Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 3 of 172
Found at i:681734 original size:21 final size:21
Alignment explanation
Indices: 681688--681735 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
681678 AAGATCCGCT
* *
681688 ACCGGAGGAACCAGAATCCCT
1 ACCGGAGGAACCAGAACCCCC
* *
681709 GCCGGAGTAACCAGAACCCCC
1 ACCGGAGGAACCAGAACCCCC
681730 ACCGGA
1 ACCGGA
681736 AGCTGGACAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.38, G:0.25, T:0.06
Consensus pattern (21 bp):
ACCGGAGGAACCAGAACCCCC
Found at i:685575 original size:46 final size:46
Alignment explanation
Indices: 685508--685761 Score: 415
Period size: 46 Copynumber: 5.6 Consensus size: 46
685498 TTTGAGTACT
* *
685508 TCTGATC-AGTGGCAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
685553 TCTGATCAAGTGACGAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
685599 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAACTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
* *
685645 TCTGCTCAAGTAACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
685691 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
685737 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
685762 ATCATACGTA
Statistics
Matches: 196, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
44 12 0.06
45 12 0.06
46 172 0.88
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
Found at i:687242 original size:125 final size:125
Alignment explanation
Indices: 687020--687433 Score: 711
Period size: 125 Copynumber: 3.3 Consensus size: 125
687010 CCAAACATGC
* * ** *
687020 GCTACTGTAGCAAAAACGCGTCCACGTGGGAGTGATTTCAGTACTTTTACTGACAAAGCATCCTG
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGTACTTTTGTTGACAATGCATCCTG
*** * * *
687085 CTTAAAGCGGTTTTGACACTATTTGCTCAGAAACGTCTACTTGAAATTAGTTTTTCAGGA
66 CTTAAAGAATTTTTGACACTTTTTGCTCAGAAACGTCTACTTGAAATTATTTTTTTAGGA
* *
687145 GCTACTATAGCAAAAGCGCGTCCATGTGGGAGCGATTTCAGTACTTTTGTTGACAATGCATCCTG
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGTACTTTTGTTGACAATGCATCCTG
687210 CTTAAAGAATTTTTGACACTTTTTGCTCAGAAACGTCTACTTGAAATTATTTTTTTAGGA
66 CTTAAAGAATTTTTGACACTTTTTGCTCAGAAACGTCTACTTGAAATTATTTTTTTAGGA
687270 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGTACTTTTGTTGACAATGCATCCTG
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGTACTTTTGTTGACAATGCATCCTG
687335 CTTAAAGAATTTTTGACACTTTTTGCTCAGAAACGTCTACTTGAAATTATTTTTTTAGGA
66 CTTAAAGAATTTTTGACACTTTTTGCTCAGAAACGTCTACTTGAAATTATTTTTTTAGGA
687395 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
687434 CTTAAAATTT
Statistics
Matches: 274, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 274 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (125 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGTACTTTTGTTGACAATGCATCCTG
CTTAAAGAATTTTTGACACTTTTTGCTCAGAAACGTCTACTTGAAATTATTTTTTTAGGA
Found at i:687647 original size:21 final size:21
Alignment explanation
Indices: 687621--687661 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
687611 ACCTAAAAAT
**
687621 CCCAAAACCTTAAACCCTAAA
1 CCCAAAACCCAAAACCCTAAA
687642 CCCAAAACCCAAAACCCTAA
1 CCCAAAACCCAAAACCCTAA
687662 TGGCAGGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.41, G:0.00, T:0.10
Consensus pattern (21 bp):
CCCAAAACCCAAAACCCTAAA
Found at i:687649 original size:14 final size:14
Alignment explanation
Indices: 687621--687661 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
687611 ACCTAAAAAT
*
687621 CCCAAAACCTTAAA
1 CCCAAAACCCTAAA
* *
687635 CCCTAAACCCAAAA
1 CCCAAAACCCTAAA
687649 CCCAAAACCCTAA
1 CCCAAAACCCTAA
687662 TGGCAGGGCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.41, G:0.00, T:0.10
Consensus pattern (14 bp):
CCCAAAACCCTAAA
Found at i:689618 original size:50 final size:50
Alignment explanation
Indices: 689494--689742 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
689484 GATAATAACA
* * ** * *
689494 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
689545 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
689595 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
689645 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
689700 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
689743 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:689672 original size:100 final size:104
Alignment explanation
Indices: 689493--689742 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
689483 TGATAATAAC
**
689493 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
689558 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
689595 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
689658 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
689700 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
689743 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:689858 original size:13 final size:13
Alignment explanation
Indices: 689837--689868 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
689827 GCTTGGATCA
*
689837 TCATCAAATAAAT
1 TCATAAAATAAAT
689850 TCATAAAATAAAT
1 TCATAAAATAAAT
689863 TCATAA
1 TCATAA
689869 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:690115 original size:30 final size:30
Alignment explanation
Indices: 690080--690137 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
690070 CCTCGACTCT
*
690080 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
690110 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
690138 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:697212 original size:50 final size:50
Alignment explanation
Indices: 697088--697336 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
697078 GATAATAACA
* * ** * *
697088 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
697139 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
697189 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
697239 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
697294 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
697337 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:697266 original size:100 final size:104
Alignment explanation
Indices: 697087--697336 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
697077 TGATAATAAC
**
697087 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
697152 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
697189 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
697252 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
697294 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
697337 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:697452 original size:13 final size:13
Alignment explanation
Indices: 697431--697462 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
697421 GCTTGGATCA
*
697431 TCATCAAATAAAT
1 TCATAAAATAAAT
697444 TCATAAAATAAAT
1 TCATAAAATAAAT
697457 TCATAA
1 TCATAA
697463 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:697709 original size:30 final size:30
Alignment explanation
Indices: 697674--697731 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
697664 CCTCGACTCT
*
697674 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
697704 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
697732 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:698636 original size:25 final size:25
Alignment explanation
Indices: 698601--698650 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
698591 TATTAAATAT
*
698601 TATAAATTTTAAAAAAAATTATAAA
1 TATAAAATTTAAAAAAAATTATAAA
* *
698626 TATAAAATTTATACAAAATTATAAA
1 TATAAAATTTAAAAAAAATTATAAA
698651 AAAATTAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
TATAAAATTTAAAAAAAATTATAAA
Found at i:717686 original size:31 final size:31
Alignment explanation
Indices: 717651--717721 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
717641 GAAAATCCCA
* *
717651 AAGTTCAGGTCCCAATGTGGAAACAATTGCT
1 AAGTTCAGGTCCCAATATGGAAACAATTGCC
* * *
717682 AAGTTCAAGTCTCAATATGGAAATAATTGCC
1 AAGTTCAGGTCCCAATATGGAAACAATTGCC
717713 AAGTTCAGG
1 AAGTTCAGG
717722 GACTAAGTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (31 bp):
AAGTTCAGGTCCCAATATGGAAACAATTGCC
Found at i:722852 original size:41 final size:41
Alignment explanation
Indices: 722795--722950 Score: 278
Period size: 41 Copynumber: 3.8 Consensus size: 41
722785 GAATGTAATA
* *
722795 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
722836 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
722877 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
722918 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 CAGACTATATGTCTAGCAGGCTTAA-TGCCGGTG
722951 TACTGAATCA
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
40 3 0.03
41 109 0.97
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (41 bp):
CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:722975 original size:82 final size:82
Alignment explanation
Indices: 722795--722992 Score: 285
Period size: 82 Copynumber: 2.4 Consensus size: 82
