Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 129 of 185
Found at i:40281431 original size:22 final size:21
Alignment explanation
Indices: 40281404--40281444 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
40281394 ATTGTTATTG
*
40281404 TTATTAAATTTTAATATAATTA
1 TTATTAAATTATAA-ATAATTA
40281426 TTATTAAATTATAAATAAT
1 TTATTAAATTATAAATAAT
40281445 AAATAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATTAAATTATAAATAATTA
Found at i:40281461 original size:11 final size:10
Alignment explanation
Indices: 40281447--40281532 Score: 63
Period size: 11 Copynumber: 8.6 Consensus size: 10
40281437 TAAATAATAA
40281447 ATAATTTAAT
1 ATAATTTAAT
40281457 CATAATTTAAT
1 -ATAATTTAAT
40281468 ATAA-TT-AT
1 ATAATTTAAT
*
40281476 -T-ATTGAAT
1 ATAATTTAAT
40281484 ATAATTTAAT
1 ATAATTTAAT
* * *
40281494 AAAAATAATAT
1 ATAATTTA-AT
40281505 ATAATTTAAT
1 ATAATTTAAT
*
40281515 AATATTTTTAAT
1 -ATA-ATTTAAT
40281527 ATAATT
1 ATAATT
40281533 ATTTTTATAA
Statistics
Matches: 58, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
6 1 0.02
7 2 0.03
8 4 0.07
9 3 0.05
10 19 0.33
11 23 0.40
12 6 0.10
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (10 bp):
ATAATTTAAT
Found at i:40281473 original size:21 final size:20
Alignment explanation
Indices: 40281447--40281532 Score: 63
Period size: 21 Copynumber: 4.3 Consensus size: 20
40281437 TAAATAATAA
40281447 ATAATTTAATCATAATTTAAT
1 ATAATTTAAT-ATAATTTAAT
*
40281468 ATAA-TT-AT-T-ATTGAAT
1 ATAATTTAATATAATTTAAT
* * *
40281484 ATAATTTAATAAAAATAATAT
1 ATAATTTAATATAATTTA-AT
*
40281505 ATAATTTAATAATATTTTTAAT
1 ATAATTTAAT-ATA-ATTTAAT
40281527 ATAATT
1 ATAATT
40281533 ATTTTTATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
16 10 0.20
17 3 0.06
18 2 0.04
19 2 0.04
20 5 0.10
21 16 0.32
22 10 0.20
23 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (20 bp):
ATAATTTAATATAATTTAAT
Found at i:40281514 original size:26 final size:26
Alignment explanation
Indices: 40281439--40281504 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
40281429 TTAAATTATA
40281439 AATAATAAATAAT-TT-AATCATAATTT
1 AATAA-AAATAATATTGAAT-ATAATTT
* * *
40281465 AATATAATTATTATTGAATATAATTT
1 AATAAAAATAATATTGAATATAATTT
40281491 AATAAAAATAATAT
1 AATAAAAATAATAT
40281505 ATAATTTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
25 5 0.16
26 24 0.75
27 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
AATAAAAATAATATTGAATATAATTT
Found at i:40281531 original size:17 final size:18
Alignment explanation
Indices: 40281504--40281553 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
40281494 AAAAATAATA
* *
40281504 TATAATTTAATAATATTT
1 TATAATATAATTATATTT
40281522 T-TAATATAATTAT-TTT
1 TATAATATAATTATATTT
40281538 TATAATA-AATTATATT
1 TATAATATAATTATATT
40281554 AAATTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 10 0.36
17 17 0.61
18 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATAATATAATTATATTT
Found at i:40281556 original size:10 final size:10
Alignment explanation
Indices: 40281537--40281566 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
40281527 ATAATTATTT
*
40281537 TTATAATAAA
1 TTATATTAAA
40281547 TTATATTAAA
1 TTATATTAAA
40281557 TTATATTAAA
1 TTATATTAAA
40281567 ATATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTATATTAAA
Found at i:40281786 original size:22 final size:22
Alignment explanation
Indices: 40281761--40281803 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
40281751 ACACTAAAAC
*
40281761 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
*
40281783 AGGCCTTTAGCGGTGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
40281804 AGCGCCGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:40282023 original size:43 final size:43
Alignment explanation
Indices: 40281969--40282050 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
40281959 CACTTTAGTG
**
40281969 GAAGCGCCGCTAAAGACCCTGATCTTTAACGGCGTTTTTGGGA
1 GAAGCGCCGCTAAAGACCAGGATCTTTAACGGCGTTTTTGGGA
* * * *
40282012 GAAGCGTCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTT
1 GAAGCGCCGCTAAAGACCAGGATCTTTAACGGCGTTTTT
40282051 ATCCCAAACG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (43 bp):
GAAGCGCCGCTAAAGACCAGGATCTTTAACGGCGTTTTTGGGA
Found at i:40282132 original size:43 final size:41
Alignment explanation
Indices: 40282034--40282367 Score: 250
Period size: 43 Copynumber: 7.8 Consensus size: 41
40282024 AAGATCAGGG
* *
40282034 TCTTTAGCGGCGTTTTTATCC-CAAACGCCAC-AATAGACCCTGA
1 TCTTTAGCGGCG-CTTTA-CCACAAACGCCACTAA-AGAACCT-A
* * *
40282077 TCTATAGTGGCGCTTATACCAGAAACGCCACTAAAGAACCTA
1 TCTTTAGCGGCGCTT-TACCACAAACGCCACTAAAGAACCTA
* ** * *
40282119 TTCTTTAGCGGCGCTTTCCCTGAAACGCCGC-AATAGACCCTGA
1 -TCTTTAGCGGCGCTTTACCACAAACGCCACTAA-AGAACCT-A
* *
40282162 TCTATAGCGGCGCTTTGACCACAAACGCCGC-AATAG-ACTCTGA
1 TCTTTAGCGGCGCTTT-ACCACAAACGCCACTAA-AGAAC-CT-A
* *
40282205 TCTGTAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAA
1 TCTTTAGCGGCGCTT-TACCACAAACGCCACTAAAGAACCT-A
* *
40282248 TCTTTAGCGGCGCTTT-CTCACAAACGCCGCTAAAG-ACCAAGA
1 TCTTTAGCGGCGCTTTAC-CACAAACGCCACTAAAGAACC--TA
* * * *
40282290 TCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTTA
1 TCTTTAGCGGCGC-TTTACCACAAACGCCACTAAAGAACC-TA
*
40282333 TCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAA
1 TCTTTAGCGGCGCTTT-ACCACAAACGCCACTAAA
40282368 AAGGCCAACA
Statistics
Matches: 241, Mismatches: 32, Indels: 36
0.78 0.10 0.12
Matches are distributed among these distances:
41 6 0.02
42 71 0.29
43 155 0.64
44 9 0.04
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.23
Consensus pattern (41 bp):
TCTTTAGCGGCGCTTTACCACAAACGCCACTAAAGAACCTA
Found at i:40282213 original size:85 final size:83
Alignment explanation
Indices: 40282055--40282367 Score: 296
Period size: 85 Copynumber: 3.7 Consensus size: 83
40282045 GTTTTTATCC
* * *
40282055 CAAACGCCAC-AATAGACCCTGATCTATAGTGGCGCTTATACCAGAAACGCCACTAAAGAACCT-
1 CAAACGCCACTAA-AGACCCTGATCTATAGCGGCGCTT-TACCACAAACGCCGCTAAAG-ACCTG
*
40282118 ATTCTTTAGCGGCGCTTTCCCT
63 A-TCTTTAGCGGCGCTTTCCCA
* *
40282140 GAAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCGC-AATAGACTCT
1 CAAACGCCACTAA-AGACCCTGATCTATAGCGGCGCTTT-ACCACAAACGCCGCTAA-AGAC-CT
*
40282203 GATCTGTAGCGGCGC-TTCGACCA
62 GATCTTTAGCGGCGCTTTC--CCA
* * * *
40282226 CAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTT-CTCACAAACGCCGCTAAAGACCAAGA
1 CAAACGCCACTAAAGACCCTGATCTATAGCGGCGCTTTAC-CACAAACGCCGCTAAAGACC-TGA
* *
40282290 TCTTTAGTGGCGCTTTTTCCA
64 TCTTTAGCGGCGC-TTTCCCA
* * * * *
40282311 CAAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAA
1 CAAACGCCACTAAAGACCCTGATCTATAGCGGCGCTTT-ACCACAAACGCCGCTAAA
40282368 AAGGCCAACA
Statistics
Matches: 193, Mismatches: 21, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
84 10 0.05
85 129 0.67
86 49 0.25
87 5 0.03
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (83 bp):
CAAACGCCACTAAAGACCCTGATCTATAGCGGCGCTTTACCACAAACGCCGCTAAAGACCTGATC
TTTAGCGGCGCTTTCCCA
Found at i:40282217 original size:128 final size:127
Alignment explanation
Indices: 40282019--40282367 Score: 407
Period size: 128 Copynumber: 2.7 Consensus size: 127
40282009 GGAGAAGCGT
* * * * * *
40282019 CGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTATCC-CAAACGCCACAATAGACCCTGATCTATA
1 CGCTAAAGACCAAGATCTATAGCGGCGCTTTTA-CCACAAACGCCGCAATAGACCCTGATCTATA
* * * **
40282083 GTGGCGCTTATACCAGAAACGCCACTAAAGAACCTATTCTTTAGCGGCGCTTTCCCTGAAACGC
65 GCGGCGCTT-TACCAAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCACAAACGC
** * * *
40282147 CGC-AATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCGCAATAGACTCTGATCTGTA
1 CGCTAA-AGACCAAGATCTATAGCGGCGCTTTTACCACAAACGCCGCAATAGACCCTGATCTATA
* * *
40282211 GCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCTCACAAACGC
65 GCGGCGCTT-TACCAAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCACAAACGC
* * * * *
40282275 CGCTAAAGACCAAGATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAA-AGACCCTTATCTTTA
1 CGCTAAAGACCAAGATCTATAGCGGCGCTTTTACCACAAACGCCGC-AATAGACCCTGATCTATA
40282339 GCGGCGCTTTGACCAAAAACGCCACTAAA
65 GCGGCGCTTT-ACCAAAAACGCCACTAAA
40282368 AAGGCCAACA
Statistics
Matches: 187, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
127 4 0.02
128 179 0.96
129 4 0.02
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (127 bp):
CGCTAAAGACCAAGATCTATAGCGGCGCTTTTACCACAAACGCCGCAATAGACCCTGATCTATAG
CGGCGCTTTACCAAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCACAAACGC
Found at i:40282446 original size:41 final size:41
Alignment explanation
Indices: 40282398--40282478 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
40282388 CATTTTTTTT
40282398 AAAAAAACGCCACTAAATTTGGCAAATTTGTAAAACAAATA
1 AAAAAAACGCCACTAAATTTGGCAAATTTGTAAAACAAATA
*
40282439 AAAAAAACGCCACTAAATTTGGCAAATTTGTAAAATAAAT
1 AAAAAAACGCCACTAAATTTGGCAAATTTGTAAAACAAAT
40282479 TTTTTTATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.53, C:0.14, G:0.10, T:0.23
Consensus pattern (41 bp):
AAAAAAACGCCACTAAATTTGGCAAATTTGTAAAACAAATA
Found at i:40282805 original size:21 final size:21
Alignment explanation
Indices: 40282763--40282854 Score: 94
Period size: 21 Copynumber: 4.4 Consensus size: 21
40282753 TTTGACGCTA
**
40282763 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
40282784 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
40282805 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
40282826 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
40282847 ATCTGCTT
1 CTCTGCTT
40282855 TAAGCTGCTG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.04, C:0.42, G:0.17, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:40282993 original size:66 final size:65
Alignment explanation
Indices: 40282825--40282995 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
40282815 CTCGCTGCCG
* * * * * *
40282825 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTGTTCATACTTTTGTTGA
1 CCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGTTG-TGCTGGAGTTCTTCATACTTTTGTTGA
40282890 A
65 A
* *
40282891 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTT-TTG
1 CCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGTTGT-GCTGGAGTTCTTCATA-CTTTTGTTG
40282955 AA
64 AA
* * *
40282957 CTTCAGCTTCTCTCGATGTTGCATCCGCTTTAAGTTGTG
1 CCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGTTGTG
40282996 TAATTTGCTC
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 85 0.92
67 5 0.05
ACGTcount: A:0.13, C:0.26, G:0.20, T:0.42
Consensus pattern (65 bp):
CCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGTTGTGCTGGAGTTCTTCATACTTTTGTTGAA
Found at i:40285616 original size:16 final size:16
Alignment explanation
Indices: 40285595--40285638 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
40285585 ATTAAGCTAC
40285595 GTAAGTTATGTATTAT
1 GTAAGTTATGTATTAT
*
40285611 GTAAGTTATTTATTAT
1 GTAAGTTATGTATTAT
