Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 168 of 172
Found at i:49742518 original size:24 final size:24
Alignment explanation
Indices: 49742490--49742541 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
49742480 TTAGTAAGTC
*
49742490 AAATAAACTATGCTAATAAATACT
1 AAATAAACTATACTAATAAATACT
* *
49742514 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
49742538 AAAT
1 AAAT
49742542 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:49748723 original size:3 final size:3
Alignment explanation
Indices: 49748715--49748748 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
49748705 ATAGGTAAAT
49748715 ATA ATA ATA ATA ATA ATAA ATA AT- ATA ATA ATA A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA A
49748749 CGATCTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:49751020 original size:27 final size:28
Alignment explanation
Indices: 49750948--49751044 Score: 169
Period size: 28 Copynumber: 3.5 Consensus size: 28
49750938 AAAAATAAAA
*
49750948 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTATAACTTTTTTTT
49750976 ATTTACCAAAATATTATAACTTTTTTTT
1 ATTTACCAAAATATTATAACTTTTTTTT
*
49751004 ATTTACCAAAATA-TATAAATTTTTTTT
1 ATTTACCAAAATATTATAACTTTTTTTT
49751031 ATTTACCAAAATAT
1 ATTTACCAAAATAT
49751045 ATCCAAAAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 26 0.39
28 40 0.61
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTTACCAAAATATTATAACTTTTTTTT
Found at i:49751114 original size:27 final size:27
Alignment explanation
Indices: 49751084--49751169 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
49751074 CCTGACACCA
* *
49751084 GCCAATTAAATTGGCGGCACCAAAGGT
1 GCCAAATAAATTGGCGGCACCAATGGT
* *
49751111 GCCAAATAAATTGGTGGCACCATTGGT
1 GCCAAATAAATTGGCGGCACCAATGGT
*
49751138 GCCAAAGT-CATTGGCGGCACC-ATGGT
1 GCCAAA-TAAATTGGCGGCACCAATGGT
49751164 GCCAAA
1 GCCAAA
49751170 GGAAAAAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.78
28 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (27 bp):
GCCAAATAAATTGGCGGCACCAATGGT
Found at i:49751271 original size:19 final size:19
Alignment explanation
Indices: 49751241--49751314 Score: 91
Period size: 19 Copynumber: 4.1 Consensus size: 19
49751231 CCTTCAACTC
49751241 ATTT-TTTT-ATTTAATAA
1 ATTTATTTTAATTTAATAA
49751258 ATTTATTTTAATTTAATAA
1 ATTTATTTTAATTTAATAA
* * *
49751277 A-CTATTCTCATTTAATAA
1 ATTTATTTTAATTTAATAA
*
49751295 CTTTATTTTAATTTAATAA
1 ATTTATTTTAATTTAATAA
49751314 A
1 A
49751315 CTATTAAGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
17 4 0.09
18 18 0.39
19 24 0.52
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTATTTTAATTTAATAA
Found at i:49751294 original size:37 final size:37
Alignment explanation
Indices: 49751249--49751319 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
49751239 TCATTTTTTT
49751249 ATTTAATAAATTTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAAATTTATTTTAATTTAATAAACTATTCTC
*
49751286 ATTTAATAACTTTATTTTAATTTAATAAACTATT
1 ATTTAATAAATTTATTTTAATTTAATAAACTATT
49751320 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (37 bp):
ATTTAATAAATTTATTTTAATTTAATAAACTATTCTC
Found at i:49751775 original size:37 final size:37
Alignment explanation
Indices: 49751733--49751803 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
49751723 AGTATTACTT
*
49751733 AATAGTTTATTAAATTAAAATGGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
49751770 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
49751804 AAAAAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:49751781 original size:18 final size:18
Alignment explanation
Indices: 49751733--49751807 Score: 82
Period size: 18 Copynumber: 4.1 Consensus size: 18
49751723 AGTATTACTT
49751733 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATTAA
* *
49751751 AATGGAG-TTATTAAATGAG
1 AAT--AGTTTATTAAATTAA
49751770 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATTAA
*
49751788 AATAGAGTTATTAAA-TAA
1 AATAG-TTTATTAAATTAA
49751806 AA
1 AA
49751808 AAATGAGTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
17 2 0.04
18 23 0.48
19 21 0.44
20 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (18 bp):
AATAGTTTATTAAATTAA
Found at i:49751808 original size:19 final size:19
Alignment explanation
Indices: 49751739--49751807 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
49751729 ACTTAATAGT
*
49751739 TTATTAAATTAAAATGGAG
1 TTATTAAATTAAAATAGAG
* * *
49751758 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
49751776 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
49751795 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
49751808 AAATGAGTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
18 20 0.48
19 22 0.52
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:49751815 original size:20 final size:19
Alignment explanation
Indices: 49751739--49751816 Score: 59
Period size: 19 Copynumber: 4.1 Consensus size: 19
49751729 ACTTAATAGT
* **
49751739 TTATTAAATTAAAATGGAG
1 TTATTAAATAAAAAAAGAG
* * * *
49751758 TTATTAAATGAGAATAG-T
1 TTATTAAATAAAAAAAGAG
* *
49751776 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
49751795 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
49751815 TT
1 TT
49751817 GAAGGGGAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.31
19 28 0.58
20 5 0.10
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:49751959 original size:27 final size:27
Alignment explanation
Indices: 49751882--49751967 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
49751872 TTTTCTTTCC
* *
49751882 TTTGGTACC-ATGGTGCCGCCAA-TGA
1 TTTGGCACCAATGGTGCCGCCAATTTA
*
49751907 CTTTGGCACCAATGGTGCCACCAATTTA
1 -TTTGGCACCAATGGTGCCGCCAATTTA
**
49751935 TTTGGCACCTTTGGTGCCGCCAATTTA
1 TTTGGCACCAATGGTGCCGCCAATTTA
*
49751962 ATTGGC
1 TTTGGC
49751968 TGGTGTTAGG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.16
27 41 0.80
28 2 0.04
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
TTTGGCACCAATGGTGCCGCCAATTTA
Found at i:49752013 original size:19 final size:19
Alignment explanation
Indices: 49751976--49752016 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
49751966 GCTGGTGTTA
* * *
49751976 GGTTTTTTTTTTGTTTTTT
1 GGTTTTTTTTATATATTTT
49751995 GGTTTTTTTTATATATTTT
1 GGTTTTTTTTATATATTTT
49752014 GGT
1 GGT
49752017 AACCAACAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.07, C:0.00, G:0.17, T:0.76
Consensus pattern (19 bp):
GGTTTTTTTTATATATTTT
Found at i:49752038 original size:28 final size:28
Alignment explanation
Indices: 49752007--49752104 Score: 169
Period size: 28 Copynumber: 3.5 Consensus size: 28
49751997 TTTTTTTTAT
** *
49752007 ATATTTTGGTAACCAACAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAGTTGTA
49752035 ATATTTTGGTAAATAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAGTTGTA
49752063 ATATTTTGGTAAATAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAGTTGTA
49752091 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
49752105 TTTTATTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTGTA
Found at i:49753716 original size:51 final size:51
Alignment explanation
Indices: 49753651--49754497 Score: 861
Period size: 51 Copynumber: 16.6 Consensus size: 51
49753641 GTTAATGATG
* *
49753651 ATGATGAATCCCCTGTTTCAGCCATTGAAGATGGATCTTTCCCTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * *
49753702 ATGATGACTTCCCTGTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGTTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * * *** *
49753753 ATGATGACTCCCTTGTTTCAGTCATTGAAGATGGTTCTTCCCCTGCCGCTG
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
** * * * **
49753804 CCGGTGACTCCCCTGTTTCAGCGATTGAAGATGGTTCCTTATCTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * * *** *
49753855 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGAAGCTG
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
** * * * *
49753906 CCGGTGATTCCCCTGTTTCAGCCATTGAAGAGGGTTCTTTCTCTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * * * *** *
49753957 ACGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGC
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCT-A
* **
49754009 CTG-TGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCTTTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * ** *** *
49754059 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTCCCCCTGAAGCTG
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
** * * * *
49754110 CCGGTGATTCCCCTGTTTCAGCCATTGAAGAGGGTTCTTTCTCTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * * *** *
49754161 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGC
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCT-A
* *
49754213 CTG-TGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* *** *
49754263 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTCCCCTGACGCTG
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* *
49754314 CTGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * *** *
49754365 ATGATGACTCCCCTGTTTCAACCATTGAAGATGGTTCTTCCCCTGACGCTG
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * * **
49754416 CTGATGACTCCCCTGTTTCAGCCATTGAAGATGGCTCTTTCCTTTTTGCCG
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * ** *
49754467 ATGCTGAATCATCTGTTTCGGCCATTGAAGA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGA
49754498 AAGAAAAAGA
Statistics
Matches: 630, Mismatches: 162, Indels: 8
0.79 0.20 0.01
Matches are distributed among these distances:
50 4 0.01
51 623 0.99
52 3 0.00
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (51 bp):
ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
Found at i:49753831 original size:102 final size:102
Alignment explanation
Indices: 49753651--49754461 Score: 1248
Period size: 102 Copynumber: 8.0 Consensus size: 102
49753641 GTTAATGATG
* * * * * *** *** * *
49753651 ATGATGAATCCCCTGTTTCAGCCATTGAAGATGGATCTTTCCCTTTTGCTAATGATGACTTCCCT
1 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
*
49753716 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGTTA
66 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
* *
49753753 ATGATGACTCCCTTGTTTCAGTC-ATTGAAGATGGTTCTTCCCCTGCCGCTGCCGGTGACTCCCC
1 ATGATGACTCCCCTGTTTCA-TCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCC
* * *
49753817 TGTTTCAGCGATTGAAGATGGTTCCTTATCTTTTGCTA
65 TGTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
* *
49753855 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGAAGCTGCCGGTGATTCCCCT
1 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
*
49753920 GTTTCAGCCATTGAAGAGGGTTCTTTCTCTTTTGCTA
66 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
* *
49753957 ACGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCTGTGACTCCCCT
1 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
*
49754022 GTTTCAGCCATTGAAGATGGTTCTTTCTTTTTTGCTA