722785 GAATGTAATA
722795 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
*
722860 ATGCCGGTGATACATTT
66 ATGCCGGTGATACATAT
* *
722877 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
722941 AGTGCCGGTG-TAC-TGAAT
66 A-TGCCGGTGATACAT--AT
* * **
722959 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
722993 ATCTGTTTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.01
81 6 0.06
82 97 0.93
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (82 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
ATGCCGGTGATACATAT
Found at i:730425 original size:41 final size:41
Alignment explanation
Indices: 730368--730523 Score: 278
Period size: 41 Copynumber: 3.8 Consensus size: 41
730358 GAATGTAATA
* *
730368 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
730409 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
730450 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
730491 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 CAGACTATATGTCTAGCAGGCTTAA-TGCCGGTG
730524 TACTGAATCA
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
40 3 0.03
41 109 0.97
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (41 bp):
CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:730548 original size:82 final size:82
Alignment explanation
Indices: 730368--730565 Score: 285
Period size: 82 Copynumber: 2.4 Consensus size: 82
730358 GAATGTAATA
730368 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
*
730433 ATGCCGGTGATACATTT
66 ATGCCGGTGATACATAT
* *
730450 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
730514 AGTGCCGGTG-TAC-TGAAT
66 A-TGCCGGTGATACAT--AT
* * **
730532 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
730566 ATCTGTTTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.01
81 6 0.06
82 97 0.93
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (82 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
ATGCCGGTGATACATAT
Found at i:731638 original size:28 final size:28
Alignment explanation
Indices: 731566--731638 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 28
731556 TCACATAAGC
*
731566 GTTCGCACAT--AGGGTTCTCATATAGG
1 GTTCGCACATACAGGGTTCGCATATAGG
* ** *
731592 GTTCGTACATACAAAGTTCGCATGTAGG
1 GTTCGCACATACAGGGTTCGCATATAGG
*
731620 GTTTGCACATACAGGGTTC
1 GTTCGCACATACAGGGTTC
731639 AGATACTAAG
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
26 9 0.25
28 27 0.75
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (28 bp):
GTTCGCACATACAGGGTTCGCATATAGG
Found at i:731792 original size:24 final size:24
Alignment explanation
Indices: 731736--731809 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 24
731726 AAGGGTTCAG
* **
731736 ATACTAAATCATTATTAAAGTTTGC
1 ATACTAAAACA-TATTAGGGTTTGC
* *
731761 AAAGTAAAACATATTAGGGTTTGC
1 ATACTAAAACATATTAGGGTTTGC
*
731785 ATACTAAATCCATA--AGGGTTTGC
1 ATACTAAA-ACATATTAGGGTTTGC
731808 AT
1 AT
731810 GAGGGTTCGA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 11 0.28
24 17 0.43
25 12 0.30
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (24 bp):
ATACTAAAACATATTAGGGTTTGC
Found at i:731806 original size:23 final size:24
Alignment explanation
Indices: 731705--731809 Score: 76
Period size: 23 Copynumber: 4.4 Consensus size: 24
731695 AATCATATGG
*
731705 GGGTTTGCATGCTAAATCCATA-A
1 GGGTTTGCATACTAAATCCATATA
*
731728 GGGTTCAG-ATACTAAAT-CATTATTA
1 GGGTT-TGCATACTAAATCCA-TA-TA
** * * *
731753 AAGTTTGCAAAGTAAA-ACATATTA
1 GGGTTTGCATACTAAATCCATA-TA
731777 GGGTTTGCATACTAAATCCATA-A
1 GGGTTTGCATACTAAATCCATATA
731800 GGGTTTGCAT
1 GGGTTTGCAT
731810 GAGGGTTCGA
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
22 2 0.03
23 26 0.41
24 19 0.30
25 16 0.25
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (24 bp):
GGGTTTGCATACTAAATCCATATA
Found at i:731910 original size:23 final size:22
Alignment explanation
Indices: 731871--731930 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
731861 GCATGTATAT
* *
731871 ATGTTTATGTAAGGGTTCGC-CTA
1 ATGTTTA-CTAAGGGTTCACAC-A
731894 ATGTTTACTAAGAGGTTCACACA
1 ATGTTTACTAAG-GGTTCACACA
*
731917 ATATTTACTAAGGG
1 ATGTTTACTAAGGG
731931 ACCGCATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 6 0.19
23 25 0.78
24 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (22 bp):
ATGTTTACTAAGGGTTCACACA
Found at i:734853 original size:69 final size:66
Alignment explanation
Indices: 734713--734857 Score: 202
Period size: 69 Copynumber: 2.1 Consensus size: 66
734703 CGGGAATCAT
* *
734713 CACTTAGCAACCCTCGGGGAATCAGCACATAGCAACCCCTTTTCATTTCAAATATACAATGGATA
1 CACTTAGCAACCCTCGGGGAATCAGCACATAGCAACCCCTTTACATTTCAAAGATA-AATGGATA
734778 TC
65 TC
**
734780 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGAT-GGTGGA
1 CACTTAGCAA-CCCTC-GGGGAATCAGCACATAGCAACCCCTTT-ACATTTCAAAGATAAATGGA
734844 TATC
63 TATC
734848 GCACTTAGCA
1 -CACTTAGCA
734858 CACCAATGAA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
67 10 0.14
68 13 0.19
69 36 0.51
70 11 0.16
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (66 bp):
CACTTAGCAACCCTCGGGGAATCAGCACATAGCAACCCCTTTACATTTCAAAGATAAATGGATAT
C
Found at i:734902 original size:99 final size:102
Alignment explanation
Indices: 734780--734995 Score: 323
Period size: 103 Copynumber: 2.1 Consensus size: 102
734770 AATGGATATC
734780 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAG-ATGGTGG
1 CACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGAATGGTGG
* *
734843 AT-ATCGCACTTAGCA-CACCAATGAACCGGGGAATCAG
65 ATCA-CGCACATAGCACCACCAATAAACCGGGGAATCAG
734880 CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGG
1 CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGA-ATGGTGG
* *
734945 ATCACGCACATAGCACCACCCATAAATCGGGGAATCAG
65 ATCACGCACATAGCACCACCAATAAACCGGGGAATCAG
**
734983 CACACAGCAACCC
1 CACTTAGCAACCC
734996 CTTTATATAC
Statistics
Matches: 105, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
99 26 0.25
100 29 0.28
102 19 0.18
103 31 0.30
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (102 bp):
CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGAATGGTGGA
TCACGCACATAGCACCACCAATAAACCGGGGAATCAG
Found at i:734962 original size:100 final size:99
Alignment explanation
Indices: 734780--734995 Score: 294
Period size: 100 Copynumber: 2.1 Consensus size: 99
734770 AATGGATATC
734780 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATGGTGGAT
1 CACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATGGTGGAT
* *
734845 ATCGCACTTAGCACACCA-ATGAACCGGGGAATCAG
65 ATCGCACATAG-ACACCACATAAACCGGGGAATCAG
734880 CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGG
1 CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAG--ATGGTGG
*
734945 ATCA-CGCACATAG-CACCACCCATAAATCGGGGAATCAG
63 AT-ATCGCACATAGACACCA--CATAAACCGGGGAATCAG
**
734983 CACACAGCAACCC
1 CACTTAGCAACCC
734996 CTTTATATAC
Statistics
Matches: 104, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
99 26 0.25
100 34 0.33
102 17 0.16
103 27 0.26
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (99 bp):
CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATGGTGGATA
TCGCACATAGACACCACATAAACCGGGGAATCAG
Found at i:735354 original size:29 final size:29
Alignment explanation
Indices: 735321--735384 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
735311 TAATCCACCA
735321 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
735350 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
735380 CCCAA
1 CCCAA
735385 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:735358 original size:30 final size:30
Alignment explanation
Indices: 735328--735384 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
735318 CCACCCAACT
735328 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
735357 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
735385 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:742278 original size:26 final size:26
Alignment explanation
Indices: 742242--742293 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
742232 CACCACTGAA
* *
742242 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
742268 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
742294 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:742367 original size:70 final size:71
Alignment explanation
Indices: 742254--742403 Score: 248
Period size: 70 Copynumber: 2.1 Consensus size: 71
742244 GGGGAATCAT
* *
742254 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGG
742318 ATATCG
66 ATATCG
***
742324 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGG
742389 ATATCG
66 ATATCG
742395 CACTTAGCA
1 CACTTAGCA
742404 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 44 0.59
71 30 0.41
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGG
ATATCG
Found at i:742445 original size:103 final size:103
Alignment explanation
Indices: 742323--742544 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
742313 AATGGATATC
742323 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
