACAAAAATGCCAACGATC
* *
24385241 AGAGCACTTTTGGCCATCAAATTGAGCAATAACAGCA
66 AGAGAACTTTTGGCCATCAAATTAAGCAATAACAGCA
** *
24385278 TTTTCTTGAAAATATCCTCTTTTT-GGCATTCCACCCAAATCCAAGTAACAAAAATGCCAAGGAT
1 TTTTCTTGAAAATATCCT-TTTTTCCACATTCCACCCAAATCCAAGTAACAAAAATGCCAACGAT
* *
24385342 CAGATAACTTTTGGCCCTCAAATTAAGCAATAACAGCA
65 CAGAGAACTTTTGGCCATCAAATTAAGCAATAACAGCA
24385380 T
1 T
24385381 CAAGTAACCA
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
102 88 0.95
103 5 0.05
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (102 bp):
TTTTCTTGAAAATATCCTTTTTTCCACATTCCACCCAAATCCAAGTAACAAAAATGCCAACGATC
AGAGAACTTTTGGCCATCAAATTAAGCAATAACAGCA
Found at i:24388358 original size:27 final size:27
Alignment explanation
Indices: 24388327--24388493 Score: 198
Period size: 27 Copynumber: 6.1 Consensus size: 27
24388317 AGCATGGCTG
* *
24388327 CCAGATACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
24388354 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
24388382 CCAGA-ACAGATATATGTGGCAAAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
24388409 CCAGAT-CAGATAATCGTGGCATAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
24388436 CCA-AAACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
24388463 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
24388490 CCAG
1 CCAG
24388494 GACGCTTCCT
Statistics
Matches: 122, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.03
27 99 0.81
28 19 0.16
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:24388423 original size:54 final size:54
Alignment explanation
Indices: 24388327--24388493 Score: 246
Period size: 54 Copynumber: 3.1 Consensus size: 54
24388317 AGCATGGCTG
* * * *
24388327 CCAGATACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCATAGCCA
*
24388382 CCAGAACAGATATATGTGGCAAAGCCACCAGATCAGATAATCGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
* *
24388436 CCAAAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
24388490 CCAG
1 CCAG
24388494 GACGCTTCCT
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
54 80 0.78
55 22 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
Found at i:24390104 original size:26 final size:26
Alignment explanation
Indices: 24390068--24390175 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
24390058 TGAAATGCTC
*
24390068 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
24390094 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
24390120 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
24390146 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
24390172 ATCA
1 ATCA
24390176 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:24390578 original size:29 final size:28
Alignment explanation
Indices: 24390530--24390584 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
24390520 TGGTTTTTGT
*
24390530 ATAATTTTTTAATAAATATATTTTTTAC
1 ATAATTTTTTAATAAATATATATTTTAC
* *
24390558 ATAATTTTTTAGATTAGTATATATTTT
1 ATAATTTTTTA-ATAAATATATATTTT
24390585 GCCCCTCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (28 bp):
ATAATTTTTTAATAAATATATATTTTAC
Found at i:24390995 original size:16 final size:17
Alignment explanation
Indices: 24390966--24391014 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
24390956 TGTATTTAAA
* *
24390966 TTAAAAATATATAAATT
1 TTAAAAATAAATAAAAT
24390983 TTAAAAA-AAATAAAAT
1 TTAAAAATAAATAAAAT
* *
24390999 TTATAAATTAATAAAA
1 TTAAAAATAAATAAAA
24391015 AGTATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAATAAATAAAAT
Found at i:24391589 original size:27 final size:27
Alignment explanation
Indices: 24391539--24391617 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
24391529 GGCCTTACAT
*
24391539 ATTTTTATAA-GTTTATAAATATT-TAG
1 ATTTTTATAATTTTTATAAAT-TTATAG
*
24391565 TTATTTTATATATTTTTATAAATTTATAG
1 AT-TTTTATA-ATTTTTATAAATTTATAG
*
24391594 ATTTTTATAATTTTTGTAAATTTA
1 ATTTTTATAATTTTTATAAATTTA
24391618 CATATTATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
26 1 0.02
27 21 0.47
28 10 0.22
29 13 0.29
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (27 bp):
ATTTTTATAATTTTTATAAATTTATAG
Found at i:24391592 original size:18 final size:18
Alignment explanation
Indices: 24391537--24391603 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
24391527 AAGGCCTTAC
*
24391537 ATATTTTTATAAGTTTAT
1 ATATTTTTATAAATTTAT
* * * *
24391555 AAATATTTAGTTATTTTAT
1 ATATTTTTA-TAAATTTAT
24391574 ATATTTTTATAAATTTAT
1 ATATTTTTATAAATTTAT
*
24391592 AGATTTTTATAA
1 ATATTTTTATAA
24391604 TTTTTGTAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
18 25 0.64
19 14 0.36
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.58
Consensus pattern (18 bp):
ATATTTTTATAAATTTAT
Found at i:24403870 original size:18 final size:18
Alignment explanation
Indices: 24403847--24403884 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
24403837 AATATATATT
24403847 AACCCAAGAACCCAACCC
1 AACCCAAGAACCCAACCC
**
24403865 AACCCAATTACCCAACCC
1 AACCCAAGAACCCAACCC
24403883 AA
1 AA
24403885 TCATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.47, G:0.03, T:0.05
Consensus pattern (18 bp):
AACCCAAGAACCCAACCC
Found at i:24403877 original size:13 final size:13
Alignment explanation
Indices: 24403861--24403885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24403851 CAAGAACCCA
24403861 ACCCAACCCAATT
1 ACCCAACCCAATT
24403874 ACCCAACCCAAT
1 ACCCAACCCAAT
24403886 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:24403921 original size:6 final size:6
Alignment explanation
Indices: 24403910--24403950 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
24403900 ATAATTTAAT
24403910 AAATAA AAATAA AAATATA AAACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATA-A AAA-TAA AAATAA AAATAA AAA
24403951 ATATAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 23 0.70
7 8 0.24
8 2 0.06
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:24403931 original size:14 final size:14
Alignment explanation
Indices: 24403912--24403956 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
24403902 AATTTAATAA
24403912 ATAAAAATAAAAAT
1 ATAAAAATAAAAAT
*
24403926 ATAAAACT-AAAA-
1 ATAAAAATAAAAAT
24403938 ATAAAAATAAAAAAT
1 ATAAAAAT-AAAAAT
24403953 ATAA
1 ATAA
24403957 TTTTATACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.27
13 4 0.15
14 11 0.42
15 4 0.15
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (14 bp):
ATAAAAATAAAAAT
Found at i:24403951 original size:20 final size:20
Alignment explanation
Indices: 24403913--24403951 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
24403903 ATTTAATAAA
*
24403913 TAAAAATAAAAATATAAAAC
1 TAAAAATAAAAATAAAAAAC
24403933 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
24403952 TATAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:24404051 original size:9 final size:9
Alignment explanation
Indices: 24403968--24404052 Score: 91
Period size: 9 Copynumber: 9.4 Consensus size: 9
24403958 TTTATACAAA
*
24403968 TAATTCGAT
1 TAATTCGGT
24403977 TAATTCGGT
1 TAATTCGGT
24403986 TAATTCGGT
1 TAATTCGGT
* *
24403995 TAATTTGGG
1 TAATTCGGT
*
24404004 TAATTCGGG
1 TAATTCGGT
24404013 TAATTCGAG-
1 TAATTCG-GT
*
24404022 TAATTCAGT
1 TAATTCGGT
*
24404031 TAATTCGAT
1 TAATTCGGT
*
24404040 TAATTCAGT
1 TAATTCGGT
24404049 TAAT
1 TAAT
24404053 ATTATACTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
8 1 0.02
9 63 0.97
10 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.42
Consensus pattern (9 bp):
TAATTCGGT
Found at i:24408291 original size:20 final size:20
Alignment explanation
Indices: 24408266--24408305 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
24408256 AATTTCAAAA
24408266 TTATAAAAT-TTTGGAATTTT
1 TTAT-AAATGTTTGGAATTTT
*
24408286 TTATAAATGTTTTGAATTTT
1 TTATAAATGTTTGGAATTTT
24408306 AAAATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (20 bp):
TTATAAATGTTTGGAATTTT
Found at i:24408323 original size:20 final size:20
Alignment explanation
Indices: 24408300--24408337 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24408290 AAATGTTTTG
24408300 AATTTT-AAAATTTATTTTAA
1 AATTTTGAAAA-TTATTTTAA
24408320 AATTTTGAAAATTATTTT
1 AATTTTGAAAATTATTTT
24408338 GTACTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
AATTTTGAAAATTATTTTAA
Found at i:24415844 original size:35 final size:35
Alignment explanation
Indices: 24415778--24416044 Score: 327
Period size: 35 Copynumber: 7.6 Consensus size: 35
24415768 TCCTCATTGA
* * * *
24415778 AATACTATACCTACATTTCACAACTCGGTATGGAA
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* ** *
