Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 303 of 325
Found at i:98457102 original size:19 final size:20
Alignment explanation
Indices: 98457070--98457113 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
98457060 TAGAAAATGA
98457070 TTTCTAGAAAATGACTTACT
1 TTTCTAGAAAATGACTTACT
*
98457090 TTTCTAG-AAATGATTTACT
1 TTTCTAGAAAATGACTTACT
98457109 TTTCT
1 TTTCT
98457114 GGTGTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.48
Consensus pattern (20 bp):
TTTCTAGAAAATGACTTACT
Found at i:98461103 original size:14 final size:14
Alignment explanation
Indices: 98461084--98461135 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
98461074 GTTAAAACAT
98461084 AAATATATTTATTA
1 AAATATATTTATTA
* *
98461098 AAATATATATATGA
1 AAATATATTTATTA
*
98461112 ACATAACTAATTTATTA
1 AAAT-A-T-ATTTATTA
98461129 AAATATA
1 AAATATA
98461136 AATTACAAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
14 16 0.55
15 2 0.07
16 2 0.07
17 9 0.31
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (14 bp):
AAATATATTTATTA
Found at i:98466461 original size:42 final size:41
Alignment explanation
Indices: 98466334--98466462 Score: 116
Period size: 42 Copynumber: 3.0 Consensus size: 41
98466324 TTTACACACA
* *
98466334 AACGTCGCTAAAGAGCATGACCTTTAGCGGTGC-TTTATCAAC
1 AACGCCGCTAAAGAGCATGA-CTTTAGCGGTACTTTTATC-AC
* ** ** *
98466376 AAACGCCGCTATAGAGCATGACTTTTAGCTATTTTTTTTTCAC
1 -AACGCCGCTAAAGAGCATGAC-TTTAGCGGTACTTTTATCAC
* *
98466419 AACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTATCAC
1 AACGCCGCTAAAGAGCATGA-CTTTAGCGGTACTTTTATCAC
98466461 AA
1 AA
98466463 ATGCCACTAA
Statistics
Matches: 68, Mismatches: 15, Indels: 7
0.76 0.17 0.08
Matches are distributed among these distances:
42 35 0.51
43 28 0.41
44 5 0.07
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (41 bp):
AACGCCGCTAAAGAGCATGACTTTAGCGGTACTTTTATCAC
Found at i:98466792 original size:21 final size:21
Alignment explanation
Indices: 98466767--98466816 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
98466757 TTCTGCTCTG
98466767 CTCTGCTTCCCTCGCTGCTAC
1 CTCTGCTTCCCTCGCTGCTAC
*
98466788 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTAC
*
98466809 CTCCGCTT
1 CTCTGCTT
98466817 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.48, G:0.16, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCTAC
Found at i:98472693 original size:29 final size:29
Alignment explanation
Indices: 98472661--98472721 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
98472651 AATGTGTATG
98472661 TATTATATATA-TTTTATACATTTTATATA
1 TATTATATATATTTTTATA-ATTTTATATA
* *
98472690 TATTATATATATTTTTATATTTTTATGTA
1 TATTATATATATTTTTATAATTTTATATA
98472719 TAT
1 TAT
98472722 ATTTTTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
TATTATATATATTTTTATAATTTTATATA
Found at i:98472713 original size:9 final size:9
Alignment explanation
Indices: 98472661--98472712 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
98472651 AATGTGTATG
*
98472661 TATTATATA
1 TATTTTATA
98472670 TATTTTATA
1 TATTTTATA
*
98472679 CATTTTATA
1 TATTTTATA
98472688 TATATTATATA
1 TAT-TT-TATA
98472699 TATTTT-TA
1 TATTTTATA
98472707 TATTTT
1 TATTTT
98472713 TATGTATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
8 8 0.21
9 19 0.50
10 4 0.11
11 7 0.18
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTATA
Found at i:98472720 original size:20 final size:22
Alignment explanation
Indices: 98472663--98472796 Score: 84
Period size: 20 Copynumber: 6.1 Consensus size: 22
98472653 TGTGTATGTA
*
98472663 TTATATATATT-T-TATACATT
1 TTATATATATTATATATATATT
98472683 TTATATATATTATATATAT-TT
1 TTATATATATTATATATATATT
* *
98472704 TTATAT-TTTTATGTATATATTT
1 TTATATATATTATATATATA-TT
*
98472726 TTAATATCATATTCT-TCATATATT
1 TT-ATAT-ATATTATAT-ATATATT
* *
98472750 TT-T-TATATTATGTAAATATT
1 TTATATATATTATATATATATT
* *
98472770 TTCAATACTACATTATGTATATATT
1 TT--ATA-TATATTATATATATATT
98472795 TT
1 TT
98472797 TGTCTATATT
Statistics
Matches: 91, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
20 35 0.38
21 11 0.12
22 9 0.10
23 5 0.05
24 5 0.05
25 26 0.29
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (22 bp):
TTATATATATTATATATATATT
Found at i:98472737 original size:14 final size:14
Alignment explanation
Indices: 98472681--98472757 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 14
98472671 ATTTTATACA
98472681 TTTTATATATATTAT
1 TTTTATATATA-TAT
* * * *
98472696 ATATATTTTTATAT
1 TTTTATATATATAT
*
98472710 TTTTATGTATATAT
1 TTTTATATATATAT
98472724 TTTTA-ATATCATAT
1 TTTTATATAT-ATAT
* *
98472738 TCTT-CATATAT-T
1 TTTTATATATATAT
98472750 TTTTATAT
1 TTTTATAT
98472758 TATGTAAATA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
12 4 0.09
13 7 0.15
14 29 0.62
15 7 0.15
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (14 bp):
TTTTATATATATAT
Found at i:98472792 original size:45 final size:46
Alignment explanation
Indices: 98472691--98472797 Score: 114
Period size: 45 Copynumber: 2.3 Consensus size: 46
98472681 TTTTATATAT
* * * *
98472691 ATTA-TATATATTTTTATATTTTTATGTATATATTTTTAATATCAT
1 ATTATTATATATTTTTATATTATTATGTAAATATTTTCAATATCAC
*
98472736 ATTCTTCATATATTTTT-TA-TATTATGTAAATATTTTCAATA-CTAC
1 ATTATT-ATATATTTTTATATTATTATGTAAATATTTTCAATATC-AC
98472781 ATTATGTATATATTTTT
1 ATTAT-TATATATTTTT
98472798 GTCTATATTG
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
44 1 0.02
45 37 0.71
46 4 0.08
47 10 0.19
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.59
Consensus pattern (46 bp):
ATTATTATATATTTTTATATTATTATGTAAATATTTTCAATATCAC
Found at i:98486511 original size:9 final size:9
Alignment explanation
Indices: 98486497--98486718 Score: 80
Period size: 9 Copynumber: 24.0 Consensus size: 9
98486487 TAAGTATAAT
98486497 TAAGTTATG
1 TAAGTTATG
98486506 TAAGTTATG
1 TAAGTTATG
* * *
98486515 ATATGATATA
1 -TAAGTTATG
*
98486525 T-ATTTATG
1 TAAGTTATG
98486533 T-A-TTATG
1 TAAGTTATG
* *
98486540 TAAGCTACG
1 TAAGTTATG
98486549 TAAGTTATG
1 TAAGTTATG
*
98486558 TGAGTTATG
1 TAAGTTATG
98486567 TAAGTTATG
1 TAAGTTATG
* *
98486576 ATATGATATATA
1 -TAAG-T-TATG
98486588 TAAGTTAT-
1 TAAGTTATG
*
98486596 TAAGTTAAGATC
1 TAAGTT---ATG
* *
98486608 TAAAGTTTTTTT
1 T-AAG--TTATG
* *
98486620 TAA-TTCTT
1 TAAGTTATG
98486628 TAAAGTTATG
1 T-AAGTTATG
98486638 TATA-TTATG
1 TA-AGTTATG
98486647 TAAGTTATG
1 TAAGTTATG
*
98486656 TAAGTTTTG
1 TAAGTTATG
* * *
98486665 ATATGATATA
1 -TAAGTTATG
* *
98486675 T-ATTTACG
1 TAAGTTATG
98486683 TAAGTTATG
1 TAAGTTATG
*
98486692 TAAATTATG
1 TAAGTTATG
*
98486701 CAAGTTATG
1 TAAGTTATG
98486710 TAAGTTATG
1 TAAGTTATG
98486719 ATTTATATTT
Statistics
Matches: 157, Mismatches: 37, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
7 6 0.04
8 21 0.13
9 91 0.58
10 20 0.13
11 8 0.05
12 6 0.04
13 3 0.02
15 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:98486895 original size:19 final size:19
Alignment explanation
Indices: 98486853--98486896 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
98486843 TATTATATTG
* * *
98486853 ATTAAAAATATTTATAAGT
1 ATTAAAAACATTTAAAAAT
*
98486872 TTTAAAAACATTTAAAAAT
1 ATTAAAAACATTTAAAAAT
98486891 ATTAAA
1 ATTAAA
98486897 TATTAAAATC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTAAAAACATTTAAAAAT
Found at i:98489269 original size:35 final size:35
Alignment explanation
Indices: 98489223--98489371 Score: 149
Period size: 35 Copynumber: 4.3 Consensus size: 35
98489213 AGTATCACGA
* *
98489223 TTCACAACTCAGTATGGTTAATACCATACCTACGT
1 TTCATAACTCAGTATGGATAATACCATACCTACGT
* * * * * *
98489258 TTCACAACTCAGTATAGAAAATACCATGCATATGT
1 TTCATAACTCAGTATGGATAATACCATACCTACGT
*
98489293 ATT-ATAGCTC-GATATGGATAATACCATACCTACGT
1 -TTCATAACTCAG-TATGGATAATACCATACCTACGT
* * *
98489328 GTCATAGCTTAGTATGGATAATACCATACCTACGT
1 TTCATAACTCAGTATGGATAATACCATACCTACGT
*
98489363 GTCATAACT
1 TTCATAACT
98489372 TTGCCATGGA
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
34 2 0.02
35 89 0.95
36 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (35 bp):
TTCATAACTCAGTATGGATAATACCATACCTACGT
Found at i:98490764 original size:13 final size:13
Alignment explanation
Indices: 98490742--98490774 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
98490732 AAGGATTTGT
98490742 TTAT-TAAACTAA
1 TTATCTAAACTAA
98490754 TTATCTAAACTAA
1 TTATCTAAACTAA
*
98490767 TTAACTAA
1 TTATCTAA
98490775 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:98494484 original size:16 final size:16
Alignment explanation
Indices: 98494463--98494515 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
98494453 AAACCGATGA
98494463 AATGAGGTTTACATGC
1 AATGAGGTTTACATGC
98494479 AATGAGGTTT--AT--
1 AATGAGGTTTACATGC
*
98494491 --TGAGGTTTGCATGC
1 AATGAGGTTTACATGC
98494505 AATGAGGTTTA
1 AATGAGGTTTA
98494516 TAGAAATCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