742387 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACC-ATAAACCGGGGAATCA
742426 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
*
742491 GGATCACGCACATAGCACCACCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCATAAACCGGGGAATCA
**
742529 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
742545 TTTATATACA
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
103 45 0.40
104 66 0.59
105 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCATAAACCGGGGAATCA
Found at i:742905 original size:29 final size:29
Alignment explanation
Indices: 742872--742935 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
742862 TAATCCACCA
742872 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
742901 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
742931 CCCAA
1 CCCAA
742936 GCTCAGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:742909 original size:30 final size:30
Alignment explanation
Indices: 742879--742935 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
742869 CCACCCAACT
742879 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
742908 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
742936 GCTCAGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:744226 original size:23 final size:23
Alignment explanation
Indices: 744196--744276 Score: 99
Period size: 23 Copynumber: 3.4 Consensus size: 23
744186 TGATGATAAG
744196 ATGCTGTCCAAATTAGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
** * * *
744219 ATGCTGTCCATTTTTGAGCATATTA
1 ATGCTGTCCAAATTAGTGC-T-TAA
744244 ATGCTGTCCAAATTAGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
744267 ATGCTGTCCA
1 ATGCTGTCCA
744277 TTTTTTTTGA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
23 27 0.59
24 2 0.04
25 17 0.37
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (23 bp):
ATGCTGTCCAAATTAGTGCTTAA
Found at i:744267 original size:48 final size:49
Alignment explanation
Indices: 744196--744304 Score: 184
Period size: 48 Copynumber: 2.2 Consensus size: 49
744186 TGATGATAAG
*
744196 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCA-TTTTTGAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTGACCATATTA
744244 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTTTGACCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCA--TTTTTTGACCATATTA
744295 ATGCTGTCCA
1 ATGCTGTCCA
744305 TTTTTTTTGA
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
48 33 0.58
51 24 0.42
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (49 bp):
ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTGACCATATTA
Found at i:744304 original size:28 final size:28
Alignment explanation
Indices: 744266--744332 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
744256 TTAGTGCTTA
744266 AATGCTGTCCATTTTTTTTGACCATATT
1 AATGCTGTCCATTTTTTTTGACCATATT
*
744294 AATGCTGTCCATTTTTTTTGAGCATATT
1 AATGCTGTCCATTTTTTTTGACCATATT
744322 AATGCTGTCCA
1 AATGCTGTCCA
744333 AATTTATGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.46
Consensus pattern (28 bp):
AATGCTGTCCATTTTTTTTGACCATATT
Found at i:744369 original size:76 final size:74
Alignment explanation
Indices: 744218--744380 Score: 231
Period size: 79 Copynumber: 2.1 Consensus size: 74
744208 TTAGTGCTTA
744218 AATGCTGTCCATTTTTGAGCATATTAATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTT
1 AATGCTGTCCATTTTTGAGCATATTAATGCTGTCCAAATTAGTGCTTAAATGCTGTCCA--TTTT
744283 TTGACCATATT
64 TTGACCATATT
*
744294 AATGCTGTCCATTTTTTTTGAGCATATTAATGCTGTCCAAATTTA-TGCTTAATTGCTGTCCA-T
1 AATGCTGTCCA---TTTTTGAGCATATTAATGCTGTCCAAA-TTAGTGCTTAAATGCTGTCCATT
**
744357 TTTTGAGTATATT
62 TTTTGACCATATT
744370 AATGCTGTCCA
1 AATGCTGTCCA
744381 AGTTGGTGCT
Statistics
Matches: 80, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
76 34 0.43
79 43 0.54
80 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (74 bp):
AATGCTGTCCATTTTTGAGCATATTAATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTT
GACCATATT
Found at i:744370 original size:48 final size:48
Alignment explanation
Indices: 744294--744427 Score: 162
Period size: 48 Copynumber: 2.7 Consensus size: 48
744284 TGACCATATT
*
744294 AATGCTGTCCATTTTTTTTGAGCATATTAATGCTGTCCAAATTTATGCTTA
1 AATGCTGTCCA---TTTTTGAGCATATTAATGCTGTCCAAATTGATGCTTA
* * * *
744345 ATTGCTGTCCATTTTTGAGTATATTAATGCTGTCCAAGTTGGTGCTTA
1 AATGCTGTCCATTTTTGAGCATATTAATGCTGTCCAAATTGATGCTTA
* *
744393 AATGCTGTCCATTTTTGTA-CAAATCAATGCTGTCC
1 AATGCTGTCCATTTTTG-AGCATATTAATGCTGTCC
744428 GATTGTTGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
48 62 0.85
49 1 0.01
51 10 0.14
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (48 bp):
AATGCTGTCCATTTTTGAGCATATTAATGCTGTCCAAATTGATGCTTA
Found at i:745656 original size:43 final size:43
Alignment explanation
Indices: 745607--745692 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
745597 CTTCTAAATA
*
745607 TGAATTCTAGGTTTTGAAAAGATTGACTATTTATAAATTTTTT
1 TGAATTCTAGGTTTTGAAAAGATTGACTATTTATAAAATTTTT
745650 TGAATTCTAGGTTTTGAAAAGATTGACTATTTATAAAATTTTT
1 TGAATTCTAGGTTTTGAAAAGATTGACTATTTATAAAATTTTT
745693 CTTCTAATTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (43 bp):
TGAATTCTAGGTTTTGAAAAGATTGACTATTTATAAAATTTTT
Found at i:759391 original size:12 final size:12
Alignment explanation
Indices: 759374--759398 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
759364 TATTTTGATT
759374 TAAAATAACTTA
1 TAAAATAACTTA
759386 TAAAATAACTTA
1 TAAAATAACTTA
759398 T
1 T
759399 GTTATCAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAATAACTTA
Found at i:772903 original size:25 final size:25
Alignment explanation
Indices: 772871--772938 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 25
772861 TTTTGAACTT
772871 TATATTATTCATTTTAAATTTTTCA
1 TATATTATTCATTTTAAATTTTTCA
* *
772896 -ATAATTATTTATTTTAAGTTTTTCA
1 TAT-ATTATTCATTTTAAATTTTTCA
*
772921 TATATTATGCATTTTAAA
1 TATATTATTCATTTTAAA
772939 CCATATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 2 0.06
25 32 0.89
26 2 0.06
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (25 bp):
TATATTATTCATTTTAAATTTTTCA
Found at i:773298 original size:20 final size:21
Alignment explanation
Indices: 773261--773301 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
773251 ATATTAGTTT
*
773261 TTTTTTAAATTTTACTTTATA
1 TTTTTTAAATTTGACTTTATA
*
773282 TTTTTTAAA-TTGCCTTTATA
1 TTTTTTAAATTTGACTTTATA
773302 ATGTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTTAAATTTGACTTTATA
Found at i:776764 original size:22 final size:23
Alignment explanation
Indices: 776739--776798 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
776729 ATCTAGACAT
* *
776739 AAATTTTTTAAAATAATTA-TTA
1 AAATTTTATAAAAAAATTATTTA
776761 AAATTTTATAAAAAAATTATTTA
1 AAATTTTATAAAAAAATTATTTA
* *
776784 AAATATAATAAAAAA
1 AAATTTTATAAAAAA
776799 TATAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 17 0.52
23 16 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATTTTATAAAAAAATTATTTA
Found at i:776799 original size:22 final size:21
Alignment explanation
Indices: 776747--776799 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
776737 ATAAATTTTT
* *
776747 TAAAATAATTATTAAAATTTTA
1 TAAAA-AATTATTAAAATATAA
776769 TAAAAAAATTATTTAAAATATAA
1 T-AAAAAATTA-TTAAAATATAA
776792 TAAAAAAT
1 TAAAAAAT
776800 ATAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAAATTATTAAAATATAA
Found at i:777569 original size:37 final size:37
Alignment explanation
Indices: 777519--777590 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
777509 TGGTGAATGT
*
777519 TCAATTCTTTTGTTGATTTTTGCTTGCCGCTTTGGGC
1 TCAATTCTTTTGTTGATTTTTGCTCGCCGCTTTGGGC
777556 TCAATTCTTTTGTTGATTTTTGCTCGCCGCTTTGG
1 TCAATTCTTTTGTTGATTTTTGCTCGCCGCTTTGG
777591 ACCATATCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.08, C:0.19, G:0.21, T:0.51
Consensus pattern (37 bp):
TCAATTCTTTTGTTGATTTTTGCTCGCCGCTTTGGGC
Found at i:778100 original size:19 final size:19
Alignment explanation
Indices: 778078--778127 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
778068 TATTTGTTTC
778078 TTTTAATAATTTCTAT-AT
1 TTTTAATAATTTCTATAAT
*
778096 TTTTTATAACTTTCTATAAT
1 TTTTAATAA-TTTCTATAAT
*
778116 TTTCAATAATTT
1 TTTTAATAATTT
778128 TTTTATAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.30
19 10 0.37
20 9 0.33
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTAATAATTTCTATAAT
Found at i:778119 original size:10 final size:10
Alignment explanation
Indices: 778083--778128 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
778073 GTTTCTTTTA
778083 ATAA-TTTCT
1 ATAATTTTCT
*
778092 AT-ATTTTTT
1 ATAATTTTCT
*
778101 ATAACTTTCT
1 ATAATTTTCT
*
778111 ATAATTTTCA
1 ATAATTTTCT
778121 ATAATTTT
1 ATAATTTT
778129 TTTATAGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
8 1 0.03
9 8 0.27
10 21 0.70
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (10 bp):
ATAATTTTCT
Found at i:778146 original size:31 final size:29
Alignment explanation
Indices: 778077--778146 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 29