66 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
* * *
49754059 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTCCCCCTGAAGCTGCCGGTGATTCCCCT
1 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
*
49754124 GTTTCAGCCATTGAAGAGGGTTCTTTCTCTTTTGCTA
66 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
*
49754161 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCTGTGACTCCCCT
1 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
49754226 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
66 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
* * *
49754263 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTCCCCTGACGCTGCTGGTGACTCCCCT
1 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
*
49754328 GTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
66 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
* * * *
49754365 ATGATGACTCCCCTGTTTCAACCATTGAAGATGGTTCTTCCCCTGACGCTGCTGATGACTCCCCT
1 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
*
49754430 GTTTCAGCCATTGAAGATGGCTCTTTC-CTTTT
66 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTT
49754462 TGCCGATGCT
Statistics
Matches: 656, Mismatches: 51, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
101 7 0.01
102 648 0.99
103 1 0.00
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.37
Consensus pattern (102 bp):
ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
Found at i:49757357 original size:120 final size:120
Alignment explanation
Indices: 49757225--49757588 Score: 647
Period size: 120 Copynumber: 3.0 Consensus size: 120
49757215 TAATTATATT
49757225 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
** * * *
49757290 AATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTTTAAAATATAAC
66 AATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAA
49757345 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
* *
49757410 AATATTCTTATATGAATTTAATAAATTCATAATATATAATACTATATAATATAAT
66 AATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAA
* *
49757465 TTAAAATAATTATTATTAAATATAATTTAATAAAAATATAAAATTTAATAAAATTCTTAATATTA
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
49757530 AATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAA
66 AATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAA
49757585 TTAA
1 TTAA
49757589 TAATGTAGAT
Statistics
Matches: 234, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 234 1.00
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
AATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAA
Found at i:49757436 original size:37 final size:37
Alignment explanation
Indices: 49757381--49757591 Score: 119
Period size: 37 Copynumber: 5.4 Consensus size: 37
49757371 TTAATAAAAA
49757381 TATATAATTTAATAAAATTCTTAATATTAAATAT-TCT
1 TATATAATTTAAT-AAATTCTTAATATTAAATATATCT
* *
49757418 TATATGAATTTAATAAATTCATAATA-TATAATACTATAT
1 TATAT-AATTTAATAAATTCTTAATATTA-AATA-TATCT
* ** * *
49757457 AATATAATTT-A-AAATAATTATTATTAAATATAATTT
1 TATATAATTTAATAAATTCTTAATATTAAATAT-ATCT
49757493 AATAAAAATATAAAATTTAATAAAATTCTTAATATTAAATAT-TCT
1 --T----ATAT--AATTTAAT-AAATTCTTAATATTAAATATATCT
* * *
49757538 TATATGAATTTAATAAAATCATAATA-TATAATACTATAT
1 TATAT-AATTTAATAAATTCTTAATATTA-AATA-TATCT
* *
49757577 AATATAAATTAATAA
1 TATATAATTTAATAA
49757592 TGTAGATACT
Statistics
Matches: 135, Mismatches: 19, Indels: 39
0.70 0.10 0.20
Matches are distributed among these distances:
35 1 0.01
36 19 0.14
37 37 0.27
38 32 0.24
39 16 0.12
42 4 0.03
43 1 0.01
44 5 0.04
45 3 0.02
47 17 0.13
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (37 bp):
TATATAATTTAATAAATTCTTAATATTAAATATATCT
Found at i:49757501 original size:16 final size:17
Alignment explanation
Indices: 49757482--49757517 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
49757472 AATTATTATT
49757482 AAATAT-AATTTAATAA
1 AAATATAAATTTAATAA
49757498 AAATATAAAATTTAATAA
1 AAATAT-AAATTTAATAA
49757516 AA
1 AA
49757518 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
18 12 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATAAATTTAATAA
Found at i:49762082 original size:70 final size:70
Alignment explanation
Indices: 49761956--49762087 Score: 196
Period size: 70 Copynumber: 1.9 Consensus size: 70
49761946 CTGTATGAAC
* * *
49761956 TAATTAGACCACGATCCGGGATATGGGACGGGGTTATGGATGTTAGGATCTGAGCTTAAACTGCA
1 TAATTAGACCAAGATCCGGGATATGGGAAGGGGTTATGGATGTTAGGATCTAAGCTTAAACTGCA
49762021 GGAAT
66 GGAAT
*
49762026 TAATTAGACCATAG-TCCGGGATATGGGAAGGGGTTATGGATGTTAGGGT-TCAAGCTTAAACT
1 TAATTAGACCA-AGATCCGGGATATGGGAAGGGGTTATGGATGTTAGGATCT-AAGCTTAAACT
49762088 TGTCAGATGC
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
69 1 0.02
70 54 0.96
71 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (70 bp):
TAATTAGACCAAGATCCGGGATATGGGAAGGGGTTATGGATGTTAGGATCTAAGCTTAAACTGCA
GGAAT
Found at i:49775498 original size:3 final size:3
Alignment explanation
Indices: 49775490--49775515 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49775480 TATAGCTTTA
49775490 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
49775516 ATTAATCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:49776280 original size:21 final size:21
Alignment explanation
Indices: 49776255--49776299 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
49776245 TAATAATAAA
49776255 TTTAGTTATT-TGTTTTGTAAT
1 TTTAGTT-TTATGTTTTGTAAT
* *
49776276 TTTAGTTTTATTTTTTGTTAT
1 TTTAGTTTTATGTTTTGTAAT
49776297 TTT
1 TTT
49776300 TTATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (21 bp):
TTTAGTTTTATGTTTTGTAAT
Found at i:49781659 original size:57 final size:54
Alignment explanation
Indices: 49781557--49781722 Score: 174
Period size: 57 Copynumber: 3.0 Consensus size: 54
49781547 TGACCATTGA
* *
49781557 TGCCATTTTTTCCGGTATCCTCAAATCC--AACAATCGAACTTGATTTTCCCTTTTT
1 TGCCA-TTTTCCCGG-ATCCTCAAATCCTTAACAACCGAACTTGA-TTTCCCTTTTT
* *
49781612 TGCCATTTTCCCCGGATCCTCAAATCCATTAACAACCGAGCTTGATTTCCCCTTTT
1 TGCCATTTT-CCCGGATCCTCAAATCC-TTAACAACCGAACTTGATTTCCCTTTTT
** * *
49781668 TGACCCATTTTCTTGGATCCTCCAACCCGTTAACAACCGAACTTGATTTCCCTTT
1 TG--CCATTTTCCCGGATCCTCAAATCC-TTAACAACCGAACTTGATTTCCCTTT
49781723 GTTAGTATTA
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
54 16 0.17
55 9 0.10
56 12 0.13
57 50 0.53
58 7 0.07
ACGTcount: A:0.22, C:0.31, G:0.10, T:0.37
Consensus pattern (54 bp):
TGCCATTTTCCCGGATCCTCAAATCCTTAACAACCGAACTTGATTTCCCTTTTT
Found at i:49795709 original size:24 final size:24
Alignment explanation
Indices: 49795677--49795725 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
49795667 TTGGGGATAA
49795677 AGCCACATGAACTCAGAACTCGGT
1 AGCCACATGAACTCAGAACTCGGT
**
49795701 AGCCACATGAACTTGGAACTCGGT
1 AGCCACATGAACTCAGAACTCGGT
49795725 A
1 A
49795726 ACTTCTCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (24 bp):
AGCCACATGAACTCAGAACTCGGT
Found at i:49803706 original size:27 final size:27
Alignment explanation
Indices: 49803646--49803712 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
49803636 GAGGGTCTGT
*
49803646 CACAGGCGACACCAAAGGTGCCAATGG
1 CACAGGCGACACCAAAGGTGCCAATGC
* * *
49803673 CAGAGGCGGCACCAAAGGTGCCACTGC
1 CACAGGCGACACCAAAGGTGCCAATGC
*
49803700 CACAGGCAACACC
1 CACAGGCGACACC
49803713 TGTGCCATGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.31, C:0.34, G:0.28, T:0.06
Consensus pattern (27 bp):
CACAGGCGACACCAAAGGTGCCAATGC
Found at i:49803890 original size:20 final size:22
Alignment explanation
Indices: 49803844--49803891 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
49803834 CGAAAAAAAA
*
49803844 AGAA-AAAGAGAGAAAGAGAAT
1 AGAAGAAAGAGAGAAAGAGAAG
49803865 AG-AGAAAG-GAGAAAGA-AAG
1 AGAAGAAAGAGAGAAAGAGAAG
49803884 AGAAGAAA
1 AGAAGAAA
49803892 AAAAAATAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 14 0.58
21 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (22 bp):
AGAAGAAAGAGAGAAAGAGAAG
Found at i:49804262 original size:76 final size:77
Alignment explanation
Indices: 49804057--49804280 Score: 238
Period size: 76 Copynumber: 2.8 Consensus size: 77
49804047 GTTTAGTTAT
* *
49804057 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTAATATTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAC---TATTATTA-T-T-GTTAGTTAT
**
49804122 TAGGATTAGTAAAAACCC
60 TATTATTAGTAAAAACCC
* *** * *
49804140 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACACTA-TATTATTGTTAGTTATTATTT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAG-TAAAAAACTATTATTATTGTTAGTTATTATTA
49804203 TTAGT-AAAACCC
65 TTAGTAAAAACCC
* *
49804215 TAATTATTATTGTTAGTTAGTATTATTTTTAGTAAAAAACTATTATTATTATTATGTTAGTTATT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAACTATTATTATTGTTA-GTTA-TTATT
49804280 A
64 A
49804281 GGATTAGTGG
Statistics
Matches: 118, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
75 24 0.20
76 44 0.37
77 5 0.04
78 6 0.05
79 5 0.04
80 2 0.02
82 18 0.15
83 14 0.12
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (77 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAACTATTATTATTGTTAGTTATTATTAT
TAGTAAAAACCC
Found at i:49807818 original size:150 final size:151
Alignment explanation
Indices: 49807650--49808571 Score: 1216
Period size: 150 Copynumber: 6.1 Consensus size: 151
49807640 TTATTTTCGA
* *
49807650 ATTTTATTACTTTTAAAAAATATATTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATA
1 ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
*
49807715 ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGT
66 ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGC
*
49807780 CATTTATTCGTATTTTTCTT-
131 CATTTGTTCGTATTTTTCTTG
* * *
49807800 ATTTTATTACTTTAAAAAAATATAATATTTTCGTATTTTAATATTTTATATTATTTTAGTACATA
1 ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
* *
49807865 ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTATACAAATATAGTAAAAAACCCTTATTTTGG
66 ATGTTTGAAATGTATTATTTTAGTGTG-TTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGG
49807930 CCATTTGTTCGTATTTTTCTTATTTTCGG
130 CCATTTGTTCGTATTTTTC-----TT--G
49807959 ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
1 ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
* * * * *
49808024 ATGTTTGAAATATATTATTTTA--G-ATTTTTTATATAAATCTAGCAAAAAATCCTTATTTTGGC
66 ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGC
49808086 CATTTGTTCGTATTTTTCTT-
131 CATTTGTTCGTATTTTTCTTG
* *
49808106 ATTTTATTACTTTCAAAAAATATACTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATA
1 ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
* * *
49808171 ATGTTTGAAATGTATTATTTTAGTATGATTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGT
66 ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGC
*
49808236 CATTTATTCGTATTTTTCTTATTTTCAG
131 CATTTGTTCGTATTTTTC-----TT--G
*
49808264 ATTTTATTACTTT-AAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