* *
40285627 GAAAATTATGTA
1 GTAAGTTATGTA
40285639 AGTTGTGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:40285634 original size:25 final size:25
Alignment explanation
Indices: 40285606--40285745 Score: 99
Period size: 25 Copynumber: 5.7 Consensus size: 25
40285596 TAAGTTATGT
*
40285606 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
40285631 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* * * *
40285656 AGTATGCTATG-TAAG--TTATGTAA
1 ATTATG-TAAGTTATGTATTATGAAA
* ** * * *
40285679 GTCGTATAAGTTATGTAAGT-TGTAA
1 ATTATGTAAGTTATGT-ATTATGAAA
* *
40285704 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
40285729 ATTAAGTAAGTTATGTA
1 ATTATGTAAGTTATGTA
40285746 ATTTACGAAT
Statistics
Matches: 85, Mismatches: 24, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
22 3 0.04
23 11 0.13
24 2 0.02
25 65 0.76
26 4 0.05
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.44
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:40285675 original size:9 final size:9
Alignment explanation
Indices: 40285663--40285795 Score: 86
Period size: 9 Copynumber: 15.7 Consensus size: 9
40285653 AAAAGTATGC
40285663 TATGTAAGT
1 TATGTAAGT
40285672 TATGTAAGT
1 TATGTAAGT
** *
40285681 CGTATAAGT
1 TATGTAAGT
40285690 TATGTAAG-
1 TATGTAAGT
40285698 T-TGTAAGT
1 TATGTAAGT
40285706 TATGTAAGT
1 TATGTAAGT
*
40285715 TAT-TTA-T
1 TATGTAAGT
* *
40285722 TATGAAAAT
1 TATGTAAGT
*
40285731 TAAGTAAGT
1 TATGTAAGT
*
40285740 TATGTAATT
1 TATGTAAGT
*
40285749 TACG-AA--
1 TATGTAAGT
* **
40285755 TATTTAAAAA
1 TATGT-AAGT
40285765 TATGTAAGT
1 TATGTAAGT
40285774 TATGTAAG-
1 TATGTAAGT
40285782 T-TGTAAGT
1 TATGTAAGT
40285790 TATGTA
1 TATGTA
40285796 TAATATTAAA
Statistics
Matches: 94, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
6 2 0.02
7 16 0.17
8 11 0.12
9 61 0.65
10 4 0.04
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.43
Consensus pattern (9 bp):
TATGTAAGT
Found at i:40285690 original size:18 final size:16
Alignment explanation
Indices: 40285667--40285717 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
40285657 GTATGCTATG
40285667 TAAGTTATGTAAGTCGTA
1 TAAGTTATGTAAGT--TA
*
40285685 TAAGTTATGTAAGTTG
1 TAAGTTATGTAAGTTA
40285701 TAAGTTATGTAAGTTA
1 TAAGTTATGTAAGTTA
40285717 T
1 T
40285718 TTATTATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 17 0.55
18 14 0.45
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (16 bp):
TAAGTTATGTAAGTTA
Found at i:40285793 original size:25 final size:26
Alignment explanation
Indices: 40285663--40285829 Score: 82
Period size: 25 Copynumber: 6.6 Consensus size: 26
40285653 AAAAGTATGC
* *
40285663 TATGTAAGTTATGTAAGTCGTATAAGT
1 TATGTAAGTTATGTAAGT-ATGTAAGT
40285690 TATGTAAG-T-TGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAG-TATGTAAGT
* * * *
40285715 TAT-TTA-TTATGAAAATTAAGTAAGT
1 TATGTAAGTTATG-TAAGTATGTAAGT
* * * **
40285740 TATGTAATTTACG-AA-TATTTAAAAA
1 TATGTAAGTTATGTAAGTATGT-AAGT
40285765 TATGTAAGTTATGTAAGT-TGTAAGT
1 TATGTAAGTTATGTAAGTATGTAAGT
* * **
40285790 TATGTATA-ATAT-TAAATAACTAAGT
1 TATGTA-AGTTATGTAAGTATGTAAGT
*
40285815 TATGTAATTTATGTA
1 TATGTAAGTTATGTA
40285830 TAATATTAAT
Statistics
Matches: 105, Mismatches: 22, Indels: 27
0.68 0.14 0.18
Matches are distributed among these distances:
24 11 0.10
25 68 0.65
26 13 0.12
27 13 0.12
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (26 bp):
TATGTAAGTTATGTAAGTATGTAAGT
Found at i:40285801 original size:34 final size:34
Alignment explanation
Indices: 40285663--40285801 Score: 101
Period size: 34 Copynumber: 4.1 Consensus size: 34
40285653 AAAAGTATGC
* *
40285663 TATGTAAGTTATGTAAGTCGTATAAGTTATGT-AAG
1 TATGTAAGTTATGTAAGT--TGTAAGTTATGTAAAA
* *
40285698 T-TGTAAGTTATGTAAGTTATTTA-TTATG-AAAA
1 TATGTAAGTTATGTAAGTT-GTAAGTTATGTAAAA
* * * *
40285730 TTAAGTAAGTTATGTAA-TT-TACGAATATTTAAAAA
1 -TATGTAAGTTATGTAAGTTGTAAG-TTATGT-AAAA
*
40285765 TATGTAAGTTATGTAAGTTGTAAGTTATGTATAA
1 TATGTAAGTTATGTAAGTTGTAAGTTATGTAAAA
40285799 TAT
1 TAT
40285802 TAAATAACTA
Statistics
Matches: 81, Mismatches: 13, Indels: 21
0.70 0.11 0.18
Matches are distributed among these distances:
31 1 0.01
32 8 0.10
33 8 0.10
34 50 0.62
35 11 0.14
36 3 0.04
ACGTcount: A:0.38, C:0.01, G:0.17, T:0.43
Consensus pattern (34 bp):
TATGTAAGTTATGTAAGTTGTAAGTTATGTAAAA
Found at i:40285851 original size:31 final size:30
Alignment explanation
Indices: 40285783--40286568 Score: 706
Period size: 31 Copynumber: 26.2 Consensus size: 30
40285773 TTATGTAAGT
*
40285783 TGTAAGTTATGTATAATATTAAATAACTAAGTTA
1 TGTAATTTATGTATAATATT-AAT---TAAGTTA
*
40285817 TGTAATTTATGTATAATATTAATGTATGTTA
1 TGTAATTTATGTATAATATTAAT-TAAGTTA
* *
40285848 TGTAATTTATGTATATTAACTAATTAAGTTA
1 TGTAATTTATGTATAAT-ATTAATTAAGTTA
* * *
40285879 TGTAATTTATGTACATTAACTAATTAAGTTA
1 TGTAATTTATGTATAAT-ATTAATTAAGTTA
*
40285910 TGTAATTTATGCATAATATTAATGTAAGTTA
1 TGTAATTTATGTATAATATTAAT-TAAGTTA
* *
40285941 TGT-A--TA-ATACTAA-A-TAACTAAGTTA
1 TGTAATTTATGTA-TAATATTAATTAAGTTA
*
40285966 TGTAATTTATGTATAATATTAATGTATGTTA
1 TGTAATTTATGTATAATATTAAT-TAAGTTA
* *
40285997 TGTAATTTATGTATATTAACTAATTAAGTTA
1 TGTAATTTATGTATAAT-ATTAATTAAGTTA
* *
40286028 TGTAATTTATGTATATTAACTAATTAAGTTA
1 TGTAATTTATGTATAAT-ATTAATTAAGTTA
* * *
40286059 TGTAATTTATGTATATTAACTAATTATGTTA
1 TGTAATTTATGTATAAT-ATTAATTAAGTTA
40286090 TGTAATTTATGTATAATATTAATGTAAGTTA
1 TGTAATTTATGTATAATATTAAT-TAAGTTA
* * *
40286121 TGT-A-TAATAT-TAA-A-TAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTTA
* *
40286146 CGTAATTTATGTATAATATTAATGTATGTTA
1 TGTAATTTATGTATAATATTAAT-TAAGTTA
* *
40286177 TGTAATTTATGTATATTAACTAATTAAGTTA
1 TGTAATTTATGTATAAT-ATTAATTAAGTTA
* *
40286208 TGTAATTTATGTATATTAACTAATTAAGTTA
1 TGTAATTTATGTATAAT-ATTAATTAAGTTA
* * *
40286239 TGTAATTTATGTATATTAACTAATTATGTTA
1 TGTAATTTATGTATAAT-ATTAATTAAGTTA
* * *
40286270 TGTAATTTATATATATTAACTAATTAAGTTA
1 TGTAATTTATGTATAAT-ATTAATTAAGTTA
40286301 TGTAATTTATGTATAATATTAATGTAAGTTA
1 TGTAATTTATGTATAATATTAAT-TAAGTTA
* * *
40286332 TGT-A-TAATAT-TAA-A-TAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTTA
*
40286357 TGTAATTTATGTATAATATTAATGTATGTTA
1 TGTAATTTATGTATAATATTAAT-TAAGTTA
* * *
40286388 TGT-A--TA-ATATTA-ATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTTA
* *
40286413 TGTAATTTATGTAGAATATTAATGTATGTTA
1 TGTAATTTATGTATAATATTAAT-TAAGTTA
* *
40286444 TGTAATTTATGTATATTAACTAATTAAGTTA
1 TGTAATTTATGTATAAT-ATTAATTAAGTTA
*
40286475 TGTAATTTATGTATAACATTAATGTAAGTTA
1 TGTAATTTATGTATAATATTAAT-TAAGTTA
* * *
40286506 TGT-A--TA-ATATTA-ATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAAGTTA
* *
40286531 TGTAATTTATGTATATTAACTAATGTAAGTTA
1 TGTAATTTATGTATAAT-ATTAAT-TAAGTTA
40286563 TGTAAT
1 TGTAAT
40286569 ATCTTATATT
Statistics
Matches: 638, Mismatches: 73, Indels: 84
0.80 0.09 0.11
Matches are distributed among these distances:
25 48 0.08
26 24 0.04
27 20 0.03
28 30 0.05
29 19 0.03
30 39 0.06
31 403 0.63
32 33 0.05
33 3 0.00
34 19 0.03
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (30 bp):
TGTAATTTATGTATAATATTAATTAAGTTA
Found at i:40286030 original size:180 final size:178
Alignment explanation
Indices: 40285783--40286568 Score: 949
Period size: 180 Copynumber: 4.4 Consensus size: 178
40285773 TTATGTAAGT
* * * *
40285783 TGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAAT-ATTAATGTATGTT
1 TGTAAGTTATGTATAATATT-AAT--CTATGTTATGTAATTTATGTATATTAACTAAT-TAAGTT
* *
40285847 ATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTACATTAACTAATTAAGTTATG
62 ATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAATTATGTTATG
* *
40285912 TAATTTATGCATAAT-ATTAATGTAAGTTATGT-ATAATACTAAATAACTAAGTT-A
127 TAATTTATGTATAATAACTAAT-TAAGTTATGTAAT-ATA-TAAATAACT-A-TTAA
* *
40285966 TGTAATTTATGTATAATATTAATGTATGTTATGTAATTTATGTATATTAACTAATTAAGTTATGT
1 TGTAAGTTATGTATAATATTAATCTATGTTATGTAATTTATGTATATTAACTAATTAAGTTATGT
40286031 AATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAATTATGTTATGTAAT
66 AATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAATTATGTTATGTAAT
*
40286096 TTATGTATAAT-ATTAATGTAAGTTATGT-ATAATATTAAATAACTAAGTT-A
131 TTATGTATAATAACTAAT-TAAGTTATGTAAT-ATA-TAAATAACT-A-TTAA
* * *
40286146 CGTAATTTATGTATAATATTAATGTATGTTATGTAATTTATGTATATTAACTAATTAAGTTATGT
1 TGTAAGTTATGTATAATATTAATCTATGTTATGTAATTTATGTATATTAACTAATTAAGTTATGT
40286211 AATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAATTATGTTATGTAAT
66 AATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAATTATGTTATGTAAT
* * * **
40286276 TTATATATATTAACTAATTAAGTTATGTAATTTATGTATAA-TATTAA
131 TTATGTATAATAACTAATTAAGTTATGTAATATATAAATAACTATTAA
*
40286323 TGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATG--TA-TAA-T-ATTAA-TGT
1 TGTAAGTTATGTATAATATT-AAT--CTATGTTATGTAATTTATGTATATTAACTAATTAAGT-T
* * * * * * * *
40286382 ATGTTATGTAT-AATATTAATTAACTAAGTTATGTAATTTATGTAGAAT-ATTAATGTATGTTAT
62 ATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAAT-TATGTTAT
* * **
40286445 GTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAAC-ATTAA
126 GTAATTTATGTATAATAACTAATTAAGTTATGTAATATATAAATAACTATTAA
*
40286497 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATATTAACTAATGTAAGTT
1 TGTAAGTTATGTATAATATTAA-T--CTATGTTATGTAATTTATGTATATTAACTAAT-TAAGTT
40286562 ATGTAAT
62 ATGTAAT
40286569 ATCTTATATT
Statistics
Matches: 554, Mismatches: 31, Indels: 39
0.89 0.05 0.06
Matches are distributed among these distances:
173 7 0.01
174 133 0.24
175 15 0.03
176 5 0.01
177 26 0.05
178 7 0.01
179 7 0.01
180 319 0.58
181 13 0.02
182 3 0.01
183 19 0.03
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (178 bp):
TGTAAGTTATGTATAATATTAATCTATGTTATGTAATTTATGTATATTAACTAATTAAGTTATGT
AATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAATTATGTTATGTAAT
TTATGTATAATAACTAATTAAGTTATGTAATATATAAATAACTATTAA
Found at i:40286114 original size:22 final size:22
Alignment explanation
Indices: 40286089--40286133 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
40286079 TAATTATGTT
*
40286089 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
40286111 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
40286133 A
1 A
40286134 ATAACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:40286325 original size:22 final size:22
Alignment explanation
Indices: 40286300--40286344 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
40286290 TAATTAAGTT
*
40286300 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
40286322 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
40286344 A
1 A
40286345 ATAACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:40286355 original size:56 final size:56
Alignment explanation
Indices: 40286220--40286566 Score: 426
Period size: 56 Copynumber: 6.0 Consensus size: 56
40286210 TAATTTATGT
* * * *
40286220 ATATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAATT-ATGTTATGTAATTTATA