778067 TTATTTGTTT
*
778077 CTTTTAATAA-TTTCTATATTTTTTATAA
1 CTTTTAATAATTTTCAATATTTTTTATAA
778105 CTTTCT-ATAATTTTCAATAATTTTTTTATAGA
1 CTTT-TAATAATTTTCAAT-A-TTTTTTATA-A
778137 -TTTTAATAAT
1 CTTTTAATAAT
778147 AATATAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
28 8 0.23
29 7 0.20
30 2 0.06
31 17 0.49
32 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (29 bp):
CTTTTAATAATTTTCAATATTTTTTATAA
Found at i:783010 original size:17 final size:18
Alignment explanation
Indices: 782973--783012 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
782963 AACAAATAAT
*
782973 TTAAATATTATAAATATA
1 TTAAATATTATAAAAATA
*
782991 TTAAATTTTA-AAAAATA
1 TTAAATATTATAAAAATA
783008 TTAAA
1 TTAAA
783013 AGAATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAATATTATAAAAATA
Found at i:790725 original size:25 final size:25
Alignment explanation
Indices: 790697--790765 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
790687 CTGAGTAACA
***
790697 GGAAGCTCATACGAGCTGTATATAG
1 GGAAGCTCATACGAGCCAAATATAG
* * *
790722 GGAAGCTCTTGCGAGCCAAATATCG
1 GGAAGCTCATACGAGCCAAATATAG
790747 GGAAGCTCATGA-GAGCCAA
1 GGAAGCTCAT-ACGAGCCAA
790766 GATCGAGAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.19
Consensus pattern (25 bp):
GGAAGCTCATACGAGCCAAATATAG
Found at i:790775 original size:24 final size:25
Alignment explanation
Indices: 790723--790786 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
790713 TGTATATAGG
* * * *
790723 GAAGCTCTTGCGAGCCAAATATCGG
1 GAAGCTCATGAGAGCCAAAGATCGA
790748 GAAGCTCATGAGAGCC-AAGATCGA
1 GAAGCTCATGAGAGCCAAAGATCGA
* *
790772 GAAGCTTAAGAGAGC
1 GAAGCTCATGAGAGC
790787 TGTGGTGTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 19 0.58
25 14 0.42
ACGTcount: A:0.34, C:0.20, G:0.30, T:0.16
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCAAAGATCGA
Found at i:822312 original size:46 final size:46
Alignment explanation
Indices: 822211--822316 Score: 133
Period size: 46 Copynumber: 2.3 Consensus size: 46
822201 TGCGAATTCG
* *
822211 GACCACGAACTCCCCTTGCGAGCACACCTTGGCATGTGCAAGCTAA
1 GACCACGAGCTCCCCTTACGAGCACACCTTGGCATGTGCAAGCTAA
** * *
822257 GACTGCGAGCTCCCCTTATGAGCAC-CCATTGGCATGTGCAAGCTGA
1 GACCACGAGCTCCCCTTACGAGCACACC-TTGGCATGTGCAAGCTAA
*
822303 TACCACGAGCTCCC
1 GACCACGAGCTCCC
822317 ATTGTTGACT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 2 0.04
46 48 0.96
ACGTcount: A:0.24, C:0.35, G:0.23, T:0.19
Consensus pattern (46 bp):
GACCACGAGCTCCCCTTACGAGCACACCTTGGCATGTGCAAGCTAA
Found at i:824487 original size:17 final size:17
Alignment explanation
Indices: 824467--824506 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
824457 AATTATAGTA
824467 AAAAGAAAACAAAAGAC
1 AAAAGAAAACAAAAGAC
* *
824484 AAAAGAAAATATAAGAC
1 AAAAGAAAACAAAAGAC
*
824501 ACAAGA
1 AAAAGA
824507 TGAGAGAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.72, C:0.10, G:0.12, T:0.05
Consensus pattern (17 bp):
AAAAGAAAACAAAAGAC
Found at i:825889 original size:19 final size:19
Alignment explanation
Indices: 825862--825898 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
825852 ACTAATTCAT
*
825862 TTCATATAAACCAAAATAC
1 TTCAAATAAACCAAAATAC
825881 TTCAAATAAACCAAAATA
1 TTCAAATAAACCAAAATA
825899 GATAGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.24
Consensus pattern (19 bp):
TTCAAATAAACCAAAATAC
Found at i:828970 original size:31 final size:31
Alignment explanation
Indices: 828903--828970 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
828893 TTTGAATGTT
* * *
828903 ATATATTTTACTGAATTCGAATTGTTTATAG
1 ATATATATTACCGAATTCGAATTGTATATAG
* *
828934 TTATATATTACCGAAGTT-GAATTGTATATGG
1 ATATATATTACCGAA-TTCGAATTGTATATAG
828965 ATATAT
1 ATATAT
828971 CAATTCATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.46
Consensus pattern (31 bp):
ATATATATTACCGAATTCGAATTGTATATAG
Found at i:830531 original size:28 final size:28
Alignment explanation
Indices: 830498--830554 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
830488 TAATATTTTA
830498 AACTTATTCAACTAATACATATTTACAC
1 AACTTATTCAACTAATACATATTTACAC
830526 AACTTATTCAACTAATACATATTTACAC
1 AACTTATTCAACTAATACATATTTACAC
830554 A
1 A
830555 CATACAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (28 bp):
AACTTATTCAACTAATACATATTTACAC
Found at i:832907 original size:28 final size:28
Alignment explanation
Indices: 832853--832907 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
832843 AGTGTGTACA
* * *
832853 TATTTATTTAATATTATATTAATATAAT
1 TATTTATTTAATAATATATCAAAATAAT
832881 TATTT-TTTATATAATATATCAAAATAA
1 TATTTATTTA-ATAATATATCAAAATAA
832908 ACTAATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
TATTTATTTAATAATATATCAAAATAAT
Found at i:840677 original size:22 final size:21
Alignment explanation
Indices: 840639--840679 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
840629 ACAAAACAAG
**
840639 GGTATCGATATTTTATAAAAA
1 GGTATCGATATCATATAAAAA
840660 GGTATCGATACTCATATAAA
1 GGTATCGATA-TCATATAAA
840680 TTTTGATACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (21 bp):
GGTATCGATATCATATAAAAA
Found at i:841471 original size:13 final size:13
Alignment explanation
Indices: 841455--841484 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
841445 CATAATATGA
841455 AATATTAAAATAC
1 AATATTAAAATAC
*
841468 AATATTAAAATGC
1 AATATTAAAATAC
841481 AATA
1 AATA
841485 AAAGATATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (13 bp):
AATATTAAAATAC
Found at i:843646 original size:16 final size:15
Alignment explanation
Indices: 843627--843670 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
843617 TTTTATTGAG
843627 AAAATTATTTAATTAT
1 AAAATTATTTAATT-T
*
843643 AAAATTAATTAATTT
1 AAAATTATTTAATTT
843658 -AAATTAATTTAAT
1 AAAATT-ATTTAAT
843671 AAATAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.20
15 7 0.28
16 13 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAAATTATTTAATTT
Found at i:845405 original size:21 final size:21
Alignment explanation
Indices: 845375--845434 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
845365 CATTAAGATA
* *
845375 AATAATATTTATATTTATGAT
1 AATATTATTTATTTTTATGAT
*
845396 CATATTATTTATTTTTATGAT
1 AATATTATTTATTTTTATGAT
* *
845417 AATTTTATATATTTTTAT
1 AATATTATTTATTTTTAT
845435 TTTCTTACCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (21 bp):
AATATTATTTATTTTTATGAT
Found at i:847200 original size:22 final size:22
Alignment explanation
Indices: 847157--847200 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
847147 AAGAAAATGA
**
847157 TGTTTTGTTGTTATTTTTCTAT
1 TGTTTTGTTGTTATTTCACTAT
847179 TGTTTTGTTGTTATTTCACTAT
1 TGTTTTGTTGTTATTTCACTAT
847201 AATATTGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.07, G:0.14, T:0.68
Consensus pattern (22 bp):
TGTTTTGTTGTTATTTCACTAT
Found at i:850064 original size:3 final size:3
Alignment explanation
Indices: 850056--850082 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
850046 GAAGAGGTAA
850056 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
850083 ATTGAAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:852573 original size:14 final size:14
Alignment explanation
Indices: 852554--852608 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 14
852544 GGTATTTTAC
852554 AAAAATAATACAAA
1 AAAAATAATACAAA
*
852568 AAAAATAA-A-AAT
1 AAAAATAATACAAA
*
852580 AAAAA-AATACTAA
1 AAAAATAATACAAA
*
852593 AATAAT-ATACAAA
1 AAAAATAATACAAA
852606 AAA
1 AAA
852609 GTTTATTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
11 2 0.06
12 8 0.25
13 14 0.44
14 8 0.25
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAATAATACAAA
Found at i:852897 original size:153 final size:152
Alignment explanation
Indices: 852720--853664 Score: 1321
Period size: 153 Copynumber: 6.2 Consensus size: 152
852710 TTTGTTTATT
* * * *
852720 TTTTTTTTCTGGATTTTATTACTTTAAAAAATATACTATTTTTTAA-TTTATTATTTTACATTAT
1 TTTTTTTCCCGGATTTTATTACTTTAAAAAATATATTATTTTCTAATTTTATTATTTTACATTAT
*
852784 TTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTTTTAAATAAATTTAAAAAAAACC
66 TTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG-TTTTTTAAATAAATTTAAAAAAAACC
** *
852849 CTTATTTTAGCCATTTGTTCGTA
130 CTTATTTCGGCCCTTTGTTCGTA
* *
852872 TTTTTTTCCTCGGATTTTATTACTTTTAAAAAATATACTACTTTCTAATTTTATTATTTTACATT
1 TTTTTTTCC-CGGATTTTATTAC-TTTAAAAAATATATTATTTTCTAATTTTATTATTTTACATT
* **
852937 ATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTG-TTTTTATTTAAATTTAAAAAAAAA
64 ATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTT-AAAAAAAA
853001 CCCTTATTTCGGCCCTTTGTTCGTA
128 CCCTTATTTCGGCCCTTTGTTCGTA
853026 -TTTTTT-CCGGATTTTATTACTTTCAATAAAAATATATTATTTTCCT-ATTTTATTATTTTACA
1 TTTTTTTCCCGGATTTTATTACTTT--A-AAAAATATATTATTTT-CTAATTTTATTATTTTACA
* *
853088 TTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTTAAAAAA
62 TTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAA
**
853153 ACTATTATTTTC--CCCTTTGTTCGTA
127 ACCCTTA-TTTCGGCCCTTTGTTCGTA
*