24415813 AATGCCATACCTACGTTTCTTAACTTAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
24415848 AATACCATACCTACATTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
24415883 TATTCCATACCTACGTTTCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
24415918 GATACCATACCTACGTTTCACAACTCGGTATAGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
24415953 GATACCATACCTACATTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * * *
24415988 AATATCATACCTATGTTTCACAACTTAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
24416023 AATACCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
24416045 TTTTGCCATA
Statistics
Matches: 199, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 199 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.33
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:24415966 original size:105 final size:105
Alignment explanation
Indices: 24415784--24416044 Score: 371
Period size: 105 Copynumber: 2.5 Consensus size: 105
24415774 TTGAAATACT
* * * ** * *
24415784 ATACCTACATTTCACAACTCGGTATGGAAAATGCCATACCTACGTTTCTTAACTTAGTATGGATA
1 ATACCTACGTTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACAACTCAGTATAGATA
*
24415849 ATACCATACCTACATTTCACAACTCAGTATGGTTTAT-TCC
66 ATACCATACCTACATTTCACAACTCAGTATGGTTAATAT-C
* * *
24415889 ATACCTACGTTTCACAACTCGGTATGGATGATACCATACCTACGTTTCACAACTCGGTATAGATG
1 ATACCTACGTTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACAACTCAGTATAGATA
24415954 ATACCATACCTACATTTCACAACTCAGTATGGTTAATATC
66 ATACCATACCTACATTTCACAACTCAGTATGGTTAATATC
* ** *
24415994 ATACCTATGTTTCACAACTTAGTATGGTTAATACCATACCTACGTTTCACA
1 ATACCTACGTTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACA
24416045 TTTTGCCATA
Statistics
Matches: 139, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
105 138 0.99
106 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (105 bp):
ATACCTACGTTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACAACTCAGTATAGATA
ATACCATACCTACATTTCACAACTCAGTATGGTTAATATC
Found at i:24420692 original size:40 final size:39
Alignment explanation
Indices: 24420592--24420697 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 39
24420582 GAAATCCTTG
* *
24420592 TTATAATTATTGTAATTGTAA-TTTATGATCGAATATTA
1 TTATAATTATTGTAATTGTAATTTTATGATCAAACATTA
* *
24420630 TTATAATTATTGTAACTGTAATTTTGTCGATCAAACATTA
1 TTATAATTATTGTAATTGTAATTTTAT-GATCAAACATTA
* *
24420670 TTATAATTATGGTAATTATAATTATTAT
1 TTATAATTATTGTAATTGTAATT-TTAT
24420698 ATTTGGTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
38 20 0.35
39 4 0.07
40 30 0.53
41 3 0.05
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (39 bp):
TTATAATTATTGTAATTGTAATTTTATGATCAAACATTA
Found at i:24423949 original size:18 final size:18
Alignment explanation
Indices: 24423926--24423984 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 18
24423916 AGTTAAAGAC
24423926 TTGAAATGGCAAATGATA
1 TTGAAATGGCAAATGATA
* *
24423944 TTGAAAT--AAAATGCTA
1 TTGAAATGGCAAATGATA
* *
24423960 TTGAAATAGCAAATGTTA
1 TTGAAATGGCAAATGATA
24423978 -TGAAATG
1 TTGAAATG
24423985 AAATGAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
16 14 0.41
17 6 0.18
18 14 0.41
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.31
Consensus pattern (18 bp):
TTGAAATGGCAAATGATA
Found at i:24423961 original size:16 final size:16
Alignment explanation
Indices: 24423936--24423990 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
24423926 TTGAAATGGC
24423936 AAATGATATTGAAATA
1 AAATGATATTGAAATA
*
24423952 AAATGCTATTGAAATA
1 AAATGATATTGAAATA
* *
24423968 GCAAATGTTA-TGAAATG
1 --AAATGATATTGAAATA
24423985 AAATGA
1 AAATGA
24423991 AATTTAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 5 0.15
16 15 0.45
17 6 0.18
18 7 0.21
ACGTcount: A:0.51, C:0.04, G:0.16, T:0.29
Consensus pattern (16 bp):
AAATGATATTGAAATA
Found at i:24423964 original size:34 final size:33
Alignment explanation
Indices: 24423926--24423989 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
24423916 AGTTAAAGAC
*
24423926 TTGAAATGGCAAATGATATTGAAATAAAATGCTA
1 TTGAAATAGCAAATGATA-TGAAATAAAATGCTA
* *
24423960 TTGAAATAGCAAATGTTATGAAATGAAATG
1 TTGAAATAGCAAATGATATGAAATAAAATG
24423990 AAATTTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 11 0.41
34 16 0.59
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.30
Consensus pattern (33 bp):
TTGAAATAGCAAATGATATGAAATAAAATGCTA
Found at i:24424572 original size:23 final size:22
Alignment explanation
Indices: 24424546--24424589 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
24424536 AATTAGTTAT
24424546 ATGTTAGGCATTAT-GTTTGATGG
1 ATGTTAGG-ATT-TGGTTTGATGG
*
24424569 ATGTTTGGATTTGGTTTGATG
1 ATGTTAGGATTTGGTTTGATG
24424590 CATAATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 1 0.05
22 11 0.58
23 7 0.37
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (22 bp):
ATGTTAGGATTTGGTTTGATGG
Found at i:24424901 original size:33 final size:33
Alignment explanation
Indices: 24424859--24424922 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
24424849 AATAGGTTGA
24424859 AATGTAGTCTAAATGGAAGCTTGGGACTTAAGC
1 AATGTAGTCTAAATGGAAGCTTGGGACTTAAGC
24424892 AATGTAGTCTAAATGGAAGCTTGGGACTTAA
1 AATGTAGTCTAAATGGAAGCTTGGGACTTAA
24424923 TCATTCCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (33 bp):
AATGTAGTCTAAATGGAAGCTTGGGACTTAAGC
Found at i:24429697 original size:37 final size:37
Alignment explanation
Indices: 24429652--24429794 Score: 205
Period size: 37 Copynumber: 4.1 Consensus size: 37
24429642 ATGTGTTAAT
24429652 TTCA-AGACTTATGTAATATTTTTAATTATGTAGTGA
1 TTCATAGACTTATGTAATATTTTTAATTATGTAGTGA
24429688 TTCATAGACTTATGTAATATTTTT-A--A--T--T-A
1 TTCATAGACTTATGTAATATTTTTAATTATGTAGTGA
24429717 TTCATAGACTTATGTAATATTTTTAATTATGTAGTGA
1 TTCATAGACTTATGTAATATTTTTAATTATGTAGTGA
* *
24429754 TTCAAAGACTTATGTAATGTTTTTAATTATGTAGTGA
1 TTCATAGACTTATGTAATATTTTTAATTATGTAGTGA
24429791 TTCA
1 TTCA
24429795 ATTCGGTTAA
Statistics
Matches: 96, Mismatches: 2, Indels: 17
0.83 0.02 0.15
Matches are distributed among these distances:
29 25 0.26
30 2 0.02
32 2 0.02
34 2 0.02
36 6 0.06
37 59 0.61
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (37 bp):
TTCATAGACTTATGTAATATTTTTAATTATGTAGTGA
Found at i:24429720 original size:29 final size:29
Alignment explanation
Indices: 24429687--24429746 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
24429677 TTATGTAGTG
24429687 ATTCATAGACTTATGTAATATTTTTAATT
1 ATTCATAGACTTATGTAATATTTTTAATT
24429716 ATTCATAGACTTATGTAATATTTTTAATT
1 ATTCATAGACTTATGTAATATTTTTAATT
24429745 AT
1 AT
24429747 GTAGTGATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.52
Consensus pattern (29 bp):
ATTCATAGACTTATGTAATATTTTTAATT
Found at i:24429733 original size:66 final size:65
Alignment explanation
Indices: 24429652--24429783 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 65
24429642 ATGTGTTAAT
*
24429652 TTCAAGACTTATGTAATATTTTTAATTATGTAGTGATTCATAGACTTATGTAATATTTTTAATTA
1 TTCAAGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATATTTTTAATTA
*
24429717 TTCATAGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGTTTTTAATT
1 TTCA-AGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATATTTTTAATT
24429782 A
65 A
24429783 T
1 T
24429784 GTAGTGATTC
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 4 0.06
66 60 0.94
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.49
Consensus pattern (65 bp):
TTCAAGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATATTTTTAATTA
Found at i:24429808 original size:9 final size:9
Alignment explanation
Indices: 24429794--24429876 Score: 98
Period size: 9 Copynumber: 9.4 Consensus size: 9
24429784 GTAGTGATTC
24429794 AATTCGGTT
1 AATTCGGTT
*
24429803 AATTCGGGT
1 AATTCGGTT
*
24429812 AA-TCGATT
1 AATTCGGTT
* *
24429820 AATTTGGGT
1 AATTCGGTT
24429829 AA-TCGGTT
1 AATTCGGTT
*
24429837 AATTCGATT
1 AATTCGGTT
24429846 AATTCGGTT
1 AATTCGGTT
*
24429855 AATTCGTTT
1 AATTCGGTT
24429864 AATTCGGTT
1 AATTCGGTT
24429873 AATT
1 AATT
24429877 TTTAACCAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
8 12 0.20
9 48 0.80
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:24429823 original size:17 final size:17
Alignment explanation
Indices: 24429801--24429842 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
24429791 TTCAATTCGG
24429801 TTAATTCGGGTAATCGA
1 TTAATTCGGGTAATCGA
* *
24429818 TTAATTTGGGTAATCGG
1 TTAATTCGGGTAATCGA
24429835 TTAATTCG
1 TTAATTCG
24429843 ATTAATTCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (17 bp):
TTAATTCGGGTAATCGA
Found at i:24429831 original size:26 final size:27