1 ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
* *
49808328 ATGTTTGAAATGTATTATTTTAGTAT-ATTTTTATATAAATTTAGTAAAAAA-CCTTATTTTGGC
66 ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGC
*
49808391 CATTTGTTCGGATTTTTCTTATTTTCGG
131 CATTTGTTCGTATTTTTC-----TT--G
* * *
49808419 ATTTCATTACTTTCAAAAAATATATTATATTCG--------TA--TT-TATTGTTTTAGTACATA
1 ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
* *
49808473 ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATAATTTTAGTAAAAAACACTTATTTTGG
66 ATGTTTGAAATGTATTATTTTAGTGTG-TTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGG
* *
49808538 CCATTTGCTCGTATTTTTTTTG
130 CCATTTGTTCGTATTTTTCTTG
49808560 AATTTTATTACT
1 -ATTTTATTACT
49808572 GTAATACCCC
Statistics
Matches: 702, Mismatches: 45, Indels: 58
0.87 0.06 0.07
Matches are distributed among these distances:
141 1 0.00
142 10 0.01
143 2 0.00
145 41 0.06
146 2 0.00
147 107 0.15
148 28 0.04
150 140 0.20
151 52 0.07
155 102 0.15
156 44 0.06
157 77 0.11
158 13 0.02
159 83 0.12
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.54
Consensus pattern (151 bp):
ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGC
CATTTGTTCGTATTTTTCTTG
Found at i:49808189 original size:306 final size:304
Alignment explanation
Indices: 49807633--49808555 Score: 1366
Period size: 306 Copynumber: 3.0 Consensus size: 304
49807623 TTATTTTCAG
* *
49807633 ATTTTTCTTATTTTCGAATTTTATTACTTTTAAAAAATATATTATTTTTGTATTTTATTATTTTA
1 ATTTTTCTTATTTTCGGATTTTATTAC-TTTAAAAAATATATTATTTTCGTATTTTATTATTTTA
*
49807698 TATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAA
65 TATTATTTTAGTACATAATGTTTGAAATGTATTATTTTA--GTATTTTTTATATAAATTTAGTAA
* * *
49807763 AAAACCCTTATTTTGGTCATTTATTCGTATTTTTCTTATTTTATTACTTTAAAAAAATATAATAT
128 AAAA-CCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTATTACTTTCAAAAAATAT-ATAT
*
49807828 TTTCGTATTTTAATATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGT
191 TTTTGTATTTTAATATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGT
* *
49807893 TTTTTTATACAAATATAGTAAAAAACCCTTATTTTGGCCATTTGTTCGT
256 TTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGT
49807942 ATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTA
1 ATTTTTCTTATTTTCGGATTTTATTACTTT-AAAAAATATATTATTTTCGTATTTTATTATTTTA
* * *
49808007 TATTATTTTAGTACATAATGTTTGAAATATATTATTTTAG-ATTTTTTATATAAATCTAGCAAAA
65 TATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTATTTTTTATATAAATTTAGTAAAA
49808071 AATCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTATTACTTTCAAAAAATATACTATTT
130 AA-CCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTATTACTTTCAAAAAATATA-TATTT
* * *
49808136 TTGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTATG-AT
193 TTGTATTTTAATATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTT
* *
49808200 TTTTATATAAATTTAGTAAAAAACCCTTATTTTGGTCATTTATTCGT
258 TTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGT
* *
49808247 ATTTTTCTTATTTTCAGATTTTATTACTTTAAAAAATATACTATTTTCGTATTTTATTATTTTAT
1 ATTTTTCTTATTTTCGGATTTTATTACTTTAAAAAATATATTATTTTCGTATTTTATTATTTTAT
49808312 ATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTATATTTTTATATAAATTTAGTAAAA
66 ATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTAT-TTTTTATATAAATTTAGTAAAA
*
49808377 AACCTTATTTTGGCCATTTGTTCGGATTTTTCTTATTTTCGGATTTCATTACTTTC-AAAAA-AT
130 AACCTTATTTTGGCCATTTGTTCGTATTTTTCTTA---T----TTT-ATTACTTTCAAAAAATAT
* ** *
49808440 ATA----T-TATATTCGTA--TT-TATTGTTTTAGTACATAATGTTTGAAATGTATTATTTTAGT
187 ATATTTTTGTATTTTAATATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGT
* * *
49808497 GTGTTTTTTTATATAATTTTAGTAAAAAACACTTATTTTGGCCATTTGCTCGT
252 GTGTTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGT
49808550 ATTTTT
1 ATTTTT
49808556 TTTGAATTTT
Statistics
Matches: 566, Mismatches: 35, Indels: 32
0.89 0.06 0.05
Matches are distributed among these distances:
302 42 0.07
303 51 0.09
304 72 0.13
305 115 0.20
306 162 0.29
307 1 0.00
308 4 0.01
309 97 0.17
310 2 0.00
311 3 0.01
312 8 0.01
313 9 0.02
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.54
Consensus pattern (304 bp):
ATTTTTCTTATTTTCGGATTTTATTACTTTAAAAAATATATTATTTTCGTATTTTATTATTTTAT
ATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTATTTTTTATATAAATTTAGTAAAAA
ACCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTATTACTTTCAAAAAATATATATTTTTG
TATTTTAATATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTT
TATATAAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGT
Found at i:49808775 original size:22 final size:22
Alignment explanation
Indices: 49808750--49808791 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
49808740 ACCAATCAAT
49808750 TTTAACATATTC-TCAAGATAGA
1 TTTAACATATTCAT-AAGATAGA
*
49808772 TTTAACGTATTCATAAGATA
1 TTTAACATATTCATAAGATA
49808792 ACCTCATCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (22 bp):
TTTAACATATTCATAAGATAGA
Found at i:49811789 original size:30 final size:30
Alignment explanation
Indices: 49811755--49811875 Score: 138
Period size: 30 Copynumber: 4.4 Consensus size: 30
49811745 AAATCAAATA
49811755 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
49811785 AAATAAT--AACATA-AA--TA-AT---A-
1 AAATAATAAAACATAGAATGTACATAACAT
* *
49811805 AAATAATAAGACATAGTATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
49811835 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
49811865 AAA-AATTAAAA
1 AAATAA-TAAAA
49811876 TTAAATTATG
Statistics
Matches: 76, Mismatches: 4, Indels: 22
0.75 0.04 0.22
Matches are distributed among these distances:
20 7 0.09
21 1 0.01
22 5 0.07
23 1 0.01
24 2 0.03
25 4 0.05
26 2 0.03
27 2 0.03
28 6 0.08
29 3 0.04
30 43 0.57
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.24
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:49811795 original size:12 final size:12
Alignment explanation
Indices: 49811778--49811810 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
49811768 TAGAATGTAC
49811778 ATAACATAAATA
1 ATAACATAAATA
49811790 ATAACATAAATA
1 ATAACATAAATA
*
49811802 ATAAAATAA
1 ATAACATAA
49811811 TAAGACATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAACATAAATA
Found at i:49822492 original size:25 final size:24
Alignment explanation
Indices: 49822444--49822492 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
49822434 AATATTTTCA
* * *
49822444 TTTTTATCAATTTAGTCTTTATTT
1 TTTTTATAAATTTAGTATTAATTT
49822468 TTTTTATTAAATTTAGTATTAATTT
1 TTTTTA-TAAATTTAGTATTAATTT
49822493 AAAAAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTTATAAATTTAGTATTAATTT
Found at i:49823236 original size:19 final size:18
Alignment explanation
Indices: 49823212--49823251 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
49823202 ACAAAAGTTT
49823212 ATTATAAAAAATAATTATA
1 ATTATAAAAAATAATTA-A
*
49823231 ATTATAATAAATAATTAA
1 ATTATAAAAAATAATTAA
49823249 ATT
1 ATT
49823252 TTAATGTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTATAAAAAATAATTAA
Found at i:49826391 original size:120 final size:120
Alignment explanation
Indices: 49826265--49826554 Score: 485
Period size: 120 Copynumber: 2.4 Consensus size: 120
49826255 AATTATTTTA
* *
49826265 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTT-TCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTTATATTT
* *
49826329 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
49826385 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTAAATTTATATTT
49826449 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
49826505 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
49826555 GTTTAAATAT
Statistics
Matches: 159, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
119 7 0.04
120 149 0.94
121 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:49826447 original size:15 final size:14
Alignment explanation
Indices: 49826395--49826450 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
49826385 AATTTTATTA
49826395 AATTATA-TATTTT
1 AATTATATTATTTT
*
49826408 AATTATAATATATTT
1 AATTATATTAT-TTT
*
49826423 AATAATTATTATTTT
1 AATTA-TATTATTTT
49826438 AATT-TA-TATTTT
1 AATTATATTATTTT
49826450 A
1 A
49826451 CAGTATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.19
13 9 0.24
14 3 0.08
15 13 0.35
16 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTATATTATTTT
Found at i:49826511 original size:61 final size:61
Alignment explanation
Indices: 49826326--49826512 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
49826316 TCAAATTTTC
*
49826326 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
* * * * * * *
49826387 TTTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATTATT-ATT-TTAATTTA
1 TTTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAGAA-TATTAATTATTAA--GA
49826444 TA
61 -A
*
49826446 TTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
49826507 TTTTAT
1 TTTTAT
49826513 TAAATTATAT
Statistics
Matches: 95, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 4 0.04
57 12 0.13
58 8 0.08
59 16 0.17
60 8 0.08
61 21 0.22
62 9 0.09
63 13 0.14
64 4 0.04
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (61 bp):
TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
Found at i:49826534 original size:18 final size:17
Alignment explanation
Indices: 49826506--49826540 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49826496 ATTATTAAGA
*
49826506 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
49826523 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
49826541 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:49826654 original size:147 final size:149
Alignment explanation
Indices: 49826494--49826768 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
49826484 ATAAGAATAT
*
49826494 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
49826559 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
49826622 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
49826641 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
49826706 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
49826769 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:49826681 original size:18 final size:17
Alignment explanation
Indices: 49826653--49826687 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49826643 ATTATTAAGA
*
49826653 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
49826670 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
49826688 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:49826939 original size:45 final size:44
Alignment explanation
Indices: 49826849--49826943 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
49826839 TTACACCTTT
* * *
49826849 ATTACATTCAACCAAACACAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGATTTACTATTACACATCTATTCC
** * *
49826893 ATTACATTCAACCAAACAGTTGATTTGCTATTATACATCTATTCC