1 ATATTAACTAACTAAGTTATGTAATTTATG--TA-TAA-T-ATTAATG-TAAGTTATGTATA
*
40286281 TATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
1 -ATATTAACTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
* *
40286338 ATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAATGTATGTTATGTATA
1 ATATTAACTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
* * *
40286394 ATATTAATTAACTAAGTTATGTAATTTATGTAGAATATTAATGTATGTTATGTAATTTA
1 ATATTAACTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT-A--TA
* *
40286453 TGTATATTAACTAATTAAGTTATGTAATTTATGTATAACATTAATGTAAGTTATGTATA
1 ---ATATTAACTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
* * *
40286512 ATATTAATTAACTAAGTTATGTAATTTATGTATATTAACTAATGTAAGTTATGTA
1 ATATTAACTAACTAAGTTATGTAATTTATGTATAAT-ATTAATGTAAGTTATGTA
40286567 ATATCTTATA
Statistics
Matches: 259, Mismatches: 18, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
56 136 0.53
57 31 0.12
58 4 0.02
59 7 0.03
60 2 0.01
61 1 0.00
62 78 0.30
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.47
Consensus pattern (56 bp):
ATATTAACTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
Found at i:40286437 original size:22 final size:21
Alignment explanation
Indices: 40286412--40286519 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 21
40286402 TAACTAAGTT
40286412 ATGTAATTTATGTAGAATATTA
1 ATGTAATTTATGTA-AATATTA
40286434 ATGT-ATGTTATGT-AAT-TT-
1 ATGTAAT-TTATGTAAATATTA
** *
40286452 ATGT-ATATTAACTAATTAAGTT-
1 ATGTAAT-TTATGTAAAT-A-TTA
*
40286474 ATGTAATTTATGTATAACATTA
1 ATGTAATTTATGTA-AATATTA
*
40286496 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTA-AATATTA
40286518 AT
1 AT
40286520 TAACTAAGTT
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
18 10 0.15
19 4 0.06
20 3 0.04
21 4 0.06
22 44 0.65
23 3 0.04
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (21 bp):
ATGTAATTTATGTAAATATTA
Found at i:40289451 original size:34 final size:36
Alignment explanation
Indices: 40289404--40289472 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
40289394 CAACTTTTAA
*
40289404 TTTGTAATATTATAATATTT-ATTTT-TTGTATAAAG
1 TTTGAAATATTATAATATTTAATTTTATTG-ATAAAG
40289439 TTTGAAAT-TTATAATATTTAATTTTATTGATAAA
1 TTTGAAATATTATAATATTTAATTTTATTGATAAA
40289473 TAAATAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 11 0.35
35 17 0.55
36 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (36 bp):
TTTGAAATATTATAATATTTAATTTTATTGATAAAG
Found at i:40289670 original size:16 final size:16
Alignment explanation
Indices: 40289645--40289675 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40289635 AACCCCCTAA
*
40289645 CCCCTTACCCCTAAAT
1 CCCCTAACCCCTAAAT
40289661 CCCCTAACCCCTAAA
1 CCCCTAACCCCTAAA
40289676 CATCAAATTT
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:0.29, C:0.52, G:0.00, T:0.19
Consensus pattern (16 bp):
CCCCTAACCCCTAAAT
Found at i:40291160 original size:15 final size:15
Alignment explanation
Indices: 40291140--40291177 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
40291130 TTGAAATTAA
40291140 CCCTAAATCT-TAAAC
1 CCCTAAATCTCT-AAC
*
40291155 CCCTAAACCTCTAAC
1 CCCTAAATCTCTAAC
40291170 CCCTAAAT
1 CCCTAAAT
40291178 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (15 bp):
CCCTAAATCTCTAAC
Found at i:40291737 original size:41 final size:41
Alignment explanation
Indices: 40291692--40292051 Score: 303
Period size: 41 Copynumber: 8.8 Consensus size: 41
40291682 AGGTAAATAC
* * * * ** *
40291692 ATTAGCGGCGCTTAGATACAAACGCCGCTGAAGACAAGCGA
1 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGACCCGAGA
* ** * * *
40291733 ATTAGTGGCGC-TCAGTTAGAAACGCTGCTAAAGATCCGAGA
1 ATTAGCGGCGCAT-AGACAAAAACGCCGCTAAAGACCCGAGA
* * * * *
40291774 ATTAGCGGCAC-TTGTATAAAAACGCCGTTAAAGACCCGAGC
1 ATTAGCGGCGCATAG-ACAAAAACGCCGCTAAAGACCCGAGA
* * * *
40291815 ATTAGCGGCGCATAGACAAAAACGCTGCTCAAGACCCAAGC
1 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGACCCGAGA
*
40291856 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGATCCGAGA
1 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGACCCGAGA
* * *
40291897 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAAATCCGAGC
1 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGACCCGAGA
* * ** * * * *
40291938 ATTAGCGGCGCTTAGACGAAATTGCCGCTAAAGATCGGGGC
1 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGACCCGAGA
** * * * *
40291979 ATTAGCGGCGCATTCAC-AAAACGCCGCGAAAGATCGGAGC
1 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGACCCGAGA
* *
40292019 ATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
1 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAG
40292052 GTTTAAAAAA
Statistics
Matches: 266, Mismatches: 49, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
40 36 0.14
41 228 0.86
42 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (41 bp):
ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGACCCGAGA
Found at i:40291879 original size:123 final size:121
Alignment explanation
Indices: 40291752--40292051 Score: 357
Period size: 123 Copynumber: 2.4 Consensus size: 121
40291742 GCTCAGTTAG
* * * *
40291752 AAACGCTGCTAAAGATCCGAGAATTAGCGGCACTTGTATAAAAACGCCGTTAAAGACCCGAGCAT
1 AAACGCCGCTAAAGATCCGAGAATTAGCGGCGCTTG-ACAAAAACGCCGCTAAAGACCCGAGCAT
* * *
40291817 TAGCGGCGCATAGACAAAAACGCTGCTCAAGACCCAAGCATTAGCGGCGCATAGACAA
65 TAGCGGCGCATAGACAAAAACGCCGCTAAAGACCCAAGCATTAGCGGCGCATACAC-A
* * *
40291875 AAACGCCGCTAAAGATCCGAGAATTAGCGGCGCATAGACAAAAACGCCGCTAAAAATCCGAGCAT
1 AAACGCCGCTAAAGATCCGAGAATTAGCGGCGC-TTGACAAAAACGCCGCTAAAGACCCGAGCAT
* * ** * *** *
40291940 TAGCGGCGCTTAGACGAAATTGCCGCTAAAGATCGGGGCATTAGCGGCGCATTCACA
65 TAGCGGCGCATAGACAAAAACGCCGCTAAAGACCCAAGCATTAGCGGCGCATACACA
* * * *
40291997 AAACGCCGCGAAAGATCGGAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
1 AAACGCCGCTAAAGATCCGAGAATTAGCGGCGCTT-GACAAAAACGCCGCTAAAG
40292052 GTTTAAAAAA
Statistics
Matches: 150, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
121 1 0.01
122 48 0.32
123 99 0.66
124 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (121 bp):
AAACGCCGCTAAAGATCCGAGAATTAGCGGCGCTTGACAAAAACGCCGCTAAAGACCCGAGCATT
AGCGGCGCATAGACAAAAACGCCGCTAAAGACCCAAGCATTAGCGGCGCATACACA
Found at i:40292182 original size:40 final size:40
Alignment explanation
Indices: 40292108--40292206 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
40292098 GGCGCTTTAT
* * **
40292108 ATAAAACGCCGCTAATTC-CTATTTTTAGCGGCGCTTCCGG
1 ATAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTT-CGG
* *
40292148 AT-AATCGCCGCTGATGCTCTACCTTTAGCGGCGCTTTGG
1 ATAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCGG
*
40292187 CTAAATCGCCGCTAATGCTC
1 ATAAATCGCCGCTAATGCTC
40292207 GATTTTTTGT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 15 0.31
40 34 0.69
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.29
Consensus pattern (40 bp):
ATAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCGG
Found at i:40294733 original size:19 final size:19
Alignment explanation
Indices: 40294709--40294762 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
40294699 AATCTTCAAG
40294709 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
40294728 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
40294747 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
40294763 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:40294738 original size:36 final size:36
Alignment explanation
Indices: 40294698--40294769 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
40294688 TATGGAAACA
40294698 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
40294734 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
40294770 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:40294753 original size:38 final size:40
Alignment explanation
Indices: 40294709--40294785 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
40294699 AATCTTCAAG
40294709 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
40294747 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
40294786 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:40300359 original size:5 final size:5
Alignment explanation
Indices: 40300325--40300389 Score: 55
Period size: 5 Copynumber: 13.2 Consensus size: 5
40300315 TTTTTATGTT
* * *
40300325 TTATA -TATA TTAT- TT-TA TTATA TAATATA TTATA TTGTA TTGTA TTGTA
1 TTATA TTATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
*
40300374 TTGTA TTATA TTATA T
1 TTATA TTATA TTATA T
40300390 AAATTAAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
3 1 0.02
4 8 0.15
5 39 0.74
7 5 0.09
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:40300370 original size:15 final size:15
Alignment explanation
Indices: 40300350--40300389 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
40300340 TATTATATAA
40300350 TATATTATATTGTAT
1 TATATTATATTGTAT
* *
40300365 TGTATTGTATTGTAT
1 TATATTATATTGTAT
40300380 TATATTATAT
1 TATATTATAT
40300390 AAATTAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
TATATTATATTGTAT
Found at i:40304483 original size:5 final size:5
Alignment explanation
Indices: 40304405--40304474 Score: 83
Period size: 5 Copynumber: 14.2 Consensus size: 5
40304395 TTTTTATGTT
* *
40304405 TTATA -TATA TTAT- TT-TA TTATA TAATATA ATATA ATATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
40304454 TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA T
40304475 AAATTAAATA
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
3 1 0.02
4 8 0.14
5 45 0.78
7 4 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TTATA
Found at i:40306980 original size:14 final size:15
Alignment explanation
Indices: 40306954--40306986 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
40306944 TCCCAAGCTG
40306954 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
40306969 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
40306983 GGAA
1 GGAA
40306987 AAGCGTCGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:40308462 original size:88 final size:88
Alignment explanation
Indices: 40308313--40308500 Score: 304
Period size: 88 Copynumber: 2.1 Consensus size: 88
40308303 TGAAGATAAC
* * * *
40308313 AGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCTTCCCTGGGTTG
1 AGATCTTGCCTTCGTACACCGACAGCGAAGCAGATCGAAGACAACAACCTTGCCTCCCTGGGTTG
* *
40308378 TAGCGGAGCAGGTTAAAAATAGT
66 CAGCGAAGCAGGTTAAAAATAGT
* *
40308401 AGATCTTGCCTTCGTACACCGACAGCGAAGCAGATCGAAGACAATAGCCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCGTACACCGACAGCGAAGCAGATCGAAGACAACAACCTTGCCTCCCTGGGTTG
40308466 CAGCGAAGCAGGTTAAAAATAGT
66 CAGCGAAGCAGGTTAAAAATAGT
40308489 AGATCTTGCCTT
1 AGATCTTGCCTT
40308501 TCAACACCGA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 92 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (88 bp):
AGATCTTGCCTTCGTACACCGACAGCGAAGCAGATCGAAGACAACAACCTTGCCTCCCTGGGTTG
CAGCGAAGCAGGTTAAAAATAGT