Alignment explanation
Indices: 24429789--24429876 Score: 90
Period size: 26 Copynumber: 3.3 Consensus size: 27
24429779 ATTATGTAGT
*
24429789 GATTCAATTCGGTTAATTCGGGTAA-TC
1 GATT-AATTCGGGTAATTCGGGTAATTC
* *
24429816 GATTAATTTGGGTAA-TCGGTTAATTC
1 GATTAATTCGGGTAATTCGGGTAATTC
* **
24429842 GATTAATTCGGTTAATTCGTTTAATTC
1 GATTAATTCGGGTAATTCGGGTAATTC
*
24429869 GGTTAATT
1 GATTAATT
24429877 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
25 7 0.13
26 24 0.46
27 21 0.40
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.43
Consensus pattern (27 bp):
GATTAATTCGGGTAATTCGGGTAATTC
Found at i:24439209 original size:9 final size:9
Alignment explanation
Indices: 24439195--24439220 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
24439185 GGGGAGGCAA
24439195 GAAGAAAGG
1 GAAGAAAGG
24439204 GAAGAAAGG
1 GAAGAAAGG
24439213 GAAGAAAG
1 GAAGAAAG
24439221 TTAGTCCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (9 bp):
GAAGAAAGG
Found at i:24441144 original size:30 final size:30
Alignment explanation
Indices: 24441110--24441171 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
24441100 CTGAGACGCA
*
24441110 TACTTTTCATCTTCCATGCGGAGAGTGTAC
1 TACTTTTCATCTTCCATGCAGAGAGTGTAC
24441140 TACTTTTCATCTTCCATGCAGAGAGTGTAC
1 TACTTTTCATCTTCCATGCAGAGAGTGTAC
24441170 TA
1 TA
24441172 TCACTCTGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (30 bp):
TACTTTTCATCTTCCATGCAGAGAGTGTAC
Found at i:24443091 original size:18 final size:18
Alignment explanation
Indices: 24443068--24443104 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
24443058 AAATGAATGA
*
24443068 ATTAGGAGCAAATTGAAT
1 ATTAGGACCAAATTGAAT
24443086 ATTAGGACCAAATTGAAT
1 ATTAGGACCAAATTGAAT
24443104 A
1 A
24443105 GGTGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (18 bp):
ATTAGGACCAAATTGAAT
Found at i:24443297 original size:31 final size:31
Alignment explanation
Indices: 24443256--24443318 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
24443246 TTTAAATTAA
*
24443256 TTAATTAAATAAATATTATTTTATTAATATT
1 TTAATGAAATAAATATTATTTTATTAATATT
** *
24443287 TTAATGAAATATTTATTATTTTATTATTATT
1 TTAATGAAATAAATATTATTTTATTAATATT
24443318 T
1 T
24443319 ATTTAGTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (31 bp):
TTAATGAAATAAATATTATTTTATTAATATT
Found at i:24445040 original size:33 final size:32
Alignment explanation
Indices: 24445003--24445114 Score: 113
Period size: 33 Copynumber: 3.4 Consensus size: 32
24444993 ACCTAAAAGA
*
24445003 TACAACTGGAAAAGAAAATGTACACTGTGTGTG
1 TACAACTGGAAAAGGAAATGTACACT-TGTGTG
** *
24445036 TACAACTTAAAAAGGAAACGTACACTTTGTGTG
1 TACAACTGGAAAAGGAAATGTACAC-TTGTGTG
*
24445069 TAC-ACTTGAAAAGGAAATGTATGC-CTTGTGTG
1 TACAACTGGAAAAGGAAATGTA--CACTTGTGTG
24445101 TACAA-TGTGAAAAG
1 TACAACTG-GAAAAG
24445115 TGGTAGCTTC
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
32 27 0.40
33 38 0.57
34 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.27
Consensus pattern (32 bp):
TACAACTGGAAAAGGAAATGTACACTTGTGTG
Found at i:24445098 original size:32 final size:32
Alignment explanation
Indices: 24445011--24445114 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
24445001 GATACAACTG
* *
24445011 GAAAAGAAAATGTACA-CTGTGTGTGTACAACTT
1 GAAAAGGAAACGTACACCT-TGTGTGTAC-ACTT
* *
24445044 AAAAAGGAAACGTACACTTTGTGTGTACACTT
1 GAAAAGGAAACGTACACCTTGTGTGTACACTT
* ** *
24445076 GAAAAGGAAATGTATGCCTTGTGTGTACAATGT
1 GAAAAGGAAACGTACACCTTGTGTGTACACT-T
24445109 GAAAAG
1 GAAAAG
24445115 TGGTAGCTTC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
32 29 0.49
33 29 0.49
34 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (32 bp):
GAAAAGGAAACGTACACCTTGTGTGTACACTT
Found at i:24445144 original size:31 final size:31
Alignment explanation
Indices: 24445107--24445223 Score: 173
Period size: 31 Copynumber: 3.8 Consensus size: 31
24445097 TGTGTACAAT
24445107 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
24445138 GTGAAAAGTAGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
24445169 GTGAAAAGTGGTAGCTCCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
24445200 GTGAATAA-TGGTAGCTTCGACTAC
1 GTGAA-AAGTGGTAGCTTCGGCTAC
24445224 AAGTGACAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
31 74 0.97
32 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:24445344 original size:27 final size:27
Alignment explanation
Indices: 24445313--24445377 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
24445303 TAGTTGAACT
*
24445313 ATGGCAAAGTGATAAAGTGTGCCAATC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
24445340 ATGGCAAAGTGATATAGTGTGCCAAAC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
24445367 ATAGCAAAGTG
1 ATGGCAAAGTG
24445378 TTCAGTGATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAAAC
Found at i:24445470 original size:34 final size:34
Alignment explanation
Indices: 24445432--24445505 Score: 121
Period size: 34 Copynumber: 2.2 Consensus size: 34
24445422 CATGGCAAAG
*
24445432 TGTGAAACGTAGGTATGGTATTTCTATACTGAGC
1 TGTGAAACGTAGGTATGGTATTTCCATACTGAGC
* *
24445466 TGTGAAACGTAGGTATGGTGTTTCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTTCCATACTGAGC
24445500 TGTGAA
1 TGTGAA
24445506 TCGTGGCACT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (34 bp):
TGTGAAACGTAGGTATGGTATTTCCATACTGAGC
Found at i:24446071 original size:20 final size:20
Alignment explanation
Indices: 24446048--24446087 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24446038 AAAGTGCTCA
24446048 AATGAAAATATACTTGTGAT
1 AATGAAAATATACTTGTGAT
24446068 AATGAAAATATACTTGTGAT
1 AATGAAAATATACTTGTGAT
24446088 CGTGAGAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (20 bp):
AATGAAAATATACTTGTGAT
Found at i:24450508 original size:50 final size:50
Alignment explanation
Indices: 24450338--24450574 Score: 273
Period size: 50 Copynumber: 4.7 Consensus size: 50
24450328 ACAATACGAC
* * * *
24450338 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACT-GTTAAGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTTAGGTCACAT
* * * * * *
24450388 GTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG-GTTAGGTCACAT
* *
24450439 GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACAT
* * *
24450489 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT-GGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACAT
* *
24450538 GTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
24450575 AGCTTCGGCT
Statistics
Matches: 160, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 41 0.26
50 79 0.49
51 40 0.25
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACAT
Found at i:24450570 original size:99 final size:99
Alignment explanation
Indices: 24450338--24450574 Score: 291
Period size: 101 Copynumber: 2.4 Consensus size: 99
24450328 ACAATACGAC
* * * *
24450338 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACTAAGTG
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTGAAGTCACATGTGTAGTACTAAGTG
* *
24450403 CAGGCTACTATGCGTACTCAATGACTTCGATCACGT
65 CAGGCTACTACGCGTACTCAATGA-TTCGATCACAT
* *
24450439 GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGTG
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GTGAAGTCACATGTGTAGTACTAAGTG
* * *
24450504 CAGGCTACTACGTGTAC-CAGATTG-TT-GGTCGCAT
65 CAGGCTACTACGCGTACTCA-A-TGATTCGATCACAT
* *
24450538 GTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
24450575 AGCTTCGGCT
Statistics
Matches: 120, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
99 40 0.33
100 5 0.04
101 73 0.61
102 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (99 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTGAAGTCACATGTGTAGTACTAAGTGC
AGGCTACTACGCGTACTCAATGATTCGATCACAT
Found at i:24452716 original size:126 final size:126
Alignment explanation
Indices: 24452491--24452858 Score: 576
Period size: 126 Copynumber: 2.9 Consensus size: 126
24452481 TTATAGCCTC
* *
24452491 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTTTTCCAGAAATTTTACTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * *
24452556 ACAGTGTATCCTACTTGAAGTGTTTTCAGCACTATTTGTTCAGAAACGTCAACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCAGCACTATTTGTTCAGAAACGTCAACTCAAAATT
*
24452617 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * * *
24452682 ATAGTGCATCTTGCTTGAAGCGTTTTCAGCACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCAGCACTATTTGTTCAGAAACGTCAACTCAAAATT
* * *
24452743 ATTTTTCTACGAATTACTGTAGCAAAAGAGCATCCACGTGGGAGTTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* *
24452808 ACAGTGCATCCTGCTTGAAGCCTTTTCCGACACTATTT-TTCTAGAAACGTC