10 8 0.27
12 2 0.07
14 2 0.07
16 18 0.60
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (16 bp):
AATGAGGTTTACATGC
Found at i:98494494 original size:26 final size:26
Alignment explanation
Indices: 98494465--98494516 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
98494455 ACCGATGAAA
98494465 TGAGGTTTACATGCAATGAGGTTTAT
1 TGAGGTTTACATGCAATGAGGTTTAT
*
98494491 TGAGGTTTGCATGCAATGAGGTTTAT
1 TGAGGTTTACATGCAATGAGGTTTAT
98494517 AGAAATCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.08, G:0.29, T:0.38
Consensus pattern (26 bp):
TGAGGTTTACATGCAATGAGGTTTAT
Found at i:98494998 original size:20 final size:20
Alignment explanation
Indices: 98494968--98495023 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
98494958 CCACACAGGT
* *
98494968 AAGTGACACGGGCGTGTCTCA
1 AAGT-ACACGGACGTGTCCCA
98494989 AAGTACACGGACGTGTCCCA
1 AAGTACACGGACGTGTCCCA
98495009 AAGTACACGGA-GTGT
1 AAGTACACGGACGTGT
98495024 GCTATGTCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.12
20 25 0.76
21 4 0.12
ACGTcount: A:0.29, C:0.23, G:0.30, T:0.18
Consensus pattern (20 bp):
AAGTACACGGACGTGTCCCA
Found at i:98497579 original size:67 final size:66
Alignment explanation
Indices: 98497455--98497581 Score: 177
Period size: 67 Copynumber: 1.9 Consensus size: 66
98497445 ACATGGTGAA
* * *
98497455 CACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCT
1 CACTTAGAACCACCCATGCGACCTAGCCAGTATATCTCGTAGCTCTCTTGTCTACATGGTGTCCT
98497520 T
66 T
*
98497521 CACTTAGAACCACGCATGCGACCTAGCTACA-TATATC-CTGTAGCTCTCTTGTCTACATGGT
1 CACTTAGAACCACCCATGCGACCTAGC--CAGTATATCTC-GTAGCTCTCTTGTCTACATGGT
98497582 ATATACATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
66 25 0.46
67 27 0.50
68 2 0.04
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (66 bp):
CACTTAGAACCACCCATGCGACCTAGCCAGTATATCTCGTAGCTCTCTTGTCTACATGGTGTCCT
T
Found at i:98502466 original size:29 final size:29
Alignment explanation
Indices: 98502434--98502502 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
98502424 TAAAATTAGA
98502434 CCCTAAACAC-TAAATCATAAACCCTAATC
1 CCCTAAAC-CTTAAATCATAAACCCTAATC
* * *
98502463 CCCTAAACCTTAAATCTTAAACTCTAA-A
1 CCCTAAACCTTAAATCATAAACCCTAATC
*
98502491 CCCTAAGCCTTA
1 CCCTAAACCTTA
98502503 GCCCTTAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.34
29 23 0.66
ACGTcount: A:0.41, C:0.33, G:0.01, T:0.25
Consensus pattern (29 bp):
CCCTAAACCTTAAATCATAAACCCTAATC
Found at i:98502561 original size:34 final size:35
Alignment explanation
Indices: 98502513--98502602 Score: 112
Period size: 34 Copynumber: 2.6 Consensus size: 35
98502503 GCCCTTAACC
98502513 CTTAAACCCTAAACTATAAACACTAAA-CCTTAAA
1 CTTAAACCCTAAACTATAAACACTAAATCCTTAAA
* *
98502547 CTTACACCCTAAACTGTAAACACTAAATCCTTAACA
1 CTTAAACCCTAAACTATAAACACTAAATCCTTAA-A
* * *
98502583 C-TAAATCATAAACCATAAAC
1 CTTAAACCCTAAACTATAAAC
98502603 CTTAAACCCC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
34 25 0.53
35 20 0.43
36 2 0.04
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (35 bp):
CTTAAACCCTAAACTATAAACACTAAATCCTTAAA
Found at i:98502638 original size:7 final size:7
Alignment explanation
Indices: 98502433--98502638 Score: 85
Period size: 7 Copynumber: 29.6 Consensus size: 7
98502423 TTAAAATTAG
98502433 ACCCTAA
1 ACCCTAA
*
98502440 ACACTAA
1 ACCCTAA
* *
98502447 ATCATAA
1 ACCCTAA
98502454 ACCCTAA
1 ACCCTAA
*
98502461 TCCCCTAA
1 -ACCCTAA
*
98502469 ACCTTAA
1 ACCCTAA
* *
98502476 ATCTTAA
1 ACCCTAA
*
98502483 ACTCTAA
1 ACCCTAA
98502490 ACCCT-A
1 ACCCTAA
* *
98502496 AGCCTTA
1 ACCCTAA
* *
98502503 GCCCTTA
1 ACCCTAA
98502510 ACCCTTAA
1 ACCC-TAA
98502518 ACCCTAA
1 ACCCTAA
**
98502525 ACTATAA
1 ACCCTAA
*
98502532 ACACTAA
1 ACCCTAA
*
98502539 ACCTTAA
1 ACCCTAA
* *
98502546 A-CTTAC
1 ACCCTAA
98502552 ACCCTAA
1 ACCCTAA
**
98502559 ACTGTAA
1 ACCCTAA
*
98502566 ACACTAA
1 ACCCTAA
* *
98502573 ATCCTTA
1 ACCCTAA
*
98502580 ACACTAA
1 ACCCTAA
* *
98502587 ATCATAA
1 ACCCTAA
*
98502594 ACCATAA
1 ACCCTAA
*
98502601 ACCTTAA
1 ACCCTAA
*
98502608 ACCCCAA
1 ACCCTAA
*
98502615 ACCATAA
1 ACCCTAA
* *
98502622 A-CATAC
1 ACCCTAA
98502628 ACCCTAA
1 ACCCTAA
98502635 ACCC
1 ACCC
98502639 AAAATATATA
Statistics
Matches: 144, Mismatches: 50, Indels: 10
0.71 0.25 0.05
Matches are distributed among these distances:
6 15 0.10
7 117 0.81
8 12 0.08
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:98503421 original size:154 final size:152
Alignment explanation
Indices: 98502974--98503410 Score: 489
Period size: 155 Copynumber: 2.8 Consensus size: 152
98502964 GCGTTTTTAT
* * *
98502974 CGCTAATGCCACTAAAGCTCAACAACAAATGATGTCGTTTTGCTCAACTTTTTTGCGGCATTTTC
1 CGCTAATGCCACTAAAGCTCAACAACAAATGATGTCGTTTTGCTTAAATTTTTTGCGGCGTTTTC
* * * * * * *
98503039 TGAAGAGCGTCGCTAATGCTCGATCTACAGTGACGTTTTTCAACAAGCACCGCTAATTCTCGATT
66 T-AAAAGCG-CTCTAATGCTCGATCTATAGCGGCATTTTTCAACAAGC-GCGCTAATTCTCGATT
*
98503104 TATTGCGGCGTTCTTTAAAAAGCGC
128 TATTGCGGCATTCTTTAAAAAGCGC
* * * * **
98503129 CGCTAATGCCACCAAAGCTCAACAACAAACGATGTCATTTTGGTTAAATTTTTTGATGCGTTTTT
1 CGCTAATGCCACTAAAGCTCAACAACAAATGATGTCGTTTTGCTTAAATTTTTTGCGGCG-TTTT
* * * * * * * * *
98503194 CAAAAAGCGCTGCTAATACACGAGCTATAGCAGAATTTTTCAATAATCGTCGCTAATTCTTGATT
65 CTAAAAGCGCT-CTAATGCTCGATCTATAGCGGCATTTTTCAACAAGCG-CGCTAATTCTCGATT
*
98503259 TATTGCGGCATTTTTTAAAAAGCGC
128 TATTGCGGCATTCTTTAAAAAGCGC
* * *
98503284 CGCTAATGCCACTAAAGTTCAACAACAAGTGATGT-GTTTTGCTTAAATTTTTTGCGGTGTTTTC
1 CGCTAATGCCACTAAAGCTCAACAACAAATGATGTCGTTTTGCTTAAATTTTTTGCGGCGTTTT-
* * *
98503348 CTAAAAGCGCATCTAATGCTCGATCTATAACGGCATTTTTCAAGAAGCGCAGCTAATGCTCGA
65 CTAAAAGCGC-TCTAATGCTCGATCTATAGCGGCATTTTTCAACAAGCGC-GCTAATTCTCGA
98503411 CCTATAGCGG
Statistics
Matches: 229, Mismatches: 47, Indels: 13
0.79 0.16 0.04
Matches are distributed among these distances:
153 5 0.02
154 68 0.30
155 151 0.66
156 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (152 bp):
CGCTAATGCCACTAAAGCTCAACAACAAATGATGTCGTTTTGCTTAAATTTTTTGCGGCGTTTTC
TAAAAGCGCTCTAATGCTCGATCTATAGCGGCATTTTTCAACAAGCGCGCTAATTCTCGATTTAT
TGCGGCATTCTTTAAAAAGCGC
Found at i:98504442 original size:219 final size:220
Alignment explanation
Indices: 98504048--98504481 Score: 825
Period size: 219 Copynumber: 2.0 Consensus size: 220
98504038 TAATATTCTG
98504048 AAAATTTTTACAGTAAAATATTATCTGTGATATAGTAAAATAAGGAAATAAAGTGACAAAAAGGG
1 AAAATTTTTACAGTAAAATATTATCTGTGATATAGTAAAATAAGGAAATAAAGTGACAAAAAGGG
*
98504113 AAATTTTGAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGACTAAAT
66 AAATTTTAAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGACTAAAT
*
98504178 TGTAAAAGTGAGAAATGTTTTGTTGCACAAGAGCAAATACTCAAAATTTGAGGGGTTAAAGTGTA
131 TGTAAAAGTGAGAAAAGTTTTGTTGCACAAGAGCAAATACTCAAAATTTGAGGGGTTAAAGTGTA
*
98504243 AATATGAAAAAGTTGAAGGATTCCA
196 AATACGAAAAAGTTGAAGGATTCCA
98504268 AAAATTTTTACAGT-AAATATTATCTGTGATATAGTAAAATAAGGAAATAAAGTGACAAAAAGGG
1 AAAATTTTTACAGTAAAATATTATCTGTGATATAGTAAAATAAGGAAATAAAGTGACAAAAAGGG
98504332 AAATTTTAAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGACTAAAT
66 AAATTTTAAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGACTAAAT
*
98504397 TGTAAAAGTGAGAAAAGTTTTGTTGCACAAGAGTAAATACTCAAAATTTGAGGGGTTAAAGTGTA
131 TGTAAAAGTGAGAAAAGTTTTGTTGCACAAGAGCAAATACTCAAAATTTGAGGGGTTAAAGTGTA
98504462 AATACGAAAAAGTTGAAGGA
196 AATACGAAAAAGTTGAAGGA
98504482 CCAATAGTGT
Statistics
Matches: 210, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
219 196 0.93
220 14 0.07
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.30
Consensus pattern (220 bp):
AAAATTTTTACAGTAAAATATTATCTGTGATATAGTAAAATAAGGAAATAAAGTGACAAAAAGGG
AAATTTTAAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGACTAAAT
TGTAAAAGTGAGAAAAGTTTTGTTGCACAAGAGCAAATACTCAAAATTTGAGGGGTTAAAGTGTA
AATACGAAAAAGTTGAAGGATTCCA
Found at i:98506907 original size:46 final size:46
Alignment explanation
Indices: 98506855--98507081 Score: 330
Period size: 46 Copynumber: 4.9 Consensus size: 46
98506845 GTGTGCTCTC
**
98506855 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
98506901 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
98506947 TGATATGAAATGAATATGACCATGGTTGAAAGATACCATGGCAATG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * *
98506993 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * * * *
98507039 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
98507082 TCATGTCAAA
Statistics
Matches: 166, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 165 0.99
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:98509370 original size:47 final size:46
Alignment explanation
Indices: 98509297--98509616 Score: 170
Period size: 47 Copynumber: 6.8 Consensus size: 46
98509287 TGGGTTATGT
* *
98509297 GAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGAC
* * * * * *