Found at i:40308497 original size:44 final size:44
Alignment explanation
Indices: 40308361--40308499 Score: 109
Period size: 44 Copynumber: 3.2 Consensus size: 44
40308351 AGACACCAAC
* * *
40308361 CTTGCTTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAGTAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
* * ***** * ** * * * *
40308405 CTTGCCTTCGTACACCGACAGCGAAGCAGATCGAAGACAATAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGTAGAT
40308449 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
40308493 CTTGCCT
1 CTTGCCT
40308500 TTCAACACCG
Statistics
Matches: 62, Mismatches: 31, Indels: 4
0.64 0.32 0.04
Matches are distributed among these distances:
43 19 0.31
44 26 0.42
45 17 0.27
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
Found at i:40308744 original size:88 final size:88
Alignment explanation
Indices: 40308519--40308880 Score: 416
Period size: 88 Copynumber: 4.2 Consensus size: 88
40308509 GATCTGTTTC
* * * * *
40308519 GCCTTGCCTCCCAGGGTTGCAGCGGAGCAGGTTAAAAATTA-CTGATCTTACCTTCCTGTATCGA
1 GCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAA-TAGCAGATCTTGCCTTCCTGCACCGA
* *
40308583 CAGTGAAACAGATCGAAGACACCA
65 CAGCGAAGCAGATCGAAGACACCA
*
40308607 GCCTTTGCCTCCCTGGGTTG--TC---GCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGA
1 GCC-TTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGA
40308667 CAGCGAAGCAGATCGAAGACACCA
65 CAGCGAAGCAGATCGAAGACACCA
* * * * * *
40308691 ACCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTAAAACTAGCAGATCTTGCCTTCTTGTACCGAC
1 GCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* *
40308756 AAG-GAAGTAGATCGAAAACACCA
66 -AGCGAAGCAGATCGAAGACACCA
* * * * *
40308779 GCCTTGCCTCCCTGGGTTGCAGCGGAGCAAGTTAAAAATAGAAAATCTTGCCTTCTTGCACCGAT
1 GCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* *
40308844 AGCGAAGCAGATCGATGACCCCA
66 AGCGAAGCAGATCGAAGACACCA
*
40308867 GTCCTT-TCTCCCTG
1 G-CCTTGCCTCCCTG
40308881 ACAGCAATGG
Statistics
Matches: 234, Mismatches: 30, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
83 18 0.08
84 55 0.24
87 3 0.01
88 137 0.59
89 21 0.09
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (88 bp):
GCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
AGCGAAGCAGATCGAAGACACCA
Found at i:40308940 original size:44 final size:44
Alignment explanation
Indices: 40308866--40308989 Score: 144
Period size: 44 Copynumber: 2.8 Consensus size: 44
40308856 CGATGACCCC
* * * *
40308866 AGTCCTTTCTCCCTGACAGCAATGGAATAGGTTGAATATTGT-A
1 AGTCCTATCTCCCTGGCAGCAGTGGAATAGGTTGAAGATTGTGA
*
40308909 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGA
1 AGTCCTATCTCCCTGG-CAGCAGTGGAATAGGTTGAAGATTGTGA
* * *
40308954 A-TCCTATCTCACTGAGCAACAGTGGAGTAGGTTGAA
1 AGTCCTATCTCCCTG-GCAGCAGTGGAATAGGTTGAA
40308990 AATAGCAGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
43 14 0.20
44 52 0.75
45 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
AGTCCTATCTCCCTGGCAGCAGTGGAATAGGTTGAAGATTGTGA
Found at i:40309408 original size:44 final size:43
Alignment explanation
Indices: 40309353--40309780 Score: 237
Period size: 44 Copynumber: 9.9 Consensus size: 43
40309343 GAAGATGGCG
*
40309353 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAAT
* * * * * * * *
40309397 AATCCTATCTCCCTAAAGTCGTAGTGGAGCGGATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* * * * *
40309440 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCACA-T-CT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* ** *
40309481 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGTAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
* * * * * ***
40309524 AAGCCTTATC-CTCTTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCG
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAG-T-AAT
*
40309570 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAAT
* ** *
40309614 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-A-AT
* ** *** **
40309659 -ATCTTATCTCTCTGAAGTTGCAG-AAAGCAGATCGCA-T-CG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
** * * *
40309698 GGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* * * *
40309741 CAAGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAAA
1 -AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
40309781 TAAACAAATC
Statistics
Matches: 285, Mismatches: 78, Indels: 41
0.71 0.19 0.10
Matches are distributed among these distances:
40 43 0.15
41 15 0.05
42 2 0.01
43 22 0.08
44 133 0.47
45 64 0.22
46 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
Found at i:40309713 original size:217 final size:218
Alignment explanation
Indices: 40309338--40309777 Score: 693
Period size: 217 Copynumber: 2.0 Consensus size: 218
40309328 GTAATTTAAA
* *
40309338 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
* *
40309403 ATCTCCCTAAAGTCGTAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTAAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAAA
* * *
40309468 GCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGTAAGCAAGCCTTA
131 GCAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGCCTTA
* * * *
40309532 TCCTCTTGAAGTTGTAGTGAGGC
196 TCCCCCTGAAATTGCAGTGAGGC
40309555 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
* * * *
40309620 ATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACATATCTTATCTCTCTGAAGTTGCAGAAA
66 ATCTCCCTAAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAAA
* * * *
40309685 GCAGATCGCATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAAGTCTTA
131 GCAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGCCTTA
*
40309750 TCCCCCTGAAATTGCAGTGGGGC
196 TCCCCCTGAAATTGCAGTGAGGC
40309773 AGACT
1 AGACT
40309778 AAATAAACAA
Statistics
Matches: 202, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
217 166 0.82
218 36 0.18
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (218 bp):
AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
ATCTCCCTAAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAAA
GCAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGCCTTA
TCCCCCTGAAATTGCAGTGAGGC
Found at i:40309799 original size:217 final size:217
Alignment explanation
Indices: 40309359--40309824 Score: 639
Period size: 217 Copynumber: 2.1 Consensus size: 217
40309349 GGCGAATCTT
* *
40309359 ATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTAATAATCCTATCTCCCTAAAGTCGTAGTGG
1 ATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTCGCAGTGG
* *
40309424 AGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCTAGTCTTAT
66 AGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCACATCGAGTCTTAT
* * * * * *
40309489 CTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCTCTTGAAGTTGTAGTGAGG
131 CTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCAAGCCTTATCCCCCTGAAATTGCAGTGAGG
** * **
40309554 CAGACTGAAGATGGCGAATCTT
196 CAGACTGAAGATAACAAATCCC
* * *
40309576 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTCGCAGTGG
* * * *
40309641 AGTGGATTAAAATCACATATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCGCATCGGGTCTTAT
66 AGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCACATCGAGTCTTAT
* * *
40309706 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAAGTCTTATCCCCCTGAAATTGCAGTGGG
131 CTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAAGCAAGCCTTATCCCCCTGAAATTGCAGTGAG
40309771 GCAGACT-AA-ATAAACAAATCCC
195 GCAGACTGAAGAT-AACAAATCCC
* * **
40309793 ATCTCCCTAAATTTGTAGTGGAGTGGATTAAA
1 ATCTCCCTGAAGTTGTAGTGGAGCAGATTAAA
40309825 ATCTCTCTAA
Statistics
Matches: 217, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
216 2 0.01
217 179 0.82
218 36 0.17
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (217 bp):
ATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTCGCAGTGG
AGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCACATCGAGTCTTAT
CTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCAAGCCTTATCCCCCTGAAATTGCAGTGAGG
CAGACTGAAGATAACAAATCCC
Found at i:40310338 original size:17 final size:19
Alignment explanation
Indices: 40310316--40310416 Score: 80
Period size: 19 Copynumber: 5.4 Consensus size: 19
40310306 TACGGAAACA
40310316 TAATCTT-CA-AGGATATG
1 TAATCTTACATAGGATATG
* *
40310333 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
40310352 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
40310371 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
40310390 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
*
40310409 CAATCTTA
1 TAATCTTA
40310417 GAAGATATGA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
17 7 0.10
18 1 0.01
19 65 0.89
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.39
Consensus pattern (19 bp):
TAATCTTACATAGGATATG
Found at i:40310351 original size:19 final size:19
Alignment explanation
Indices: 40310327--40310441 Score: 149
Period size: 19 Copynumber: 5.8 Consensus size: 19
40310317 AATCTTCAAG
40310327 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
40310346 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
* **
40310365 GATATGCAGCCTTAGATAT
1 GATATGTAATCTTAGATAT
40310384 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
40310403 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTT---AGATAT
*
40310425 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
40310442 GATTTAATTT
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
19 63 0.76
20 3 0.04
22 8 0.10
23 9 0.11
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:40310669 original size:23 final size:23
Alignment explanation
Indices: 40310625--40310669 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
40310615 TCTTATTTTG
* *
40310625 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
40310648 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
40310670 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:40315599 original size:41 final size:41
Alignment explanation
Indices: 40315554--40315644 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
40315544 GATGCTAACG
* * *
40315554 GAAAAACGCAACAATATGTAAAGCAGTAGCGGGGTTTATGA
1 GAAAAACGCAACAAAAGGTAAAGCAGTAGCGGGGTTTATAA
* ** * * *
40315595 GAAAAACACTGCAAAAGGTCAAGCATTAGCGGTGTTTATAA
1 GAAAAACGCAACAAAAGGTAAAGCAGTAGCGGGGTTTATAA
40315636 GAAAAACGC
1 GAAAAACGC
40315645 CGCAAAAAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (41 bp):
GAAAAACGCAACAAAAGGTAAAGCAGTAGCGGGGTTTATAA
Found at i:40315650 original size:41 final size:40
Alignment explanation
Indices: 40315574--40315690 Score: 117
Period size: 41 Copynumber: 2.9 Consensus size: 40
40315564 ACAATATGTA
* * * * **
40315574 AAGCAGTAGCGGGGTTTATGAGAAAAACACTGCAAAAGGTC
1 AAGCATTAGC-GGGTTTATAAGAAAAACGCCGCAAAAAATC
*
40315615 AAGCATTAGCGGTGTTTATAAGAAAAACGCCGCAAAAAATT
1 AAGCATTAGCGG-GTTTATAAGAAAAACGCCGCAAAAAATC
** **
40315656 AAGCATTATTGGCATTATAAGAAAAACGCCGCAAA
1 AAGCATTAGCGGGTTTATAAGAAAAACGCCGCAAA