66 ACAGTGCATCCTGCTTGAAGCGTTTTCAG-CACTATTTGTTC-AGAAACGTC
24452859 TGGTCAGAAT
Statistics
Matches: 222, Mismatches: 18, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
126 205 0.92
127 17 0.08
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCAGCACTATTTGTTCAGAAACGTCAACTCAAAATT
Found at i:24453378 original size:27 final size:28
Alignment explanation
Indices: 24453345--24453397 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
24453335 CTTAAAACCC
24453345 TAAATCCTAAAACCCTAAA-CCTTACCA
1 TAAATCCTAAAACCCTAAACCCTTACCA
24453372 TAAATCCTAAAACCCTAAACCCTTAC
1 TAAATCCTAAAACCCTAAACCCTTAC
24453398 AAAACCCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (28 bp):
TAAATCCTAAAACCCTAAACCCTTACCA
Found at i:24453428 original size:45 final size:43
Alignment explanation
Indices: 24453337--24453439 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 43
24453327 TCTAAACCCT
*
24453337 TAAAACCCTAAATCC-TAAAACCCTAAACCTTACCATAAATCC
1 TAAAACCCTAAACCCTTAAAACCCTAAACCTTACCATAAATCC
*
24453379 TAAAACCCTAAACCCTTACAAAACCCT-AACCTTAACCTTAAA-CC
1 TAAAACCCTAAACCCTT--AAAACCCTAAACCTT-ACCATAAATCC
24453423 ATAAAAACCCT-AACCCT
1 -T-AAAACCCTAAACCCT
24453440 AAATAAATTA
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
42 14 0.26
43 1 0.02
44 8 0.15
45 22 0.42
46 8 0.15
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (43 bp):
TAAAACCCTAAACCCTTAAAACCCTAAACCTTACCATAAATCC
Found at i:24468230 original size:19 final size:19
Alignment explanation
Indices: 24468206--24468244 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
24468196 AAAAAACTTC
*
24468206 TTTTTGCAATAGTCCAAAA
1 TTTTTGCAATAGTACAAAA
24468225 TTTTTGCAATAGTACAAAA
1 TTTTTGCAATAGTACAAAA
24468244 T
1 T
24468245 CACACCATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (19 bp):
TTTTTGCAATAGTACAAAA
Found at i:24470297 original size:27 final size:26
Alignment explanation
Indices: 24470263--24470352 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 26
24470253 TTGTTTTTTT
24470263 GCCACAAAGGCTTTCACTTCATGGTTC
1 GCCACAAAGGCTTTC-CTTCATGGTTC
* * *
24470290 ACCACAAAGACTTTCTTTTCATGG-TC
1 GCCACAAAGGCTTTC-CTTCATGGTTC
*
24470316 TGCCACAAAGGCTTTCCTTTTATGGTTC
1 -GCCACAAAGGCTTTCC-TTCATGGTTC
24470344 GCCACAAAG
1 GCCACAAAG
24470353 ATTTTTTTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
26 2 0.04
27 48 0.92
28 2 0.04
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (26 bp):
GCCACAAAGGCTTTCCTTCATGGTTC
Found at i:24472832 original size:25 final size:24
Alignment explanation
Indices: 24472798--24472895 Score: 99
Period size: 25 Copynumber: 3.9 Consensus size: 24
24472788 ACGAATTTTC
*
24472798 TCAAAATTTTACTAGGGTAAAATAG
1 TCAAAATTTTA-TGGGGTAAAATAG
* *
24472823 TCAAAATTTTATCGGGTTAAAATCG
1 TCAAAATTTTAT-GGGGTAAAATAG
*
24472848 TCAAAATTTTATCGGGGTAAAACCA-
1 TCAAAATTTTAT-GGGGTAAAA-TAG
*
24472873 TCAAATTTTTACTGGGGTAAAAT
1 TCAAAATTTTA-TGGGGTAAAAT
24472896 TGGGGTGATA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
24 1 0.02
25 60 0.97
26 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (24 bp):
TCAAAATTTTATGGGGTAAAATAG
Found at i:24472894 original size:50 final size:50
Alignment explanation
Indices: 24472798--24472895 Score: 112
Period size: 50 Copynumber: 2.0 Consensus size: 50
24472788 ACGAATTTTC
* *
24472798 TCAAAATTTTACTAGGGTAAAATAGTCAAAATTTTATCGGGTTAAAATCG
1 TCAAAATTTTACTAGGGTAAAACAGTCAAAATTTTATCGGGGTAAAATCG
* *
24472848 TCAAAATTTTA-TCGGGGTAAAACCA-TCAAATTTTTA-CTGGGGTAAAAT
1 TCAAAATTTTACT-AGGGTAAAA-CAGTCAAAATTTTATC-GGGGTAAAAT
24472896 TGGGGTGATA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
49 2 0.05
50 38 0.93
51 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (50 bp):
TCAAAATTTTACTAGGGTAAAACAGTCAAAATTTTATCGGGGTAAAATCG
Found at i:24475947 original size:10 final size:10
Alignment explanation
Indices: 24475925--24475972 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
24475915 ATATACTAAT
24475925 ATTAATACTTA
1 ATTAAT-CTTA
24475936 ATTAATCTTA
1 ATTAATCTTA
*
24475946 ATTAACCTTA
1 ATTAATCTTA
*
24475956 ATTTATTCTTTA
1 A-TTAATC-TTA
24475968 ATTAA
1 ATTAA
24475973 ACTATTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 14 0.45
11 13 0.42
12 4 0.13
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTAATCTTA
Found at i:24495157 original size:40 final size:40
Alignment explanation
Indices: 24495099--24495314 Score: 330
Period size: 40 Copynumber: 5.4 Consensus size: 40
24495089 GATGATAACT
* * * *
24495099 GGGCTAAGTCCCGGAGGCATTTGTGCTAGTGACTA-ATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
24495139 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
24495179 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
24495219 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
24495259 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
*
24495299 -GGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
24495315 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 17 0.10
40 148 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:24497028 original size:33 final size:32
Alignment explanation
Indices: 24496975--24497166 Score: 145
Period size: 33 Copynumber: 5.9 Consensus size: 32
24496965 ATCGATGGAT
* * * *
24496975 ATTTCCGTTTCCAGTAGTACACTCGAGGTGTAC
1 ATTTCCTTTTCAAGT-GTACACACGAAGTGTAC
24497008 ATTTCCTTTTCAAGTGGTACACACGAAGTGTAC
1 ATTTCCTTTTCAAGT-GTACACACGAAGTGTAC
** * * *
24497041 ATACCCTTTGCAAGTTGTACACACAAAGTGCAC
1 ATTTCCTTTTCAAG-TGTACACACGAAGTGTAC
** *
24497074 ATAACCTTTTCAAGTGTACACA-TATAGTGTAC
1 ATTTCCTTTTCAAGTGTACACACGA-AGTGTAC
* * * *
24497106 CTTTCCTTTTCATA-TGGTATACACAAAGTATAC
1 ATTTCCTTTTCA-AGT-GTACACACGAAGTGTAC
* * *
24497139 CTTTCCTTTCCAAGTGTACACACAAAGT
1 ATTTCCTTTTCAAGTGTACACACGAAGT
24497167 TTAAATAGCC
Statistics
Matches: 131, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
31 1 0.01
32 37 0.28
33 91 0.69
34 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (32 bp):
ATTTCCTTTTCAAGTGTACACACGAAGTGTAC
Found at i:24497147 original size:65 final size:66
Alignment explanation
Indices: 24497012--24497216 Score: 182
Period size: 65 Copynumber: 3.1 Consensus size: 66
24497002 GTGTACATTT
* * * * * * ** *
24497012 CCTTTTCAAGTGGTACACACGAAGTGTACATA-CCCTTTGCA-AGTTGTACACACAAAGTGCACA
1 CCTTTTCAAGT-GTACACACAAAGTGTAAATAGCCTTTTCCATA-TGGTATACACAAAGTATACC
**
24497075 TAA
64 TTC
* * ** **
24497078 CCTTTTCAAGTGTACACATATAGTGTACCTTTCCTTTT-CATATGGTATACACAAAGTATACCTT
1 CCTTTTCAAGTGTACACACAAAGTGTAAATAGCCTTTTCCATATGGTATACACAAAGTATACCTT
*
24497142 T
66 C
* * *
24497143 CCTTTCCAAGTGTACACACAAAGTTTAAATAGCCTTTTCCATGTGGTATACACAAAGTATACCTT
1 CCTTTTCAAGTGTACACACAAAGTGTAAATAGCCTTTTCCATATGGTATACACAAAGTATACCTT
24497208 C
66 C
24497209 CCTTTTCA
1 CCTTTTCA
24497217 CATTCGATAG
Statistics
Matches: 112, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
65 63 0.56
66 49 0.44
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (66 bp):
CCTTTTCAAGTGTACACACAAAGTGTAAATAGCCTTTTCCATATGGTATACACAAAGTATACCTT
C
Found at i:24497198 original size:34 final size:34
Alignment explanation
Indices: 24497110--24497203 Score: 95
Period size: 32 Copynumber: 2.9 Consensus size: 34
24497100 GTGTACCTTT
* ** **
24497110 CCTTTT-CATATGGTATACACAAAGTATACCTTT
1 CCTTTTCCATGTGGTATACACAAAGTATAAATAG
* * *
24497143 CC-TTTCCAAGT-GTACACACAAAGTTTAAATAG
1 CCTTTTCCATGTGGTATACACAAAGTATAAATAG
24497175 CCTTTTCCATGTGGTATACACAAAGTATA
1 CCTTTTCCATGTGGTATACACAAAGTATA
24497204 CCTTCCCTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
32 20 0.43
33 13 0.28
34 14 0.30
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (34 bp):
CCTTTTCCATGTGGTATACACAAAGTATAAATAG
Found at i:24497213 original size:34 final size:34
Alignment explanation
Indices: 24497103--24497215 Score: 124
Period size: 34 Copynumber: 3.4 Consensus size: 34
24497093 ACATATAGTG
*
24497103 TACCTTTCCTTTT-CATATGGTATACACAAAGTA
1 TACCTTTCCTTTTCCATGTGGTATACACAAAGTA
* * *
24497136 TACCTTTCC-TTTCCAAGT-GTACACACAAAGTT
1 TACCTTTCCTTTTCCATGTGGTATACACAAAGTA
** **
24497168 TAAATAGCCTTTTCCATGTGGTATACACAAAGTA
1 TACCTTTCCTTTTCCATGTGGTATACACAAAGTA
*
24497202 TACCTTCCCTTTTC
1 TACCTTTCCTTTTC
24497216 ACATTCGATA
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
32 20 0.32
33 20 0.32
34 22 0.35
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (34 bp):
TACCTTTCCTTTTCCATGTGGTATACACAAAGTA
Found at i:24497263 original size:28 final size:28
Alignment explanation
Indices: 24497207--24497276 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
24497197 AAGTATACCT
*
24497207 TCCCTTTTCACATTCGATAGCCGAAGCTA