1 ATTACATTCAACCAAACA-CAGATTTACTATTACACATCTATTCC
49826938 ATTACA
1 ATTACA
49826944 CCTGTAATCC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGATTTACTATTACACATCTATTCC
Found at i:49826954 original size:16 final size:16
Alignment explanation
Indices: 49826930--49826975 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
49826920 CTATTATACA
* *
49826930 TCTATTCCATTACACC
1 TCTAATCCAATACACC
*
49826946 TGTAATCCAATACACC
1 TCTAATCCAATACACC
49826962 TCTAATCCAATACA
1 TCTAATCCAATACA
49826976 GCGAACCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.35, C:0.33, G:0.02, T:0.30
Consensus pattern (16 bp):
TCTAATCCAATACACC
Found at i:49830271 original size:4 final size:4
Alignment explanation
Indices: 49830262--49830327 Score: 132
Period size: 4 Copynumber: 16.5 Consensus size: 4
49830252 TACAAATGAA
49830262 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
49830310 ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC AT
49830328 GTAAGTATTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 62 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:49830655 original size:189 final size:186
Alignment explanation
Indices: 49830332--49830706 Score: 529
Period size: 189 Copynumber: 2.0 Consensus size: 186
49830322 ATACATGTAA
* * *
49830332 GTATTTAGTTATAATAAGCACTGAAATTTGATGGAATTATTATTGCAGTGAATTAGATAGCCATG
1 GTATATAGTTATAATAAGCACTGAAATTTCATGGAATTACTATTGCAGTGAATTAGATAGCCATG
* * * * * *
49830397 TTTATCTCTTATATGCCTTCAATTGAAAACATTCAAGCAAAGACTTGTTAAATGGTCTAATTACA
66 TTTAGCTATTACATGCCTTCAATTCAAAACATTCAAGCAAAGACTAGTTAAATGGTCCAATTACA
49830462 CTTTTAG-CATCTCCTAAACCTTAATAATTCAATTTAATCCATTTTAGCTCCTTTAT
131 CTTTTAGCCA-CTCCTAAACCTTAATAATTCAATTTAATCCATTTTAGCTCCTTTAT
* * *
49830518 GTATATAGTTATAATAAGCCCTGAAATTTCTTGGAAAGTATTACTATTGCAGTGAA-TGGATAGC
1 GTATATAGTTATAATAAGCACTGAAATTTCATGG--A--ATTACTATTGCAGTGAATTAGATAGC
* * *
49830582 CATGTTTAGCTATTACATGCCTTCAATTCAATACATTCAATCAAAGACTAGTTAGATGGTCCAAT
62 CATGTTTAGCTATTACATGCCTTCAATTCAAAACATTCAAGCAAAGACTAGTTAAATGGTCCAAT
* * *
49830647 TGCACTTTTAGCCACTCCTAAACCTTAATAATTCAATTTGATCCCTTTTAGCTCCTTTAT
127 TACACTTTTAGCCACTCCTAAACCTTAATAATTCAATTTAATCCATTTTAGCTCCTTTAT
49830707 TAAATGGAAA
Statistics
Matches: 166, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
186 30 0.18
188 1 0.01
189 117 0.70
190 18 0.11
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (186 bp):
GTATATAGTTATAATAAGCACTGAAATTTCATGGAATTACTATTGCAGTGAATTAGATAGCCATG
TTTAGCTATTACATGCCTTCAATTCAAAACATTCAAGCAAAGACTAGTTAAATGGTCCAATTACA
CTTTTAGCCACTCCTAAACCTTAATAATTCAATTTAATCCATTTTAGCTCCTTTAT
Found at i:49844425 original size:16 final size:15
Alignment explanation
Indices: 49844395--49844436 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
49844385 AAAAATATAA
49844395 ATATTAAAATTAAAAT
1 ATATT-AAATTAAAAT
49844411 -TAGTTAAATTAAAAAT
1 ATA-TTAAATT-AAAAT
49844427 ATATTAAATT
1 ATATTAAATT
49844437 TACAATTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 14 0.61
17 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
ATATTAAATTAAAAT
Found at i:49856311 original size:6 final size:6
Alignment explanation
Indices: 49856300--49856368 Score: 57
Period size: 6 Copynumber: 11.5 Consensus size: 6
49856290 CACCGCCAAA
* * ** * **
49856300 TCCACC TCCACC TCCAGC TCCAGC TCCACC TCCAAA TCCACC ACCTGC
1 TCCACC TCCACC TCCACC TCCACC TCCACC TCCACC TCCACC TCCACC
* *
49856348 TCCACC TCCAGC ACCACC TCC
1 TCCACC TCCACC TCCACC TCC
49856369 GAATCCTCCA
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.20, C:0.58, G:0.06, T:0.16
Consensus pattern (6 bp):
TCCACC
Found at i:49856315 original size:12 final size:12
Alignment explanation
Indices: 49856277--49856368 Score: 76
Period size: 12 Copynumber: 7.7 Consensus size: 12
49856267 TCCGCCAAAA
* *
49856277 CCACCTCCTGCA
1 CCACCTCCAGCT
* **
49856289 CCACCGCCAAAT
1 CCACCTCCAGCT
*
49856301 CCACCTCCACCT
1 CCACCTCCAGCT
*
49856313 CCAGCTCCAGCT
1 CCACCTCCAGCT
**
49856325 CCACCTCCAAAT
1 CCACCTCCAGCT
* *
49856337 CCACCACCTGCT
1 CCACCTCCAGCT
*
49856349 CCACCTCCAGCA
1 CCACCTCCAGCT
49856361 CCACCTCC
1 CCACCTCC
49856369 GAATCCTCCA
Statistics
Matches: 60, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 60 1.00
ACGTcount: A:0.22, C:0.58, G:0.07, T:0.14
Consensus pattern (12 bp):
CCACCTCCAGCT
Found at i:49856335 original size:36 final size:36
Alignment explanation
Indices: 49856277--49856446 Score: 129
Period size: 36 Copynumber: 4.9 Consensus size: 36
49856267 TCCGCCAAAA
* * *
49856277 CCACCTCCTGCACCACCGCCAAATCCACCTCCACCT
1 CCACCTCCAGCACCACCTCCAAATCCACCACCACCT
* * **
49856313 CCAGCTCCAGCTCCACCTCCAAATCCACCACCTGCT
1 CCACCTCCAGCACCACCTCCAAATCCACCACCACCT
* * *
49856349 CCACCTCCAGCACCACCTCCGAAT---CCTCCACCG
1 CCACCTCCAGCACCACCTCCAAATCCACCACCACCT
* * * *
49856382 CCA---CCAGCACCACCTCCGAATCCTCCACCAGCA
1 CCACCTCCAGCACCACCTCCAAATCCACCACCACCT
* * *
49856415 CCACCTCCAACACCGCCACCGAAA-CCACCACC
1 CCACCTCCAGCACCACCTCC-AAATCCACCACC
49856447 TTTACCAAAG
Statistics
Matches: 105, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
30 18 0.17
33 17 0.16
36 68 0.65
37 2 0.02
ACGTcount: A:0.25, C:0.56, G:0.08, T:0.11
Consensus pattern (36 bp):
CCACCTCCAGCACCACCTCCAAATCCACCACCACCT
Found at i:49856339 original size:18 final size:18
Alignment explanation
Indices: 49856289--49856341 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
49856279 ACCTCCTGCA
*
49856289 CCACCGCCAAATCCACCT
1 CCACCTCCAAATCCACCT
** *
49856307 CCACCTCCAGCTCCAGCT
1 CCACCTCCAAATCCACCT
49856325 CCACCTCCAAATCCACC
1 CCACCTCCAAATCCACC
49856342 ACCTGCTCCA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.25, C:0.57, G:0.06, T:0.13
Consensus pattern (18 bp):
CCACCTCCAAATCCACCT
Found at i:49856386 original size:24 final size:26
Alignment explanation
Indices: 49856359--49856422 Score: 69
Period size: 30 Copynumber: 2.4 Consensus size: 26
49856349 CCACCTCCAG
*
49856359 CACCACCTCCGAATCCTCCACCGCCACCA
1 CACCACCTCCGAATCCTCCA---CCAGCA
49856388 GCACCACCTCCGAATCCTCCACCAG--
1 -CACCACCTCCGAATCCTCCACCAGCA
49856413 CACCACCTCC
1 CACCACCTCC
49856423 AACACCGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 10 0.30
27 3 0.09
30 20 0.61
ACGTcount: A:0.23, C:0.58, G:0.08, T:0.11
Consensus pattern (26 bp):
CACCACCTCCGAATCCTCCACCAGCA
Found at i:49856433 original size:24 final size:25
Alignment explanation
Indices: 49856377--49856434 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
49856367 CCGAATCCTC
49856377 CACCGCCACCAGCACCACCTCCGAA
1 CACCGCCACCAGCACCACCTCCGAA
* *
49856402 -TCCTCCACCAGCACCACCTCC-AA
1 CACCGCCACCAGCACCACCTCCGAA
49856425 CACCGCCACC
1 CACCGCCACC
49856435 GAAACCACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.26, C:0.59, G:0.09, T:0.07
Consensus pattern (25 bp):
CACCGCCACCAGCACCACCTCCGAA
Found at i:49856561 original size:12 final size:12
Alignment explanation
Indices: 49856546--49856593 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
49856536 CACCACCCTT
*
49856546 TCCAATTCCACC
1 TCCAAGTCCACC
49856558 TCCAAGTCCACC
1 TCCAAGTCCACC
* * *
49856570 ACCATGTCCTCC
1 TCCAAGTCCACC
49856582 TCCAAGTCCACC
1 TCCAAGTCCACC
49856594 ACCCTTTCCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.23, C:0.50, G:0.06, T:0.21
Consensus pattern (12 bp):
TCCAAGTCCACC
Found at i:49856569 original size:42 final size:42
Alignment explanation
Indices: 49856523--49856746 Score: 130
Period size: 42 Copynumber: 5.2 Consensus size: 42
49856513 TTTGCCAATA
*
49856523 CCACCTCCAAGTCCACCACCCTTTCCAATTCCACCTCCAAGT
1 CCACCTCCAAGTCCACCTCCCTTTCCAATTCCACCTCCAAGT
* * * *** *
49856565 CCACCACCATGTCCTCCTCCAAGTCC-A--CCACCCTTTCCAATT
1 CCACCTCCAAGTCCACCTCCCTTTCCAATTCCA-CC--TCCAAGT
* * * * *
49856607 CCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGT
1 CCACCTCCAAGTCCACCTCCCTTTCCAATTCCACCTCCAAGT
* * * * *
49856649 CCACCACCCTTTCCAATTCCACCTCCTTTTCCTATTCCACCACCATGT
1 ---CCA-CC--TCCAAGTCCACCTCCCTTTCCAATTCCACCTCCAAGT
* * * * *
49856697 CCTCCTCCAAGTCCGCCTCCCTTTCCTATTCCACCACCAAGG
1 CCACCTCCAAGTCCACCTCCCTTTCCAATTCCACCTCCAAGT
*
49856739 CCTCCTCC
1 CCACCTCC
49856747 TTTGCCAATA
Statistics
Matches: 140, Mismatches: 30, Indels: 24
0.72 0.15 0.12
Matches are distributed among these distances:
39 3 0.02
40 2 0.01
41 1 0.01
42 90 0.64
43 1 0.01
44 4 0.03
45 8 0.06
46 2 0.01
48 29 0.21
ACGTcount: A:0.20, C:0.50, G:0.06, T:0.25
Consensus pattern (42 bp):
CCACCTCCAAGTCCACCTCCCTTTCCAATTCCACCTCCAAGT
Found at i:49856609 original size:24 final size:24
Alignment explanation
Indices: 49856528--49856609 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
49856518 CAATACCACC
49856528 TCCAAGTCCACCACCCTTTCCAATT
1 TCCAAGTCCACCACCCTTTCCAA-T
* * ***
49856553 CCACCTCCAAGTCCACCACCATGTCCTCC
1 -----TCCAAGTCCACCACCCTTTCCAAT
49856582 TCCAAGTCCACCACCCTTTCCAAT
1 TCCAAGTCCACCACCCTTTCCAAT
49856606 TCCA
1 TCCA
49856610 CCTCCAAGGC
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
24 23 0.55
30 19 0.45
ACGTcount: A:0.23, C:0.49, G:0.05, T:0.23
Consensus pattern (24 bp):
TCCAAGTCCACCACCCTTTCCAAT
Found at i:49856663 original size:18 final size:18
Alignment explanation
Indices: 49856642--49856692 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
49856632 CAATACCACC
*
49856642 TCCAAGTCCACCACCCTT
1 TCCAATTCCACCACCCTT
* *
49856660 TCCAATTCCACCTCCTTT
1 TCCAATTCCACCACCCTT
*
49856678 TCCTATTCCACCACC
1 TCCAATTCCACCACC
49856693 ATGTCCTCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.20, C:0.49, G:0.02, T:0.29
Consensus pattern (18 bp):
TCCAATTCCACCACCCTT
Found at i:49856699 original size:18 final size:18
Alignment explanation
Indices: 49856648--49856699 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
49856638 CACCTCCAAG
* *
49856648 TCCACCACCCTTTCCAAT
1 TCCACCACCATTTCCTAT
* *
49856666 TCCACCTCCTTTTCCTAT
1 TCCACCACCATTTCCTAT
*
49856684 TCCACCACCATGTCCT
1 TCCACCACCATTTCCT
49856700 CCTCCAAGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.48, G:0.02, T:0.33
Consensus pattern (18 bp):
TCCACCACCATTTCCTAT
Found at i:49856721 original size:120 final size:120
Alignment explanation
Indices: 49856475--49856911 Score: 661
Period size: 120 Copynumber: 3.7 Consensus size: 120
49856465 ACCGCCAATG
* **
49856475 CCACCACCCTTTCCAGCTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
1 CCACCTCCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
* *
49856540 ACCCTTTCCAATTCCA---CC---TCCAAGTCCACCACCATGTCCTCCTCCAAGT
66 ACCCTTTCCAATTCCACCTCCTTTTCCTATTCCACCACCATGTCCTCCTCCAAGT
*
49856589 CCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
1 CCACCTCCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
49856654 ACCCTTTCCAATTCCACCTCCTTTTCCTATTCCACCACCATGTCCTCCTCCAAGT
66 ACCCTTTCCAATTCCACCTCCTTTTCCTATTCCACCACCATGTCCTCCTCCAAGT
* * *
49856709 CCGCCTCCCTTTCCTATTCCACCACCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