40315691 GTATCATTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
40 23 0.36
41 41 0.64
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (40 bp):
AAGCATTAGCGGGTTTATAAGAAAAACGCCGCAAAAAATC
Found at i:40318131 original size:41 final size:37
Alignment explanation
Indices: 40318086--40318216 Score: 120
Period size: 39 Copynumber: 3.3 Consensus size: 37
40318076 AACGGTATTT
*
40318086 TTAGCGGCGTTTGGACAAAAAACGCCGCTAAAAATTGAGCA
1 TTAGCGGCGTTT-G--AAAAAACGCCGCT-AAAATAGAGCA
* * *
40318127 TTAGCGGCGCTTTTAGGAAAACGCCGCTAAAATAGGGCA
1 TTAGCGGCG-TTTGA-AAAAACGCCGCTAAAATAGAGCA
* *
40318166 TTAGCGGTGCTTTTTG-AAAAATGCCGCTAAAATAGAGCA
1 TTAGC-G-GC-GTTTGAAAAAACGCCGCTAAAATAGAGCA
40318205 TTAGCGGCGTTT
1 TTAGCGGCGTTT
40318217 TCCAAGAAGC
Statistics
Matches: 75, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
36 3 0.04
37 2 0.03
38 1 0.01
39 40 0.53
40 12 0.16
41 14 0.19
42 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (37 bp):
TTAGCGGCGTTTGAAAAAACGCCGCTAAAATAGAGCA
Found at i:40318170 original size:39 final size:39
Alignment explanation
Indices: 40318103--40318217 Score: 160
Period size: 39 Copynumber: 2.9 Consensus size: 39
40318093 CGTTTGGACA
*
40318103 AAAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTTTAG
1 AAAAACGCCGCT-AAAATAGAGCATTAGCGGCGCTTTTAG
* * * *
40318143 GAAAACGCCGCTAAAATAGGGCATTAGCGGTGCTTTTTG
1 AAAAACGCCGCTAAAATAGAGCATTAGCGGCGCTTTTAG
*
40318182 AAAAATGCCGCTAAAATAGAGCATTAGCGGCG-TTTT
1 AAAAACGCCGCTAAAATAGAGCATTAGCGGCGCTTTT
40318218 CCAAGAAGCG
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
38 4 0.06
39 51 0.77
40 11 0.17
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (39 bp):
AAAAACGCCGCTAAAATAGAGCATTAGCGGCGCTTTTAG
Found at i:40318231 original size:39 final size:38
Alignment explanation
Indices: 40318105--40318236 Score: 133
Period size: 39 Copynumber: 3.4 Consensus size: 38
40318095 TTTGGACAAA
* *
40318105 AAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTTTAGG
1 AAACGCCGCT-AAAATAGAGCATTAGCGGCGCTTTTAAG
* *
40318144 AAAACGCCGCTAAAATAGGGCATTAGCGGTGCTTTTTGAA-
1 -AAACGCCGCTAAAATAGAGCATTAGCGGCGC-TTTT-AAG
*
40318184 AAATGCCGCTAAAATAGAGCATTAGCGGCG-TTTTCCAAG
1 AAACGCCGCTAAAATAGAGCATTAGCGGCGCTTTT--AAG
* *
40318223 AAGCGCCGCAAAAA
1 AAACGCCGCTAAAA
40318237 ACCTAAGCCC
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
37 4 0.05
38 2 0.03
39 56 0.73
40 14 0.18
41 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (38 bp):
AAACGCCGCTAAAATAGAGCATTAGCGGCGCTTTTAAG
Found at i:40318356 original size:41 final size:42
Alignment explanation
Indices: 40318285--40318363 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
40318275 TTTAGCGGCG
* * *
40318285 TTTTAAAAAAGCGTCGCTAATGCTTGGGGGCTTTAGTGACGT
1 TTTTAAAAAAGCGACGCGAATGCTTCGGGGCTTTAGTGACGT
*
40318327 TTTTCAAAAAGCGACGCGAATGC-TCGGGGCTTTAGTG
1 TTTTAAAAAAGCGACGCGAATGCTTCGGGGCTTTAGTG
40318364 GCATTCTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 13 0.39
42 20 0.61
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (42 bp):
TTTTAAAAAAGCGACGCGAATGCTTCGGGGCTTTAGTGACGT
Found at i:40318376 original size:41 final size:41
Alignment explanation
Indices: 40318290--40318392 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 41
40318280 CGGCGTTTTA
* * * * *
40318290 AAAAAGCGTCGCTAATGCTTGGGGGCTTTAGTGACGTTTTTC
1 AAAAAGCGTCGCGAATGC-TCGGGGCTTTAGTGACATTCTAC
* *
40318332 AAAAAGCGACGCGAATGCTCGGGGCTTTAGTGGCATTCTAC
1 AAAAAGCGTCGCGAATGCTCGGGGCTTTAGTGACATTCTAC
**
40318373 AAAAAATGTCGCGAATGCTC
1 AAAAAGCGTCGCGAATGCTC
40318393 AGTACTTTAG
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 35 0.69
42 16 0.31
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (41 bp):
AAAAAGCGTCGCGAATGCTCGGGGCTTTAGTGACATTCTAC
Found at i:40318921 original size:28 final size:29
Alignment explanation
Indices: 40318861--40318930 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
40318851 ACCATTTTAA
* * * *
40318861 GGTTTATGGATTATGGGTTTATAGGTTAT
1 GGTTTATGGTTTATGGGTTTAAAGGCTAG
*
40318890 GGTTTATGGTTTAT-GGTTTAAAGGCTGG
1 GGTTTATGGTTTATGGGTTTAAAGGCTAG
*
40318918 GGTTTAAGGTTTA
1 GGTTTATGGTTTA
40318931 GAGGTTATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
28 22 0.63
29 13 0.37
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.46
Consensus pattern (29 bp):
GGTTTATGGTTTATGGGTTTAAAGGCTAG
Found at i:40318928 original size:7 final size:7
Alignment explanation
Indices: 40318856--40318909 Score: 65
Period size: 7 Copynumber: 7.6 Consensus size: 7
40318846 GTTTTACCAT
*
40318856 TTTAAGG
1 TTTATGG
40318863 TTTATGG
1 TTTATGG
*
40318870 ATTATGGG
1 TTTAT-GG
40318878 TTTATAGG
1 TTTAT-GG
40318886 -TTATGG
1 TTTATGG
40318892 TTTATGG
1 TTTATGG
40318899 TTTATGG
1 TTTATGG
40318906 TTTA
1 TTTA
40318910 AAGGCTGGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 2 0.05
7 31 0.76
8 8 0.20
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (7 bp):
TTTATGG
Found at i:40319041 original size:7 final size:7
Alignment explanation
Indices: 40319025--40319071 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
40319015 TATCATTATA
40319025 GTTTAGG
1 GTTTAGG
*
40319032 GTTTATG
1 GTTTAGG
40319039 GTTTAGG
1 GTTTAGG
* *
40319046 GTATATG
1 GTTTAGG
40319053 GTTTAGG
1 GTTTAGG
40319060 GTTTAGG
1 GTTTAGG
40319067 GTTTA
1 GTTTA
40319072 AAGTTTAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (7 bp):
GTTTAGG
Found at i:40319042 original size:14 final size:14
Alignment explanation
Indices: 40319020--40319071 Score: 77
Period size: 14 Copynumber: 3.7 Consensus size: 14
40319010 TTAATTATCA
*
40319020 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
40319034 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
*
40319048 ATATGGTTTAGGGT
1 TTATGGTTTAGGGT
*
40319062 TTAGGGTTTA
1 TTATGGTTTA
40319072 AAGTTTAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:40319077 original size:21 final size:21
Alignment explanation
Indices: 40319032--40319080 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
40319022 ATAGTTTAGG
* **
40319032 GTTTATGGTTTAGGGTATATG
1 GTTTAGGGTTTAGGGTATAAA
*
40319053 GTTTAGGGTTTAGGGTTTAAA
1 GTTTAGGGTTTAGGGTATAAA
40319074 GTTTAGG
1 GTTTAGG
40319081 AGTTACTACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGTATAAA
Found at i:40323554 original size:43 final size:43
Alignment explanation
Indices: 40323501--40323630 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 43
40323491 TAAAAATCAT
* * *
40323501 TCTTATAGCGGTGTTTGTGGTAGACGCGTCACTAAAGGTTATGA
1 TCTT-TAGCGGCGTTTGTGGTAGAAGCGTCACTAAAGGTCATGA
* *
40323545 TTTTTAGCGGCGTTTGTGGTAGAAGCGTCGCTAAAGGTCATGA
1 TCTTTAGCGGCGTTTGTGGTAGAAGCGTCACTAAAGGTCATGA
* * * * *
40323588 TCTTTAGCGGCGTTTGCGGAAGAAGCGCCGCTAAAGGCCATGA
1 TCTTTAGCGGCGTTTGTGGTAGAAGCGTCACTAAAGGTCATGA
40323631 CTTAGTGGTG
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
43 73 0.96
44 3 0.04
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGTAGAAGCGTCACTAAAGGTCATGA
Found at i:40324025 original size:56 final size:58
Alignment explanation
Indices: 40323955--40324123 Score: 159
Period size: 56 Copynumber: 3.1 Consensus size: 58
40323945 AGTAAAAAAA
**
40323955 AACTTTGGACCATAACTTATTTAACTTACATAA-TACATAATA-AT-ATATCATATCAT
1 AACTTTGGACCATAACTTACATAACTTACATAACTACATAATACATAATAT-ATATCAT
*
40324011 AACTTTGGATCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCAT
1 AACTTTGGACCATAACTTACATAACTTACATAAC-TACATAATACAT-AATATATATCAT
* *
40324071 -A---T----CATAACTTACATAACTTACATAACT-TA-AATA-AAAATATTATATCAT
1 AACTTTGGACCATAACTTACATAACTTACATAACTACATAATACATAATA-TATATCAT
40324119 AACTT
1 AACTT
40324124 ATATAAAAAT
Statistics
Matches: 98, Mismatches: 5, Indels: 24
0.77 0.04 0.19
Matches are distributed among these distances:
47 4 0.04
48 9 0.09
49 5 0.05
50 1 0.01
51 1 0.01
52 24 0.24
56 31 0.32
58 9 0.09
59 3 0.03
60 7 0.07
61 4 0.04
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (58 bp):
AACTTTGGACCATAACTTACATAACTTACATAACTACATAATACATAATATATATCAT
Found at i:40324035 original size:9 final size:9
Alignment explanation
Indices: 40324021--40324104 Score: 93
Period size: 9 Copynumber: 9.6 Consensus size: 9
40324011 AACTTTGGAT
40324021 CATAACTTA
1 CATAACTTA
40324030 CATAACTTA
1 CATAACTTA
40324039 CATAACTTA
1 CATAACTTA
40324048 CATAA--TA
1 CATAACTTA
*
40324055 CATAA-ATA
1 CATAACTTA
* * *
40324063 TATATCATA
1 CATAACTTA
40324072 TCATAACTTA
1 -CATAACTTA
40324082 CATAACTTA
1 CATAACTTA
40324091 CATAACTTA
1 CATAACTTA
*
40324100 AATAA
1 CATAA
40324105 AAATATTATA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.11
8 5 0.08
9 48 0.73
10 6 0.09
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:40324045 original size:65 final size:61
Alignment explanation
Indices: 40323965--40324104 Score: 201
Period size: 65 Copynumber: 2.2 Consensus size: 61
40323955 AACTTTGGAC
**
40323965 CATAACTTATTTAACTTACATAATACAT-AATAATATATCATATCATAACTTTGGATCATAACTT
1 CATAACTTAAATAACTTACATAATACATAAAT-ATATATCATATCATAAC-TT--A-CATAACTT
40324029 A
61 A
*
40324030 CATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTA
1 CATAACTTAAATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTA
40324091 CATAACTTAAATAA
1 CATAACTTAAATAA
40324105 AAATATTATA
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
61 22 0.31
62 1 0.01
64 2 0.03
65 43 0.61
66 3 0.04
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.36
Consensus pattern (61 bp):
CATAACTTAAATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTA
Found at i:40324083 original size:43 final size:42
Alignment explanation
Indices: 40324030--40324129 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 42
40324020 TCATAACTTA
*
40324030 CATAACTTACATAACTTACATAA-TACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAACTAAATAAA-A-ATATCATAT
*
40324073 CATAACTTACATAACTTACATAACTTAAATAAAAATATTATAT
1 CATAACTTACATAACTTACATAAC-TAAATAAAAATATCATAT
*
40324116 CATAACTTATATAA
1 CATAACTTACATAA
40324130 AAATTTGGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
43 44 0.85
44 1 0.02
45 7 0.13
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (42 bp):
CATAACTTACATAACTTACATAACTAAATAAAAATATCATAT
Found at i:40324141 original size:24 final size:25
Alignment explanation
Indices: 40324091--40324155 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
40324081 ACATAACTTA
* *
40324091 CATAACTTAAATAAAAATATTATAT
1 CATAACTTATATAAAAATATTAGAT
*
40324116 CATAACTTATATAAAAAT-TTGGAT
1 CATAACTTATATAAAAATATTAGAT
*
40324140 CA-AA-ATATATAAAAAT
1 CATAACTTATATAAAAAT
40324156 CACATAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 11 0.31
23 2 0.06
24 6 0.17
25 17 0.47
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (25 bp):
CATAACTTATATAAAAATATTAGAT
Found at i:40329776 original size:66 final size:65
Alignment explanation
Indices: 40329664--40329792 Score: 161
Period size: 66 Copynumber: 2.0 Consensus size: 65
40329654 AAAGTGCTCA