98509345 GAGGGCTAGTGTAAGACGTGTCTGGGACATGCATCAGTCA--CATCAT
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATC-GGCATTGA-GAC
* ** * * * **
98509391 GATAGCCCGTGTAAGACCATGTCTAGGACATGGCATCGGCGTAGAGGT
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGAC
* * * * * *
98509439 GAGTGCAAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGAT
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGA-GAC
** * * * * *
98509486 GTTAGCCAGTGTAAGACGTGTCTGGGACATACATCGGC--TAAGTTTC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAG--AC
* * *
98509532 -A-TGCTAGTGTAAGACATGTCTGGGACATGCAT-AGCACGTAT-ACAC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCA--T-TGAGAC
98509577 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
98509617 CTCGATGGAG
Statistics
Matches: 204, Mismatches: 49, Indels: 36
0.71 0.17 0.12
Matches are distributed among these distances:
43 2 0.01
44 28 0.14
45 3 0.01
46 29 0.14
47 89 0.44
48 46 0.23
49 5 0.02
50 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC
Found at i:98509469 original size:94 final size:93
Alignment explanation
Indices: 98509300--98509616 Score: 358
Period size: 94 Copynumber: 3.4 Consensus size: 93
98509290 GTTATGTGAG
* * * * *
98509300 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
98509365 TCTGGGACATGCATCAGTCAC-ATCATGAT
65 TCTGGGACATGCATCAG-CACGATCATGAT
* * * *
98509394 AGCCCGTGTAAGACCATGTCTAGGACATGGCATCGGCGTAGAGGTGAGTGCAAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
* * *
98509459 TCTGGGACATGCATCAGCCTCGATGATGTT
65 TCTGGGACATGCATCAG-CACGATCATGAT
* * * *
98509489 AGCCAGTGTAAGA-CGTGTCTGGGACAT-ACATCGGCTA-AGTTTCA-TGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAG-ATGAGTGCTAGTGTAAGACATG
* *
98509550 TCTGGGACATGCAT-AGCACGTATACACGAG
65 TCTGGGACATGCATCAGCACG-AT-CATGAT
*
98509580 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
98509617 CTCGATGGAG
Statistics
Matches: 188, Mismatches: 29, Indels: 13
0.82 0.13 0.06
Matches are distributed among these distances:
89 3 0.02
90 4 0.02
91 46 0.24
92 17 0.09
93 14 0.07
94 86 0.46
95 18 0.10
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGCACGATCATGAT
Found at i:98510519 original size:55 final size:55
Alignment explanation
Indices: 98510426--98510556 Score: 149
Period size: 55 Copynumber: 2.4 Consensus size: 55
98510416 CTTAAACTTT
* * * *
98510426 TAAA-TCAGTATTGTCCATGGTTAGGCCACAAGGACGTGTGCCATAGCCGTG-TC
1 TAAAGTCAGTATTGCCCACGGGTAGGCCACAAGGACGTGTGCCATAGCCGTGCCC
* * * *
98510479 TATAAGTCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGTCATGGCCGTGCCC
1 TA-AAGTCAGTATTGCCCACGGGTAGGCCACAAGGACGTGTGCCATAGCCGTGCCC
* *
98510535 TAAAGTCAGTGTTGCACACGGG
1 TAAAGTCAGTATTGCCCACGGG
98510557 CTGAGGAAGT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
53 2 0.03
54 2 0.03
55 58 0.89
56 3 0.05
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (55 bp):
TAAAGTCAGTATTGCCCACGGGTAGGCCACAAGGACGTGTGCCATAGCCGTGCCC
Found at i:98510997 original size:30 final size:30
Alignment explanation
Indices: 98510963--98511024 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
98510953 ATACATATTT
98510963 ACTACTAAAACTTATCATTTGATAACTTTA
1 ACTACTAAAACTTATCATTTGATAACTTTA
98510993 ACTACTAAAACTTATCATTTGATAACTTTA
1 ACTACTAAAACTTATCATTTGATAACTTTA
98511023 AC
1 AC
98511025 ATTTCTTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.39
Consensus pattern (30 bp):
ACTACTAAAACTTATCATTTGATAACTTTA
Found at i:98511875 original size:17 final size:17
Alignment explanation
Indices: 98511842--98511885 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
98511832 ATAAGGTTCT
* *
98511842 TCAATTCACTTTTCATA
1 TCAATTCAATATTCATA
98511859 TACAA-TCAATATTCATA
1 T-CAATTCAATATTCATA
98511876 TCAATTCAAT
1 TCAATTCAAT
98511886 TAATCACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 3 0.13
17 17 0.74
18 3 0.13
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (17 bp):
TCAATTCAATATTCATA
Found at i:98511913 original size:5 final size:5
Alignment explanation
Indices: 98511903--98511932 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
98511893 ACATACTCAT
*
98511903 AATTC AATTC AATTC AATCC AATTC AATTC
1 AATTC AATTC AATTC AATTC AATTC AATTC
98511933 CACAATACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTC
Found at i:98512593 original size:12 final size:13
Alignment explanation
Indices: 98512576--98512613 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
98512566 ATTTTTCCTT
98512576 CTTTCTTTTCT-C
1 CTTTCTTTTCTCC
98512588 CTTTCTTTTTCTCC
1 CTTTC-TTTTCTCC
98512602 CTATTCTTTTCT
1 CT-TTCTTTTCT
98512614 GTTTCGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.22
13 6 0.26
14 9 0.39
15 3 0.13
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (13 bp):
CTTTCTTTTCTCC
Found at i:98512722 original size:15 final size:15
Alignment explanation
Indices: 98512702--98512744 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
98512692 ATTATATTAT
*
98512702 AATAATAATTACTTA
1 AATAATAATTACATA
* *
98512717 AATAATAAGTAAATA
1 AATAATAATTACATA
*
98512732 CATAATAATTACA
1 AATAATAATTACA
98512745 AGTATATGTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (15 bp):
AATAATAATTACATA
Found at i:98516535 original size:15 final size:15
Alignment explanation
Indices: 98516515--98516557 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
98516505 ATTATATTAT
*
98516515 AATAATAATTACTTA
1 AATAATAATTACATA
* *
98516530 AATAATAAGTAAATA
1 AATAATAATTACATA
*
98516545 CATAATAATTACA
1 AATAATAATTACA
98516558 AGTATATGTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (15 bp):
AATAATAATTACATA
Found at i:98517292 original size:37 final size:37
Alignment explanation
Indices: 98517242--98517317 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
98517232 GTGGATCGAG
*
98517242 TAAAGTGACACCAAAATCTTTCAACAAAGACTGAAGC
1 TAAAGTGACACCAAAATCTTTCAACAAAGACTAAAGC
*
98517279 TAAAGTGACACCAAAATCTTTCAATAAAGACTAAAGC
1 TAAAGTGACACCAAAATCTTTCAACAAAGACTAAAGC
98517316 TA
1 TA
98517318 GATGATTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.21
Consensus pattern (37 bp):
TAAAGTGACACCAAAATCTTTCAACAAAGACTAAAGC
Found at i:98520871 original size:20 final size:21
Alignment explanation
Indices: 98520828--98520873 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
98520818 ACTGTTTTGT
98520828 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
98520848 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
98520867 TATGGGC
1 TATGGGC
98520874 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:98522223 original size:24 final size:25
Alignment explanation
Indices: 98522196--98522254 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
98522186 CTTATTTCAT
*
98522196 TAAATAAA-AAAATTCAAAATATAA
1 TAAATAAATAAAATTAAAAATATAA
* *
98522220 TAAATCAAATACATTTAAAAATATAA
1 TAAAT-AAATAAAATTAAAAATATAA
98522246 -AAATAAATA
1 TAAATAAATA
98522255 TTAAAACAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 7 0.23
26 13 0.43
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (25 bp):
TAAATAAATAAAATTAAAAATATAA
Found at i:98522850 original size:26 final size:26
Alignment explanation
Indices: 98522812--98522870 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
98522802 CTTGAGCAAT
98522812 ATTTTGACAATTTTACCCCCTA-TAAA
1 ATTTTGACAATTTTA-CCCCTATTAAA
** *
98522838 ATTTTGATGATTTTACCCTTATTAAA
1 ATTTTGACAATTTTACCCCTATTAAA
98522864 ATTTTGA
1 ATTTTGA
98522871 GAAATTTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (26 bp):
ATTTTGACAATTTTACCCCTATTAAA
Found at i:98527281 original size:21 final size:22
Alignment explanation
Indices: 98527247--98527293 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
98527237 ATTTAATTTG
*
98527247 AATATGTAAGTTATAT-TTT-A
1 AATATATAAGTTATATATTTCA
98527267 AATATATAATGTTATATATTTCA
1 AATATATAA-GTTATATATTTCA
98527290 AATA
1 AATA
98527294 AATTTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 7 0.30
22 3 0.13
23 5 0.22
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (22 bp):
AATATATAAGTTATATATTTCA
Found at i:98531247 original size:43 final size:43
Alignment explanation
Indices: 98531174--98531263 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
98531164 GGCATTTTAG
* * *
98531174 TGCATCATCGGATAAACTGAAAGAAATATACTGACACACATAA
1 TGCATAATCGAATAAACCGAAAGAAATATACTGACACACATAA
* *
98531217 TGCATAATCGAATAAACCG-AAGAATGTATACTGACACACATAG
1 TGCATAATCGAATAAACCGAAAGAA-ATATACTGACACACATAA
98531260 TGCA
1 TGCA
98531264 CCATCAGATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (43 bp):
TGCATAATCGAATAAACCGAAAGAAATATACTGACACACATAA
Found at i:98532348 original size:15 final size:15
Alignment explanation
Indices: 98532320--98532356 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
98532310 TTATATAGTA
98532320 TAATTAAAGATTAAT
1 TAATTAAAGATTAAT
* *