1 CCACCTCCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
49856774 ACCCTTTCCAATTCCACCTCCTTTTCCTATTCCACCACCATGTCCTCCTCCAAGT
66 ACCCTTTCCAATTCCACCTCCTTTTCCTATTCCACCACCATGTCCTCCTCCAAGT
* * * * * * * *
49856829 CCACCTCCCTTGCCAATCCCACCGCCAAGGCCTCCACCTTTTCCAATCCCGCCACCAAGTCCACC
1 CCACCTCCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
* *
49856894 ACCCTTGCCAATGCCACC
66 ACCCTTTCCAATTCCACC
49856912 ACCAAGTCCA
Statistics
Matches: 297, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
114 79 0.27
117 2 0.01
120 216 0.73
ACGTcount: A:0.20, C:0.50, G:0.07, T:0.24
Consensus pattern (120 bp):
CCACCTCCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
ACCCTTTCCAATTCCACCTCCTTTTCCTATTCCACCACCATGTCCTCCTCCAAGT
Found at i:49856783 original size:18 final size:18
Alignment explanation
Indices: 49856762--49856812 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
49856752 CAATACCACC
*
49856762 TCCAAGTCCACCACCCTT
1 TCCAATTCCACCACCCTT
* *
49856780 TCCAATTCCACCTCCTTT
1 TCCAATTCCACCACCCTT
*
49856798 TCCTATTCCACCACC
1 TCCAATTCCACCACC
49856813 ATGTCCTCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.20, C:0.49, G:0.02, T:0.29
Consensus pattern (18 bp):
TCCAATTCCACCACCCTT
Found at i:49856819 original size:18 final size:18
Alignment explanation
Indices: 49856768--49856819 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
49856758 CACCTCCAAG
* *
49856768 TCCACCACCCTTTCCAAT
1 TCCACCACCATTTCCTAT
* *
49856786 TCCACCTCCTTTTCCTAT
1 TCCACCACCATTTCCTAT
*
49856804 TCCACCACCATGTCCT
1 TCCACCACCATTTCCT
49856820 CCTCCAAGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.48, G:0.02, T:0.33
Consensus pattern (18 bp):
TCCACCACCATTTCCTAT
Found at i:49856863 original size:42 final size:42
Alignment explanation
Indices: 49856780--49856863 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
49856770 CACCACCCTT
* * * * * * *
49856780 TCCAATTCCACCTCCTTTTCCTATTCCACCACCATGTCCTCC
1 TCCAAGTCCACCTCCCTTGCCAATCCCACCACCAAGGCCTCC
*
49856822 TCCAAGTCCACCTCCCTTGCCAATCCCACCGCCAAGGCCTCC
1 TCCAAGTCCACCTCCCTTGCCAATCCCACCACCAAGGCCTCC
49856864 ACCTTTTCCA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.18, C:0.50, G:0.07, T:0.25
Consensus pattern (42 bp):
TCCAAGTCCACCTCCCTTGCCAATCCCACCACCAAGGCCTCC
Found at i:49856947 original size:120 final size:118
Alignment explanation
Indices: 49856475--49857046 Score: 656
Period size: 120 Copynumber: 4.8 Consensus size: 118
49856465 ACCGCCAATG
** *
49856475 CCACCACCCTTTCCAGCTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
1 CCACCACCCTTTCCAATTCCACCACCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
49856540 ACCCTTTCCAATTCCACCTCCAAGT---CCA-CCACCATGTCCTCCTCCAAGT
66 ACCCTTTCCAATTCCACCTCCAAGTCCACCACCCACCATGTCCTCCTCCAAGT
*
49856589 CCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
1 CCACCACCCTTTCCAATTCCACCACCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
***
49856654 ACCCTTTCCAATTCCACCTCCTTTTCCTATTCCA-CCACCATGTCCTCCTCCAAGT
66 ACCCTTTCCAATTCCACCTCCAAGTCC-A--CCACCCACCATGTCCTCCTCCAAGT
* * *
49856709 CCGCCTCCCTTTCCTATTCCACCACCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
1 CCACCACCCTTTCCAATTCCACCACCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
***
49856774 ACCCTTTCCAATTCCACCTCCTTTTCCTATTCCA-CCACCATGTCCTCCTCCAAGT
66 ACCCTTTCCAATTCCACCTCCAAGTCC-A--CCACCCACCATGTCCTCCTCCAAGT
* * * * * * * * *
49856829 CCACCTCCCTTGCCAATCCCACCGCCAAGGCCTCCACCTTTTCCAATCCCGCCACCAAGTCCACC
1 CCACCACCCTTTCCAATTCCACCACCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
* * * * * *
49856894 ACCCTTGCCAATGCCACCACCAAGTCCACCACCCTTTCCAATG-CCACCACCAAGT
66 ACCCTTTCCAATTCCACCTCCAAGTCCACCACCC--ACC-ATGTCCTCCTCCAAGT
* * * * * * * *
49856949 CCACCACCCTTTCCTATGCCACCACCAAGTCCACCACCCTTT-CCTATGCCACCACCAAGTCCAC
1 CCACCACCCTTTCCAATTCCACCACCAAGGCCTCC-TCCTTTGCCAATACCACCTCCAAGTCCAC
* *
49857013 CACCCTTTCCAATGCCACCACCAAGTCCACCACC
65 CACCCTTTCCAATTCCACCTCCAAGTCCACCACC
49857047 AAGCCCTCCA
Statistics
Matches: 407, Mismatches: 40, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
114 85 0.21
117 3 0.01
118 2 0.00
119 1 0.00
120 308 0.76
121 8 0.02
ACGTcount: A:0.21, C:0.50, G:0.07, T:0.22
Consensus pattern (118 bp):
CCACCACCCTTTCCAATTCCACCACCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
ACCCTTTCCAATTCCACCTCCAAGTCCACCACCCACCATGTCCTCCTCCAAGT
Found at i:49857044 original size:30 final size:30
Alignment explanation
Indices: 49856462--49857046 Score: 443
Period size: 30 Copynumber: 19.7 Consensus size: 30
49856452 CAAAGCCGCC
* *
49856462 GCCACCGCCAA-TGCCACCACCCTTTCCAGCT
1 GCCACCTCCAAGT-CCACCACCCTTTCCA-AT
* * *
49856493 -CCACCTCCAAGGCCTCC-TCCTTTGCCAAT
1 GCCACCTCCAAGTCCACCACCCTTT-CCAAT
*
49856522 ACCACCTCCAAGTCCACCACCCTTTCCAAT
1 GCCACCTCCAAGTCCACCACCCTTTCCAAT
* * *
49856552 TCCACCTCCAAGTCCACCACCATGTCC--T
1 GCCACCTCCAAGTCCACCACCCTTTCCAAT
49856580 ----CCTCCAAGTCCACCACCCTTTCCAAT
1 GCCACCTCCAAGTCCACCACCCTTTCCAAT
* * * *
49856606 TCCACCTCCAAGGCCTCC-TCCTTTGCCAAT
1 GCCACCTCCAAGTCCACCACCCTTT-CCAAT
*
49856636 ACCACCTCCAAGTCCACCACCCTTTCCAAT
1 GCCACCTCCAAGTCCACCACCCTTTCCAAT
* *** *
49856666 TCCACCTCCTTTTCCTATTCCA-CC--ACC-AT
1 GCCACCTCCAAGTCC-A--CCACCCTTTCCAAT
* * * *
49856695 GTCCTCCTCCAAGTCCGCCTCCCTTTCCTAT
1 G-CCACCTCCAAGTCCACCACCCTTTCCAAT
* * * * *
49856726 TCCACCACCAAGGCCTCC-TCCTTTGCCAAT
1 GCCACCTCCAAGTCCACCACCCTTT-CCAAT
*
49856756 ACCACCTCCAAGTCCACCACCCTTTCCAAT
1 GCCACCTCCAAGTCCACCACCCTTTCCAAT
* *** *
49856786 TCCACCTCCTTTTCCTATTCCA-CC--ACC-AT
1 GCCACCTCCAAGTCC-A--CCACCCTTTCCAAT
* * *
49856815 GTCCTCCTCCAAGTCCACCTCCCTTGCCAAT
1 G-CCACCTCCAAGTCCACCACCCTTTCCAAT
* * * * *
49856846 CCCACCGCCAAGGCCTCCACCTTTTCCAAT
1 GCCACCTCCAAGTCCACCACCCTTTCCAAT
* * * *
49856876 CCCGCCACCAAGTCCACCACCCTTGCCAAT
1 GCCACCTCCAAGTCCACCACCCTTTCCAAT
*
49856906 GCCACCACCAAGTCCACCACCCTTTCCAAT
1 GCCACCTCCAAGTCCACCACCCTTTCCAAT
* *
49856936 GCCACCACCAAGTCCACCACCCTTTCCTAT
1 GCCACCTCCAAGTCCACCACCCTTTCCAAT
* *
49856966 GCCACCACCAAGTCCACCACCCTTTCCTAT
1 GCCACCTCCAAGTCCACCACCCTTTCCAAT
*
49856996 GCCACCACCAAGTCCACCACCCTTTCCAAT
1 GCCACCTCCAAGTCCACCACCCTTTCCAAT
*
49857026 GCCACCACCAAGTCCACCACC
1 GCCACCTCCAAGTCCACCACC
49857047 AAGCCCTCCA
Statistics
Matches: 448, Mismatches: 76, Indels: 61
0.77 0.13 0.10
Matches are distributed among these distances:
24 21 0.05
26 1 0.00
27 4 0.01
28 5 0.01
29 21 0.05
30 365 0.81
31 21 0.05
32 4 0.01
33 6 0.01
ACGTcount: A:0.21, C:0.50, G:0.07, T:0.22
Consensus pattern (30 bp):
GCCACCTCCAAGTCCACCACCCTTTCCAAT
Found at i:49857057 original size:24 final size:24
Alignment explanation
Indices: 49857030--49857106 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
49857020 TCCAATGCCA
*
49857030 CCACCAAGTCCACCACCAAGCCCT
1 CCACCAAGTCCACCTCCAAGCCCT
* *
49857054 CCACC-TGCTCCACCTCC-AGCACCA
1 CCACCAAG-TCCACCTCCAAGC-CCT
** *
49857078 CCACCAAAACCACCTCCAAGACCT
1 CCACCAAGTCCACCTCCAAGCCCT
49857102 CCACC
1 CCACC
49857107 TCCACCTCCA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
23 4 0.10
24 35 0.85
25 2 0.05
ACGTcount: A:0.29, C:0.56, G:0.06, T:0.09
Consensus pattern (24 bp):
CCACCAAGTCCACCTCCAAGCCCT
Found at i:49868163 original size:13 final size:13
Alignment explanation
Indices: 49868147--49868171 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49868137 ATCACCCCCC
49868147 AAAAAAATCAAAT
1 AAAAAAATCAAAT
49868160 AAAAAAATCAAA
1 AAAAAAATCAAA
49868172 CAAACACCCA
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:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAATCAAAT
Found at i:49884152 original size:17 final size:17
Alignment explanation
Indices: 49884114--49884156 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
49884104 AAAAGTCAGA
*
49884114 AATATAATT-TTATTTT
1 AATATATTTATTATTTT
49884130 ATATATATTTATTATTTT
1 A-ATATATTTATTATTTT
49884148 AATAT-TTTA
1 AATATATTTA
49884157 AAAAGATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.21
17 11 0.46
18 8 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
AATATATTTATTATTTT
Found at i:49892968 original size:21 final size:21
Alignment explanation
Indices: 49892935--49892982 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
49892925 TGGGTGGATC
*
49892935 AGCTCTTACGAGCTTCTGTTA
1 AGCTTTTACGAGCTTCTGTTA
* * *
49892956 AGCTTTTATGAGCTTCTTTTC
1 AGCTTTTACGAGCTTCTGTTA
49892977 AGCTTT
1 AGCTTT
49892983 CAATCTTCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.46
Consensus pattern (21 bp):
AGCTTTTACGAGCTTCTGTTA
Found at i:49893999 original size:30 final size:31
Alignment explanation
Indices: 49893965--49894029 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
49893955 AACAACTCAG
*
49893965 TGACTT-AATAAAAACTTTTGAATAGTTCAA
1 TGACTTAAATAAAAACTTTTGAATAATTCAA
* *
49893995 TGACTTAAATGAAAACTTTTGAATAATTTAA
1 TGACTTAAATAAAAACTTTTGAATAATTCAA
49894026 TGAC
1 TGAC
49894030 CAAATTGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAATTCAA
Found at i:49895903 original size:18 final size:18
Alignment explanation
Indices: 49895880--49895914 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49895870 TGTTATTTTC
*
49895880 TAAAATTGTAAAAATTTA
1 TAAAATTATAAAAATTTA
*
49895898 TAAAATTATAGAAATTT
1 TAAAATTATAAAAATTT
49895915 CAAATCAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
TAAAATTATAAAAATTTA
Found at i:49896055 original size:24 final size:24
Alignment explanation
Indices: 49896007--49896055 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
49895997 TGAATTTTTA
* *
49896007 TTTTTATTTTATAATTTTTATAAT
1 TTTTTATTTTATAATTCTTAGAAT
49896031 TTTTTATTTTATATATTCTT-GAAT
1 TTTTTATTTTATA-ATTCTTAGAAT
49896055 T
1 T
49896056 CTTGAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTTTATTTTATAATTCTTAGAAT
Found at i:49896852 original size:34 final size:34
Alignment explanation
Indices: 49896808--49896930 Score: 132
Period size: 34 Copynumber: 3.7 Consensus size: 34
49896798 TTTTGGTAGG
49896808 TTTAGGGTTTTTAAAAAATTAATTAAATTAGGTT
1 TTTAGGGTTTTTAAAAAATTAATTAAATTAGGTT
* *
49896842 TTT-GGGGTTTTAAATAAATTAATTAAATTAGG-G
1 TTTAGGGTTTTTAAA-AAATTAATTAAATTAGGTT
**
49896875 TTTAATGTTTTTAAGAAAATTAATTAAATTATGG--
1 TTTAGGGTTTTTAA-AAAATTAATTAAATTA-GGTT
*
49896909 TTTA-GTTTTTTAAAAAA-TAATT
1 TTTAGGGTTTTTAAAAAATTAATT
49896931 TTGTGTTTAG
Statistics
Matches: 78, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
31 5 0.06
32 4 0.05
33 20 0.26
34 46 0.59
35 3 0.04
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (34 bp):
TTTAGGGTTTTTAAAAAATTAATTAAATTAGGTT
Found at i:49897170 original size:125 final size:124
Alignment explanation
Indices: 49896990--49897367 Score: 517
Period size: 125 Copynumber: 3.0 Consensus size: 124
49896980 TATTAGTTTT
* * * * *
49896990 TGAAAAAATAATTTTGAGAAGACGGTTTTGAAA-AGATAATGTAAAAAACGCTTCAAGCAGGATA
1 TGAAAAAATAATTTTGAGAAGACAGTTCT-AAACAAATAGTGT-AAAAACGCTTCAAGCAGGATG