1 TCCCTTTTCACA-TCAATAGCCGAAGCTA
24497236 TCCCTTTTCACATCAATAGCCGAAGCTA
1 TCCCTTTTCACATCAATAGCCGAAGCTA
24497264 TCCCTTTTCACAT
1 TCCCTTTTCACAT
24497277 GGTACACACA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 28 0.70
29 12 0.30
ACGTcount: A:0.24, C:0.33, G:0.10, T:0.33
Consensus pattern (28 bp):
TCCCTTTTCACATCAATAGCCGAAGCTA
Found at i:24503607 original size:62 final size:62
Alignment explanation
Indices: 24503510--24503634 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
24503500 AATAATTTGC
* *
24503510 AAAGATATTTTTGGGTGGCAGCCATAAAAACTTCTTGCTATATTATAAATAGAGCTATGGTT
1 AAAGATACTTTTGGGTGGAAGCCATAAAAACTTCTTGCTATATTATAAATAGAGCTATGGTT
24503572 AAAGATACTTTTGGGTGGAAGCCATAAAAACTTCTTGCTATATTATAAATAGAGCTATGGTT
1 AAAGATACTTTTGGGTGGAAGCCATAAAAACTTCTTGCTATATTATAAATAGAGCTATGGTT
24503634 A
1 A
24503635 GGCCTATTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.34
Consensus pattern (62 bp):
AAAGATACTTTTGGGTGGAAGCCATAAAAACTTCTTGCTATATTATAAATAGAGCTATGGTT
Found at i:24505953 original size:22 final size:22
Alignment explanation
Indices: 24505928--24505996 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
24505918 GTATTATATG
24505928 ATTTTACATATGTTATCTATTT
1 ATTTTACATATGTTATCTATTT
** * * *
24505950 ATTTT-TTTACGGTAT-TATATG
1 ATTTTACATATGTTATCTAT-TT
24505971 ATTTTACATATGTTATCTATTT
1 ATTTTACATATGTTATCTATTT
24505993 ATTT
1 ATTT
24505997 ATTTTTACCT
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
20 3 0.09
21 12 0.35
22 16 0.47
23 3 0.09
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (22 bp):
ATTTTACATATGTTATCTATTT
Found at i:24505964 original size:43 final size:44
Alignment explanation
Indices: 24505917--24506001 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 44
24505907 GTTTGAACAT
24505917 GGTATTATATGATTTTACATATGTTATCTATTTATTT-TTTTAC
1 GGTATTATATGATTTTACATATGTTATCTATTTATTTATTTTAC
24505960 GGTATTATATGATTTTACATATGTTATCTATTTATTTATTTT
1 GGTATTATATGATTTTACATATGTTATCTATTTATTTATTTT
24506002 TACCTTTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 37 0.90
44 4 0.10
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (44 bp):
GGTATTATATGATTTTACATATGTTATCTATTTATTTATTTTAC
Found at i:24505997 original size:21 final size:21
Alignment explanation
Indices: 24505930--24505997 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
24505920 ATTATATGAT
24505930 TTTACATATGTTATCTATTTA
1 TTTACATATGTTATCTATTTA
*** * * *
24505951 TTTTTTTACGGTAT-TATATGA
1 TTTACATATGTTATCTAT-TTA
24505972 TTTTACATATGTTATCTATTTA
1 -TTTACATATGTTATCTATTTA
24505994 TTTA
1 TTTA
24505998 TTTTTACCTT
Statistics
Matches: 32, Mismatches: 12, Indels: 6
0.64 0.24 0.12
Matches are distributed among these distances:
20 3 0.09
21 15 0.47
22 11 0.34
23 3 0.09
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (21 bp):
TTTACATATGTTATCTATTTA
Found at i:24514814 original size:18 final size:18
Alignment explanation
Indices: 24514791--24514825 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24514781 TAGAATTTTG
24514791 GGCCCACGA-GTCTGTGTT
1 GGCCCAC-ATGTCTGTGTT
24514809 GGCCCACATGTCTGTGT
1 GGCCCACATGTCTGTGT
24514826 GGCTTACACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.11, C:0.29, G:0.31, T:0.29
Consensus pattern (18 bp):
GGCCCACATGTCTGTGTT
Found at i:24516909 original size:27 final size:25
Alignment explanation
Indices: 24516874--24516927 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
24516864 TGGTTGCATA
* *
24516874 TTCAGTTACTTTGGGATGTTTTCTATT
1 TTCAGTTAC-TTCGGATGCTTT-TATT
*
24516901 TTCATTTACTTCGGATGCTTTTATT
1 TTCAGTTACTTCGGATGCTTTTATT
24516926 TT
1 TT
24516928 AAATGTACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 10 0.42
27 8 0.33
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.57
Consensus pattern (25 bp):
TTCAGTTACTTCGGATGCTTTTATT
Found at i:24517616 original size:21 final size:21
Alignment explanation
Indices: 24517586--24517646 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
24517576 AAAAGGTTAC
24517586 AGAA-TTCTACCGATAGAACT
1 AGAACTTCTACCGATAGAACT
* *
24517606 AGGACTTCTACCGATACAACT
1 AGAACTTCTACCGATAGAACT
* * *
24517627 CGAACTTCTATCGGTAGAAC
1 AGAACTTCTACCGATAGAAC
24517647 GCACTCCTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (21 bp):
AGAACTTCTACCGATAGAACT
Found at i:24522041 original size:16 final size:18
Alignment explanation
Indices: 24522020--24522053 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
24522010 CATGTTTTTA
24522020 TTATAAA-TAA-ATAATT
1 TTATAAATTAAGATAATT
24522036 TTATAAATTAAGATAATT
1 TTATAAATTAAGATAATT
24522054 ATCAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
TTATAAATTAAGATAATT
Found at i:24534992 original size:27 final size:27
Alignment explanation
Indices: 24534938--24535046 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
24534928 AGCATGGCTG
* * * *
24534938 CCAGAACAGATGA-TGTGACAAAGTCA
1 CCAGAACAGATAATTGTGGCATAGCCA
*
24534964 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCATAGCCA
24534991 CCAGAACAGAT-ATATGTGGCATAGCCA
1 CCAGAACAGATAAT-TGTGGCATAGCCA
* *
24535018 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCATAGCCA
24535045 CC
1 CC
24535047 TGGACGCTTC
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 58 0.79
28 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCATAGCCA
Found at i:24535028 original size:54 final size:53
Alignment explanation
Indices: 24534938--24535046 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 53
24534928 AGCATGGCTG
* *
24534938 CCAGAACAGATGATGTGACAAAGTCACCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATGATGTGACAAAGCCACCAGAACAGATAAATGTGGCAGAGCCA
* * * * *
24534991 CCAGAACAGATATATGTGGCATAGCCACCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-GATGTGACAAAGCCACCAGAACAGATAAATGTGGCAGAGCCA
24535045 CC
1 CC
24535047 TGGACGCTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 11 0.23
54 37 0.77
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATGATGTGACAAAGCCACCAGAACAGATAAATGTGGCAGAGCCA
Found at i:24540623 original size:42 final size:42
Alignment explanation
Indices: 24540561--24540665 Score: 158
Period size: 42 Copynumber: 2.5 Consensus size: 42
24540551 GGGATTCTAA
* *
24540561 GGCTGGAATAGGACTATTTGGCTA-CAGGGATATAGCATTCTG
1 GGCTGGAATAGAACTGTTTGGC-AGCAGGGATATAGCATTCTG
*
24540603 GGCTGGAATAGAACTGTTTGGCAGCAGGGATATAGCATTTTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGGGATATAGCATTCTG
*
24540645 GGTTGGAATAGAACTGTTTGG
1 GGCTGGAATAGAACTGTTTGG
24540666 TACCATGGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 1 0.02
42 57 0.98
ACGTcount: A:0.26, C:0.11, G:0.33, T:0.30
Consensus pattern (42 bp):
GGCTGGAATAGAACTGTTTGGCAGCAGGGATATAGCATTCTG
Found at i:24540779 original size:5 final size:5
Alignment explanation
Indices: 24540769--24540822 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
24540759 ATTAATATTT
* * *
24540769 AAATA AAATA AAATA AAATA AAATA ATAA-A TAATA AAAGA AAAAA TAAATA
1 AAATA AAATA AAATA AAATA AAATA A-AATA AAATA AAATA AAATA -AAATA
24540820 AAA
1 AAA
24540823 AGAAAAAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
4 2 0.05
5 33 0.80
6 6 0.15
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:24540789 original size:15 final size:14
Alignment explanation
Indices: 24540769--24540841 Score: 60
Period size: 15 Copynumber: 5.0 Consensus size: 14
24540759 ATTAATATTT
24540769 AAATAAAATAAAATA
1 AAATAAAATAAAA-A
24540784 AAATAAAATAATAAA
1 AAATAAAATAA-AAA
* *
24540799 TAATAAAAGAAAAAA
1 AAATAAAA-TAAAAA
24540814 TAAATAAAA-AGAAAA
1 -AAATAAAATA-AAAA
*
24540829 AGA-AAAATAAAAA
1 AAATAAAATAAAAA
24540842 GAAAGATTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
13 8 0.16
14 4 0.08
15 26 0.53
16 11 0.22
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (14 bp):
AAATAAAATAAAAA
Found at i:24540813 original size:22 final size:23
Alignment explanation
Indices: 24540803--24540847 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
24540793 AATAAATAAT
24540803 AAAAGAAAAAATAAATAAAAAGA
1 AAAAGAAAAAATAAATAAAAAGA
24540826 AAAAG-AAAAATAAA-AAGAAAGA
1 AAAAGAAAAAATAAATAA-AAAGA
24540848 TTGGGTTGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 2 0.10
22 14 0.67
23 5 0.24
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (23 bp):
AAAAGAAAAAATAAATAAAAAGA
Found at i:24540823 original size:10 final size:9
Alignment explanation
Indices: 24540769--24540841 Score: 53
Period size: 10 Copynumber: 8.0 Consensus size: 9
24540759 ATTAATATTT
24540769 AAATAAAATA
1 AAATAAAA-A
24540779 AAATAAAATA
1 AAATAAAA-A
24540789 AAATAATAAA
1 AAATAA-AAA
*
24540799 TAAT-AAAA