98532335 TAATTTAAGCTTAAT
1 TAATTAAAGATTAAT
98532350 TAATTAA
1 TAATTAA
98532357 CCATTAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (15 bp):
TAATTAAAGATTAAT
Found at i:98536154 original size:7 final size:7
Alignment explanation
Indices: 98536142--98536173 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
98536132 AAAAAGTAGT
98536142 CTGTCTC
1 CTGTCTC
98536149 CTGTCTC
1 CTGTCTC
98536156 CTGTCTC
1 CTGTCTC
98536163 CTGTCTC
1 CTGTCTC
98536170 CTGT
1 CTGT
98536174 TTATATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.41, G:0.16, T:0.44
Consensus pattern (7 bp):
CTGTCTC
Found at i:98536455 original size:2 final size:2
Alignment explanation
Indices: 98536448--98536482 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
98536438 GGAAGCCGCT
98536448 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
98536483 AAGGCAAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:98536853 original size:16 final size:16
Alignment explanation
Indices: 98536832--98536862 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
98536822 GGTTCGCTGT
98536832 AATGGAATAGAGGTGG
1 AATGGAATAGAGGTGG
98536848 AATGGAATAGAGGTG
1 AATGGAATAGAGGTG
98536863 TAATAGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.19
Consensus pattern (16 bp):
AATGGAATAGAGGTGG
Found at i:98536912 original size:45 final size:44
Alignment explanation
Indices: 98536848--98536935 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 44
98536838 ATAGAGGTGG
*
98536848 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAATGT
* ***
98536893 AATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAATG
1 AATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAATG
98536936 GAATAGAGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 18 0.47
45 20 0.53
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAATGT
Found at i:98536950 original size:39 final size:42
Alignment explanation
Indices: 98536847--98536954 Score: 123
Period size: 39 Copynumber: 2.6 Consensus size: 42
98536837 AATAGAGGTG
98536847 GAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAAT
1 GAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--AT
* * ***
98536891 GTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-T
1 G-AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTAT
98536931 GAATGGAATAGAGGTGTAATAGCA
1 GAATGGAATAGAGGTGTAATAGCA
98536955 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 12 0.22
45 20 0.36
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.31
Consensus pattern (42 bp):
GAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTAT
Found at i:98537118 original size:16 final size:15
Alignment explanation
Indices: 98537088--98537124 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
98537078 TTTTAACATA
*
98537088 ATTATTATTAAATAT
1 ATTATAATTAAATAT
98537103 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
98537117 A-TATAATT
1 ATTATAATT
98537125 TTATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:98537439 original size:24 final size:27
Alignment explanation
Indices: 98537388--98537440 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
98537378 TATATGTAAT
*
98537388 ATTATTAAAATAATATTTTTTATTTTA
1 ATTATTAAAATAATATTTTTTATATTA
*
98537415 ATTATTTAAA-AATA-TTTTTA-ATTA
1 ATTATTAAAATAATATTTTTTATATTA
98537439 AT
1 AT
98537441 GCGGTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 4 0.17
27 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTAAAATAATATTTTTTATATTA
Found at i:98540882 original size:32 final size:31
Alignment explanation
Indices: 98540832--98540919 Score: 124
Period size: 32 Copynumber: 2.7 Consensus size: 31
98540822 TCTGACACCT
98540832 TTTTATTTTCTTTTTCTTTTATTTTCATATTTC
1 TTTT-TTTT-TTTTTCTTTTATTTTCATATTTC
98540865 TTTTGTTTTTTTTTCTTTTATTTTCATATTTC
1 TTTT-TTTTTTTTTCTTTTATTTTCATATTTC
*
98540897 TTTTTTTTTTACTT-TTTTATTTT
1 TTTTTTTTTT-TTTCTTTTATTTT
98540920 GTTCCTTAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
31 15 0.29
32 29 0.56
33 8 0.15
ACGTcount: A:0.10, C:0.09, G:0.01, T:0.80
Consensus pattern (31 bp):
TTTTTTTTTTTTTCTTTTATTTTCATATTTC
Found at i:98540960 original size:11 final size:10
Alignment explanation
Indices: 98540940--98541011 Score: 56
Period size: 10 Copynumber: 6.8 Consensus size: 10
98540930 AAATTTTATC
98540940 TTTTTATTTT
1 TTTTTATTTT
*
98540950 TTTTTA-CTT
1 TTTTTATTTT
*
98540959 TTTTGATTTT
1 TTTTTATTTT
98540969 TTTCTTATTTCATT
1 TTT-TTA-TT--TT
98540983 TTGTTTATTTT
1 TT-TTTATTTT
*
98540994 GTTTTATTTT
1 TTTTTATTTT
*
98541004 TTATTATT
1 TTTTTATT
98541012 AACTTTAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
9 7 0.14
10 25 0.51
11 5 0.10
12 2 0.04
13 2 0.04
14 7 0.14
15 1 0.02
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:98540984 original size:24 final size:24
Alignment explanation
Indices: 98540957--98541002 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
98540947 TTTTTTTTAC
*
98540957 TTTT-TTGATTTTTTTCTTATTTCA
1 TTTTGTTGATTTTGTT-TTATTTCA
*
98540981 TTTTGTTTATTTTGTTTTATTT
1 TTTTGTTGATTTTGTTTTATTT
98541003 TTTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (24 bp):
TTTTGTTGATTTTGTTTTATTTCA
Found at i:98540984 original size:48 final size:48
Alignment explanation
Indices: 98540865--98540984 Score: 122
Period size: 48 Copynumber: 2.5 Consensus size: 48
98540855 TTCATATTTC
* *
98540865 TTTTG-TTTTTTT-TTCTTTTATTTTCATATTTCTTTTTTTTTTACTT
1 TTTTGATTTTTTTCTTATTTAATTTTCATATTTCTTTTTTTTTTACTT
* * * * *
98540911 TTTT-ATTTTGTTCCTTAATAAATTTT-ATCTTTTTATTTTTTTTTACTT
1 TTTTGATTTT-TTTCTTATTTAATTTTCATATTTCT-TTTTTTTTTACTT
*
98540959 TTTTGATTTTTTTCTTATTTCATTTT
1 TTTTGATTTTTTTCTTATTTAATTTT
98540985 GTTTATTTTG
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
46 8 0.14
47 8 0.14
48 37 0.64
49 5 0.09
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.76
Consensus pattern (48 bp):
TTTTGATTTTTTTCTTATTTAATTTTCATATTTCTTTTTTTTTTACTT
Found at i:98541058 original size:28 final size:29
Alignment explanation
Indices: 98541021--98541082 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 29
98541011 TAACTTTAAA
98541021 ATGATATAATATAATAT-TTTTTTTAATT
1 ATGATATAATATAATATATTTTTTTAATT
*
98541049 ATGATCTAATATAATATATTTTTTTAATT
1 ATGATATAATATAATATATTTTTTTAATT
98541078 ATGAT
1 ATGAT
98541083 TGGTTTATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 16 0.50
29 16 0.50
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (29 bp):
ATGATATAATATAATATATTTTTTTAATT
Found at i:98542056 original size:12 final size:10
Alignment explanation
Indices: 98542030--98542108 Score: 52
Period size: 11 Copynumber: 7.4 Consensus size: 10
98542020 AACAAAATAA
*
98542030 AAAAGTAAAAT
1 AAAAG-AAAAG
98542041 AAAAGAAATATG
1 AAAAGAAA-A-G
*
98542053 AAAATAAAAG
1 AAAAGAAAAG
*
98542063 AAAA-AAAAC
1 AAAAGAAAAG
98542072 AAAAGAAATATG
1 AAAAGAAA-A-G
*
98542084 AAAATAAAAG
1 AAAAGAAAAG
*
98542094 AAAAAGAAAAC
1 -AAAAGAAAAG
98542105 AAAA
1 AAAA
98542109 AGGTGTCAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
9 8 0.15
10 16 0.29
11 17 0.31
12 14 0.25
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:98542058 original size:17 final size:17
Alignment explanation
Indices: 98542036--98542096 Score: 92
Period size: 17 Copynumber: 3.8 Consensus size: 17
98542026 ATAAAAAAGT
98542036 AAAATAAAAGAAATATG
1 AAAATAAAAGAAATATG
98542053 AAAATAAAAGAAA-A--
1 AAAATAAAAGAAATATG
*
98542067 AAAACAAAAGAAATATG
1 AAAATAAAAGAAATATG
98542084 AAAATAAAAGAAA
1 AAAATAAAAGAAA
98542097 AAGAAAACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
14 12 0.31
15 1 0.03
16 1 0.03
17 25 0.64
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.11
Consensus pattern (17 bp):
AAAATAAAAGAAATATG
Found at i:98542103 original size:5 final size:5
Alignment explanation
Indices: 98542030--98542108 Score: 52
Period size: 5 Copynumber: 14.8 Consensus size: 5
98542020 AACAAAATAA
* * *
98542030 AAAAG TAAAAT AAAAG AAATATG AAAAT AAAAG AAAA- AAAAC AAAAG
1 AAAAG -AAAAG AAAAG AAA-A-G AAAAG AAAAG AAAAG AAAAG AAAAG
* *
98542077 AAATATG AAAAT AAAAG AAAAAG AAAAC AAAA
1 AAA-A-G AAAAG AAAAG -AAAAG AAAAG AAAA
98542109 AGGTGTCAGC
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
4 4 0.07
5 34 0.58
6 13 0.22
7 8 0.14
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (5 bp):
AAAAG
Found at i:98542110 original size:17 final size:16
Alignment explanation
Indices: 98542029--98542108 Score: 83
Period size: 17 Copynumber: 4.9 Consensus size: 16
98542019 GAACAAAATA
98542029 AAAAAGTAAAATAAAAG
1 AAAAAG-AAAATAAAAG
*
98542046 AAATATGAAAATAAAAG
1 AAA-AAGAAAATAAAAG
*
98542063 -AAAA-AAAACAAAAG
1 AAAAAGAAAATAAAAG
*
98542077 AAATATGAAAATAAAAG
1 AAA-AAGAAAATAAAAG
*
98542094 AAAAAGAAAACAAAA
1 AAAAAGAAAATAAAA
98542109 AGGTGTCAGC
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