*
49897054 CACTGTCAGCAAAATTACTGAAAAAACTCCCATGTGGACGCCCTTTTTCTACAGTAGTTCC
64 CACTGTCAGCAAAATTACTGAAAAAACTCCCACGTGGACGCCCTTTTTCTACAGTAGTTCC
* *
49897115 TGAAAAAATAATTTTGGGAAGATAGTTCTAAACAAATAGTGTAAAAATCGCTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGACAGTTCTAAACAAATAGTGTAAAAA-CGCTTCAAGCAGGATGC
* * * *
49897180 ACTGTCAGCAAAATTACTGAAACAAACTCCCACGTTGACGCTCTTTTTCTATAGTAGTCCC
65 ACTGTCAGCAAAATTACTGAAA-AAACTCCCACGTGGACGCCCTTTTTCTACAGTAGTTCC
* * *
49897241 TG-AAAAATAATTTTGAGAAGACAGTTCTGAACAAATAGTGTCAAAAACGCTTTAAGCAGTATGC
1 TGAAAAAATAATTTTGAGAAGACAGTTCTAAACAAATAGTGT-AAAAACGCTTCAAGCAGGATGC
* * * *
49897305 ACTGTCAGCAAAATTACTGAAAAAGCTCCCACGTGGACGTTCTTTTTTTTACAGTAGTTCC
65 ACTGTCAGCAAAATTACTGAAAAAACTCCCACGTGGACG-CCCTTTTTCTACAGTAGTTCC
49897366 TG
1 TG
49897368 TTTAGCCTTA
Statistics
Matches: 223, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
124 23 0.10
125 160 0.72
126 40 0.18
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (124 bp):
TGAAAAAATAATTTTGAGAAGACAGTTCTAAACAAATAGTGTAAAAACGCTTCAAGCAGGATGCA
CTGTCAGCAAAATTACTGAAAAAACTCCCACGTGGACGCCCTTTTTCTACAGTAGTTCC
Found at i:49900445 original size:24 final size:24
Alignment explanation
Indices: 49900389--49900445 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
49900379 CATTATTTCT
49900389 ATTTTATTAAAAATATAAAAATAA
1 ATTTTATTAAAAATATAAAAATAA
*
49900413 ATTACTATT-AAAATATTAAAAATAA
1 ATT-TTATTAAAAATA-TAAAAATAA
*
49900438 CTTTTATT
1 ATTTTATT
49900446 TTTTTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTTTATTAAAAATATAAAAATAA
Found at i:49900501 original size:92 final size:92
Alignment explanation
Indices: 49900393--49900585 Score: 334
Period size: 92 Copynumber: 2.1 Consensus size: 92
49900383 ATTTCTATTT
*
49900393 TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAATAACTTTTATTTTTTTAAATGAA
1 TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAATAACTTTTATTTTATTAAATGAA
* *
49900458 ATAATATAAAAATAGTTTGTACAAATA
66 ACAATATAAAAACAGTTTGTACAAATA
*
49900485 TATT-AAAATATAAAAAATAAATTACTATTAAAATATTTAAAATAACTTTTATTTTATTAAATGA
1 TATTAAAAATAT-AAAAATAAATTACTATTAAAATATTAAAAATAACTTTTATTTTATTAAATGA
49900549 AACAATATAAAAACAGTTTGTACAAATA
65 AACAATATAAAAACAGTTTGTACAAATA
49900577 TATTAAAAA
1 TATTAAAAA
49900586 ATTAATGTTG
Statistics
Matches: 95, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
91 7 0.07
92 84 0.88
93 4 0.04
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (92 bp):
TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAATAACTTTTATTTTATTAAATGAA
ACAATATAAAAACAGTTTGTACAAATA
Found at i:49900953 original size:18 final size:18
Alignment explanation
Indices: 49900930--49900967 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49900920 GGAAAAGGAA
**
49900930 ACATATAAGGGTTATGAT
1 ACATATAAGGACTATGAT
49900948 ACATATAAGGACTATGAT
1 ACATATAAGGACTATGAT
49900966 AC
1 AC
49900968 GCACCTAGCA
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:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (18 bp):
ACATATAAGGACTATGAT
Found at i:49902729 original size:11 final size:11
Alignment explanation
Indices: 49902703--49902751 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
49902693 AGAGAGATTT
49902703 GAGAAATTTAGA
1 GAGAAATTT-GA
49902715 GAGAAATTTGA
1 GAGAAATTTGA
*
49902726 GAGAAGTTTGA
1 GAGAAATTTGA
* *
49902737 AAGAAAATTGA
1 GAGAAATTTGA
49902748 -AGAA
1 GAGAA
49902752 CTAATGTGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 4 0.12
11 20 0.61
12 9 0.27
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (11 bp):
GAGAAATTTGA
Found at i:49913053 original size:64 final size:64
Alignment explanation
Indices: 49912970--49913092 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 64
49912960 ACTTTTAATA
* ** *
49912970 GGTTTAATTTGCATCTTAGTATGATCTCA-ACTCAATTGGTCAGATTAATATGATCTTTTTGATC
1 GGTTTAATTTGCATCTTAGTATAATCT-AGACTCAATCCGTCAGATTAATATGATATTTTTGATC
* * *
49913034 GGTTTAATTTTCATTTTAGTATAATCTAGGCTCAATCCGTCAGATTAATATGATATTTT
1 GGTTTAATTTGCATCTTAGTATAATCTAGACTCAATCCGTCAGATTAATATGATATTTT
49913093 ATTTCATGGA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 1 0.02
64 50 0.98
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.45
Consensus pattern (64 bp):
GGTTTAATTTGCATCTTAGTATAATCTAGACTCAATCCGTCAGATTAATATGATATTTTTGATC
Found at i:49919169 original size:27 final size:27
Alignment explanation
Indices: 49919139--49919192 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
49919129 GTCATGAAAC
49919139 AGTATGCCACTCCTCTCTTTCTTTTAG
1 AGTATGCCACTCCTCTCTTTCTTTTAG
49919166 AGTATGCCACTCCTCTCTTTCTTTTAG
1 AGTATGCCACTCCTCTCTTTCTTTTAG
49919193 CCTTTTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.30, G:0.11, T:0.44
Consensus pattern (27 bp):
AGTATGCCACTCCTCTCTTTCTTTTAG
Found at i:49933163 original size:29 final size:29
Alignment explanation
Indices: 49933125--49933190 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
49933115 TTTTTTGTCA
*
49933125 CCAATTATGAAAAGTGACAAAATAATCAC
1 CCAACTATGAAAAGTGACAAAATAATCAC
* *
49933154 CCAACTATGAAAAGTTAGAAAATAATCAC
1 CCAACTATGAAAAGTGACAAAATAATCAC
*
49933183 TCAACTAT
1 CCAACTAT
49933191 TCAATTTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.23
Consensus pattern (29 bp):
CCAACTATGAAAAGTGACAAAATAATCAC
Found at i:49937519 original size:17 final size:18
Alignment explanation
Indices: 49937482--49937519 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
49937472 GATTGAGAGT
* *
49937482 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
49937500 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
49937517 GAA
1 GAA
49937520 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:49937532 original size:13 final size:12
Alignment explanation
Indices: 49937501--49937555 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
49937491 TGTGAAACAG
*
49937501 AAAAGAAATTGA
1 AAAAGAAGTTGA
49937513 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
49937525 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
49937537 AAATG-AGTTAGA
1 AAAAGAAGTT-GA
49937549 AAAAGAA
1 AAAAGAA
49937556 ACAAAAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 21 0.62
13 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:49944194 original size:21 final size:23
Alignment explanation
Indices: 49944152--49944194 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
49944142 TATAATATAA
*
49944152 ATATGATAAAATAATTTATTAAT
1 ATATGATAAAATAAATTATTAAT
*
49944175 ATATGA-AATATAAATT-TTAA
1 ATATGATAAAATAAATTATTAA
49944195 ATGCTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (23 bp):
ATATGATAAAATAAATTATTAAT
Found at i:49951636 original size:31 final size:31
Alignment explanation
Indices: 49951595--49951665 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
49951585 TAAATATACC
* * *
49951595 ATTTGGTATTTGAATTTCGTTTTGATGTTCA
1 ATTTGATATTTGAATTTCGCTTTAATGTTCA
*
49951626 ATTTGATATTTGAATTTGGCTTTAATGTTCA
1 ATTTGATATTTGAATTTCGCTTTAATGTTCA
*
49951657 CTTTGATAT
1 ATTTGATAT
49951666 CCAACTACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.54
Consensus pattern (31 bp):
ATTTGATATTTGAATTTCGCTTTAATGTTCA
Found at i:49954284 original size:27 final size:29
Alignment explanation
Indices: 49954213--49954319 Score: 75
Period size: 29 Copynumber: 3.8 Consensus size: 29
49954203 AAAATGATTG
* *
49954213 AAAT-TATATGTATATTAAATAATATATTA
1 AAATATATATTTATATTAATTAAT-TATTA
49954242 TAAA-ATGA-A-TTA-ATT-ATTAATTATTA
1 -AAATAT-ATATTTATATTAATTAATTATTA
* ** *
49954268 AAAT-TGTATTTATATTAAGAAATTTTTA
1 AAATATATATTTATATTAATTAATTATTA
*
49954296 AAATATATATTTATATTGATTAAT
1 AAATATATATTTATATTAATTAAT
49954320 AAAATATATT
Statistics
Matches: 59, Mismatches: 10, Indels: 17
0.69 0.12 0.20
Matches are distributed among these distances:
25 5 0.08
26 8 0.14
27 8 0.14
28 15 0.25
29 17 0.29
30 5 0.08
31 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (29 bp):
AAATATATATTTATATTAATTAATTATTA
Found at i:49959126 original size:20 final size:21
Alignment explanation
Indices: 49959080--49959126 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
49959070 CTTAATTTTT
*
49959080 AAATAATATAGAATTTTAAAA
1 AAATAATATAGAATTTGAAAA
** *
49959101 CTATAATAT-TAATTTGAAAA
1 AAATAATATAGAATTTGAAAA
49959121 AAATAA
1 AAATAA
49959127 AAGAAATATG
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (21 bp):
AAATAATATAGAATTTGAAAA
Found at i:49959288 original size:98 final size:100
Alignment explanation
Indices: 49959181--49959368 Score: 247
Period size: 101 Copynumber: 1.9 Consensus size: 100
49959171 TGATAAACAA
* * * *
49959181 ATAAATATATTTAATAATATTGATT-AAAA-AATTGTCGAATTTTGACTTTCTTTTCAAAACAAA
1 ATAAATATATTTAATAATAGTGATTAAAAACAACTGTCAAAATTTGACTTTCTTTTCAAAACAAA
49959244 CCCACTAAA-CATTTTTCATCTGCACAACTAAATTG
66 CCCAC-AAATCATTTTTCATCTGCACAACTAAATTG
* * *
49959279 ATAAATATATTTAATAATAGTGGTTAAAAAACAACTGTTAAAATTTGACTTTCTTTTCAAAGCAA
1 ATAAATATATTTAATAATAGTGATT-AAAAACAACTGTCAAAATTTGACTTTCTTTTCAAAACAA
* * *
49959344 GCTCACAAATTATTTTTCATCTGCA
65 ACCCACAAATCATTTTTCATCTGCA
49959369 TCAAACAAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
98 23 0.30
100 7 0.09
101 46 0.61
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (100 bp):
ATAAATATATTTAATAATAGTGATTAAAAACAACTGTCAAAATTTGACTTTCTTTTCAAAACAAA
CCCACAAATCATTTTTCATCTGCACAACTAAATTG
Found at i:49968566 original size:57 final size:56
Alignment explanation
Indices: 49968492--49968623 Score: 165
Period size: 57 Copynumber: 2.3 Consensus size: 56
49968482 ATTAGAGCCT
* * * *
49968492 AAATTTTTTTTCAAGTTAGATATTGAGCTTGACAATTGTTCTCATATTGAGACTTG
1 AAATTTTTTTTCAAGTTAGATACTGAACTTGACAATTGTACCCATATTGAGACTTG
* * * *
49968548 AAATTTTTTATTCAAGTTAAATCCTGAACTTGACAATTGTACCCATATTGGGGCTTG
1 AAATTTTTT-TTCAAGTTAGATACTGAACTTGACAATTGTACCCATATTGAGACTTG
**
49968605 ATTTTTTTTTTCAAGTTAG
1 AAATTTTTTTTCAAGTTAG
49968624 TCATTGAAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
56 18 0.28
57 46 0.72
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (56 bp):
AAATTTTTTTTCAAGTTAGATACTGAACTTGACAATTGTACCCATATTGAGACTTG
Found at i:49974228 original size:18 final size:17
Alignment explanation
Indices: 49974205--49974241 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
49974195 TTATTTAAAT
49974205 TTAATAATAAAATTTATA
1 TTAAT-ATAAAATTTATA
*
49974223 TTAATATGAAATTTATA
1 TTAATATAAAATTTATA
49974240 TT
1 TT
49974242 TTAAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TTAATATAAAATTTATA
Found at i:49981646 original size:21 final size:21
Alignment explanation
Indices: 49981609--49981648 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49981599 TTTGTAACTT
49981609 ATTATAAAATCAAAATAAAAA
1 ATTATAAAATCAAAATAAAAA
*
49981630 ATTATTAAAAT-ACAATAAA
1 ATTA-TAAAATCAAAATAAA
49981649 TTAGATTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
ATTATAAAATCAAAATAAAAA