* * * * *
40329664 ACTTAAAGCGGAGGCAGCATCGAGAGAAGCAGAGGATCAAAGAAAATATGAAGAACTCTAGCTGC
1 ACTTAAAGCAGAGGCAACAGCGAGAGAAGCAGAGGA-CAAAAAAAATATGAAGAACTCCAGCTGC
40329729 T
65 T
* *
40329730 ACTTAAAGCAGAGGCAACAGCGAGAGAAGTAGAGG-CAAGCAAAAAATATGACGAACTCCAGCT
1 ACTTAAAGCAGAGGCAACAGCGAGAGAAGCAGAGGACAA--AAAAAATATGAAGAACTCCAGCT
40329793 ACAGCTTCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
64 3 0.06
66 51 0.94
ACGTcount: A:0.43, C:0.18, G:0.26, T:0.13
Consensus pattern (65 bp):
ACTTAAAGCAGAGGCAACAGCGAGAGAAGCAGAGGACAAAAAAAATATGAAGAACTCCAGCTGCT
Found at i:40330182 original size:43 final size:43
Alignment explanation
Indices: 40330091--40330187 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
40330081 TTTCCACAAA
* * *
40330091 CGCCGCCAAAGAACATGACTTTTATCGGCGCTTTTAGTAAAAG
1 CGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTAGTAAAAG
* * *
40330134 CGCCGCTAAAGAACATGACATTTAGCTGCGTTTTTGGGT-AAAG
1 CGCCGCTAAAGAACATGACATTTAGCGGCGCTTTT-AGTAAAAG
*
40330177 TGCCGCTAAAG
1 CGCCGCTAAAG
40330188 GTAATGTTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
43 44 0.96
44 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (43 bp):
CGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTAGTAAAAG
Found at i:40330201 original size:43 final size:42
Alignment explanation
Indices: 40330154--40330297 Score: 103
Period size: 43 Copynumber: 3.4 Consensus size: 42
40330144 GAACATGACA
40330154 TTTAGCTGCGTTTTTGGGTAAAGTGCCGCTAAAGGTAATGTTC
1 TTTAGCTGCGTTTTTGGG-AAAGTGCCGCTAAAGGTAATGTTC
* * * * *
40330197 TTTAG-TGGCATTTGTAGGGAAAGCGCAGCCAAAGG-ACATGTTC
1 TTTAGCT-GCGTTT-TTGGGAAAGTGCCGCTAAAGGTA-ATGTTC
* * * * * * *
40330240 TCTAGCAGCGTTTGTGTGAGAAGTGTCGTTAAAGGTCATGTTC
1 TTTAGCTGCGTTTTTGGGA-AAGTGCCGCTAAAGGTAATGTTC
* *
40330283 TATAGCGGCGTTTTT
1 TTTAGCTGCGTTTTT
40330298 CCACATAAAC
Statistics
Matches: 75, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
42 5 0.07
43 66 0.88
44 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (42 bp):
TTTAGCTGCGTTTTTGGGAAAGTGCCGCTAAAGGTAATGTTC
Found at i:40338638 original size:16 final size:18
Alignment explanation
Indices: 40338603--40338640 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
40338593 GATATTAATA
40338603 ATTCATTCCAAATATTTT
1 ATTCATTCCAAATATTTT
*
40338621 ATTCA-TCCAACT-TTTT
1 ATTCATTCCAAATATTTT
40338637 ATTC
1 ATTC
40338641 TCTCCCTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTCATTCCAAATATTTT
Found at i:40339903 original size:20 final size:20
Alignment explanation
Indices: 40339878--40339939 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
40339868 AGTTTCTAAT
40339878 AATCAATTTTCATTGAGAAC
1 AATCAATTTTCATTGAGAAC
40339898 AATCAATTTTCATTGAGAAC
1 AATCAATTTTCATTGAGAAC
* *
40339918 AATCAATTTTCTTTGAAAAC
1 AATCAATTTTCATTGAGAAC
40339938 AA
1 AA
40339940 GCAACACATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (20 bp):
AATCAATTTTCATTGAGAAC
Found at i:40343332 original size:19 final size:19
Alignment explanation
Indices: 40343308--40343346 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
40343298 ATGTCAAAAT
40343308 TTTCAAGTATCCAAAT-TGA
1 TTTCAAGTAT-CAAATGTGA
*
40343327 TTTCAATTATCAAATGTGA
1 TTTCAAGTATCAAATGTGA
40343346 T
1 T
40343347 AAATCAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (19 bp):
TTTCAAGTATCAAATGTGA
Found at i:40344322 original size:22 final size:21
Alignment explanation
Indices: 40344284--40344324 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
40344274 CGTATTATAA
40344284 AACAAAGAGAAATATAGAATG
1 AACAAAGAGAAATATAGAATG
40344305 AACAAGAGAGACAA-ATAGAA
1 AACAA-AGAGA-AATATAGAA
40344325 AAATTAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 11 0.61
23 2 0.11
ACGTcount: A:0.63, C:0.07, G:0.20, T:0.10
Consensus pattern (21 bp):
AACAAAGAGAAATATAGAATG
Found at i:40347272 original size:20 final size:20
Alignment explanation
Indices: 40347247--40347288 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
40347237 TAGAGAATGA
40347247 ATCAGGCAAACAATCAAAAG
1 ATCAGGCAAACAATCAAAAG
40347267 ATCAGGCAAACAATCAAAAG
1 ATCAGGCAAACAATCAAAAG
40347287 AT
1 AT
40347289 AACCAATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.19, G:0.14, T:0.12
Consensus pattern (20 bp):
ATCAGGCAAACAATCAAAAG
Found at i:40351310 original size:21 final size:21
Alignment explanation
Indices: 40351284--40351326 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
40351274 CCAGATGCAC
40351284 ATAGTACAAAGCCCGTAGGCT
1 ATAGTACAAAGCCCGTAGGCT
40351305 ATAGTACAAAGCCCGTAGGCT
1 ATAGTACAAAGCCCGTAGGCT
40351326 A
1 A
40351327 AATATTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (21 bp):
ATAGTACAAAGCCCGTAGGCT
Found at i:40351395 original size:113 final size:113
Alignment explanation
Indices: 40351192--40351408 Score: 287
Period size: 113 Copynumber: 1.9 Consensus size: 113
40351182 TCAGATGCAC
*
40351192 ATAGTGCAAAGCCCGTAGGCTAAATAGTCTCCACCAATAACATGCCAGTTAGCTCATAAAAGCTA
1 ATAGTACAAAGCCCGTAGGCTAAATAGTCTCCACCAATAACATGCCAGTTAGCTCATAAAAGCTA
* *
40351257 TTCCAACCGATATGACACCAGATGCACATAGTACAAAGCCCGTAGGCT
66 TTCCAACCGATATAACACCACATGCACATAGTACAAAGCCCGTAGGCT
* * * * *
40351305 ATAGTACAAAGCCCGTAGGCTAAATATTTTCCCCCAATAACACT-TCAGATT-GCTCATAAGAGC
1 ATAGTACAAAGCCCGTAGGCTAAATAGTCTCCACCAATAACA-TGCCAG-TTAGCTCATAAAAGC
* * *
40351368 TATTCCAACTGATA-AATCACTACATGCACATAGTGCAAAGC
64 TATTCCAACCGATATAA-CACCACATGCACATAGTACAAAGC
40351409 AAATAGGCTA
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
112 1 0.01
113 86 0.96
114 3 0.03
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.23
Consensus pattern (113 bp):
ATAGTACAAAGCCCGTAGGCTAAATAGTCTCCACCAATAACATGCCAGTTAGCTCATAAAAGCTA
TTCCAACCGATATAACACCACATGCACATAGTACAAAGCCCGTAGGCT
Found at i:40351573 original size:91 final size:91
Alignment explanation
Indices: 40351305--40351574 Score: 285
Period size: 92 Copynumber: 2.9 Consensus size: 91
40351295 CCCGTAGGCT
* * * * *
40351305 ATAGTACAAAGCCCGTAGGCTAAATATTTTCCCCCAATAACACT-TCAGATTGCTCATAAGAGCT
1 ATAGTACAAAGCACGTAGGCTAAATA-TTTCCCTCGATAACA-TGCCAGTTTGCTCATAAGAGCT
* * * *
40351369 ATTCCAACTGATAAATC-A-CTACATGCAC
64 ATTCCAAC-CA-ATATCAAGCCAAATGCAC
* ** * *
40351397 ATAGTGCAAAGCAAATAGGCTAAATATTCTCCCTCGATAACATGCCAGTTTGCTCGTAAGAGTTA
1 ATAGTACAAAGCACGTAGGCTAAATATT-TCCCTCGATAACATGCCAGTTTGCTCATAAGAGCTA
* * * *
40351462 TTCCAATCGATAACACGCCAAATGCAC
65 TTCCAACCAATATCAAGCCAAATGCAC
* *
40351489 ATAGTACAAAGCTCGTAGGCTAAATATTTCCCTCGATAACATGCCAGTTTGCTCATAATAGCTAT
1 ATAGTACAAAGCACGTAGGCTAAATATTTCCCTCGATAACATGCCAGTTTGCTCATAAGAGCTAT
*
40351554 TCAAACCAATATCAAGCCAAA
66 TCCAACCAATATCAAGCCAAA
40351575 ATCTCCGAAG
Statistics
Matches: 144, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
90 3 0.02
91 53 0.37
92 88 0.61
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (91 bp):
ATAGTACAAAGCACGTAGGCTAAATATTTCCCTCGATAACATGCCAGTTTGCTCATAAGAGCTAT
TCCAACCAATATCAAGCCAAATGCAC
Found at i:40356422 original size:16 final size:16
Alignment explanation
Indices: 40356395--40356453 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
40356385 CTTCTTCTTT
40356395 TTATTT-TTATTTTTC
1 TTATTTCTTATTTTTC
*
40356410 TTATTTCTTATTTCTTT
1 TTATTTCTTATTT-TTC
*
40356427 TTCATTTTCTTTGTTTTTC
1 TT-A-TTTC-TTATTTTTC
40356446 TT-TTTCTT
1 TTATTTCTT
40356454 GACTTTTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
15 8 0.22
16 10 0.28
17 4 0.11
18 1 0.03
19 8 0.22
20 5 0.14
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (16 bp):
TTATTTCTTATTTTTC
Found at i:40356428 original size:21 final size:21
Alignment explanation
Indices: 40356386--40356428 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
40356376 TTAATGTTCC
* *
40356386 TTCTTCTTTTTATTTTTATTT
1 TTCTTATTTTTATTTCTATTT
40356407 TTCTTATTTCTTATTTCT-TTT
1 TTCTTATTT-TTATTTCTATTT
40356428 T
1 T
40356429 CATTTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (21 bp):
TTCTTATTTTTATTTCTATTT
Found at i:40356449 original size:6 final size:6
Alignment explanation
Indices: 40356389--40356453 Score: 62
Period size: 6 Copynumber: 10.8 Consensus size: 6
40356379 ATGTTCCTTC
* * *
40356389 TTCTTT TTATTT TTATTT TTCTTAT TTCTTAT TTCTTT TTCATT TTC--T
1 TTCTTT TTCTTT TTCTTT TTCTT-T TTCTT-T TTCTTT TTCTTT TTCTTT
*
40356437 TTGTTT TTCTTT TTCTT
1 TTCTTT TTCTTT TTCTT
40356454 GACTTTTGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
4 3 0.06
6 35 0.69
7 13 0.25
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (6 bp):
TTCTTT
Found at i:40363832 original size:91 final size:91
Alignment explanation
Indices: 40363691--40363996 Score: 405
Period size: 92 Copynumber: 3.3 Consensus size: 91
40363681 CTCCAGATTA
* * * *
40363691 CTCATAAGAGTTATTCCCACCAATAACACACCAGATGCACATAGTGCAAAGCCTGTAGGCTAAAT
1 CTCATAAGAGCTATTCCAACCAATAACACGCCAGATGCACATAGTGCAAAGCCCGTAGGCTAAAT
40363756 ATTCTCCCCGGTAACACGTCAGTTTT
66 ATTCTCCCCGGTAACACGTCAGTTTT
* * * *
40363782 CTCATAAGAGCTATTCCAACCAATATCACGCCAGATGCACATAGTACAAAGCCCATAGGATAAAT
1 CTCATAAGAGCTATTCCAACCAATAACACGCCAGATGCACATAGTGCAAAGCCCGTAGGCTAAAT
*** *
40363847 ATTCTCATTTGGTAACACGTCAGTTTG
66 ATTCTC-CCCGGTAACACGTCAGTTTT
* ** *
40363874 CTCATAAGAGCTATTCCAACCGATAACACGTTAGATGCACATAGTGTAAAGCCCGTAGGCTAAAT
1 CTCATAAGAGCTATTCCAACCAATAACACGCCAGATGCACATAGTGCAAAGCCCGTAGGCTAAAT
* * *
40363939 ATTCTCCCCCGATAACACGCCATTTTT
66 ATTCT-CCCCGGTAACACGTCAGTTTT
* *
40363966 CTCATAAGAACTATTCCAACCAATATCACGC
1 CTCATAAGAGCTATTCCAACCAATAACACGC
40363997 TAGAACCTCC
Statistics
Matches: 182, Mismatches: 31, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
91 63 0.35
92 118 0.65
93 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.25
Consensus pattern (91 bp):
CTCATAAGAGCTATTCCAACCAATAACACGCCAGATGCACATAGTGCAAAGCCCGTAGGCTAAAT
ATTCTCCCCGGTAACACGTCAGTTTT
Found at i:40379701 original size:23 final size:20
Alignment explanation
Indices: 40379675--40379726 Score: 50
Period size: 23 Copynumber: 2.4 Consensus size: 20
40379665 AATGTATTTT
40379675 AAATTTTCAAAAATTGAAAACAA
1 AAATTTT-AAAAATT-AAAA-AA
*
40379698 AAATATTTTAAAATTAAAAAA
1 AAAT-TTTAAAAATTAAAAAA
40379719 AAAGTTTT
1 AAA-TTTT
40379727 TAAACACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 8 0.31
22 5 0.19
23 10 0.38
24 3 0.12
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
AAATTTTAAAAATTAAAAAA
Found at i:40379727 original size:21 final size:23
Alignment explanation
Indices: 40379684--40379730 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
40379674 TAAATTTTCA
40379684 AAAATTGAAAACAAAAATATTTT
1 AAAATTGAAAACAAAAATATTTT
40379707 AAAATT-AAAA-AAAAAGT-TTTT
1 AAAATTGAAAACAAAAA-TATTTT
40379728 AAA
1 AAA
40379731 CACTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 12 0.52
22 5 0.22
23 6 0.26
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (23 bp):
AAAATTGAAAACAAAAATATTTT
Found at i:40384009 original size:17 final size:17
Alignment explanation