14 9 0.17
15 3 0.06
16 13 0.25
17 25 0.48
18 2 0.04
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAAAGAAAATAAAAG
Found at i:98545132 original size:9 final size:9
Alignment explanation
Indices: 98545118--98545150 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
98545108 AATGAAGGAA
98545118 TTGAGAGAG
1 TTGAGAGAG
98545127 TTGAGAGAG
1 TTGAGAGAG
*
98545136 TTGAGAGAA
1 TTGAGAGAG
98545145 TTGAGA
1 TTGAGA
98545151 ATTTAGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.39, T:0.24
Consensus pattern (9 bp):
TTGAGAGAG
Found at i:98545300 original size:2 final size:2
Alignment explanation
Indices: 98545287--98545353 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
98545277 TTCAACTCAA
* *
98545287 AC AC AC AT AC AC AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
98545329 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
98545354 TATACATACA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:98551043 original size:14 final size:15
Alignment explanation
Indices: 98551024--98551053 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
98551014 GAAGGGATAC
98551024 TTTGTTT-TTTCTTT
1 TTTGTTTGTTTCTTT
98551038 TTTGTTTGTTTCTTT
1 TTTGTTTGTTTCTTT
98551053 T
1 T
98551054 ATTAGATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (15 bp):
TTTGTTTGTTTCTTT
Found at i:98559254 original size:7 final size:7
Alignment explanation
Indices: 98559239--98559269 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
98559229 AACAATTTAA
*
98559239 TTTAATT
1 TTTATTT
98559246 TTTATTT
1 TTTATTT
98559253 TTTATTT
1 TTTATTT
98559260 TTTATTT
1 TTTATTT
98559267 TTT
1 TTT
98559270 GGATTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:98560685 original size:5 final size:5
Alignment explanation
Indices: 98560669--98560706 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
98560659 ATCGCATTTT
*
98560669 TAATA TATTA TAATA TAATA TAATA TAATA TAATA TAA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAA
98560707 AGATATAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:98566117 original size:5 final size:5
Alignment explanation
Indices: 98566109--98566353 Score: 95
Period size: 5 Copynumber: 45.4 Consensus size: 5
98566099 ATTTTTTTAT
* *
98566109 TTTCA TTTCA TTTCA TTTC- TTCCA TTTCA TTTCA TTTGTA TTTCTA TTTCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTT-CA TTTC-A TTTCA
* *
98566160 TTTCA TTTACA TTTCTA TTTCA TTTAAA TTTTA -TT-A TTTCTCA TTTCA
1 TTTCA TTT-CA TTTC-A TTTCA TTT-CA TTTCA TTTCA -TT-TCA TTTCA
** ** * * *
98566208 GTTTTTT TTTCA TTTCA GTTTTTT TTTCA TTTCAA TTTATAA TTTTA TTTTTA
1 --TTTCA TTTCA TTTCA --TTTCA TTTCA TTTC-A -TT-TCA TTTCA -TTTCA
* * *
98566261 TTTAAA CTTTCA TTCCA TTTCA TAATCA --TCA TTTCA TTTCA TTTCA
1 TTT-CA -TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA TTTCA TTTCA
* * *
98566307 TTATAAA TTACA TTTCA TTTCA TATTCA TTTAA TTTTTCA TTTCA TT
1 TT-T-CA TTTCA TTTCA TTTCA T-TTCA TTTCA --TTTCA TTTCA TT
98566354 AATTTTTTTC
Statistics
Matches: 185, Mismatches: 27, Indels: 56
0.69 0.10 0.21
Matches are distributed among these distances:
3 4 0.02
4 5 0.03
5 110 0.59
6 45 0.24
7 20 0.11
8 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.01, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:98566160 original size:22 final size:21
Alignment explanation
Indices: 98566109--98566184 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 21
98566099 ATTTTTTTAT
98566109 TTTCATTTCATTTCATTTCTTCCA
1 TTTCATTTCATTTCATTTC-T--A
*
98566133 TTTCATTTCATTTGTATTTCTA
1 TTTCATTTCATTT-CATTTCTA
98566155 TTTCATTTCATTTACATTTCTA
1 TTTCATTTCATTT-CATTTCTA
98566177 TTTCATTT
1 TTTCATTT
98566185 AAATTTTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
22 29 0.60
24 14 0.29
25 5 0.10
ACGTcount: A:0.18, C:0.18, G:0.01, T:0.62
Consensus pattern (21 bp):
TTTCATTTCATTTCATTTCTA
Found at i:98566222 original size:17 final size:17
Alignment explanation
Indices: 98566200--98566241 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
98566190 TTATTATTTC
98566200 TCATTTCAGTTTTTTTT
1 TCATTTCAGTTTTTTTT
98566217 TCATTTCAGTTTTTTTT
1 TCATTTCAGTTTTTTTT
98566234 TCATTTCA
1 TCATTTCA
98566242 ATTTATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.14, C:0.14, G:0.05, T:0.67
Consensus pattern (17 bp):
TCATTTCAGTTTTTTTT
Found at i:98566241 original size:22 final size:21
Alignment explanation
Indices: 98566095--98566224 Score: 76
Period size: 22 Copynumber: 6.2 Consensus size: 21
98566085 TAACATGTCC
*
98566095 TTTCATTT--TTTTATTTTCA
1 TTTCATTTCATTTTTTTTTCA
* *
98566114 TTTCATTTCA--TTTCTTCCA
1 TTTCATTTCATTTTTTTTTCA
* *
98566133 TTTCATTTCATTTGTATTTCTA
1 TTTCATTTCATTTTTTTTTC-A
***
98566155 TTTCATTTCATTTACATTTCTA
1 TTTCATTTCATTTTTTTTTC-A
*
98566177 TTTCATTTAAATTTTATTATTTC-
1 TTTCATTT-CATTTT-TT-TTTCA
98566200 --TCATTTCAGTTTTTTTTTCA
1 TTTCATTTCA-TTTTTTTTTCA
98566220 TTTCA
1 TTTCA
98566225 GTTTTTTTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
19 28 0.33
20 3 0.03
21 15 0.17
22 32 0.37
23 4 0.05
25 4 0.05
ACGTcount: A:0.19, C:0.15, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTCATTTCATTTTTTTTTCA
Found at i:98566361 original size:17 final size:18
Alignment explanation
Indices: 98566324--98566360 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
98566314 TTACATTTCA
98566324 TTTCATATTCATTTAATT
1 TTTCATATTCATTTAATT
98566342 TTTCAT-TTCA-TTAATT
1 TTTCATATTCATTTAATT
98566358 TTT
1 TTT
98566361 TTCATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 4 0.21
18 6 0.32
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTCATATTCATTTAATT
Found at i:98566716 original size:115 final size:112
Alignment explanation
Indices: 98566486--98566691 Score: 274
Period size: 115 Copynumber: 1.8 Consensus size: 112
98566476 TATTATTAAA
* * * *
98566486 TGTACTTGGTGTCGGCCATTACATGTCCAACACCCAATTTTTTTTTTAAAATACACTGATGCCAG
1 TGTACTTGGTGGCGACCATTACATGGCCAACACCAAATTTTTTTTTTAAAATACACTGATGCCAG
*
98566551 CCATCAGTGTTCCAAAATAAATAAAAAATGTATTGAAAGCCGAAAAT
66 CCATCAGTGTCCCAAAATAAATAAAAAATGTATTGAAAGCCGAAAAT
* *
98566598 TGTACTTGGTGGCGACCATTACATGGCCAGCACTCAAAAGTTATTTTTTTT-AAATACACTGGTG
1 TGTACTTGGTGGCGACCATTACATGGCCAACAC-C-AAA-TT-TTTTTTTTAAAATACACTGATG
*
98566662 CC-GCTCATCAGTGTCCCAAAGTAAA-AAAAA
62 CCAGC-CATCAGTGTCCCAAAATAAATAAAAA
98566692 TGTGCCTTGG
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
112 29 0.36
113 1 0.01
114 9 0.11
115 34 0.42
116 8 0.10
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (112 bp):
TGTACTTGGTGGCGACCATTACATGGCCAACACCAAATTTTTTTTTTAAAATACACTGATGCCAG
CCATCAGTGTCCCAAAATAAATAAAAAATGTATTGAAAGCCGAAAAT
Found at i:98577026 original size:5 final size:5
Alignment explanation
Indices: 98577016--98577047 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
98577006 GCGTTTGTGA
98577016 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
98577048 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:98577041 original size:9 final size:9
Alignment explanation
Indices: 98577017--98577047 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
98577007 CGTTTGTGAA
98577017 AAATAAAAT
1 AAATAAAAT
98577026 AAAATAAAAT
1 -AAATAAAAT
98577036 AAATAAAAT
1 AAATAAAAT
98577045 AAA
1 AAA
98577048 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:98581477 original size:5 final size:5
Alignment explanation
Indices: 98581467--98581499 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
98581457 CAATTTGTGA
98581467 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
98581500 AATACACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:98581487 original size:14 final size:14
Alignment explanation
Indices: 98581468--98581498 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
98581458 AATTTGTGAA
98581468 AAATAAAATAAAAT
1 AAATAAAATAAAAT
98581482 AAATAAAATAAAAT
1 AAATAAAATAAAAT
98581496 AAA
1 AAA
98581499 AAATACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:98583828 original size:11 final size:11
Alignment explanation
Indices: 98583805--98583835 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
98583795 ATATTAATAA
98583805 TAAATTGTTTTT
1 TAAATT-TTTTT
98583817 TAAATTTTTTT
1 TAAATTTTTTT
98583828 TAAATTTT
1 TAAATTTT
98583836 AAAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TAAATTTTTTT
Found at i:98585005 original size:3 final size:3
Alignment explanation
Indices: 98584957--98584988 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
98584947 ACAATAACTA
98584957 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
98584989 AACATCGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:98588502 original size:4 final size:4
Alignment explanation
Indices: 98588493--98588519 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
98588483 ATTATGCCTT