Found at i:49989738 original size:16 final size:17
Alignment explanation
Indices: 49989708--49989740 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
49989698 TTGTTTATTA
*
49989708 TTTAATAAATGTAATAT
1 TTTAATAAATATAATAT
49989725 TTTAAT-AATATAATAT
1 TTTAATAAATATAATAT
49989741 AATAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTAATAAATATAATAT
Found at i:49989884 original size:9 final size:9
Alignment explanation
Indices: 49989870--49989904 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
49989860 CACAATATAA
49989870 TAATAATAT
1 TAATAATAT
*
49989879 TAATAATTT
1 TAATAATAT
49989888 TAATAAT-T
1 TAATAATAT
49989896 TAATAATAT
1 TAATAATAT
49989905 ATTTTTACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
TAATAATAT
Found at i:49991011 original size:7 final size:7
Alignment explanation
Indices: 49990999--49991024 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
49990989 ATAATAATAT
49990999 TTTATTA
1 TTTATTA
49991006 TTTATTA
1 TTTATTA
49991013 TTTATTA
1 TTTATTA
49991020 TTTAT
1 TTTAT
49991025 AACTCTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATTA
Found at i:49991719 original size:19 final size:18
Alignment explanation
Indices: 49991676--49991722 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
49991666 CAATAATAAT
*
49991676 TAAATAAATAATTAAAAA
1 TAAATAAAAAATTAAAAA
**
49991694 TTCATAAAAAATTTAAAAA
1 TAAATAAAAAA-TTAAAAA
49991713 TAAATAAAAA
1 TAAATAAAAA
49991723 CAATTTATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAATAAAAAATTAAAAA
Found at i:49994963 original size:21 final size:21
Alignment explanation
Indices: 49994937--49994982 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
49994927 TTGATCACAT
*
49994937 GCAATGATACTGACAATAATG
1 GCAATGATACAGACAATAATG
*
49994958 GCAATGATACAGACATTAATG
1 GCAATGATACAGACAATAATG
49994979 GCAA
1 GCAA
49994983 ATCTGGTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (21 bp):
GCAATGATACAGACAATAATG
Found at i:49995186 original size:14 final size:14
Alignment explanation
Indices: 49995167--49995198 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
49995157 AGGTCATTTA
49995167 GCCCAACCAAACTG
1 GCCCAACCAAACTG
*
49995181 GCCCAATCAAACTG
1 GCCCAACCAAACTG
49995195 GCCC
1 GCCC
49995199 GGTGATTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.44, G:0.16, T:0.09
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:50000556 original size:105 final size:105
Alignment explanation
Indices: 50000322--50000883 Score: 583
Period size: 105 Copynumber: 5.4 Consensus size: 105
50000312 AAGAGTGTTG
* *** * * *
50000322 TATGTGACAACATCAAATTCAATACCTTGTTTTCTCATCATGCCAACAATAACTTCAGCTTTAGA
1 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATCGTGCCAACAATAACTTCAGCTTTAGA
* ** * * *
50000387 AACCA-ACATTTCTTGCAAAGTGCATTGATCAATGTATTA
66 AACCATTCCCTTCTTGCAAAGCGCATCGATCAATGTACTA
* * * *
50000426 TACGTGACAACATCAGGCTCGATGCCTTGCTTTCTCATCGTGTCAACAATAACTTCAGCTTTAGA
1 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATCGTGCCAACAATAACTTCAGCTTTAGA
* * *
50000491 AACCA-T-CCTGTCCTTGCAAAGCACATCAATCAATGTATTA
66 AACCATTCCCT-T-CTTGCAAAGCGCATCGATCAATGTACTA
* * * * *
50000531 TACGTGACAACATTAGGCTCAATGCCTTGATTTGTCATTC-TGCCAACAATACCTTCGGCTTTAG
1 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCA-TCGTGCCAACAATAACTTCAGCTTTAG
* * * *
50000595 AAACCATTCCCTTCTTGCAGAGAGCATCGATGAATATACTA
65 AAACCATTCCCTTCTTGCAAAGCGCATCGATCAATGTACTA
* * * * * * *
50000636 TTTGTGACAACATCAAGCTTAATGCCTTGCTTTGTCATTGTGCCAACAATATCTTCAGCTTTAGA
1 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATCGTGCCAACAATAACTTCAGCTTTAGA
** * *
50000701 AACCATTCCCTTCTTGCAAAGCGGGTCAATCAATATACTA
66 AACCATTCCCTTCTTGCAAAGCGCATCGATCAATGTACTA
* * ** * **
50000741 TATGTGACAACATTAGGCTCAATGCCTTGCTTTTTCATTGTGCCAAGGATATCTTTGGCTTTAGA
1 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATCGTGCCAACAATAACTTCAGCTTTAGA
* * * *
50000806 AACCACTCCCTTCTTGCAAAGGGCATCGATCAATGTAGTG
66 AACCATTCCCTTCTTGCAAAGCGCATCGATCAATGTACTA
** *
50000846 TATGTGATGACATTAGGCTTAATGCCTTGCTTTCTCAT
1 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCAT
50000884 TTCGAAGAAG
Statistics
Matches: 386, Mismatches: 66, Indels: 11
0.83 0.14 0.02
Matches are distributed among these distances:
103 1 0.00
104 63 0.16
105 315 0.82
106 4 0.01
107 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (105 bp):
TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATCGTGCCAACAATAACTTCAGCTTTAGA
AACCATTCCCTTCTTGCAAAGCGCATCGATCAATGTACTA
Found at i:50000686 original size:210 final size:209
Alignment explanation
Indices: 50000340--50000884 Score: 646
Period size: 210 Copynumber: 2.6 Consensus size: 209
50000330 AACATCAAAT
* * * * **
50000340 TCAATACCTTGTTTTCTCA-TCATGCCAACAATAACTTCAGCTTTAGAAACCAACATTTCTTGCA
1 TCAATGCCTTGATTTCTCATTC-TGCCAACAATAACTTCGGCTTTAGAAACCATCCCTTCTTGCA
* * * * ** * *
50000404 AAGTGCATTGATCAATGTATTATACGTGACAACATCAGGCTCGATGCCTTGCTTTCTCATCGTGT
65 AAGAGCATCGATCAATGTACTATATGTGACAACATCAGGCTTAATGCCTTGCTTTCTCATTGTGC
* *
50000469 CAACAATAACTTCAGCTTTAGAAACCA-T-CCTGTCCTTGCAAAGCACATCAATCAATGTATTAT
130 CAACAATAACTTCAGCTTTAGAAACCATTCCCT-T-CTTGCAAAGCACATCAATCAATATACTAT
50000532 ACGTGACAACATTAGGC
193 ACGTGACAACATTAGGC
* *
50000549 TCAATGCCTTGATTTGTCATTCTGCCAACAATACCTTCGGCTTTAGAAACCATTCCCTTCTTGCA
1 TCAATGCCTTGATTTCTCATTCTGCCAACAATAACTTCGGCTTTAGAAACCA-TCCCTTCTTGCA
* * * * * *
50000614 GAGAGCATCGATGAATATACTATTTGTGACAACATCAAGCTTAATGCCTTGCTTTGTCATTGTGC
65 AAGAGCATCGATCAATGTACTATATGTGACAACATCAGGCTTAATGCCTTGCTTTCTCATTGTGC
* *** *
50000679 CAACAATATCTTCAGCTTTAGAAACCATTCCCTTCTTGCAAAGCGGGTCAATCAATATACTATAT
130 CAACAATAACTTCAGCTTTAGAAACCATTCCCTTCTTGCAAAGCACATCAATCAATATACTATAC
50000744 GTGACAACATTAGGC
195 GTGACAACATTAGGC
* * * ** * *
50000759 TCAATGCCTTGCTTTTTCATTGTGCCAAGGATATCTTTGGCTTTAGAAACCACTCCCTTCTTGCA
1 TCAATGCCTTGATTTCTCATTCTGCCAACAATAACTTCGGCTTTAGAAACCA-TCCCTTCTTGCA
* * * ** *
50000824 AAGGGCATCGATCAATGTAGTGTATGTGATGACATTAGGCTTAATGCCTTGCTTTCTCATT
65 AAGAGCATCGATCAATGTACTATATGTGACAACATCAGGCTTAATGCCTTGCTTTCTCATT
50000885 TCGAAGAAGA
Statistics
Matches: 283, Mismatches: 49, Indels: 7
0.83 0.14 0.02
Matches are distributed among these distances:
209 44 0.16
210 234 0.83
211 2 0.01
212 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (209 bp):
TCAATGCCTTGATTTCTCATTCTGCCAACAATAACTTCGGCTTTAGAAACCATCCCTTCTTGCAA
AGAGCATCGATCAATGTACTATATGTGACAACATCAGGCTTAATGCCTTGCTTTCTCATTGTGCC
AACAATAACTTCAGCTTTAGAAACCATTCCCTTCTTGCAAAGCACATCAATCAATATACTATACG
TGACAACATTAGGC
Found at i:50015108 original size:31 final size:31
Alignment explanation
Indices: 50015042--50015116 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
50015032 TATTTGATTC
* *
50015042 ATATATAAATTTTAATTTAACGTGTAATTTA
1 ATATATAAATATTAATTTAACGTGTAATATA
50015073 ATATATAAATATTAATTTAA-GT-TAAGTAT-
1 ATATATAAATATTAATTTAACGTGTAA-TATA
*
50015102 ATATATAAAAATTAA
1 ATATATAAATATTAA
50015117 ATTGTGGTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
29 17 0.43
30 4 0.10
31 19 0.47
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.44
Consensus pattern (31 bp):
ATATATAAATATTAATTTAACGTGTAATATA
Found at i:50018512 original size:23 final size:24
Alignment explanation
Indices: 50018468--50018512 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
50018458 TAAGCTTTAG
*
50018468 ATTTATATGTTGACATATAATTGT
1 ATTTATATGTTGACATAAAATTGT
50018492 ATTTATTATG-TG-CATAAAATT
1 ATTTA-TATGTTGACATAAAATT
50018513 TTGAATGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 7 0.37
25 4 0.21
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (24 bp):
ATTTATATGTTGACATAAAATTGT
Found at i:50034431 original size:105 final size:105
Alignment explanation
Indices: 50034267--50034488 Score: 248
Period size: 105 Copynumber: 2.1 Consensus size: 105
50034257 ATTTAATGTA
* * * *
50034267 TTGCTTTCTCATTGTGTCAACAATATCTTCAACTTAAGAAATCAACATTTTCTTACAAAGCGCAT
1 TTGCTTTCTCATTGTGCCAACAATATCTTCAACTTAAGAAACCAACATTATCTTACAAAGAGCAT
* * *
50034332 CAATCAATATCCTATATGTGACAATATTAGGCACGATGCC
66 CAATCAATATACTATACGTGACAACATTAGGCACGATGCC
* * * * * * *
50034372 TTGCTTTGTCATTGTGCCAACGATATCTTCAGCTTTAGAAACCATC-TCTATCTTGCAAAGAGTA
1 TTGCTTTCTCATTGTGCCAACAATATCTTCAACTTAAGAAACCAACAT-TATCTTACAAAGAGCA
* * ***
50034436 TCGATGAATATACTATACGTGACAACATTAGGCTTAATGCC
65 TCAATCAATATACTATACGTGACAACATTAGGCACGATGCC
*
50034477 TTGTTTTCTCAT
1 TTGCTTTCTCAT
50034489 ATCTGTTTAA
Statistics
Matches: 95, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
104 1 0.01
105 94 0.99
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (105 bp):
TTGCTTTCTCATTGTGCCAACAATATCTTCAACTTAAGAAACCAACATTATCTTACAAAGAGCAT
CAATCAATATACTATACGTGACAACATTAGGCACGATGCC
Found at i:50038458 original size:14 final size:14
Alignment explanation
Indices: 50038439--50038466 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50038429 GCGTGTAACT
50038439 TTTGTTGATGTACA
1 TTTGTTGATGTACA
50038453 TTTGTTGATGTACA
1 TTTGTTGATGTACA
50038467 GAGACAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (14 bp):
TTTGTTGATGTACA
Found at i:50041824 original size:30 final size:31
Alignment explanation
Indices: 50041760--50041826 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
50041750 TTAATAAATC
*
50041760 AAAAAT-ATATAAATGTATTAGATATTAAAT
1 AAAAATAATATAAATGTATTAGATATTAAAG
** *
50041790 AAAAATAATATAAATGTA-TATTTATTTAAG
1 AAAAATAATATAAATGTATTAGATATTAAAG
50041820 AAAAATA
1 AAAAATA
50041827 TAGGTGGCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (31 bp):
AAAAATAATATAAATGTATTAGATATTAAAG
Found at i:50042798 original size:18 final size:18
Alignment explanation
Indices: 50042772--50042820 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
50042762 AATTTTTTTT
*
50042772 ATATTTTGGGCTTACATA
1 ATATATTGGGCTTACATA
* * *
50042790 ATATATTGGACCTATATA
1 ATATATTGGGCTTACATA
50042808 ATATATTGGGCTT
1 ATATATTGGGCTT
50042821 GTAATACTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (18 bp):
ATATATTGGGCTTACATA
Found at i:50043124 original size:17 final size:17
Alignment explanation
Indices: 50043102--50043148 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
50043092 AACATGTCAA
** *
50043102 AATAATCATCATTTAGG
1 AATAATCATCATCCAAG
*
50043119 AATAATTATCATCCAAG
1 AATAATCATCATCCAAG
50043136 AATAATCATCATC
1 AATAATCATCATC
50043149 TTATGTTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (17 bp):
AATAATCATCATCCAAG
Found at i:50050220 original size:24 final size:24
Alignment explanation
Indices: 50050171--50050221 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
50050161 GCTAAAATCG
**
50050171 ATTTAAATAATAAAATATTTTTAA
1 ATTTAAATAATAAAATATTTAAAA
* *
50050195 ATTTAATTATTAAAATATTTAAAA
1 ATTTAAATAATAAAATATTTAAAA
50050219 ATT
1 ATT
50050222 AATATAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTTAAATAATAAAATATTTAAAA
Found at i:50059564 original size:80 final size:81
Alignment explanation
Indices: 50059417--50059579 Score: 224
Period size: 80 Copynumber: 2.0 Consensus size: 81
50059407 CAAGAGCTTC
* * *
50059417 AAAATTTTGCAAGTACAAGTTAAACCATCGCTTAAAAGACTTAAATATTCAATTTAATAATTCAG
1 AAAATTTTGCAAGTACAAGTCAAACCACCGCTTAAAAGACTTAAATAGTCAATTTAATAATTCAG
50059482 TATCTTTT-CCAAATTT
66 TAT-TTTTCCCAAATTT
* * * *
50059498 AAAATTTTGCAAGTACAAGTCAAATCACCG-TCT-AAAGACTTCAATAGTCAATTTAATATTTTA
1 AAAATTTTGCAAGTACAAGTCAAACCACCGCT-TAAAAGACTTAAATAGTCAATTTAATAATTCA
50059561 GTATTTTTCCCAAATTT
65 GTATTTTTCCCAAATTT
50059578 AA
1 AA
50059580 TACATGAGTT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
79 4 0.05
80 41 0.56
81 28 0.38
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (81 bp):
AAAATTTTGCAAGTACAAGTCAAACCACCGCTTAAAAGACTTAAATAGTCAATTTAATAATTCAG
TATTTTTCCCAAATTT
Found at i:50059647 original size:34 final size:34
Alignment explanation
Indices: 50059604--50059674 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
50059594 TTCAGTACTT
*
50059604 AATTTGATATTTGACATATATGCTTTAATGAAGA
1 AATTTGATATTTGACATATATGCTCTAATGAAGA
50059638 AATTTGATATTTGACATATATGCTCTAATGAAGA
1 AATTTGATATTTGACATATATGCTCTAATGAAGA
50059672 AAT
1 AAT
50059675 ATATGTACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (34 bp):
AATTTGATATTTGACATATATGCTCTAATGAAGA
Found at i:50083785 original size:31 final size:30
Alignment explanation
Indices: 50083750--50083809 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
50083740 GGAGGTGGGA
*
50083750 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
50083781 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
50083810 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:50084037 original size:9 final size:9
Alignment explanation
Indices: 50084023--50084059 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
50084013 TATAGTTTGA
50084023 TATTCGAAT
1 TATTCGAAT
50084032 TATTCGAAT
1 TATTCGAAT
*
50084041 TATTCGAGT
1 TATTCGAAT
50084050 TATTCGAAT
1 TATTCGAAT
50084059 T
1 T
50084060 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:50088648 original size:18 final size:18
Alignment explanation
Indices: 50088625--50088661 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
50088615 GCCGTTTCAC
*
50088625 CATCATAATCTTCTTCTT
1 CATCATAATCTTCATCTT
*
50088643 CATCATCATCTTCATCTT
1 CATCATAATCTTCATCTT
50088661 C
1 C
50088662 GTTGTTTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.32, G:0.00, T:0.46
Consensus pattern (18 bp):
CATCATAATCTTCATCTT
Found at i:50097383 original size:38 final size:37
Alignment explanation
Indices: 50097301--50097381 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 37
50097291 TATTTATTAC
*
50097301 AATAAAGTATTTATTATATTTATTTGTATTTTTAATAT
1 AATAAA-TATTTATTATATTTATTAGTATTTTTAATAT
*
50097339 AATAAATCATTTATTATATTTATAATAGTGTTTTTTAATAT
1 AATAAAT-ATTTATTATATTTAT--TAGT-ATTTTTAATAT
50097380 AA
1 AA
50097382 ATATTTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
37 1 0.03
38 21 0.57
40 3 0.08
41 12 0.32
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (37 bp):
AATAAATATTTATTATATTTATTAGTATTTTTAATAT
Found at i:50097468 original size:14 final size:15
Alignment explanation
Indices: 50097451--50097481 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
50097441 TTAGTTTATT
50097451 ATATTTTTAAA-AAA
1 ATATTTTTAAATAAA
50097465 ATATTTTTAAATAAA
1 ATATTTTTAAATAAA
50097480 AT
1 AT
50097482 TAATCTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATTTTTAAATAAA
Found at i:50098183 original size:7 final size:7
Alignment explanation
Indices: 50098171--50098206 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
50098161 TTATTTTTAA
50098171 TAATTTT
1 TAATTTT
50098178 TAATTTT
1 TAATTTT
50098185 T-ATTTT
1 TAATTTT
50098191 TAATTTT
1 TAATTTT
50098198 ATAATTTT
1 -TAATTTT
50098206 T
1 T
50098207 TAATAATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.22
7 14 0.52
8 7 0.26
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TAATTTT
Found at i:50098191 original size:13 final size:13
Alignment explanation
Indices: 50098173--50098197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50098163 ATTTTTAATA
50098173 ATTTTTAATTTTT
1 ATTTTTAATTTTT
50098186 ATTTTTAATTTT
1 ATTTTTAATTTT
50098198 ATAATTTTTT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTTAATTTTT
Found at i:50098207 original size:23 final size:22
Alignment explanation
Indices: 50098159--50098206 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
50098149 TCAAACCGAA
*
50098159 TTTTATTTTTAATAATTTTTAAT
1 TTTTATTTTTAAT-ATTTATAAT
50098182 TTTTATTTTTAAT-TTTATAAT
1 TTTTATTTTTAATATTTATAAT
50098203 TTTT
1 TTTT
50098207 TAATAATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 11 0.46
23 13 0.54
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTATTTTTAATATTTATAAT
Found at i:50101185 original size:220 final size:220
Alignment explanation
Indices: 50100803--50101249 Score: 885
Period size: 220 Copynumber: 2.0 Consensus size: 220
50100793 CTGTCTCCAT
50100803 TTAATGACAAAAAATGGTCAGAAAAAAAATCACAAAATATGATTTTCATCTTCTTCAAAAGTACT
1 TTAATGACAAAAAATGGTCAGAAAAAAAATCACAAAATATGATTTTCATCTTCTTCAAAAGTACT
50100868 AAAACCATATAAATAATTATAACACATTAAAGCTAAAAACAATCAAAGTCCCACCTGCATCTTTA
66 AAAACCATATAAATAATTATAACACATTAAAGCTAAAAACAATCAAAGTCCCACCTGCATCTTTA
50100933 AACTCCAAATGGGGAAATTTTTTAAAAAATACCTGTACTTATACTTAAGAACTAGGAACTCAAAA
131 AACTCCAAATGGGGAAATTTTTTAAAAAATACCTGTACTTATACTTAAGAACTAGGAACTCAAAA
50100998 TTCAATAATCAACATATACAATAAA
196 TTCAATAATCAACATATACAATAAA
50101023 TTAATGACAAAAAATGGTCAGAAAAAAAATCACAAAATATGATTTTCATCTTCTTCAAAAGTACT
1 TTAATGACAAAAAATGGTCAGAAAAAAAATCACAAAATATGATTTTCATCTTCTTCAAAAGTACT
50101088 AAAACCATATAAATAATTATAACACATTAAAGCTAAAAACAATCAAAGTCCCACCTGCATCTTTA
66 AAAACCATATAAATAATTATAACACATTAAAGCTAAAAACAATCAAAGTCCCACCTGCATCTTTA
*
50101153 AACTCCAAATGGGGAAATTTTTTAAAAAATACCTTTACTTATACTTAAGAACTAGGAACTCAAAA
131 AACTCCAAATGGGGAAATTTTTTAAAAAATACCTGTACTTATACTTAAGAACTAGGAACTCAAAA
50101218 TTCAATAATCAACATATACAATAAA
196 TTCAATAATCAACATATACAATAAA
50101243 TTAATGA
1 TTAATGA
50101250 AGAAAGGAAG
Statistics
Matches: 226, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 226 1.00
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.28
Consensus pattern (220 bp):
TTAATGACAAAAAATGGTCAGAAAAAAAATCACAAAATATGATTTTCATCTTCTTCAAAAGTACT
AAAACCATATAAATAATTATAACACATTAAAGCTAAAAACAATCAAAGTCCCACCTGCATCTTTA
AACTCCAAATGGGGAAATTTTTTAAAAAATACCTGTACTTATACTTAAGAACTAGGAACTCAAAA
TTCAATAATCAACATATACAATAAA
Found at i:50107950 original size:37 final size:38
Alignment explanation
Indices: 50107848--50107962 Score: 107
Period size: 36 Copynumber: 3.1 Consensus size: 38
50107838 ATTTCATGTA
**
50107848 TTATTATTTATTGTATGCTATTTTTAAACATATATTTCAT
1 TTATTATTTATTGTATATTATTTTTAAACA-ATATTT-AT
* * * *
50107888 ATATTA-TTA-T-TA-ATCAATTTCAAACAATATTT-T
1 TTATTATTTATTGTATATTATTTTTAAACAATATTTAT
50107921 TTATTATTTATTGTATATTATTTTTAAAC-ATATTTAT
1 TTATTATTTATTGTATATTATTTTTAAACAATATTTAT
50107958 ATTAT
1 -TTAT
50107963 AAATACGTTG
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
33 6 0.10
34 3 0.05
35 7 0.12
36 17 0.29
37 13 0.22
38 5 0.08
39 3 0.05
40 5 0.08
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.57
Consensus pattern (38 bp):
TTATTATTTATTGTATATTATTTTTAAACAATATTTAT
Found at i:50108595 original size:22 final size:22
Alignment explanation
Indices: 50108570--50108634 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
50108560 AATGCTTGTT
50108570 TAAAGGATGATAATATGTTGAA
1 TAAAGGATGATAATATGTTGAA
* **
50108592 TAAA--A--ACAA-ATGCTTGTT
1 TAAAGGATGATAATATG-TTGAA
50108610 TAAAGGATGATAATATGTTGAA
1 TAAAGGATGATAATATGTTGAA
50108632 TAA
1 TAA
50108635 TATGAATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 12
0.63 0.12 0.24
Matches are distributed among these distances:
17 3 0.10
18 10 0.32
20 2 0.06
22 13 0.42
23 3 0.10
ACGTcount: A:0.46, C:0.03, G:0.18, T:0.32
Consensus pattern (22 bp):
TAAAGGATGATAATATGTTGAA
Found at i:50108607 original size:40 final size:40
Alignment explanation
Indices: 50108552--50108634 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
50108542 CTTTTATGAG
50108552 TAAAAACAAATGCTTGTTTAAAGGATGATAATATGTTGAA
1 TAAAAACAAATGCTTGTTTAAAGGATGATAATATGTTGAA
50108592 TAAAAACAAATGCTTGTTTAAAGGATGATAATATGTTGAA
1 TAAAAACAAATGCTTGTTTAAAGGATGATAATATGTTGAA
50108632 TAA
1 TAA
50108635 TATGAATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.46, C:0.05, G:0.17, T:0.33
Consensus pattern (40 bp):
TAAAAACAAATGCTTGTTTAAAGGATGATAATATGTTGAA
Found at i:50109411 original size:31 final size:31
Alignment explanation
Indices: 50109376--50109438 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
50109366 ATGAGTCAAC
50109376 TAAAAGGAATGTTGCCAAACTTGGTCACTCA
1 TAAAAGGAATGTTGCCAAACTTGGTCACTCA
50109407 TAAAAGGAATGTTGCCAAACTTGGTCACTCA
1 TAAAAGGAATGTTGCCAAACTTGGTCACTCA
50109438 T
1 T
50109439 TTCTAAAACG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (31 bp):
TAAAAGGAATGTTGCCAAACTTGGTCACTCA
Found at i:50112992 original size:110 final size:110
Alignment explanation
Indices: 50112795--50113016 Score: 399
Period size: 110 Copynumber: 2.0 Consensus size: 110
50112785 TATGCTTGAA
* *
50112795 CCACTAGTACTGACCGCATCAGGAAAATTATTTTGCCAGTTGAGTGGAACGGGGAAAATTTGTCA
1 CCACTAGTACTGACCGCATCAGGAAAATGATTTTGCCAGTTGAGTGGAACAGGGAAAATTTGTCA
50112860 TCTAAGATTTAACAGAGCACTCTTCCTCCCCTTCCCCTTCCCCTT
66 TCTAAGATTTAACAGAGCACTCTTCCTCCCCTTCCCCTTCCCCTT
50112905 CCACTAGTACTGACCGCATCAGGAAAATGATTTTGCCAGTTGAGTGGAACAGGGAAAATTTGTCA
1 CCACTAGTACTGACCGCATCAGGAAAATGATTTTGCCAGTTGAGTGGAACAGGGAAAATTTGTCA
* * *
50112970 TCTAAGATTTAATAGAGTACTCTTCCTCCCCTTTCCCTTCCCCTT
66 TCTAAGATTTAACAGAGCACTCTTCCTCCCCTTCCCCTTCCCCTT
50113015 CC
1 CC
50113017 TGCTCTCCTC
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (110 bp):
CCACTAGTACTGACCGCATCAGGAAAATGATTTTGCCAGTTGAGTGGAACAGGGAAAATTTGTCA
TCTAAGATTTAACAGAGCACTCTTCCTCCCCTTCCCCTTCCCCTT
Found at i:50114681 original size:79 final size:79
Alignment explanation
Indices: 50114549--50114700 Score: 243
Period size: 79 Copynumber: 1.9 Consensus size: 79
50114539 AATTGATACT
*
50114549 TTTTACATTGAAATCTATACTATTAAAAATCAAAATGATGGTTTTTATTTTTTAAATTTTATTTG
1 TTTTACATTGAAATCTATACTATTAAAAATCAAAATGATGGTTTTTATCTTTTAAATTTTATTTG
50114614 CAATTAATTTGAAG
66 CAATTAATTTGAAG
* * *
50114628 TTTTATATTGAAATCTATACTATTAAAAATCAAATTGGTGGTTTTT-TACTTTTAAATTTTATTT
1 TTTTACATTGAAATCTATACTATTAAAAATCAAAATGATGGTTTTTAT-CTTTTAAATTTTATTT
*
50114692 GTAATTAAT
65 GCAATTAAT
50114701 ATCGATTTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
78 1 0.01
79 66 0.99
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.50
Consensus pattern (79 bp):
TTTTACATTGAAATCTATACTATTAAAAATCAAAATGATGGTTTTTATCTTTTAAATTTTATTTG
CAATTAATTTGAAG
Done.