Indices: 40383987--40384026 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
40383977 AAAATAGGGG
*
40383987 TCACACGGTCGTGTGCC
1 TCACACAGTCGTGTGCC
40384004 TCACACAGTCGTGTGCC
1 TCACACAGTCGTGTGCC
40384021 TCACAC
1 TCACAC
40384027 CCGTGTCTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.23
Consensus pattern (17 bp):
TCACACAGTCGTGTGCC
Found at i:40384515 original size:26 final size:25
Alignment explanation
Indices: 40384486--40384536 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
40384476 TATAGGGGAC
* *
40384486 ACACGCCTGTGTGGTAAGGCCGTGTG
1 ACACGCCCGTGT-CTAAGGCCGTGTG
*
40384512 ACACGCCCGTGTCTTAGGCCGTGTG
1 ACACGCCCGTGTCTAAGGCCGTGTG
40384537 GGCATTCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.14, C:0.27, G:0.35, T:0.24
Consensus pattern (25 bp):
ACACGCCCGTGTCTAAGGCCGTGTG
Found at i:40386875 original size:20 final size:19
Alignment explanation
Indices: 40386827--40386875 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
40386817 ATTTATGAAA
* *
40386827 ATAACATATGTATATAGAT
1 ATAAAATATGTATATAAAT
*
40386846 ATATAGATATGTATATAAATT
1 ATA-AAATATGTATATAAA-T
40386867 ATAAAATAT
1 ATAAAATAT
40386876 AAAAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.72
21 4 0.16
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (19 bp):
ATAAAATATGTATATAAAT
Found at i:40388675 original size:25 final size:25
Alignment explanation
Indices: 40388644--40388787 Score: 116
Period size: 25 Copynumber: 5.9 Consensus size: 25
40388634 AGCCCTCTTT
40388644 TGAGCCATATAACGGGAAGCTCATG
1 TGAGCCATATAACGGGAAGCTCATG
* * *
40388669 TGAGCCATGTAACGGGAAGCTTATC
1 TGAGCCATATAACGGGAAGCTCATG
* * *
40388694 TGGGCTATATAACGGGAAGCTCATA
1 TGAGCCATATAACGGGAAGCTCATG
* * **
40388719 AGAGCCATAT-TCAAGAAGCTCATG
1 TGAGCCATATAACGGGAAGCTCATG
* * * *
40388743 CGAGCCA-ATAACGCGTAGCTC-CG
1 TGAGCCATATAACGGGAAGCTCATG
*
40388766 AAGAGCCAT-TAACGGGAAGCTC
1 -TGAGCCATATAACGGGAAGCTC
40388788 CGGATAGTCA
Statistics
Matches: 92, Mismatches: 24, Indels: 7
0.75 0.20 0.06
Matches are distributed among these distances:
23 3 0.03
24 40 0.43
25 49 0.53
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.19
Consensus pattern (25 bp):
TGAGCCATATAACGGGAAGCTCATG
Found at i:40388771 original size:24 final size:24
Alignment explanation
Indices: 40388744--40388789 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
40388734 AAGCTCATGC
*
40388744 GAGCCAATAACGCGTAGCTCCGAA
1 GAGCCAATAACGCGAAGCTCCGAA
* *
40388768 GAGCCATTAACGGGAAGCTCCG
1 GAGCCAATAACGCGAAGCTCCG
40388790 GATAGTCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.13
Consensus pattern (24 bp):
GAGCCAATAACGCGAAGCTCCGAA
Found at i:40388800 original size:72 final size:73
Alignment explanation
Indices: 40388724--40388860 Score: 170
Period size: 72 Copynumber: 1.9 Consensus size: 73
40388714 TCATAAGAGC
* *
40388724 CATAT-TCAAGAAGCTCATGCGAGCCAATAACGCGTAGCTCCGAAGAGCCATTAA-CGGGAAGCT
1 CATATATCAAGAAGCTCAAGCGAGCC-ATAACGCGTAGCTCCGAAGAGCCATTAATCAGGAAGCT
40388787 CCGGATAGT
65 CCGGATAGT
** * * * * *
40388796 CATATATCGGGAAGTTCAAGCGAGCCATATCGGGTAGCTTCGGAGAGCCATTAATCAGGAAGCTC
1 CATATATCAAGAAGCTCAAGCGAGCCATAACGCGTAGCTCCGAAGAGCCATTAATCAGGAAGCTC
40388861 ACAAAAAGCC
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
72 29 0.54
73 25 0.46
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (73 bp):
CATATATCAAGAAGCTCAAGCGAGCCATAACGCGTAGCTCCGAAGAGCCATTAATCAGGAAGCTC
CGGATAGT
Found at i:40389365 original size:5 final size:5
Alignment explanation
Indices: 40389336--40389379 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
40389326 TAAATTTAAC
* *
40389336 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCAAT TCA
40389380 CATATTAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:40397155 original size:4 final size:4
Alignment explanation
Indices: 40397146--40397201 Score: 62
Period size: 4 Copynumber: 14.0 Consensus size: 4
40397136 AGGAGAATAA
* *
40397146 AAAT AAAT AACAA AAAT AAAT AAAT AAAT AAAT -AA- AAAT AAAC AAAT
1 AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
40397193 AAATT AAAT
1 AAA-T AAAT
40397202 TGAAAAACCA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
3 4 0.09
4 33 0.75
5 7 0.16
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:40397185 original size:22 final size:22
Alignment explanation
Indices: 40397146--40397201 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
40397136 AGGAGAATAA
* *
40397146 AAATAAAT-AACAAAAATAAAT
1 AAATAAATAAATAAAAATAAAC
40397167 AAATAAATAAATAAAAATAAAC
1 AAATAAATAAATAAAAATAAAC
40397189 AAATAAATTAAAT
1 AAATAAA-TAAAT
40397202 TGAAAAACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 8 0.26
22 18 0.58
23 5 0.16
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (22 bp):
AAATAAATAAATAAAAATAAAC
Found at i:40397186 original size:18 final size:18
Alignment explanation
Indices: 40397141--40397196 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
40397131 AATTAAGGAG
40397141 AATAAAAATAAATAACA-A
1 AATAAAAATAAATAA-ATA
*
40397159 AA-ATAAATAAATAAATA
1 AATAAAAATAAATAAATA
*
40397176 AATAAAAATAAACAAATA
1 AATAAAAATAAATAAATA
40397194 AAT
1 AAT
40397197 TAAATTGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 1 0.03
17 14 0.42
18 18 0.55
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.20
Consensus pattern (18 bp):
AATAAAAATAAATAAATA
Found at i:40397698 original size:19 final size:19
Alignment explanation
Indices: 40397655--40397694 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
40397645 GATTAAGGAG
40397655 AATAAAAATAACAAAAATA
1 AATAAAAATAACAAAAATA
*
40397674 AATAAAAATAA-ACAAATA
1 AATAAAAATAACAAAAATA
40397692 AAT
1 AAT
40397695 TAAATCGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (19 bp):
AATAAAAATAACAAAAATA
Found at i:40398102 original size:493 final size:493
Alignment explanation
Indices: 40397163--40398136 Score: 1709
Period size: 493 Copynumber: 2.0 Consensus size: 493
40397153 TAACAAAAAT
* *
40397163 AAATAAATAAATAAATAAAAATAAACAAATAAATTAAATTGAAAAACCAATAAGGAAGATTAACT
1 AAATAAAAAAATAAATAAAAATAAACAAATAAATTAAATCGAAAAACCAATAAGGAAGATTAACT
*
40397228 CGCTTCAGGGTTTGTAACTAACTTCAGATTAGAGTTTTAGAGTGGATTAGAAATCGATTAACTAA
66 CGCTTAAGGGTTTGTAACTAACTTCAGATTAGAGTTTTAGAGTGGATTAGAAATCGATTAACTAA
*
40397293 TTATTACCTCCCGGCCTCAAATTAACGAGTAAATTGGTTGATACTCGCTTATCTCCCAACCTCAC
131 TTATTACCTCCCGACCTCAAATTAACGAGTAAATTGGTTGATACTCGCTTATCTCCCAACCTCAC
* *
40397358 TTTCTCAACCCGAATAAATTACAATTTACTTAGTTCGACTTATCTTCCGAACTCATCTAACCTGT
196 TTTCTCAACCCAAATAAATTACAATTTACTTAGTTCGACTTATCTTCCGAACTCATCTAACCTAT
*
40397423 GATAACTTATTAGGGTTGTGAAGCCTAACAATTTAAGAACACATAATTTATACCAACTAATCCTT
261 GATAAC---TTAGGGTTGTGAAACCTAACAATTTAAGAACACATAATTTATACCAACTAATCCTT
*
40397488 CTCGAGAAACCCCAAATCCTCCGTTAATCTCATCCCCATCCACTTGTTAATTTCCCTTAAGGGAT
323 CTCGAGAAACCCCAAATCCTCCATTAATCTCATCCCCATCCACTTGTTAATTTCCCTTAAGGGAT
* * *
40397553 TTAGCCACTCATGTTATTCATAATCTCAATTTCAATTGAATAAACTATGTGAGAAACATGATCGT
388 TTAGCCACTCAAGTTATTCATAATCTCAATTTCAATTGAAAAAACTATGTGAGAAACACGATCGT
40397618 TTCGGAGAAAAAAAGGAGATTTGAATAGATTAAGGAGAATAA
453 TTCGGAG-AAAAAAGGAGATTTGAATAGATTAAGGAGAATAA
40397660 AAATAACAAAAATAAATAAAAATAAACAAATAAATTAAATCGAAAAACCAATAAGGAAGATTAAC
1 AAATAA-AAAAATAAATAAAAATAAACAAATAAATTAAATCGAAAAACCAATAAGGAAGATTAAC
* *
40397725 TTGCTTAAGGGTTTGTAACTAACTTCAGATTAGAGTTTTAGAGTGGATTAGTAATCGATTAACTA
65 TCGCTTAAGGGTTTGTAACTAACTTCAGATTAGAGTTTTAGAGTGGATTAGAAATCGATTAACTA
* *
40397790 ATTATTACCTCTCGACCTCAAATTAACGAGTAAATTGGTTGATACTCGCTTATCT-CCGACCTCA
130 ATTATTACCTCCCGACCTCAAATTAACGAGTAAATTGGTTGATACTCGCTTATCTCCCAACCTCA
* *
40397854 GTTTCTCAACCCAAATAAATTACAATTTACTTAGTTCGACTTATCTTCCGACCTCATCTAACCTA
195 CTTTCTCAACCCAAATAAATTACAATTTACTTAGTTCGACTTATCTTCCGAACTCATCTAACCTA
40397919 TGATAAC-TAGGGTTGTGAAACCTAACAATTTAAGAACACATAATTTATACCAACTAATCCTTCT
260 TGATAACTTAGGGTTGTGAAACCTAACAATTTAAGAACACATAATTTATACCAACTAATCCTTCT
40397983 CGAGAAACCCCAAATCCTCCATTAATCTCATCCCCATCCACTTGTTAATTTCCCTTAAGGGATTT
325 CGAGAAACCCCAAATCCTCCATTAATCTCATCCCCATCCACTTGTTAATTTCCCTTAAGGGATTT
40398048 AGCCACTCAAGTTATTCATAATCTCAATTTCAATTGAAAAAACTATGTGAGAAACACGATCGTTT
390 AGCCACTCAAGTTATTCATAATCTCAATTTCAATTGAAAAAACTATGTGAGAAACACGATCGTTT
* * *
40398113 TGGAGAGAAAATGAGATTTGAATA
455 CGGAGAAAAAAGGAGATTTGAATA
40398137 ATTGTGGATT
Statistics
Matches: 456, Mismatches: 20, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
492 17 0.04
493 186 0.41
497 82 0.18
498 171 0.38
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.31
Consensus pattern (493 bp):
AAATAAAAAAATAAATAAAAATAAACAAATAAATTAAATCGAAAAACCAATAAGGAAGATTAACT
CGCTTAAGGGTTTGTAACTAACTTCAGATTAGAGTTTTAGAGTGGATTAGAAATCGATTAACTAA
TTATTACCTCCCGACCTCAAATTAACGAGTAAATTGGTTGATACTCGCTTATCTCCCAACCTCAC
TTTCTCAACCCAAATAAATTACAATTTACTTAGTTCGACTTATCTTCCGAACTCATCTAACCTAT
GATAACTTAGGGTTGTGAAACCTAACAATTTAAGAACACATAATTTATACCAACTAATCCTTCTC
GAGAAACCCCAAATCCTCCATTAATCTCATCCCCATCCACTTGTTAATTTCCCTTAAGGGATTTA
GCCACTCAAGTTATTCATAATCTCAATTTCAATTGAAAAAACTATGTGAGAAACACGATCGTTTC
GGAGAAAAAAGGAGATTTGAATAGATTAAGGAGAATAA
Found at i:40403335 original size:24 final size:24
Alignment explanation
Indices: 40403308--40403362 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
40403298 TGTCTGTGGT
*
40403308 TAAATGATTGATTTGCCCGT-GATG
1 TAAATGAATGATTTGCCC-TAGATG
* *
40403332 TAAATAAATGATTTGTCCTAGATG
1 TAAATGAATGATTTGCCCTAGATG
40403356 TAAATGA
1 TAAATGA
40403363 CTATTTTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (24 bp):
TAAATGAATGATTTGCCCTAGATG
Found at i:40403436 original size:24 final size:24
Alignment explanation
Indices: 40403356--40403428 Score: 96
Period size: 24 Copynumber: 3.0 Consensus size: 24
40403346 GTCCTAGATG
*
40403356 TAAATGACT-ATTT-TATCTGTAATT
1 TAAATGACTGATTTGT-T-TGTGATT
*
40403380 TAAATAACTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTTTGTGATT
40403404 TAAATGACTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTTTGTGATT
40403428 T
1 T
40403429 GTATGACTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 38 0.86
25 5 0.11
26 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (24 bp):
TAAATGACTGATTTGTTTGTGATT
Found at i:40403542 original size:27 final size:27
Alignment explanation
Indices: 40403504--40403566 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
40403494 ATGGAGAAAG
40403504 TACTG-TACTGGTGGCTCT-GCCACA-A
1 TACTGTTACTGGTGGCT-TGGCCACATA
40403529 TCACTGTTACTGGTGGCTTGGCCACATA
1 T-ACTGTTACTGGTGGCTTGGCCACATA
40403557 TACTGTTACT
1 TACTGTTACT
40403567 AGAAGCTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
25 1 0.03
26 5 0.15
27 26 0.76
28 2 0.06
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.33
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCCACATA
Found at i:40403574 original size:27 final size:27
Alignment explanation
Indices: 40403522--40403574 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
40403512 TGGTGGCTCT
* **
40403522 GCCACAATCACTGTTACTGGTGGCTTG