1 AAATAAAAA
* *
24540807 GAA-AAAAT
1 AAATAAAAA
24540815 AAATAAAAA
1 AAATAAAAA
*
24540824 GAAA-AAGAA
1 -AAATAAAAA
24540833 AAATAAAAA
1 AAATAAAAA
24540842 GAAAGATTGG
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
8 13 0.25
9 13 0.25
10 23 0.45
11 2 0.04
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (9 bp):
AAATAAAAA
Found at i:24540828 original size:6 final size:6
Alignment explanation
Indices: 24540803--24540845 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
24540793 AATAAATAAT
* * *
24540803 AAAAGA AAAA-A TAAATA AAAAGA AAAAGA AAAATA AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
24540846 GATTGGGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (6 bp):
AAAAGA
Found at i:24540836 original size:18 final size:17
Alignment explanation
Indices: 24540773--24540845 Score: 69
Period size: 18 Copynumber: 4.1 Consensus size: 17
24540763 ATATTTAAAT
*
24540773 AAAATAAAATAAAATA-A
1 AAAAAAAAATAAAA-AGA
24540790 AATAATAAATAAT-AAAAGA
1 AA-AA-AAA-AATAAAAAGA
*
24540809 AAAAATAAATAAAAAGA
1 AAAAAAAAATAAAAAGA
24540826 AAAAGAAAAATAAAAAGA
1 AAAA-AAAAATAAAAAGA
24540844 AA
1 AA
24540846 GATTGGGTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
16 3 0.06
17 14 0.30
18 19 0.40
19 8 0.17
20 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (17 bp):
AAAAAAAAATAAAAAGA
Found at i:24550035 original size:27 final size:27
Alignment explanation
Indices: 24549981--24550089 Score: 105
Period size: 27 Copynumber: 4.1 Consensus size: 27
24549971 AGTATGGCTG
* * * *
24549981 CCAGAAAAGATGA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
24550007 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
24550034 CCATAACAGAT-ATATGTGGCATAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * * *
24550061 CTAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
24550088 CC
1 CC
24550090 TGGACGCTTC
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 13 0.19
27 55 0.80
28 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:24556724 original size:13 final size:14
Alignment explanation
Indices: 24556698--24556726 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
24556688 ACTAATGACA
24556698 AATTAAATCATTAT
1 AATTAAATCATTAT
24556712 AATTAAA-CATTAT
1 AATTAAATCATTAT
24556725 AA
1 AA
24556727 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAATCATTAT
Found at i:24561785 original size:9 final size:9
Alignment explanation
Indices: 24561771--24561914 Score: 77
Period size: 9 Copynumber: 16.0 Consensus size: 9
24561761 TAACTATAAT
24561771 TAAGTTATG
1 TAAGTTATG
24561780 TAAGTTATG
1 TAAGTTATG
* * *
24561789 ATATGATATA
1 -TAAGTTATG
*
24561799 T-ATTTATG
1 TAAGTTATG
24561807 T-A-TTATG
1 TAAGTTATG
24561814 TAAGTTATG
1 TAAGTTATG
*
24561823 TAAATTATG
1 TAAGTTATG
24561832 TAAGTTATCCG
1 TAAGTTAT--G
24561843 -AA-TTATG
1 TAAGTTATG
*
24561850 TAAATTATG
1 TAAGTTATG
*
24561859 TAAGATATGATA
1 TAAG-T-T-ATG
*
24561871 TATATTTATG
1 TA-AGTTATG
*
24561881 T-A-TAATG
1 TAAGTTATG
24561888 TAAGTTATG
1 TAAGTTATG
*
24561897 TAAATTATG
1 TAAGTTATG
*
24561906 TAAGATATG
1 TAAGTTATG
24561915 ATATATATCT
Statistics
Matches: 104, Mismatches: 18, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
7 12 0.12
8 10 0.10
9 61 0.59
10 12 0.12
11 3 0.03
12 5 0.05
13 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:24561831 original size:18 final size:18
Alignment explanation
Indices: 24561808--24561914 Score: 92
Period size: 18 Copynumber: 5.8 Consensus size: 18
24561798 ATATTTATGT
24561808 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
***
24561826 ATTATGTAAGTTATCCGA
1 ATTATGTAAGTTATGTAA
*
24561844 ATTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
* *
24561862 GATATGATATATATTTATGT--
1 -AT-T-ATGTA-AGTTATGTAA
*
24561882 ATAATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
*
24561900 ATTATGTAAGATATG
1 ATTATGTAAGTTATG
24561915 ATATATATCT
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
16 7 0.10
17 4 0.06
18 42 0.61
19 4 0.06
20 1 0.01
21 4 0.06
22 7 0.10
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:24562141 original size:12 final size:12
Alignment explanation
Indices: 24562124--24562170 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
24562114 TTTTGAGATT
24562124 ATGGAAAATCAC
1 ATGGAAAATCAC
24562136 ATGGAAAAAAATCAC
1 ATGG---AAAATCAC
24562151 ATGGAAAATCAC
1 ATGGAAAATCAC
*
24562163 ATAGAAAA
1 ATGGAAAA
24562171 AAAATCACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 19 0.61
15 12 0.39
ACGTcount: A:0.57, C:0.13, G:0.15, T:0.15
Consensus pattern (12 bp):
ATGGAAAATCAC
Found at i:24562148 original size:15 final size:15
Alignment explanation
Indices: 24562128--24562191 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
24562118 GAGATTATGG
24562128 AAAATCACATGGAAA
1 AAAATCACATGGAAA
24562143 AAAATCACATGG---
1 AAAATCACATGGAAA
*
24562155 AAAATCACATAGAAAA
1 AAAATCACAT-GGAAA
24562171 AAAATCACAT-GAAA
1 AAAATCACATGGAAA
24562185 AATAATC
1 AA-AATC
24562192 TAAGGATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
12 10 0.24
13 1 0.02
14 5 0.12
15 16 0.38
16 10 0.24
ACGTcount: A:0.61, C:0.14, G:0.09, T:0.16
Consensus pattern (15 bp):
AAAATCACATGGAAA
Found at i:24562154 original size:27 final size:28
Alignment explanation
Indices: 24562124--24562187 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
24562114 TTTTGAGATT
*
24562124 ATGGAAAATCACAT-GGAAAAAAATCAC
1 ATGGAAAATCACATAGAAAAAAAATCAC
24562151 ATGGAAAATCACATAGAAAAAAAATCAC
1 ATGGAAAATCACATAGAAAAAAAATCAC
*
24562179 ATGAAAAAT
1 ATGGAAAAT
24562188 AATCTAAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 14 0.41
28 20 0.59
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.16
Consensus pattern (28 bp):
ATGGAAAATCACATAGAAAAAAAATCAC
Found at i:24566078 original size:40 final size:40
Alignment explanation
Indices: 24565977--24566078 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
24565967 ATTTAGTGGC
* * * **
24565977 GTTTTACAAAAGCGTCGCTAAATCTCAATTTTTTGCAGTG
1 GTTTTACAAAAGCGCCGCTAATTCTCAATTTTTAGCAGCA
* *
24566017 GTTTTACAAAAGCGCCACTAATTCTCTATTTTTAGCAGCA
1 GTTTTACAAAAGCGCCGCTAATTCTCAATTTTTAGCAGCA
* *
24566057 TTTTTACAAAAACGCCGCTAAT
1 GTTTTACAAAAGCGCCGCTAAT
24566079 GCCTCTGTAG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (40 bp):
GTTTTACAAAAGCGCCGCTAATTCTCAATTTTTAGCAGCA
Found at i:24567231 original size:41 final size:43
Alignment explanation
Indices: 24567149--24567234 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
24567139 GATAACAAAC
*
24567149 CCGGCCCATACCATAAACTTAACATATATACTATACCATTGAA
1 CCGGCCCAAACCATAAACTTAACATATATACTATACCATTGAA
* * *
24567192 CCGGCCTAAACCATAAACTTAA-A-ATATATTCTACCATTGAA
1 CCGGCCCAAACCATAAACTTAACATATATACTATACCATTGAA
24567233 CC
1 CC
24567235 CTAAACCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 18 0.46
42 1 0.03
43 20 0.51
ACGTcount: A:0.40, C:0.28, G:0.07, T:0.26
Consensus pattern (43 bp):
CCGGCCCAAACCATAAACTTAACATATATACTATACCATTGAA
Found at i:24567447 original size:28 final size:28
Alignment explanation
Indices: 24567390--24567482 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 28
24567380 TTTGGGGGGG
*
24567390 GGGTTTAGGGTTTTAGA-GTTTATGAA-TTA
1 GGGTTTAGGG-TTTA-ATGTTTA-AAATTTA
* *
24567419 GTGTTTATGGTTT-ATGTTTTAAAATTTA
1 GGGTTTAGGGTTTAATG-TTTAAAATTTA
*
24567447 GGGTTTAGGGTTTAATGTTTAAGATTTAA
1 GGGTTTAGGGTTTAATGTTTAAAATTT-A
24567476 GGGTTTA
1 GGGTTTA
24567483 CAGAAATCCA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
26 1 0.02
27 3 0.06
28 30 0.57
29 19 0.36
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (28 bp):
GGGTTTAGGGTTTAATGTTTAAAATTTA
Found at i:24567467 original size:21 final size:21
Alignment explanation
Indices: 24567420--24567482 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
24567410 TATGAATTAG
* * *
24567420 TGTTTATGGTTTATGTTTTAA
1 TGTTTAAGGTTTAGGGTTTAA
** *
24567441 AATTTAGGGTTTAGGGTTTAA
1 TGTTTAAGGTTTAGGGTTTAA
*
24567462 TGTTTAAGATTTAAGGGTTTA
1 TGTTTAAGGTTT-AGGGTTTA
24567483 CAGAAATCCA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
21 24 0.75
22 8 0.25
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (21 bp):
TGTTTAAGGTTTAGGGTTTAA
Found at i:24567816 original size:40 final size:41
Alignment explanation
Indices: 24567771--24568182 Score: 491
Period size: 40 Copynumber: 10.2 Consensus size: 41
24567761 AACATTTTGC
* *
24567771 GGCGTTTGGACCAAAAACACCGCTATTGATGAG-TTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
*
24567811 GGCGTTTGGACCAAAAACGCCGCTATTGATCATTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