98588493 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
98588520 CAATATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:98592224 original size:19 final size:19
Alignment explanation
Indices: 98592200--98592254 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
98592190 AATGCCTTTT
98592200 TTTGCATTAATTTCATTCA
1 TTTGCATTAATTTCATTCA
98592219 TTTGCATTACATTTCA-TCA
1 TTTGCATTA-ATTTCATTCA
*
98592238 TATGCATTAAGTTTCAT
1 TTTGCATTAA-TTTCAT
98592255 AAAAAAAGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.03
19 25 0.78
20 6 0.19
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.49
Consensus pattern (19 bp):
TTTGCATTAATTTCATTCA
Found at i:98594019 original size:48 final size:48
Alignment explanation
Indices: 98593941--98594166 Score: 191
Period size: 48 Copynumber: 4.9 Consensus size: 48
98593931 CACATGGTAG
* * *
98593941 GATGCCAATGCCATATCCCCGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * ** *
98593989 GATGCCAATGCCATGTCCCAAACATAGTCTTACATGGGAT-GTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * *
98594036 GATGCGAATGCTATGTCTCAGACACGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * ** *
98594084 GATGTCGAT---A-G-CCCAG-CTATGGTCTTACACGAAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
**
98594127 GATGCCCAA-GTAATGTCCCAGACAT-GTCTTACATGGGATC
1 GATG-CCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
98594167 GTACATAGCC
Statistics
Matches: 137, Mismatches: 32, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
42 1 0.01
43 28 0.20
44 3 0.02
45 1 0.01
46 1 0.01
47 50 0.36
48 52 0.38
49 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:98594052 original size:47 final size:48
Alignment explanation
Indices: 98593967--98594087 Score: 145
Period size: 47 Copynumber: 2.5 Consensus size: 48
98593957 CCCCGATATG
* *
98593967 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAAACATA
1 GTCTTACATGGGATCACAGATCGATGCCAATGCCATGTCCCAAACACA
** * * * * *
98594015 GTCTTACATGGGAT-GTAGATCGATGCGAATGCTATGTCTCAGACACG
1 GTCTTACATGGGATCACAGATCGATGCCAATGCCATGTCCCAAACACA
*
98594062 GTCTTACATGGGATCACATATCGATG
1 GTCTTACATGGGATCACAGATCGATG
98594088 TCGATAGCCC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
47 38 0.63
48 22 0.37
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (48 bp):
GTCTTACATGGGATCACAGATCGATGCCAATGCCATGTCCCAAACACA
Found at i:98595858 original size:23 final size:25
Alignment explanation
Indices: 98595831--98595876 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
98595821 TAACATTCAT
*
98595831 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
98595854 TTCATCATTTCCATATATTTTAT
1 TTCATCATATCCATATATTTTAT
98595877 ATATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 2 0.11
25 9 0.47
ACGTcount: A:0.28, C:0.15, G:0.02, T:0.54
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:98596198 original size:46 final size:47
Alignment explanation
Indices: 98596138--98596273 Score: 179
Period size: 46 Copynumber: 3.0 Consensus size: 47
98596128 TTTGACGTGA
* * * * * *
98596138 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
98596184 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
98596230 TGTCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
98596274 AGAGCACACT
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 3 0.04
46 77 0.96
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:98611902 original size:18 final size:18
Alignment explanation
Indices: 98611879--98611914 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
98611869 TCCAGGCCGT
98611879 GTTGATTTCGTACTTTGG
1 GTTGATTTCGTACTTTGG
98611897 GTTGATTTCGTACTTTGG
1 GTTGATTTCGTACTTTGG
98611915 CCCATTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.28, T:0.50
Consensus pattern (18 bp):
GTTGATTTCGTACTTTGG
Found at i:98613469 original size:3 final size:3
Alignment explanation
Indices: 98613463--98613500 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
98613453 AATAATAATA
*
98613463 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
98613501 AAGAAAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:98613574 original size:21 final size:21
Alignment explanation
Indices: 98613550--98613633 Score: 70
Period size: 21 Copynumber: 4.0 Consensus size: 21
98613540 ATCTAATTTT
98613550 TAAAAT-A-AATAGATAGATGAA
1 TAAAATAATAATA-ATAGAT-AA
98613571 TAAAATAATAATAATAGATAA
1 TAAAATAATAATAATAGATAA
**
98613592 TAAAATGGTAATAATA-ATAA
1 TAAAATAATAATAATAGATAA
*
98613612 -AAATATAAATAA-AATAAATAA
1 TAAA-AT-AATAATAATAGATAA
98613633 T
1 T
98613634 GAAAGAAAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
19 3 0.06
20 10 0.19
21 29 0.55
22 7 0.13
23 4 0.08
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.27
Consensus pattern (21 bp):
TAAAATAATAATAATAGATAA
Found at i:98613621 original size:24 final size:24
Alignment explanation
Indices: 98613576--98613621 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
98613566 ATGAATAAAA
*
98613576 TAATAATAATAGATAATAAAATGG
1 TAATAATAATAGAAAATAAAATGG
98613600 TAATAATAATA-AAAATATAAAT
1 TAATAATAATAGAAAATA-AAAT
98613622 AAAATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (24 bp):
TAATAATAATAGAAAATAAAATGG
Found at i:98613646 original size:17 final size:17
Alignment explanation
Indices: 98613623--98613664 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
98613613 AATATAAATA
98613623 AAATAAATAA-TG-AAAG
1 AAATAAA-AATTGAAAAG
98613639 AAAGTAAAAATTGAAAAG
1 AAA-TAAAAATTGAAAAG
98613657 AAATAAAA
1 AAATAAAA
98613665 GAACGATAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 11 0.48
18 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (17 bp):
AAATAAAAATTGAAAAG
Found at i:98615655 original size:14 final size:14
Alignment explanation
Indices: 98615636--98615684 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
98615626 AATCACTCGG
98615636 CATAAAGATAGGAC
1 CATAAAGATAGGAC
*
98615650 CATAAA-AT-GGATT
1 CATAAAGATAGGA-C
98615663 C-TAAAGATAGGAC
1 CATAAAGATAGGAC
98615676 CATAAAGAT
1 CATAAAGAT
98615685 CAGTGGAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 7 0.24
13 6 0.21
14 16 0.55
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.20
Consensus pattern (14 bp):
CATAAAGATAGGAC
Found at i:98615872 original size:44 final size:44
Alignment explanation
Indices: 98615749--98615887 Score: 127
Period size: 44 Copynumber: 3.2 Consensus size: 44
98615739 AACGTAGCGG
* * **
98615749 ATCTTATCTCCCTGAAG-TGTAGTGGAGCAAATTAAAGCCACAA
1 ATCTCATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGTAACAA
* * ** * * ** *
98615792 ACCTCATATCCCTGAAGTTGCGGTAGAGTAGGTTGAAGTTACAA
1 ATCTCATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGTAACAA
* *
98615836 ATCTCATCTCCCTGATGTTGTAGTGGAGCAAATTGAAGATAACGA
1 ATCTCATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAG-TAACAA
98615881 ATCTCAT
1 ATCTCAT
98615888 TTCTCTAAAG
Statistics
Matches: 71, Mismatches: 23, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
43 14 0.20
44 46 0.65
45 11 0.15
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
ATCTCATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGTAACAA
Found at i:98616013 original size:95 final size:96
Alignment explanation
Indices: 98615828--98616029 Score: 237
Period size: 95 Copynumber: 2.1 Consensus size: 96
98615818 AGTAGGTTGA
* * *
98615828 AGTTACAAATCTCATCTCCCTGATGTTGTAGTGGAGCAAATTGAAGATAACGAATCTCATTTCTC
1 AGTTACAAATCTCATCTCCCTAATGTTGCAGTGGAGCAAATTGAAGATAACGAATCTCATTTCCC
98615893 TAAAGTTGCAATGGAACAGATTAAAGCTACG
66 TAAAGTTGCAATGGAACAGATTAAAGCTACG
* * * * * * *
98615924 AGTTATAAATCTTATCTCCCTAAAT-TTGCAGTGGAGTAGATTGAGGAT-GCGAATCTTATTTCC
1 AGTTACAAATCTCATCTCCCT-AATGTTGCAGTGGAGCAAATTGAAGATAACGAATCTCATTTCC
* * * * *
98615987 CTGAAGTTTCAGTGGAATAGATTAAAGCTACA
65 CTAAAGTTGCAATGGAACAGATTAAAGCTACG
*
98616019 AGTCACAAATC
1 AGTTACAAATC
98616030 CTAAACCCCT
Statistics
Matches: 88, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
95 48 0.55
96 38 0.43
97 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (96 bp):
AGTTACAAATCTCATCTCCCTAATGTTGCAGTGGAGCAAATTGAAGATAACGAATCTCATTTCCC
TAAAGTTGCAATGGAACAGATTAAAGCTACG
Found at i:98616062 original size:95 final size:95
Alignment explanation
Indices: 98615878--98616050 Score: 204
Period size: 95 Copynumber: 1.8 Consensus size: 95
98615868 TTGAAGATAA
* * * * * *
98615878 CGAATCTCATTTCTCTAAAGTTGCAATGGAACAGATTAAAGCTACGAGTTATAAATCTTATCTCC
1 CGAATCTCATTTCCCTAAAGTTGCAATGGAACAGATTAAAGCTACAAGTCACAAATCTAAACTCC
* *
98615943 CTAAATTTGCAGTGGAGTAGATTGAGGATG
66 CTAAAGTTGCACTGGAGTAGATTGAGGATG
* * * * *
98615973 CGAATCTTATTTCCCTGAAGTTTCAGTGGAATAGATTAAAGCTACAAGTCACAAATCCTAAAC-C
1 CGAATCTCATTTCCCTAAAGTTGCAATGGAACAGATTAAAGCTACAAGTCACAAAT-CTAAACTC
*
98616037 CCTGAAGTTGCACT
65 CCTAAAGTTGCACT
98616051 AGGATGGATT