853178 TTTTTTTCCTCGGATTTTATTACTTTAAAAAATATATTATTTTCTAATTTTATTATTTTACATTG
1 TTTTTTTCC-CGGATTTTATTACTTTAAAAAATATATTATTTTCTAATTTTATTATTTTACATTA
* * * *
853243 TTTAAGTACATTATGTTTCAAATGTATTCATTTAGTGTGTTTTTAAAATAAATTTTTAAAAAAAA
65 TTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA--TTTAAAAAAAA
** *
853308 TTCTTGTTTCGGCCCTTTGTTCGTA
128 CCCTTATTTCGGCCCTTTGTTCGTA
*
853333 TTTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTTCTAATTTTATTATTTTACAT
1 TTTTTTTCCCGGATTTTATTACTTT--A-AAAAATATATTATTTTCTAATTTTATTATTTTACAT
* *
853398 TATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTAGTAAAAA
63 TATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTA-AAAAAA
* * * *
853463 ACCATTATTTTGACCCTTTGTTTGTA
127 ACCCTTATTTCGGCCCTTTGTTCGTA
** *
853489 TTTTTTTCCCAAATTTTATTACTTTAAAAAATATAATATTTTCTAATTTTATTATTTTACATTAT
1 TTTTTTTCCCGGATTTTATTACTTTAAAAAATATATTATTTTCTAATTTTATTATTTTACATTAT
* * * *
853554 TTCAGTACATTATGTTTGAAATGTATTCATTTAGTTTG-TTTTTAAATAAATTTAAAAAAAACTC
66 TTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAAACCC
*
853618 TTATTTCGGCCTTTTGTTCGTA
131 TTATTTCGGCCCTTTGTTCGTA
*
853640 TTTTTTTACCGGATTTTATTACTTT
1 TTTTTTTCCCGGATTTTATTACTTT
853665 CAATAAAAAC
Statistics
Matches: 710, Mismatches: 61, Indels: 45
0.87 0.07 0.06
Matches are distributed among these distances:
150 3 0.00
151 62 0.09
152 120 0.17
153 195 0.27
154 101 0.14
155 96 0.14
156 49 0.07
157 84 0.12
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.53
Consensus pattern (152 bp):
TTTTTTTCCCGGATTTTATTACTTTAAAAAATATATTATTTTCTAATTTTATTATTTTACATTAT
TTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAAACCC
TTATTTCGGCCCTTTGTTCGTA
Found at i:853578 original size:462 final size:457
Alignment explanation
Indices: 852720--853664 Score: 1357
Period size: 462 Copynumber: 2.1 Consensus size: 457
852710 TTTGTTTATT
* *
852720 TTTTTTTTCT-GGATTTTATTACTTTAAAAAATATACTATTTTTTAATTTATTATTTTACATTAT
1 TTTTTTTACTCGGATTTTATTACTTTAAAAAATATACTATTTTCTAATTTATTATTTTACATTAT
* * *
852784 TTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTTTTAAATAAATTTAAAAAAAACC
66 TTAAGTACATTATATTTCAAATGTATTAATTTAGTGTGTTTTTTAAAATAAATTTAAAAAAAACC
* * *
852849 CTTATTTTAGCCATTTGTTCGTATTTTTTTCCTCGGATTTTATTACTTTTAAAAAATATACTACT
131 CTTATTTCAGCCATTTGTTCGTATTTTTTTCCTCAGATTTTATTACTTTAAAAAAATATACTACT
* *
852914 TTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTT
196 TTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
** * * **
852979 TTTATTTAAATTTAAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCGGATTTTATT
261 TTTAAATAAATTTAAAAAAAAACCATTATTTCGACCCTTTGTTCGTATTTTTTCCAAATTTTATT
* *
853044 ACTTTCAATAAAAATATATTATTTTCCTATTTTATTATTTTACATTATTTTAGTACATTATGTTT
326 ACTTT-AATAAAAATATAATATTTTCCTATTTTATTATTTTACATTATTTCAGTACATTATGTTT
*
853109 GAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTTAAAAAAACTATTATTTTC-CCCTTTGT
390 GAAATGTATTAATTTACTGTG-TTTTTAAATAAATTTAAAAAAAACTATTA-TTTCGCCCTTTGT
853173 TCGTA
453 TCGTA
* * *
853178 TTTTTTTCCTCGGATTTTATTACTTTAAAAAATATATTATTTTCTAATTTTATTATTTTACATTG
1 TTTTTTTACTCGGATTTTATTACTTTAAAAAATATACTATTTTCTAA-TTTATTATTTTACATTA
* *
853243 TTTAAGTACATTATGTTTCAAATGTATTCATTTAGTGTG-TTTTTAAAATAAATTTTTAAAAAAA
65 TTTAAGTACATTATATTTCAAATGTATTAATTTAGTGTGTTTTTTAAAATAAA--TTTAAAAAAA
** * * *
853307 ATTCTTGTTTCGGCCCTTTGTTCGTATTTTTTTCC-CAGATTTTATTACTTTCAATAAAAATATA
128 ACCCTTATTTCAGCCATTTGTTCGTATTTTTTTCCTCAGATTTTATTACTTT-AA-AAAAATATA
* *
853371 TTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACT
191 CTACTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACT
** * *
853436 GTGTTTTTTAAATAAATTTAGTAAAAAACCATTATTTTGACCCTTTGTTTGTATTTTTTTCCCAA
256 GTG-TTTTTAAATAAATTTAAAAAAAAACCATTATTTCGACCCTTTGTTCGTA-TTTTTT-CCAA
853501 ATTTTATTACTTT-A-AAAAATATAATATTTT-CTAATTTTATTATTTTACATTATTTCAGTACA
318 ATTTTATTACTTTAATAAAAATATAATATTTTCCT-ATTTTATTATTTTACATTATTTCAGTACA
* * * *
853563 TTATGTTTGAAATGTATTCATTTAGTTTGTTTTTAAATAAATTTAAAAAAAACTCTTATTTCGGC
382 TTATGTTTGAAATGTATTAATTTACTGTGTTTTTAAATAAATTTAAAAAAAACTATTATTTC-GC
*
853628 CTTTTGTTCGTA
446 CCTTTGTTCGTA
853640 TTTTTTTAC-CGGATTTTATTACTTT
1 TTTTTTTACTCGGATTTTATTACTTT
853665 CAATAAAAAC
Statistics
Matches: 435, Mismatches: 40, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
458 9 0.02
459 46 0.11
460 70 0.16
461 85 0.20
462 162 0.37
463 42 0.10
464 6 0.01
465 15 0.03
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.53
Consensus pattern (457 bp):
TTTTTTTACTCGGATTTTATTACTTTAAAAAATATACTATTTTCTAATTTATTATTTTACATTAT
TTAAGTACATTATATTTCAAATGTATTAATTTAGTGTGTTTTTTAAAATAAATTTAAAAAAAACC
CTTATTTCAGCCATTTGTTCGTATTTTTTTCCTCAGATTTTATTACTTTAAAAAAATATACTACT
TTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
TTTAAATAAATTTAAAAAAAAACCATTATTTCGACCCTTTGTTCGTATTTTTTCCAAATTTTATT
ACTTTAATAAAAATATAATATTTTCCTATTTTATTATTTTACATTATTTCAGTACATTATGTTTG
AAATGTATTAATTTACTGTGTTTTTAAATAAATTTAAAAAAAACTATTATTTCGCCCTTTGTTCG
TA
Found at i:857246 original size:7 final size:7
Alignment explanation
Indices: 857228--857263 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
857218 AGAGAAAACG
857228 AGAGACAA
1 AGAGA-AA
857236 AGAGAAA
1 AGAGAAA
857243 AGAGAAA
1 AGAGAAA
857250 AGAGAAA
1 AGAGAAA
857257 A-AGAAA
1 AGAGAAA
857263 A
1 A
857264 CTTATTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.21
7 17 0.61
8 5 0.18
ACGTcount: A:0.72, C:0.03, G:0.25, T:0.00
Consensus pattern (7 bp):
AGAGAAA
Found at i:860237 original size:50 final size:50
Alignment explanation
Indices: 860131--860373 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
860121 GGGAATAAGA
** * *
860131 TCCCATGTAAGACCATGTCTGGGACATGGCATTCACATCATTGAAATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CG--A-GATGAGAGG
*
860187 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
860237 TCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * **
860287 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
860337 TCCCATGTAAGACCATATCTGAGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
860374 GTACAGAAAA
Statistics
Matches: 165, Mismatches: 22, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
50 128 0.78
51 1 0.01
53 1 0.01
55 1 0.01
56 34 0.21
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:860511 original size:12 final size:12
Alignment explanation
Indices: 860494--860532 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
860484 ATGAGTTATT
860494 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
860506 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
860518 TAAGTGAGTAAG
1 TAAGTAAGCAAG
860530 TAA
1 TAA
860533 AGAAACGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:863513 original size:50 final size:50
Alignment explanation
Indices: 863425--863523 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
863415 TACACACGTG
* * *
863425 ACACGTGATCAATTTTTACGGTTCACGTAATAGCCTTCACATAGTACTAT
1 ACACATGATCAAGTTTTACGATTCACGTAATAGCCTTCACATAGTACTAT
* *
863475 ACACATGATCAAGTTTTACGATTCACGTAGTAGTCTTCACATAGTACTA
1 ACACATGATCAAGTTTTACGATTCACGTAATAGCCTTCACATAGTACTA
863524 CATACGTGAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (50 bp):
ACACATGATCAAGTTTTACGATTCACGTAATAGCCTTCACATAGTACTAT
Found at i:863571 original size:51 final size:51
Alignment explanation
Indices: 863455--864148 Score: 579
Period size: 51 Copynumber: 13.6 Consensus size: 51
863445 GTTCACGTAA
* ** * * * *
863455 TAGCCTTCACATAGTACTATACACATGATC-AAG-TTTTACGATTCACGTAG
1 TAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTT-CGGTACACATAG
* * * *
863505 TAGTCTTCACATAGTACTACATACGTGACTAAAGCTTTTCGGTACACATAG
1 TAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTTCGGTACACATAG
* * ** * *
863556 TAGCCTTCACTTAGTACTACACATGTGACC--ATCATTTATCAATTCACGTAG
1 TAGCCTTCACATAGTACTACACATGTGACCAAAGC-TTT-TCGGTACACATAG
* * * * * *
863607 TAGCCTTCCCACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTG
1 TAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTTCGGTACACATAG
* * * * *
863658 TAGCCTTCACTTAGTACTACACATGTGACCATTA--TTTATCGATTCACGTAG
1 TAGCCTTCACATAGTACTACACATGTGACCA-AAGCTTT-TCGGTACACATAG
* * *
863709 TAGCCTTCACACAGTACTACACATGTGACCAAAGCTTCTCGGTACACATTG
1 TAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTTCGGTACACATAG
* * * * *
863760 TAGCCTTCACTTAGTACTACACATGTGACCATTA--TTTATCGATTCACGTAG
1 TAGCCTTCACATAGTACTACACATGTGACCA-AAGCTTT-TCGGTACACATAG
* * * *
863811 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTG
1 TAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTTCGGTACACATAG
* * * * *
863862 TAGCCTTCACTTAGTACTACACATGTGACCATTA--TTTATCGATTCACGTAG
1 TAGCCTTCACATAGTACTACACATGTGACCA-AAGCTTT-TCGGTACACATAG
* * * *
863913 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTG
1 TAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTTCGGTACACATAG
* * * * *
863964 TAGCCTTCACTTAGTACTACACATGTGACCATTA--TTTATCAGTTCACGTAG
1 TAGCCTTCACATAGTACTACACATGTGACCA-AAGCTTT-TCGGTACACATAG
* * * *
864015 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTG
1 TAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTTCGGTACACATAG
* * * * * *
864066 TAGCCTTCACTTAGTACTACACATGTAACCATTA--TTTATCGATTCACGTAG
1 TAGCCTTCACATAGTACTACACATGTGACCA-AAGCTTT-TCGGTACACATAG
* *
864117 TAGCCTTCACACAGTACTACACACGTGACCAA
1 TAGCCTTCACATAGTACTACACATGTGACCAA
864149 CACTTTCACT
Statistics
Matches: 502, Mismatches: 118, Indels: 48
0.75 0.18 0.07
Matches are distributed among these distances:
49 2 0.00
50 41 0.08
51 438 0.87
52 19 0.04
53 2 0.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (51 bp):
TAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTTCGGTACACATAG
Found at i:863633 original size:102 final size:102
Alignment explanation
Indices: 863489--864148 Score: 1189
Period size: 102 Copynumber: 6.5 Consensus size: 102
863479 ATGATCAAGT
* * * * *
863489 TTTA-CGATTCACGTAGTAGTCTTCACATAGTACTACATACGTGACTAAAGCTTTTCGGTACACA
1 TTTATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACA
* *
863553 TAGTAGCCTTCACTTAGTACTACACATGTGACCATCA
66 TTGTAGCCTTCACTTAGTACTACACATGTGACCATTA
* * *
863590 TTTATCAATTCACGTAGTAGCCTTCCCACAGTACTACACACGTGACCAAAGCTTCTCGGTACATA
1 TTTATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACA
863655 TTGTAGCCTTCACTTAGTACTACACATGTGACCATTA
66 TTGTAGCCTTCACTTAGTACTACACATGTGACCATTA
*
863692 TTTATCGATTCACGTAGTAGCCTTCACACAGTACTACACATGTGACCAAAGCTTCTCGGTACACA
1 TTTATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACA
863757 TTGTAGCCTTCACTTAGTACTACACATGTGACCATTA
66 TTGTAGCCTTCACTTAGTACTACACATGTGACCATTA
863794 TTTATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACA
1 TTTATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACA
863859 TTGTAGCCTTCACTTAGTACTACACATGTGACCATTA
66 TTGTAGCCTTCACTTAGTACTACACATGTGACCATTA
863896 TTTATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACA
1 TTTATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACA
863961 TTGTAGCCTTCACTTAGTACTACACATGTGACCATTA
66 TTGTAGCCTTCACTTAGTACTACACATGTGACCATTA
863998 TTTATC-AGTTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACAC
1 TTTATCGA-TTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACAC
*
864062 ATTGTAGCCTTCACTTAGTACTACACATGTAACCATTA
65 ATTGTAGCCTTCACTTAGTACTACACATGTGACCATTA
864100 TTTATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
1 TTTATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
864149 CACTTTCACT
Statistics
Matches: 540, Mismatches: 16, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
101 5 0.01
102 534 0.99
103 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (102 bp):
TTTATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACA
TTGTAGCCTTCACTTAGTACTACACATGTGACCATTA
Found at i:874637 original size:15 final size:15
Alignment explanation
Indices: 874619--874649 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
874609 ATATGTATGT
874619 GTCTTATTTTAATCG
1 GTCTTATTTTAATCG
874634 GTCTTATTTTAATCG
1 GTCTTATTTTAATCG
874649 G
1 G
874650 GGGATGTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.16, T:0.52
Consensus pattern (15 bp):
GTCTTATTTTAATCG
Found at i:876052 original size:30 final size:30
Alignment explanation
Indices: 876011--876069 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
876001 ATGTCATTTG
876011 CCATAGGCATTGTTATTTGCCATTTGCTTA
1 CCATAGGCATTGTTATTTGCCATTTGCTTA
*
876041 CCATGGGCATTGTTATTTGCCATTTGCTT
1 CCATAGGCATTGTTATTTGCCATTTGCTT
876070 TAGCTCACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (30 bp):
CCATAGGCATTGTTATTTGCCATTTGCTTA
Found at i:887025 original size:16 final size:16
Alignment explanation
Indices: 886990--887026 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
886980 TTGGTTCGCT
*
886990 GTAATGGAATAGAAGT
1 GTAATGGAATAGAAGC
*
887006 GTAATGGAATAGAGGC
1 GTAATGGAATAGAAGC
887022 GTAAT
1 GTAAT
887027 AGGTAATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.32, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAAGC
Found at i:887095 original size:44 final size:46
Alignment explanation
Indices: 887008--887100 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
886998 ATAGAAGTGT
*
887008 AATGGAATAGAGGCGTAATAGGTAATTCTTCTTTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
* *
887054 AATGGAATAGAGGTGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
887098 AAT
1 AAT
887101 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.28, C:0.04, G:0.30, T:0.38
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
Found at i:887096 original size:39 final size:44
Alignment explanation
Indices: 887008--887113 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 44
886998 ATAGAAGTGT
* *
887008 AATGGAATAGAGGCGTAATAGGTAATTCTTCTTTTTGGTTGAATGG
1 AATGGAATAGAGGTGTAATAGGTAATTCTTCTGTTTGGTT--ATGG
*
887054 AATGGAATAGAGGTGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGTGTAATAGGTAATTCTTCTGTTTGGTTATGG
887093 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGTGTAATAG
887114 CATAAGGAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 12 0.21
45 3 0.05
46 18 0.32
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAGGTGTAATAGGTAATTCTTCTGTTTGGTTATGG
Found at i:887281 original size:18 final size:17
Alignment explanation
Indices: 887258--887325 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
887248 AATTATTATT
887258 AAATATAT-A-TTAATTA
1 AAATATATAATTTAA-TA
887274 AAATATATAATTTAATA
1 AAATATATAATTTAATA
*
887291 AAAT-TCTTAA--TAAT-
1 AAATAT-ATAATTTAATA
887305 AAATATATAATTTAATA
1 AAATATATAATTTAATA
887322 AAAT
1 AAAT
887326 TCTCAATTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
14 7 0.16
15 5 0.12
16 13 0.30
17 14 0.33
18 4 0.09
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATTTAATA
Found at i:887288 original size:14 final size:15
Alignment explanation
Indices: 887251--887290 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
887241 TTAACATAAT
887251 TATT-ATTAAATATA
1 TATTAATTAAATATA
887265 TATTAATTAAA-ATA
1 TATTAATTAAATATA
*
887279 TA-TAATTTAATA
1 TATTAATTAAATA
887291 AAATTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 10 0.43
15 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATTAAATATA
Found at i:887322 original size:16 final size:15
Alignment explanation
Indices: 887257--887323 Score: 50
Period size: 16 Copynumber: 4.3 Consensus size: 15
887247 TAATTATTAT
887257 TAAATATATA-TTAA
1 TAAATATATATTTAA
887271 TTAAAATATATAATTTAA
1 -T-AAATATAT-ATTTAA
*
887289 TAAA-AT-TCTTAATAA
1 TAAATATATATT--TAA
887304 TAAATATATAATTTAA
1 TAAATATAT-ATTTAA
887320 TAAA
1 TAAA
887324 ATTCTCAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 15
0.71 0.03 0.25
Matches are distributed among these distances:
13 2 0.05
14 1 0.02
15 10 0.24
16 20 0.48
17 3 0.07
18 6 0.14
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAATATATATTTAA
Found at i:889614 original size:29 final size:29
Alignment explanation
Indices: 889580--889646 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
889570 CGATTCGGCG
889580 CGTAATAGGCATTACAGCGAACCAAACGC
1 CGTAATAGGCATTACAGCGAACCAAACGC
*
889609 CGTAATAGGCATTACAGCGAATCAAACGC
1 CGTAATAGGCATTACAGCGAACCAAACGC
*
889638 CGGAATAGG
1 CGTAATAGG
889647 TGGGGCCCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (29 bp):
CGTAATAGGCATTACAGCGAACCAAACGC
Found at i:891121 original size:19 final size:20
Alignment explanation
Indices: 891084--891126 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
891074 ATTAATTTAC
* *
891084 TATTATTTTTATTACTATT-
1 TATTATTGTTATCACTATTA
*
891103 TATTATTGTTATCATTATTA
1 TATTATTGTTATCACTATTA
891123 TATT
1 TATT
891127 TGATTACATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTATTGTTATCACTATTA
Found at i:893682 original size:21 final size:21
Alignment explanation
Indices: 893657--893698 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
893647 AACTCGAAGT
893657 GATTTGAATCTCCAAATTAAG
1 GATTTGAATCTCCAAATTAAG
*
893678 GATTTGAATCTCTAAATTAAG
1 GATTTGAATCTCCAAATTAAG
893699 TATAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (21 bp):
GATTTGAATCTCCAAATTAAG
Found at i:903753 original size:7 final size:7
Alignment explanation
Indices: 903741--903781 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
903731 TTGTTGTAAA
903741 TTGGACT
1 TTGGACT
903748 TTGGACT
1 TTGGACT
903755 TTGGACT
1 TTGGACT
*
903762 TTGGACA
1 TTGGACT
*
903769 TTGGACA
1 TTGGACT
903776 TTGGAC
1 TTGGAC
903782 ATTTTATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.37
Consensus pattern (7 bp):
TTGGACT
Found at i:903760 original size:14 final size:14
Alignment explanation
Indices: 903740--903784 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
903730 TTTGTTGTAA
903740 ATTGGACTTTGGAC
1 ATTGGACTTTGGAC
*
903754 TTTGGACTTTGGAC
1 ATTGGACTTTGGAC
*
903768 ATTGGACATTGGAC
1 ATTGGACTTTGGAC
903782 ATT
1 ATT
903785 TTATTTTGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (14 bp):
ATTGGACTTTGGAC
Found at i:905343 original size:9 final size:9
Alignment explanation
Indices: 905329--905374 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
905319 AGATAAGGAG