24567852 GGCGTTTGGGA-TAAAAACGCCGCTATTGATAAGTTTTTAGT
1 GGCGTTT-GGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
*
24567893 GGCGTTT-GACCAAAAACGCCGCTATTCA-CAAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATC-AGTTTTTAGT
** * * * *
24567933 GGCGTTTGGAAGAAAAATGCCGTTATTAATTAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * * * * *
24567974 GGTGCTTGGGCAAAAAAATGCCGTTATTAATCAATTTTTAGT
1 GGCGTTTGGAC-CAAAAACGCCGCTATTGATCAGTTTTTAGT
**
24568016 GGCGTTTGGA-CAAAAACGCCATTATTGATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
24568056 GGCGTTTGG-CCAAAAACGCCGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
*
24568096 GGCGTTTTG-CCAAAAACGCCGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
24568136 GGCGTTTTGG-CCAAAAATGCCGCTATTGTTCAGTTTTT-GC
1 GGCG-TTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
24568176 GGCGTTT
1 GGCGTTT
24568183 TTATTAAACA
Statistics
Matches: 326, Mismatches: 37, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
39 5 0.02
40 173 0.53
41 111 0.34
42 37 0.11
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (41 bp):
GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:24567906 original size:81 final size:80
Alignment explanation
Indices: 24567771--24568182 Score: 497
Period size: 81 Copynumber: 5.1 Consensus size: 80
24567761 AACATTTTGC
* *
24567771 GGCGTTTGGACCAAAAACACCGCTATTGATGAG-TTTTAGTGGCGTTTGGACCAAAAACGCCGCT
1 GGCGTTTGGA-CAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGG-CCAAAAACGCCGCT
*
24567835 ATTGATCATTTTTTAGT
64 ATTGATCAGTTTTTAGT
* * *
24567852 GGCGTTTGGGATAAAAACGCCGCTATTGATAAGTTTTTAGTGGCGTTTGACCAAAAACGCCGCTA
1 GGCGTTT-GGACAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGCCAAAAACGCCGCTA
*
24567917 TTCA-CAAGTTTTTAGT
65 TTGATC-AGTTTTTAGT
* * * * * * * * * *
24567933 GGCGTTTGGAAGAAAAATGCCGTTATTAATTAGTTTTTAGTGGTGCTTGGGCAAAAAAATGCCGT
1 GGCGTTTGG-ACAAAAACGCCGCTATTGATCAGTTTTTAGTGGCG-TTTGGC-CAAAAACGCCGC
* *
24567998 TATTAATCAATTTTTAGT
63 TATTGATCAGTTTTTAGT
**
24568016 GGCGTTTGGACAAAAACGCCATTATTGATCAGTTTTTAGTGGCGTTTGGCCAAAAACGCCGCTAT
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGCCAAAAACGCCGCTAT
24568081 TGATCAGTTTTTAGT
66 TGATCAGTTTTTAGT
* * *
24568096 GGCGTTTTGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGCCAAAAATGCCGCTA
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGTGGCG-TTTGGCCAAAAACGCCGCTA
* *
24568161 TTGTTCAGTTTTT-GC
65 TTGATCAGTTTTTAGT
24568176 GGCGTTT
1 GGCGTTT
24568183 TTATTAAACA
Statistics
Matches: 285, Mismatches: 38, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
80 76 0.27
81 125 0.44
82 51 0.18
83 32 0.11
84 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (80 bp):
GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGCCAAAAACGCCGCTAT
TGATCAGTTTTTAGT
Found at i:24568862 original size:10 final size:9
Alignment explanation
Indices: 24568847--24568917 Score: 52
Period size: 10 Copynumber: 7.1 Consensus size: 9
24568837 TAAAAAAATA
24568847 ATAATTTCTT
1 ATAATTT-TT
24568857 ATAATTTCTT
1 ATAATTT-TT
*
24568867 ATAATGTTTA
1 ATAAT-TTTT
24568877 ATAATTTTT
1 ATAATTTTT
*
24568886 AAATAATTTCCT
1 --ATAATTT-TT
*
24568898 ATCATTTTT
1 ATAATTTTT
24568907 ATAATTATTT
1 ATAATT-TTT
24568917 A
1 A
24568918 AGAAACTACT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
9 9 0.18
10 31 0.62
11 9 0.18
12 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.56
Consensus pattern (9 bp):
ATAATTTTT
Found at i:24568895 original size:31 final size:30
Alignment explanation
Indices: 24568845--24568918 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 30
24568835 TTTAAAAAAA
*
24568845 TAATAATTTCTT--ATAATTTCTTATAATGTT
1 TAATAATTT-TTAAATAATTTCCTATAAT-TT
*
24568875 TAATAATTTTTAAATAATTTCCTATCATTT
1 TAATAATTTTTAAATAATTTCCTATAATTT
*
24568905 TTATAATTATTTAA
1 TAATAATT-TTTAA
24568919 GAAACTACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 2 0.05
30 18 0.47
31 18 0.47
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.55
Consensus pattern (30 bp):
TAATAATTTTTAAATAATTTCCTATAATTT
Found at i:24570850 original size:21 final size:22
Alignment explanation
Indices: 24570811--24570851 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
24570801 ACAAATCTGG
24570811 GATTAAAATTAACTTTTTAAGA
1 GATTAAAATTAACTTTTTAAGA
24570833 GATTAAAATTAA-TTTTTAA
1 GATTAAAATTAACTTTTTAA
24570852 TAAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (22 bp):
GATTAAAATTAACTTTTTAAGA
Found at i:24571171 original size:19 final size:20
Alignment explanation
Indices: 24571142--24571197 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
24571132 TCTCTAGCTG
24571142 TAAGATTAAAATTAACCTTT
1 TAAGATTAAAATTAACCTTT
*
24571162 TAAG-TTAAAATTAACTTTT
1 TAAGATTAAAATTAACCTTT
24571181 TGAAGGATTAAAATTAA
1 T-AA-GATTAAAATTAA
24571198 TTTTTAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 15 0.47
20 6 0.19
21 1 0.03
22 10 0.31
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.39
Consensus pattern (20 bp):
TAAGATTAAAATTAACCTTT
Found at i:24575078 original size:28 final size:27
Alignment explanation
Indices: 24575038--24575130 Score: 114
Period size: 28 Copynumber: 3.3 Consensus size: 27
24575028 GTGGGAAGCA
24575038 ATTGGGCCTGATGGGTCATATGAATGTG
1 ATTGGGCCTGATGGG-CATATGAATGTG
* *
24575066 ATTGGGCCTGATGGGCAATATAAATATG
1 ATTGGGCCTGATGGGC-ATATGAATGTG
* * *
24575094 ATTGGGCCTGATGGGCCATGTGAACGAG
1 ATTGGGCCTGATGGG-CATATGAATGTG
24575122 ATTGGGCCT
1 ATTGGGCCT
24575131 AAAGGGGCCA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.02
28 54 0.96
29 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (27 bp):
ATTGGGCCTGATGGGCATATGAATGTG
Found at i:24584949 original size:27 final size:27
Alignment explanation
Indices: 24584919--24585228 Score: 308
Period size: 27 Copynumber: 11.6 Consensus size: 27
24584909 TAATAAAGAG
24584919 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
24584946 AAATTACCGAAATACCTTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
24584972 AAATTACTGAATTACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
24584999 AAATTA-TCGAAATACCCTTGA-CTATA
1 AAATTACT-GAAATACCCTCGATTTGTA
** * *
24585025 AAATTACCAAAATAACCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** * *
24585052 AAATTACCAAAATACCCTCGATTTTTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
24585079 AAATTATTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
24585106 AAATTACCGAAATACCCTCTATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
24585133 AAATTACTGAAATACCCTCTA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
**
24585159 AAATTACCAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
24585186 AATTTA-TCGAAACACCCCCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
24585213 AAATTA-TCGAAATACC
1 AAATTACT-GAAATACC
24585229 TTTGTAGTGT
Statistics
Matches: 232, Mismatches: 45, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
26 64 0.28
27 168 0.72
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:24584998 original size:53 final size:53
Alignment explanation
Indices: 24584918--24585228 Score: 358
Period size: 53 Copynumber: 5.8 Consensus size: 53
24584908 ATAATAAAGA
*
24584918 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCTTCGATTGT
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGT
* * * * *
24584971 GAAATTACTGAATTACCCTCGATTTGTAAAATTATCGAAATACCCTTGACTAT
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGT
* ** * * * *
24585024 AAAATTACCAAAATAACCTCAATTTGTAAAATTACCAAAATACCCTCGATTTTT
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGA-TTGT
* * *
24585078 GAAATTATTGAAACACCCTCGATTTGTAAAATTACCGAAATACCCTCTATTTGT
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGA-TTGT
* * *
24585132 GAAATTACTGAAATACCCTCTA-TTGTGAAATTACCAAAATACCCTCGATT-T
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGT
* * *
24585183 GTAAATTTA-TCGAAACACCCCCGATTTGTAAAATTATCGAAATACC
1 G-AAA-TTACT-GAAATACCCTCGATTTGTAAAATTACCGAAATACC
24585229 TTTGTAGTGT
Statistics
Matches: 214, Mismatches: 39, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
51 2 0.01
52 6 0.03
53 123 0.57
54 83 0.39
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (53 bp):
GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGT
Found at i:24585163 original size:107 final size:107
Alignment explanation
Indices: 24584918--24585228 Score: 405
Period size: 107 Copynumber: 2.9 Consensus size: 107
24584908 ATAATAAAGA
* * * *
24584918 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCTTCGA-TTGTGAAATTACTGA
1 GAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTGAAATTATTGA