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
95 59 0.94
96 4 0.06
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (95 bp):
CGAATCTCATTTCCCTAAAGTTGCAATGGAACAGATTAAAGCTACAAGTCACAAATCTAAACTCC
CTAAAGTTGCACTGGAGTAGATTGAGGATG
Found at i:98616111 original size:50 final size:51
Alignment explanation
Indices: 98615975--98616120 Score: 147
Period size: 50 Copynumber: 2.9 Consensus size: 51
98615965 TGAGGATGCG
* * *
98615975 AATCTTATTTCCCTGAAGTTTCAGTGGAATAGATTAAAG-CTACAAGTCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGTC-ACAAGTCACA
* * * * * *
98616026 AATCCTAAAC-CCCTGAAGTTGCACTAGG-ATGGATTGAAGTCAC-CGTGACA
1 AAT-CTTATCTCCCTGAAGTTGCAGT-GGAATAGATTGAAGTCACAAGTCACA
*
98616076 AATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGTCACAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGTCACAA
98616121 ATCTCATCTC
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
49 6 0.08
50 35 0.47
51 27 0.36
52 6 0.08
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (51 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGTCACAAGTCACA
Found at i:98616136 original size:44 final size:44
Alignment explanation
Indices: 98616073--98616158 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
98616063 AGTCACCGTG
* *
98616073 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGTC
1 ACAAATCTCATCTCCCTGAAGTTGCAGTAGAAAAGATTGAAGTC
* **
98616117 ACAAATCTCATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAG
1 ACAAATCTCATCTCCCTGAAGTTGCAGTAGAAAAGATTGAAG
98616159 ATAGTGAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
ACAAATCTCATCTCCCTGAAGTTGCAGTAGAAAAGATTGAAGTC
Found at i:98616315 original size:44 final size:45
Alignment explanation
Indices: 98616222--98616320 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 45
98616212 TCTTATTTCA
* * * * * *
98616222 CTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAGTCTTATCTCCT
1 CTGAAGTTGTAATGGAGTAGATTGAAACAACAAATCTTATCACCT
* *
98616267 -TGAAGTTGTAATGGAGTAGATTTAAACAACAAATTTTAT-ACCT
1 CTGAAGTTGTAATGGAGTAGATTGAAACAACAAATCTTATCACCT
98616310 CTGAAGTTGTA
1 CTGAAGTTGTA
98616321 GAGAAGCACC
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
43 3 0.07
44 42 0.93
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.33
Consensus pattern (45 bp):
CTGAAGTTGTAATGGAGTAGATTGAAACAACAAATCTTATCACCT
Found at i:98616731 original size:24 final size:24
Alignment explanation
Indices: 98616703--98616754 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
98616693 TGGTGACAAA
98616703 TGTATGGTGATGAATTATTACATG
1 TGTATGGTGATGAATTATTACATG
98616727 TGTATGGTGATGAATTATTACATG
1 TGTATGGTGATGAATTATTACATG
98616751 TGTA
1 TGTA
98616755 CATGTGTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (24 bp):
TGTATGGTGATGAATTATTACATG
Found at i:98623709 original size:26 final size:24
Alignment explanation
Indices: 98623662--98623709 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
98623652 TTCAACTTTA
*
98623662 TTAACTCCTTATTTTTTCTCTCTC
1 TTAACTCCTGATTTTTTCTCTCTC
98623686 TTAACTCTCTGATTTTTTCT-TCTC
1 TTAACTC-CTGATTTTTTCTCTCTC
98623710 CCCACAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.12, C:0.27, G:0.02, T:0.58
Consensus pattern (24 bp):
TTAACTCCTGATTTTTTCTCTCTC
Found at i:98626963 original size:23 final size:23
Alignment explanation
Indices: 98626935--98626988 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
98626925 ATGATTTAAA
98626935 AAAATATTCATATTTATATAAT-T
1 AAAATATTCATATTT-TATAATAT
* *
98626958 AAAATAATCATATTTTATATTAT
1 AAAATATTCATATTTTATAATAT
98626981 AAAATATT
1 AAAATATT
98626989 TATAAATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
AAAATATTCATATTTTATAATAT
Found at i:98630235 original size:16 final size:16
Alignment explanation
Indices: 98630214--98630244 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98630204 GATATTTTAA
98630214 TATATTATATTAATAT
1 TATATTATATTAATAT
*
98630230 TATATTATGTTAATA
1 TATATTATATTAATA
98630245 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:98630341 original size:12 final size:12
Alignment explanation
Indices: 98630324--98630354 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
98630314 GAAGCAGGGG
98630324 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
98630336 AGAAAAAGGGAA
1 AGAAAAAGAGAA
98630348 AGAAAAA
1 AGAAAAA
98630355 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:98637867 original size:16 final size:16
Alignment explanation
Indices: 98637848--98637878 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98637838 ATATGTTTAA
98637848 TATATTATATTAATAT
1 TATATTATATTAATAT
*
98637864 TATATTATGTTAATA
1 TATATTATATTAATA
98637879 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:98637976 original size:12 final size:12
Alignment explanation
Indices: 98637959--98637989 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
98637949 GAAGCAGGGG
98637959 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
98637971 AGAAAAAGGGAA
1 AGAAAAAGAGAA
98637983 AGAAAAA
1 AGAAAAA
98637990 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:98639143 original size:21 final size:23
Alignment explanation
Indices: 98639101--98639143 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
98639091 CAATATTCCG
*
98639101 GGTGTGTTTGGGTTGGATATCCT
1 GGTGTGTTTGGGATGGATATCCT
98639124 GGTGTGTTT-GGATGGA-ATCC
1 GGTGTGTTTGGGATGGATATCC
98639144 GCGTATCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.12, C:0.09, G:0.40, T:0.40
Consensus pattern (23 bp):
GGTGTGTTTGGGATGGATATCCT
Found at i:98648303 original size:30 final size:30
Alignment explanation
Indices: 98648260--98648326 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
98648250 ATGTTATATT
* * *
98648260 AAAAAGTATATCTTTTAATAAAAATAGAAAA
1 AAAAATTATATCTTTCAAAAAAAATA-AAAA
98648291 AAAAATTA-ATCTTTCAAAAAAAATAAAAA
1 AAAAATTATATCTTTCAAAAAAAATAAAAA
*
98648320 ATAAATT
1 AAAAATT
98648327 TTTTTATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 10 0.31
30 15 0.47
31 7 0.22
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.28
Consensus pattern (30 bp):
AAAAATTATATCTTTCAAAAAAAATAAAAA
Found at i:98648673 original size:13 final size:13
Alignment explanation
Indices: 98648655--98648691 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
98648645 CAACCCGCCC
98648655 ATATTAATTTTTT
1 ATATTAATTTTTT
*
98648668 ATATTATTTTTTT
1 ATATTAATTTTTT
*
98648681 ATATAAATTTT
1 ATATTAATTTT
98648692 AAATATACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:98650692 original size:61 final size:61
Alignment explanation
Indices: 98650597--98650728 Score: 246
Period size: 61 Copynumber: 2.2 Consensus size: 61
98650587 ATCTCTGGCT
98650597 TTTCATGCTTCACATAACACTCAGCCTTATAAACAATTTTACTGTGCATGAAAGAAAAACA
1 TTTCATGCTTCACATAACACTCAGCCTTATAAACAATTTTACTGTGCATGAAAGAAAAACA
* *
98650658 TTTCATGCTTCACATAACACTCAGCCTTATAAACAATTTTATTGTGCATGAAAGAATAACA
1 TTTCATGCTTCACATAACACTCAGCCTTATAAACAATTTTACTGTGCATGAAAGAAAAACA
98650719 TTTCATGCTT
1 TTTCATGCTT
98650729 GAGCTCTAGG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 69 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.33
Consensus pattern (61 bp):
TTTCATGCTTCACATAACACTCAGCCTTATAAACAATTTTACTGTGCATGAAAGAAAAACA
Found at i:98660121 original size:12 final size:12
Alignment explanation
Indices: 98660104--98660131 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
98660094 TTTAAGATAA
98660104 AATAATGAGTAT
1 AATAATGAGTAT
98660116 AATAATGAGTAT
1 AATAATGAGTAT
98660128 AATA
1 AATA
98660132 CTGCAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.32
Consensus pattern (12 bp):
AATAATGAGTAT
Found at i:98660871 original size:19 final size:18
Alignment explanation
Indices: 98660843--98660879 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
98660833 AAATATATAA
*
98660843 TAATATTTTATATTTCTT
1 TAATATTTTATAATTCTT
98660861 TAATGATTTTATAATTCTT
1 TAAT-ATTTTATAATTCTT
98660880 GTTATTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (18 bp):
TAATATTTTATAATTCTT
Found at i:98664620 original size:27 final size:27
Alignment explanation
Indices: 98664579--98664655 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
98664569 AGTGAGTCAT
98664579 ATCGGGAAGCTCACAAAGAGCCAATTTA
1 ATCGGGAAGCTCACAAAGAGCC-ATTTA
98664607 AT-GGGAAGCTCACAAAGAGCC-TTTA
1 ATCGGGAAGCTCACAAAGAGCCATTTA
* *
98664632 ATCAGGAAGCTCACGAAGAGCCAT
1 ATCGGGAAGCTCACAAAGAGCCAT
98664656 ATAACAGAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
25 6 0.13
26 17 0.38
27 20 0.44
28 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
ATCGGGAAGCTCACAAAGAGCCATTTA
Found at i:98665123 original size:21 final size:21
Alignment explanation
Indices: 98665097--98665138 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
98665087 TAAAATTAAC
*
98665097 TCAATTTAATACAATTCACAT
1 TCAATTCAATACAATTCACAT