905329 ATAAATAAT
1 ATAAATAAT
905338 ATAAATAAT
1 ATAAATAAT
905347 ATAAATAAT
1 ATAAATAAT
* *
905356 ATTAACAAT
1 ATAAATAAT
905365 -TAAATAAT
1 ATAAATAAT
905373 AT
1 AT
905375 TATGAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
ATAAATAAT
Found at i:906191 original size:10 final size:10
Alignment explanation
Indices: 906176--906205 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
906166 AATATGTCTA
906176 GAAATTATCT
1 GAAATTATCT
906186 GAAATTATCT
1 GAAATTATCT
*
906196 GAAATAATCT
1 GAAATTATCT
906206 TTTCGGAGAA
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:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (10 bp):
GAAATTATCT
Found at i:906531 original size:72 final size:71
Alignment explanation
Indices: 906402--906536 Score: 159
Period size: 72 Copynumber: 1.9 Consensus size: 71
906392 TATTAAACAT
* * *
906402 TATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAAGATAACC
1 TATTAAATTAATAAAATATCTATCTA-AAGATAAACATTAAATTAAATTTAATATTAAAATAACC
906467 ATTTTAA
65 ATTTTAA
**
906474 TATTAAATTAATAAAATA-CTAT-T-AAGATAAGTATTAAATTAAATATTAAATCTATTAAAATA
1 TATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAATTAAAT-TT-AA--TATTAAAATA
906536 A
62 A
906537 TATTATTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
68 19 0.35
69 2 0.04
70 3 0.06
71 3 0.06
72 27 0.50
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.39
Consensus pattern (71 bp):
TATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAATTAAATTTAATATTAAAATAACCA
TTTTAA
Found at i:906944 original size:9 final size:9
Alignment explanation
Indices: 906930--906954 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
906920 TTATATTACT
906930 TTTAATTAA
1 TTTAATTAA
906939 TTTAATTAA
1 TTTAATTAA
906948 TTTAATT
1 TTTAATT
906955 TTACTTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTAATTAA
Found at i:912632 original size:98 final size:98
Alignment explanation
Indices: 912514--912710 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
912504 TTAAAAATAA
* *
912514 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAAGAATTGTGCCCTAACGTATTTGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAAGAATCGTGCCCTAACGTATTGGGTGTGATTTC
912579 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
912612 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAAGAATCGTGCCCTAACGTATTGGGTGTGATTTC
912677 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
912710 T
1 T
912711 TTTATTGCAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTTTAAAAGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:917958 original size:29 final size:29
Alignment explanation
Indices: 917924--918000 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 29
917914 GTAATTGTAT
917924 ACATGAACTTTAATTTAGTGCAATTATAC
1 ACATGAACTTTAATTTAGTGCAATTATAC
* * * *
917953 ACATGAAATTCTAATTGTGGTTCAATTATAT
1 ACATGAACTT-TAATT-TAGTGCAATTATAC
917984 AC-TGGAAGCTTTAATTT
1 ACAT-GAA-CTTTAATTT
918001 TGATTTAATC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
29 9 0.23
30 7 0.18
31 21 0.54
32 2 0.05
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (29 bp):
ACATGAACTTTAATTTAGTGCAATTATAC
Found at i:921715 original size:19 final size:20
Alignment explanation
Indices: 921679--921716 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
921669 TATATCAAAC
**
921679 TAATATATAAAATTAAATAA
1 TAATATATAAAAGAAAATAA
921699 TAATA-ATAAAAGAAAATA
1 TAATATATAAAAGAAAATA
921717 TGAAAAGGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (20 bp):
TAATATATAAAAGAAAATAA
Found at i:923491 original size:16 final size:16
Alignment explanation
Indices: 923466--923499 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
923456 ATGAATATAT
* *
923466 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
923482 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
923498 AT
1 AT
923500 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:927597 original size:21 final size:21
Alignment explanation
Indices: 927563--927623 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
927553 GTCTTTTGTA
*
927563 CTTTA-TTATTATATATTTTT
1 CTTTATTTTTTATATATTTTT
927583 CTTTATTTTTTATATATTTATT
1 CTTTATTTTTTATATATTT-TT
*
927605 -TTTATGTTTTATA-ATTTTT
1 CTTTATTTTTTATATATTTTT
927624 TAAATTGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.05
20 9 0.24
21 24 0.65
22 2 0.05
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (21 bp):
CTTTATTTTTTATATATTTTT
Found at i:928326 original size:7 final size:7
Alignment explanation
Indices: 928316--928363 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
928306 AAAAAATGAA
928316 AAAGAAC
1 AAAGAAC
928323 AAAGAAC
1 AAAGAAC
*
928330 AAAGAAG
1 AAAGAAC
*
928337 ATAACGAGAA
1 A-AA-GA-AC
928347 AAAGAAC
1 AAAGAAC
928354 AAAGAAC
1 AAAGAAC
928361 AAA
1 AAA
928364 AAAAAGGAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
7 25 0.71
8 4 0.11
9 4 0.11
10 2 0.06
ACGTcount: A:0.71, C:0.10, G:0.17, T:0.02
Consensus pattern (7 bp):
AAAGAAC
Found at i:937301 original size:28 final size:28
Alignment explanation
Indices: 937270--937340 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
937260 GTTAACAAGT
** *
937270 TTAGGTACCAAATTAAACTTAAAAAAGC
1 TTAGGTACCAAATTAAACAAAAAAAAAC
*
937298 TTAGGTACCAAATTAGACAAAAAAAAAC
1 TTAGGTACCAAATTAAACAAAAAAAAAC
* *
937326 TTAAGTATCAAATTA
1 TTAGGTACCAAATTA
937341 GCATAAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (28 bp):
TTAGGTACCAAATTAAACAAAAAAAAAC
Found at i:948385 original size:20 final size:22
Alignment explanation
Indices: 948345--948388 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
948335 ATTCCAAAAT
948345 TTATATTTTTAAAAAATTATAA
1 TTATATTTTTAAAAAATTATAA
*
948367 TTAT-TTTTTAAAATATATATAA
1 TTATATTTTTAAAAAAT-TATAA
948389 AAATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATATTTTTAAAAAATTATAA
Found at i:948393 original size:12 final size:12
Alignment explanation
Indices: 948376--948404 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
948366 ATTATTTTTT
948376 AAAATATATATA
1 AAAATATATATA
948388 AAAATATATATA
1 AAAATATATATA
948400 AAAAT
1 AAAAT
948405 TTAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATATATATA
Found at i:948437 original size:31 final size:31
Alignment explanation
Indices: 948373--948437 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
948363 ATAATTATTT
* * *
948373 TTTAAAATATATATAAAAATATATATAAAAA
1 TTTAAAATATAAAAAAAAATATAAATAAAAA
*
948404 TTTAAAAT-TAAAAAAAAATATAAAATAATAA
1 TTTAAAATATAAAAAAAAATAT-AAATAAAAA
948435 TTT
1 TTT
948438 TAGAAACCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 11 0.38
31 18 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (31 bp):
TTTAAAATATAAAAAAAAATATAAATAAAAA
Found at i:949976 original size:31 final size:31
Alignment explanation
Indices: 949940--950001 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
949930 ACAATTGTAC
949940 TTAAATTTTTAAAAT-CAAAAAAATAAAAAGA
1 TTAAA-TTTTAAAATACAAAAAAATAAAAAGA
* *
949971 TTAAATTTTAAAATACAAAAAAGTACAAAGA
1 TTAAATTTTAAAATACAAAAAAATAAAAAGA
950002 CTTGTAGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (31 bp):
TTAAATTTTAAAATACAAAAAAATAAAAAGA
Found at i:964982 original size:5 final size:5
Alignment explanation
Indices: 964948--964978 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
964938 CAAGGACATC
*
964948 CGATG CGATG CGATG CGATG CGATG CAATG C
1 CGATG CGATG CGATG CGATG CGATG CGATG C
964979 AATGTTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.19
Consensus pattern (5 bp):
CGATG
Found at i:968251 original size:16 final size:16
Alignment explanation
Indices: 968230--968260 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
968220 TTAACTATTA
*
968230 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
968246 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
968261 GCGTGCATAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:969364 original size:13 final size:13
Alignment explanation
Indices: 969346--969370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
969336 GAATTGTTCA
969346 ATTAAAGAATTTG
1 ATTAAAGAATTTG
969359 ATTAAAGAATTT
1 ATTAAAGAATTT
969371 TCTTGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATTAAAGAATTTG
Found at i:969979 original size:17 final size:16
Alignment explanation
Indices: 969956--970015 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
969946 TTAATAAGAT
969956 TTAATATTAAACTTAA
1 TTAATATTAAACTTAA
* *
969972 TCTAATATTTATCTTAA
1 T-TAATATTAAACTTAA
* * *
969989 TAAATCTTATA-TTAA
1 TTAATATTAAACTTAA
970004 TTTAATATTAAA
1 -TTAATATTAAA
970016 GTGATTAAGT
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
15 4 0.12
16 14 0.44
17 14 0.44
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATATTAAACTTAA
Found at i:969995 original size:21 final size:20
Alignment explanation
Indices: 969970--970010 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
969960 TATTAAACTT
*
969970 AATCTAATATTTATCTTAATA
1 AATCTAATATTAAT-TTAATA
*
969991 AATCTTATATTAATTTAATA