**
24584982 ATTACCCTCGATTTGTAAAATTATCGAAATACCCTTGACTAT
66 AACACCCTCGATTTGTAAAATTATCGAAATACCCTTGACTAT
* ** * *
24585024 AAAATTACCAAAATAACCTCAATTTGTAAAATTACCAAAATACCCTCGATTTTTGAAATTATTGA
1 GAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTGAAATTATTGA
* * *
24585089 AACACCCTCGATTTGTAAAATTACCGAAATACCCTCT-ATTTGT
66 AACACCCTCGATTTGTAAAATTATCGAAATACCCT-TGA-CTAT
* * *
24585132 GAAATTACTGAAATACCCTCTA-TTGTGAAATTACCAAAATACCCTCGATTTGT-AAATTTATCG
1 GAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTGAAA-TTATTG
*
24585195 AAACACCCCCGATTTGTAAAATTATCGAAATACC
65 AAACACCCTCGATTTGTAAAATTATCGAAATACC
24585229 TTTGTAGTGT
Statistics
Matches: 177, Mismatches: 24, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
106 45 0.25
107 112 0.63
108 20 0.11
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (107 bp):
GAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTGAAATTATTGA
AACACCCTCGATTTGTAAAATTATCGAAATACCCTTGACTAT
Found at i:24585239 original size:27 final size:27
Alignment explanation
Indices: 24585209--24585297 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
24585199 ACCCCCGATT
*
24585209 TGTAAAATTATCGAAATACCTTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
24585236 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* * * *
24585263 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
24585290 GGTAAAAT
1 TGTAAAAT
24585298 GACTAGTTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:24585282 original size:134 final size:133
Alignment explanation
Indices: 24584919--24585283 Score: 387
Period size: 134 Copynumber: 2.7 Consensus size: 133
24584909 TAATAAAGAG
* * * *
24584919 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCTTCGATTGTGAAATTACTGAAT
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCTTCGATTGTAAAATTAC-GAAA
* *
24584984 TACCCTCG-ATTTGTAAAATTATCGAAATACCCTTGACTATAAAATTACCAAAATAACCTCAATT
65 TACCCTTGTATTTGTAAAATTACCGAAATACCCTTGACTATAAAATTACCAAAATAACCTCAATT
24585048 TGTA
130 TGTA
* * * * * *
24585052 AAATTACCAAAATACCCTCGATTTTTGAAATTATTGAAACACCCTCGATTTGTAAAATTACCGAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCTTCGA-TTGTAAAATTA-CGAA
* * * * * * * *
24585117 ATACCC-TCTATTTGTGAAATTACTGAAATACCCTCT-ATTGTGAAATTACCAAAATACCCTCGA
64 ATACCCTTGTATTTGTAAAATTACCGAAATACCCT-TGACTATAAAATTACCAAAATAACCTCAA
24585180 TTTGTA
128 TTTGTA
* * * * * *
24585186 AATTTATCGAAACACCCCCGATTTGTAAAATTATCGAAATACCTTTGTAGTGTAAAATTATCGAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCTTCG-ATTGTAAAATTA-CGAA
* * *
24585251 ATACCCTTGTA-GTGTAAAATGACCGACATACCC
64 ATACCCTTGTATTTGTAAAATTACCGAAATACCC
24585284 CTGTAGGGTA
Statistics
Matches: 187, Mismatches: 39, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
133 40 0.21
134 141 0.75
135 6 0.03
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (133 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCTTCGATTGTAAAATTACGAAAT
ACCCTTGTATTTGTAAAATTACCGAAATACCCTTGACTATAAAATTACCAAAATAACCTCAATTT
GTA
Found at i:24587006 original size:48 final size:48
Alignment explanation
Indices: 24586886--24587117 Score: 313
Period size: 48 Copynumber: 4.8 Consensus size: 48
24586876 AGGGTAAGAT
*
24586886 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCG-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACATATCGAG
* * * *
24586935 TGCCAATGCCATGTTCCAAACATGGTCTTACACTAGTTCACATATCGAG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAG
* * *
24586984 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAG
** * * *
24587032 GCCGATGCCATGTTTCAAACATGGTCTTACACTACCTCACATATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAG
24587080 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
24587118 TAATAACCCT
Statistics
Matches: 157, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
48 124 0.79
49 1 0.01
50 32 0.20
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAG
Found at i:24587081 original size:96 final size:97
Alignment explanation
Indices: 24586886--24587122 Score: 388
Period size: 96 Copynumber: 2.5 Consensus size: 97
24586876 AGGGTAAGAT
**
24586886 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGGTGCCAATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-ATATCAATGCCAATGCCATGTTC
**
24586951 CAAACATGGTCTTACACTAGTTCACATATCGAG
65 CAAACATGGTCTTACACTACCTCACATATCGAG
* *
24586984 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ATATCAATGCCGATGCCATGTTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAATATCAATGCCAATGCCATGTTCC
*
24587048 AAACATGGTCTTACACTACCTCACATATTGAG
66 AAACATGGTCTTACACTACCTCACATATCGAG
24587080 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-AATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAATA
24587123 ACCCTAGTAT
Statistics
Matches: 131, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
96 91 0.69
98 40 0.31
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (97 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAATATCAATGCCAATGCCATGTTCC
AAACATGGTCTTACACTACCTCACATATCGAG
Found at i:24592956 original size:40 final size:40
Alignment explanation
Indices: 24592704--24592946 Score: 380
Period size: 40 Copynumber: 6.1 Consensus size: 40
24592694 AACCCAAGTA
* *
24592704 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
24592743 CCTTCGGGACTTAGCCCAGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
24592783 CCTTCGGGACTTGGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24592823 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
24592863 CCTTCGGGACTTAGCCCAGATATAGTAACTCGTAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
24592903 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24592943 CCTT
1 CCTT
24592947 TGGATCTTAG
Statistics
Matches: 185, Mismatches: 18, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 13 0.07
40 172 0.93
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:24594276 original size:13 final size:13
Alignment explanation
Indices: 24594258--24594284 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24594248 TTATTATTTC
24594258 TAACACAAAATGT
1 TAACACAAAATGT
24594271 TAACACAAAATGT
1 TAACACAAAATGT
24594284 T
1 T
24594285 TATAATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (13 bp):
TAACACAAAATGT
Found at i:24606131 original size:43 final size:44
Alignment explanation
Indices: 24606033--24606132 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 44
24606023 CAGACTTAGT
* *
24606033 CTTACATGT-AATCAAATATCGATGACATTGTCCCAAACAGGGT
1 CTTACAAGTAAATCAAATATCGATGACATTGTCCCAAACAGGGC
* *
24606076 CTTACAAG-AAATCAAATAT-GATGTCGA-TGTCCCAAACATGGC
1 CTTACAAGTAAATCAAATATCGATGAC-ATTGTCCCAAACAGGGC
*
24606118 CTTACACGTAAATCA
1 CTTACAAGTAAATCA
24606133 TAAGTCGATG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 25 0.51
43 24 0.49
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (44 bp):
CTTACAAGTAAATCAAATATCGATGACATTGTCCCAAACAGGGC
Found at i:24625135 original size:43 final size:42
Alignment explanation
Indices: 24625080--24625240 Score: 134
Period size: 43 Copynumber: 3.8 Consensus size: 42
24625070 ATGCCAACAT
* *
24625080 CCAGACTTGGTCTTACATGTAATCAAATATCGATGCCACTGTC
1 CCAGACTGGGTCTTACACGTAATCAAATATCGATGCCA-TGTC
** *
24625123 CCAGA-TAGGGTCTTACACAAAATCAAATA-CAATGCCGATGTC
1 CCAGACT-GGGTCTTACACGTAATCAAATATCGATGCC-ATGTC
* * *
24625165 CCAGACTTGGTCTTACACGTAAATCATAA-GTCGATGCTAATGTC
1 CCAGACTGGGTCTTACACGT-AATCA-AATATCGATGC-CATGTC
*
24625209 CCAGAC-GTGGTCTTACACGATAA-CACATATCG
1 CCAGACTG-GGTCTTACACG-TAATCAAATATCG
24625241 GATTCTATGT
Statistics
Matches: 94, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
42 27 0.29
43 35 0.37
44 31 0.33
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
CCAGACTGGGTCTTACACGTAATCAAATATCGATGCCATGTC
Found at i:24625213 original size:44 final size:42
Alignment explanation
Indices: 24625080--24625227 Score: 149
Period size: 44 Copynumber: 3.5 Consensus size: 42
24625070 ATGCCAACAT
* *
24625080 CCAGACTTGGTCTTACATGT-AATCAAATATCGATGCCACTGTC
1 CCAGACTTGGTCTTACACGTAAATC-AA-ATCGATGCCAATGTC
* * * *
24625123 CCAGA-TAGGGTCTTACAC-AAAATCAAATACAATGCCGATGTC
1 CCAGACT-TGGTCTTACACGTAAATCAAAT-CGATGCCAATGTC
*
24625165 CCAGACTTGGTCTTACACGTAAATCATAAGTCGATGCTAATGTC
1 CCAGACTTGGTCTTACACGTAAATCA-AA-TCGATGCCAATGTC
*
24625209 CCAGACGTGGTCTTACACG
1 CCAGACTTGGTCTTACACG
24625228 ATAACACATA
Statistics
Matches: 86, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
41 2 0.02
42 28 0.33
43 25 0.29
44 30 0.35
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
CCAGACTTGGTCTTACACGTAAATCAAATCGATGCCAATGTC
Done.