* *
98665118 TCAATTCCATCCAATTCACAT
1 TCAATTCAATACAATTCACAT
98665139 CCTAGGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (21 bp):
TCAATTCAATACAATTCACAT
Found at i:98665124 original size:11 final size:11
Alignment explanation
Indices: 98665108--98665140 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
98665098 CAATTTAATA
*
98665108 CAATTCACATT
1 CAATTCACATC
98665119 CAATTC-CATC
1 CAATTCACATC
98665129 CAATTCACATC
1 CAATTCACATC
98665140 C
1 C
98665141 TAGGAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.30
Consensus pattern (11 bp):
CAATTCACATC
Found at i:98685543 original size:30 final size:30
Alignment explanation
Indices: 98685498--98685554 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
98685488 GTAACCTTAA
*
98685498 TATAATGTCAACTTGTGTAAGCAACTTTAT
1 TATAATATCAACTTGTGTAAGCAACTTTAT
* *
98685528 TATAATATCAGCTTGTGTGAGCAACTT
1 TATAATATCAACTTGTGTAAGCAACTT
98685555 ATTCCCGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (30 bp):
TATAATATCAACTTGTGTAAGCAACTTTAT
Found at i:98697374 original size:17 final size:17
Alignment explanation
Indices: 98697354--98697387 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
98697344 AGGCTTAGGT
98697354 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
98697371 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
98697388 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:98705704 original size:21 final size:21
Alignment explanation
Indices: 98705674--98705718 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
98705664 GAAGGATCAA
98705674 ATGCTAGAGTC-CTAGAAAAAC
1 ATGCTAGAGTCAC-AGAAAAAC
* *
98705695 ATGCTGGAGTCACAGAACAAC
1 ATGCTAGAGTCACAGAAAAAC
98705716 ATG
1 ATG
98705719 ATGAGCCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (21 bp):
ATGCTAGAGTCACAGAAAAAC
Found at i:98712654 original size:15 final size:14
Alignment explanation
Indices: 98712630--98712666 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
98712620 AAAGGGCGCC
98712630 AAAAAAAATAAAAA
1 AAAAAAAATAAAAA
98712644 AAAATAAAATAAAAA
1 AAAA-AAAATAAAAA
98712659 AGAAAAAA
1 A-AAAAAA
98712667 GGGAGAGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.19
15 14 0.67
16 3 0.14
ACGTcount: A:0.89, C:0.00, G:0.03, T:0.08
Consensus pattern (14 bp):
AAAAAAAATAAAAA
Found at i:98713726 original size:135 final size:135
Alignment explanation
Indices: 98713484--98714196 Score: 1057
Period size: 135 Copynumber: 5.3 Consensus size: 135
98713474 AAAGACAGAT
* * * * * *
98713484 ATCATCAGCCTTATCTTTACTGAGCAGGAGTGGAGCAGGTTAAACATACCCGATCTTATCTTCAC
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
* *
98713549 TGAGCAGGAGTGAAGCAGATCGAGTTTTGAAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
98713614 TTCCA
131 TTCCA
*
98713619 ATCATCAACCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
*
98713684 TGAGCAAGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
98713749 TTCCA
131 TTCCA
* *
98713754 ATCATCAACCTTATCTTCACTGAGCATGAGTGGAGTAGGCTAAATATACCAGATCTTATCTTCAT
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
* *
98713819 TGAGCAGGAGTGAAGTAGATCGAATTTTGGAGAATCTTATCTCCATGTACCGGCGATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
98713884 TTCCA
131 TTCCA
98713889 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
* ** **
98713954 TGAGCAAGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATTAAATAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
98714019 TTCCA
131 TTCCA
* * * **
98714024 ATCATCAGCTTTATCTTCGCTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCGC
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
* * * * * * * * * *
98714089 TGAGCAGGAGTGGAGCAGACCAAATTTCGGTGAATCTTATCTCCATGGATCGACAATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
*
98714154 TTTCA
131 TTCCA
** * * * *
98714159 GCCACCAATCTTATTTTCACTAAGCAGGAGTGGAGCAG
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAG
98714197 ATCAGATTTC
Statistics
Matches: 523, Mismatches: 55, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
135 523 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (135 bp):
ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
TTCCA
Found at i:98715936 original size:46 final size:46
Alignment explanation
Indices: 98715886--98716061 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
98715876 TGGTTGAGCA
98715886 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
98715932 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
98715977 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
98716025 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
98716062 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:98716042 original size:93 final size:93
Alignment explanation
Indices: 98715883--98716054 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
98715873 GGATGGTTGA
* *
98715883 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
98715948 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
98715976 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
98716041 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
98716055 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:98718542 original size:17 final size:17
Alignment explanation
Indices: 98718520--98718562 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
98718510 GTTATATTAT
98718520 TATTTTTTACTAATAAG
1 TATTTTTTACTAATAAG
* *
98718537 TATTTTTATACTATTTAG
1 TATTTTT-TACTAATAAG
98718555 T-TTTTTTA
1 TATTTTTTA
98718563 AGCTCATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 12 0.52
18 9 0.39
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (17 bp):
TATTTTTTACTAATAAG
Found at i:98720555 original size:18 final size:17
Alignment explanation
Indices: 98720523--98720567 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
98720513 TATCATAGGG
**
98720523 TTTTAAAATTTTATAAA
1 TTTTAAAATAATATAAA
*
98720540 TATTTTAAATAATATAAA
1 T-TTTAAAATAATATAAA
98720558 TTTTAAAATA
1 TTTTAAAATA
98720568 TATTAGAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTAAAATAATATAAA
Found at i:98720583 original size:27 final size:27
Alignment explanation
Indices: 98720528--98720584 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
98720518 TAGGGTTTTA
*
98720528 AAATTTTATAAATATTTTAAATAATAT
1 AAATTTTATAAATATTTGAAATAATAT
98720555 AAATTTTA-AAATATATTAGAAATAA-AT
1 AAATTTTATAAATAT-TT-GAAATAATAT
98720582 AAA
1 AAA
98720585 AAATATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 6 0.22
27 15 0.56
28 6 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
AAATTTTATAAATATTTGAAATAATAT
Found at i:98727070 original size:16 final size:16
Alignment explanation
Indices: 98727046--98727079 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
98727036 ACGCGATAAG
*
98727046 TAATATTACATTTCAA
1 TAATATTACATTCCAA
*
98727062 TAATTTTACATTCCAA
1 TAATATTACATTCCAA
98727078 TA
1 TA
98727080 GTCAAATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATATTACATTCCAA
Found at i:98730659 original size:37 final size:37
Alignment explanation
Indices: 98730574--98730659 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 37
98730564 ACATGTCACT
* *
98730574 TTTTAATATATATTAAGTAAATACCATTTCCATGTCA
1 TTTTAATATATATCAAGTAAATACCATTTCCAAGTCA
* * *
98730611 TGTTTCA-ATATATCATGTAAATATCATTTCCAAGT-A
1 T-TTTAATATATATCAAGTAAATACCATTTCCAAGTCA
98730647 TTTTAAGTATATA
1 TTTTAA-TATATA
98730660 CCGATAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
35 4 0.10
36 2 0.05
37 30 0.75
38 4 0.10
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (37 bp):
TTTTAATATATATCAAGTAAATACCATTTCCAAGTCA
Found at i:98732499 original size:16 final size:16
Alignment explanation
Indices: 98732478--98732530 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
98732468 TTCGTCTTTC
98732478 TCTTTTTCTTTTTCTT
1 TCTTTTTCTTTTTCTT
* **
98732494 TCTTTTTCGTTTGGTT
1 TCTTTTTCTTTTTCTT
*
98732510 T-TTTATTCTGTTTCTT
1 TCTTT-TTCTTTTTCTT
98732526 TCTTT
1 TCTTT
98732531 ATTTGTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
15 3 0.11
16 22 0.79
17 3 0.11
ACGTcount: A:0.02, C:0.15, G:0.08, T:0.75
Consensus pattern (16 bp):
TCTTTTTCTTTTTCTT
Found at i:98732550 original size:5 final size:5
Alignment explanation
Indices: 98732540--98732630 Score: 91
Period size: 5 Copynumber: 18.4 Consensus size: 5
98732530 TATTTGTTTT
*
98732540 TATAA TATAA TATAA TATAA TATAA TATAG TATAA TATAA TATAA TAT-A
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * *
98732589 TATAC T-TAA -ACATT TATAA TAT-A TATAA TAATATA TATAA TA
1 TATAA TATAA TATA-A TATAA TATAA TATAA T-ATA-A TATAA TA
98732631 AACTTATATC
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
4 11 0.15
5 50 0.70
6 8 0.11
7 2 0.03
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (5 bp):
TATAA
Done.