1 GCCACAATCACTGTTACTAGAAGCTTG
40403549 GCCACATAT-ACTGTTACTAGAAGCTT
1 GCCACA-ATCACTGTTACTAGAAGCTT
40403575 TGCTGCGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (27 bp):
GCCACAATCACTGTTACTAGAAGCTTG
Found at i:40405256 original size:27 final size:27
Alignment explanation
Indices: 40405223--40405289 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
40405213 GCAATATACG
* *
40405223 AAAGGAATGCCTTCATGGCAAACTTTA
1 AAAGGAATGCCTTCATGACAAACTCTA
*
40405250 AAGGGAATGCCTTCATGACAAACTCTA
1 AAAGGAATGCCTTCATGACAAACTCTA
40405277 AAAGGAATGCCTT
1 AAAGGAATGCCTT
40405290 GACGACGTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
AAAGGAATGCCTTCATGACAAACTCTA
Found at i:40424515 original size:16 final size:16
Alignment explanation
Indices: 40424490--40424520 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40424480 AAAAATTCTC
40424490 TTCTCCGTTTTTCTTA
1 TTCTCCGTTTTTCTTA
*
40424506 TTCTCTGTTTTTCTT
1 TTCTCCGTTTTTCTT
40424521 TTATTGGGTA
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:0.03, C:0.23, G:0.06, T:0.68
Consensus pattern (16 bp):
TTCTCCGTTTTTCTTA
Found at i:40427925 original size:39 final size:39
Alignment explanation
Indices: 40427870--40428049 Score: 216
Period size: 39 Copynumber: 4.6 Consensus size: 39
40427860 AACATGTTTT
* * *
40427870 TGAGTATTGTGGTATATGTTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
40427909 TGAGTATTGTGATATATGCCTGAATGTTATGTGATTGTA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* ** *
40427948 TGAGTATTGTTATATATGCTTAAACATTATGTAATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
40427987 TGAGTATTGTGATATATGCATAAAGGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * * *
40428026 TGTGTAATGTGATACATGTTTAAA
1 TGAGTATTGTGATATATGCTTAAA
40428050 AGTGAATATC
Statistics
Matches: 120, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 120 1.00
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.44
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:40428817 original size:42 final size:42
Alignment explanation
Indices: 40428770--40428864 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
40428760 TTTCCTAGTG
40428770 GTATCGATACCACTTGAGAGAATTACTGATACCATTGTTATA
1 GTATCGATACCACTTGAGAGAATTACTGATACCATTGTTATA
* * * *
40428812 GTATCGATACGACTTGAGAGAGTTATTGATACCTTTGTTATA
1 GTATCGATACCACTTGAGAGAATTACTGATACCATTGTTATA
40428854 GTATCGATACC
1 GTATCGATACC
40428865 TACATAATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (42 bp):
GTATCGATACCACTTGAGAGAATTACTGATACCATTGTTATA
Found at i:40428864 original size:20 final size:20
Alignment explanation
Indices: 40428797--40428865 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
40428787 GAGAATTACT
*
40428797 GATACCATTGTTATAGTATC
1 GATACCTTTGTTATAGTATC
** * *
40428817 GATACGAC-TTGAGAGAGTTATT
1 GATAC--CTTTGTTATAG-TATC
40428839 GATACCTTTGTTATAGTATC
1 GATACCTTTGTTATAGTATC
40428859 GATACCT
1 GATACCT
40428866 ACATAATTGT
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 16 0.43
21 12 0.32
22 9 0.24
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (20 bp):
GATACCTTTGTTATAGTATC
Found at i:40431112 original size:73 final size:73
Alignment explanation
Indices: 40430993--40431139 Score: 251
Period size: 73 Copynumber: 2.0 Consensus size: 73
40430983 TTATATCATG
40430993 AGCAAAGTTTCCTTTCCTAAATACACCACCACACAAGGTTAGTAGGTGTATAGATAAACATATAA
1 AGCAAAGTTTCCTTTCCTAAATACACCACCACACAAGGTTAGTAGGTGTATAGATAAACATATAA
40431058 ATCCAACC
66 ATCCAACC
* * *
40431066 AGCAAAGTTTCCTTTCCTAAATACACCACCATC-CAAGGTTAGTAGGTGTATAGGTAAGCATCTA
1 AGCAAAGTTTCCTTTCCTAAATACACCACCA-CACAAGGTTAGTAGGTGTATAGATAAACATATA
40431130 AATCCAACC
65 AATCCAACC
40431139 A
1 A
40431140 ATTTGTGAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 69 0.99
74 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (73 bp):
AGCAAAGTTTCCTTTCCTAAATACACCACCACACAAGGTTAGTAGGTGTATAGATAAACATATAA
ATCCAACC
Found at i:40441002 original size:11 final size:11
Alignment explanation
Indices: 40440986--40441010 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
40440976 AATCCCGTAG
40440986 ATAATAAAATA
1 ATAATAAAATA
40440997 ATAATAAAATA
1 ATAATAAAATA
40441008 ATA
1 ATA
40441011 GTTTACTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATAAAATA
Found at i:40441183 original size:18 final size:19
Alignment explanation
Indices: 40441149--40441186 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
40441139 AAATCTTGTT
40441149 ATTAAACTTGGTGATGTGA
1 ATTAAACTTGGTGATGTGA
40441168 ATTAAA-TTGGAT-ATGTGA
1 ATTAAACTTGG-TGATGTGA
40441186 A
1 A
40441187 CACTTAACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.37
Consensus pattern (19 bp):
ATTAAACTTGGTGATGTGA
Found at i:40445452 original size:15 final size:15
Alignment explanation
Indices: 40445432--40445470 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
40445422 ATATATATTT
40445432 TTAATTAAAAATTAA
1 TTAATTAAAAATTAA
* * *
40445447 TTAATTATAGATTAT
1 TTAATTAAAAATTAA
40445462 TTAATTAAA
1 TTAATTAAA
40445471 TATATTTAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
TTAATTAAAAATTAA
Found at i:40449413 original size:18 final size:18
Alignment explanation
Indices: 40449386--40449422 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
40449376 ATTGAGTAAG
40449386 AAAAGCGATTAATTTTAT
1 AAAAGCGATTAATTTTAT
*
40449404 AAAAGTGATTAATTTTAT
1 AAAAGCGATTAATTTTAT
40449422 A
1 A
40449423 TGCTCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (18 bp):
AAAAGCGATTAATTTTAT
Found at i:40451502 original size:3 final size:3
Alignment explanation
Indices: 40451494--40451574 Score: 60
Period size: 3 Copynumber: 26.0 Consensus size: 3
40451484 GCATTAATGG
* *
40451494 TAA TAA TAA TAA TAA TAA TAA TAA -AA TGAC TAA AAA TAAA TAGCA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA T-AA TA--A TAA
*
40451542 AAA TAA -AA TAA TAA -AA TAA TAAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA T-AA TAA TAA
40451575 GAAAGGGCAA
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 6 0.09
3 43 0.67
4 12 0.19
5 3 0.05
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:40451532 original size:30 final size:28
Alignment explanation
Indices: 40451498--40451574 Score: 68
Period size: 30 Copynumber: 2.6 Consensus size: 28
40451488 TAATGGTAAT
*
40451498 AATAATAATAATAATAATAAAATGACT-A
1 AATAATAATAATAATAATAAAAT-AATAA
*
40451526 AA-AATAAATAGCATAAAAATAAAATAATAA
1 AATAAT-AATA--ATAATAATAAAATAATAA
40451556 AATAATAAATAAATAATAA
1 AATAAT-AAT-AATAATAA
40451575 GAAAGGGCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
27 3 0.08
28 6 0.15
29 2 0.05
30 21 0.52
31 7 0.17
32 1 0.03
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (28 bp):
AATAATAATAATAATAATAAAATAATAA
Found at i:40451554 original size:19 final size:20
Alignment explanation
Indices: 40451498--40451574 Score: 65
Period size: 19 Copynumber: 4.0 Consensus size: 20
40451488 TAATGGTAAT
40451498 AATAAT-AATAATAATAATAA
1 AATAATAAATAA-AATAATAA
* * *
40451518 AATGACTAAA-AATA-AATAG
1 AAT-AATAAATAAAATAATAA
*
40451537 CATAA-AAATAAAATAATAA
1 AATAATAAATAAAATAATAA
40451556 AATAATAAAT-AAATAATAA
1 AATAATAAATAAAATAATAA
40451575 GAAAGGGCAA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.07
18 4 0.09
19 23 0.52
20 8 0.18
21 4 0.09
22 2 0.05
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (20 bp):
AATAATAAATAAAATAATAA
Found at i:40474773 original size:27 final size:27
Alignment explanation
Indices: 40474733--40474806 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
40474723 AACACGTCAA
*
40474733 GAAAGAAAATCCTTTATGGCGTAATAT
1 GAAAGAAAAGCCTTTATGGCGTAATAT
* *
40474760 GAAAGAAAAGCCTTTTTGGCGTGATAT
1 GAAAGAAAAGCCTTTATGGCGTAATAT
** *
40474787 GAAAGATTAGCCTTTGTGGC
1 GAAAGAAAAGCCTTTATGGC
40474807 AAACTTTGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTATGGCGTAATAT
Found at i:40477994 original size:6 final size:6
Alignment explanation
Indices: 40477978--40478013 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
40477968 AAAGGTACGA
* *
40477978 GTATAT ATATAT GTATAT GTATAT ATATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
40478014 AACGCTCGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:40478001 original size:18 final size:18
Alignment explanation
Indices: 40477978--40478013 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
40477968 AAAGGTACGA
40477978 GTATATATATATGTATAT
1 GTATATATATATGTATAT
40477996 GTATATATATATGTATAT
1 GTATATATATATGTATAT
40478014 AACGCTCGAA
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:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (18 bp):
GTATATATATATGTATAT
Found at i:40478761 original size:8 final size:8
Alignment explanation
Indices: 40478748--40478784 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
40478738 ACCTGTTGAG
40478748 TTTTTTAT
1 TTTTTTAT
40478756 TTTTTTA-
1 TTTTTTAT
40478763 TTTTTTATT
1 TTTTTTA-T
40478772 TTTTTTAT
1 TTTTTTAT
40478780 TTTTT
1 TTTTT
40478785 CTCATTCGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:40478774 original size:16 final size:15
Alignment explanation
Indices: 40478748--40478784 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 15
40478738 ACCTGTTGAG
40478748 TTTTTTATTTTTTTA
1 TTTTTTATTTTTTTA
40478763 TTTTTTATTTTTTTTA
1 TTTTTTA-TTTTTTTA
40478779 TTTTTT
1 TTTTTT
40478785 CTCATTCGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTTTATTTTTTTA
Found at i:40479409 original size:22 final size:21
Alignment explanation
Indices: 40479370--40479410 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
40479360 TTTATTTTCA
40479370 TATTTTTTAATATATTATACT
1 TATTTTTTAATATATTATACT
* *
40479391 TATTTTATTTATATTTTATA
1 TATTTT-TTAATATATTATA
40479411 AAGTACATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTTTTTAATATATTATACT
Found at i:40491313 original size:45 final size:44
Alignment explanation
Indices: 40491215--40491415 Score: 187
Period size: 45 Copynumber: 4.6 Consensus size: 44
40491205 GTACTGGCGT
* * * * * *
40491215 GAAGTAGATCATAGATACCAGATCTTGTC-TCCCGTACAGGTGGT
1 GAAGCAGATCA-AGAAAGCAGATCTTGTCTTCCCATACTGGTGGC
* * *
40491259 GGAGTAGATCGAAGAAAGCAGATCTTGCCTTCCCATACTGGTGGC
1 GAAGCAGATC-AAGAAAGCAGATCTTGTCTTCCCATACTGGTGGC
*** * * *
40491304 GAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGCAGATC-AAGAAAGCAGATCTTGTCTTCCCATACTGGTGGC
* *
40491348 GAAGTAGATCAAGATA-CAGATCTTG-CTT-CCATACTGGTGGC
1 GAAGCAGATCAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGC
40491389 GAAGCAGATCAAGAAAGCAGATCTTGT
1 GAAGCAGATCAAGAAAGCAGATCTTGT
40491416 TTCATGTACC
Statistics
Matches: 125, Mismatches: 27, Indels: 11
0.77 0.17 0.07
Matches are distributed among these distances:
40 5 0.04
41 18 0.14
42 18 0.14
43 5 0.04
44 33 0.26
45 46 0.37
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (44 bp):
GAAGCAGATCAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGC
Done.