1 AATCTAATATTAATTTAATA
970011 TTAAAGTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (20 bp):
AATCTAATATTAATTTAATA
Found at i:969999 original size:59 final size:60
Alignment explanation
Indices: 969879--970010 Score: 159
Period size: 59 Copynumber: 2.2 Consensus size: 60
969869 TTCAAAAATA
* *
969879 ATATTATTTAAT-AGTTTAATATTAAATTAAATTTAATGTTTATCTTGTAGATAAACGTT
1 ATATTATTTAATAAGTTTAATATTAAATTAAATCTAATATTTATCTTGTAGATAAACGTT
969938 ATATTATTTTAATAAGATTTAATATTAAACTT-AATCTAATATTTATC-T-TA-ATAAATC-TT
1 ATATTA-TTTAATAAG-TTTAATATTAAA-TTAAATCTAATATTTATCTTGTAGATAAA-CGTT
969997 ATATTAATTTAATA
1 ATATT-ATTTAATA
970011 TTAAAGTGAT
Statistics
Matches: 65, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
59 25 0.38
60 10 0.15
61 3 0.05
62 25 0.38
63 2 0.03
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (60 bp):
ATATTATTTAATAAGTTTAATATTAAATTAAATCTAATATTTATCTTGTAGATAAACGTT
Found at i:970013 original size:11 final size:12
Alignment explanation
Indices: 969968--970014 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
969958 AATATTAAAC
969968 TTAATC-TAATA
1 TTAATCTTAATA
*
969979 TTTATCTTAATA
1 TTAATCTTAATA
969991 --AATCTT-ATA
1 TTAATCTTAATA
970000 TTAAT-TTAATA
1 TTAATCTTAATA
970011 TTAA
1 TTAA
970015 AGTGATTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
9 3 0.10
10 7 0.23
11 15 0.50
12 5 0.17
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (12 bp):
TTAATCTTAATA
Found at i:971341 original size:54 final size:52
Alignment explanation
Indices: 971199--971342 Score: 139
Period size: 54 Copynumber: 2.7 Consensus size: 52
971189 TGAGTAGGGG
* *
971199 CACATGGCCATGTCCAGCCCGTGTCATAGACCGTGTAACTCACTGACTTAGAT
1 CACATGGCCGTGTCCAACCCGTGTC-TAGACCGTGTAACTCACTGACTTAGAT
* * ** * *
971252 CACACGGCCGAGTCGCATGCAGTGTGCTAGCCCGTGTAAC-CTACTGACTTGAGA-
1 CACATGGCCGTGTC-CAACCCGTGT-CTAGACCGTGTAACTC-ACTGACTT-AGAT
971306 CACATGGCCGTGTCTCAACCCGTGTCTTAGACCGTGT
1 CACATGGCCGTGTC-CAACCCGTGTC-TAGACCGTGT
971343 GAAACCTGCA
Statistics
Matches: 72, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
53 13 0.18
54 55 0.76
55 4 0.06
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.24
Consensus pattern (52 bp):
CACATGGCCGTGTCCAACCCGTGTCTAGACCGTGTAACTCACTGACTTAGAT
Found at i:972141 original size:40 final size:40
Alignment explanation
Indices: 972097--972636 Score: 571
Period size: 40 Copynumber: 13.4 Consensus size: 40
972087 GGCACTGAAT
* * *
972097 TACAAATAGGAGTACGTATGTGCATTTAAGGGTACCGAAG
1 TACAAACAGGAGCACGTATGTGCATTCAAGGGTACCGAAG
* * * * *
972137 TACAAACAGGAGCATGTATGTGCATTTAGGGGTATCAAAG
1 TACAAACAGGAGCACGTATGTGCATTCAAGGGTACCGAAG
* **
972177 TACAAACAGGAGCACGTCTGTGCATTCAAGGGTATTGAAG
1 TACAAACAGGAGCACGTATGTGCATTCAAGGGTACCGAAG
* * *
972217 TACAAATAGGAGCACGTATGTGCATTCAGGGGTACCAAAG
1 TACAAACAGGAGCACGTATGTGCATTCAAGGGTACCGAAG
* * * * *
972257 TATAAATAGGAGCACGTATGTGCGTTTAAAGGTACCGAAG
1 TACAAACAGGAGCACGTATGTGCATTCAAGGGTACCGAAG
* * * **
972297 TACAAACAGGAGCACGTATATGTATTCAGGGGTACTAAAG
1 TACAAACAGGAGCACGTATGTGCATTCAAGGGTACCGAAG
*
972337 TACAAACAGGAGCACGTTTGTGCATTC-AGAGGTACCGAAG
1 TACAAACAGGAGCACGTATGTGCATTCAAG-GGTACCGAAG
*
972377 TACAAACAGGAGCACGTATGTGCATTCAGGGGTACCGAAG
1 TACAAACAGGAGCACGTATGTGCATTCAAGGGTACCGAAG
* * ** *** *
972417 TACAAATAGGAGAAAATATGTATGTTGAAGGGTACCGAAG
1 TACAAACAGGAGCACGTATGTGCATTCAAGGGTACCGAAG
*
972457 TACAAACAGGAGCACGTATGTGCATTCAAGGGTACCAAAG
1 TACAAACAGGAGCACGTATGTGCATTCAAGGGTACCGAAG
* * * * * * *
972497 TACAAACAGGAGCATGTTTCTGAATTTAAGGGTATCGAAA
1 TACAAACAGGAGCACGTATGTGCATTCAAGGGTACCGAAG
* * * *
972537 TACAAACAGCAGGAGCACATATATGCGTTCAGGGGTACCGAAG
1 TAC-AA-A-CAGGAGCACGTATGTGCATTCAAGGGTACCGAAG
* * *
972580 TACAAACACGAGCACGTATGTCCATTCAGGGGTACCCG-AG
1 TACAAACAGGAGCACGTATGTGCATTCAAGGGTA-CCGAAG
*
972620 TACAATCAGGAGCACGT
1 TACAAACAGGAGCACGT
972637 CTTCATTTTC
Statistics
Matches: 409, Mismatches: 85, Indels: 12
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.00
40 371 0.91
41 7 0.02
42 3 0.01
43 27 0.07
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (40 bp):
TACAAACAGGAGCACGTATGTGCATTCAAGGGTACCGAAG
Found at i:976753 original size:23 final size:23
Alignment explanation
Indices: 976727--976848 Score: 183
Period size: 23 Copynumber: 5.3 Consensus size: 23
976717 ATAAGTGCCA
*
976727 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
976750 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
976773 CACTGAAATGTAGCCGAAGCAAC
1 CACTGATATGTAGCCGAAGCTAC
*
976796 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
976819 CACTGA-ATTGTAGCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
976842 CACTGAT
1 CACTGAT
976849 CAATAACACT
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
22 1 0.01
23 87 0.99
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:976798 original size:46 final size:46
Alignment explanation
Indices: 976727--976848 Score: 208
Period size: 46 Copynumber: 2.7 Consensus size: 46
976717 ATAAGTGCCA
* *
976727 CACTGATATGTAGCCAAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
*
976773 CACTGAAATGTAGCCGAAGCAACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
*
976819 CACTGAATTGTAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
976849 CAATAACACT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
Found at i:977100 original size:18 final size:17
Alignment explanation
Indices: 977074--977112 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
977064 ATTTTCCTTC
977074 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
977091 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
977109 CACA
1 CACA
977113 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:978225 original size:26 final size:24
Alignment explanation
Indices: 978185--978255 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
978175 TTGTGTTATG
* *
978185 TATATTATTTTATTATATAATATAA
1 TATAATATATTATTATAT-ATATAA
*
978210 TATAATATATTAATTATAT-TATAT
1 TATAATATATT-ATTATATATATAA
*
978234 TATATTATATTATTATATATAT
1 TATAATATATTATTATATATAT
978256 TAAATAAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 7 0.17
24 17 0.43
25 9 0.22
26 7 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TATAATATATTATTATATATATAA
Found at i:978230 original size:5 final size:5
Alignment explanation
Indices: 978185--978257 Score: 71
Period size: 5 Copynumber: 14.4 Consensus size: 5
978175 TTGTGTTATG
* *
978185 TATAT TAT-T T-TAT TATAT AATATAA TATAA TATAT TA-AT TATAT TATAT
1 TATAT TATAT TATAT TATAT --TATAT TATAT TATAT TATAT TATAT TATAT
978234 TATAT TATAT TATTAT ATATAT TA
1 TATAT TATAT TA-TAT -TATAT TA
978258 AATAAAGTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
3 1 0.02
4 8 0.14
5 38 0.64
6 6 0.10
7 6 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:978238 original size:36 final size:36
Alignment explanation
Indices: 978190--978258 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
978180 TTATGTATAT
*
978190 TATTTTATTATATAATATAA-TATAATATATTAATTA
1 TATTATATTATATAATATAATTAT-ATATATTAATTA
* *
978226 TATTATATTATATTATATTATTATATATATTAA
1 TATTATATTATATAATATAATTATATATATTAA
978259 ATAAAGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
36 26 0.90
37 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (36 bp):
TATTATATTATATAATATAATTATATATATTAATTA
Found at i:985252 original size:25 final size:25
Alignment explanation
Indices: 985205--985255 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
985195 ACTGTTCTAC
* * **
985205 TGTTGTTTTGCTATTGTTTTGTTGA
1 TGTTGTATTGCTATTCTAGTGTTGA
985230 TGTTGTATTGCTATTCTAGTGTTGA
1 TGTTGTATTGCTATTCTAGTGTTGA
985255 T
1 T
985256 TTGCTAGAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.06, G:0.24, T:0.59
Consensus pattern (25 bp):
TGTTGTATTGCTATTCTAGTGTTGA
Found at i:990025 original size:18 final size:19
Alignment explanation
Indices: 989992--990027 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
989982 TTATTCTAAT
989992 ATTTATCTACCTAAATAAG
1 ATTTATCTACCTAAATAAG
990011 ATTTATCTA-CTAAATAA
1 ATTTATCTACCTAAATAA
990028 CTTTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (19 bp):
ATTTATCTACCTAAATAAG
Found at i:993902 original size:19 final size:19
Alignment explanation
Indices: 993878--993914 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
993868 TTATTCTAAG
*
993878 ATTTATCTACCTATATAAA
1 ATTTATCTACCTAAATAAA
993897 ATTTATCTACCTAAATAA
1 ATTTATCTACCTAAATAA
993915 CTTTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTTATCTACCTAAATAAA
Found at i:1004684 original size:63 final size:63
Alignment explanation
Indices: 1004604--1004773 Score: 180
Period size: 63 Copynumber: 2.7 Consensus size: 63
1004594 AAAGCATAAA
* * *
1004604 AATAAATAAATTTTATAAAAATTATTAGAAACTAATTAAAAAGAATAAAGCTTTATAAATTTAT
1 AATAAA-AAATATTATAAAAATTATTAGAAATTAATTTAAAAGAATAAAGCTTTATAAATTTAT
* * ** * ** * *
1004668 AATAAAAAATATTATAAAAAATATTAGAAATTTATTTAAAATCATTAATTTTTTTTAATTTAT
1 AATAAAAAATATTATAAAAATTATTAGAAATTAATTTAAAAGAATAAAGCTTTATAAATTTAT
*
1004731 AA-AAAATTAAAATTTATAAAAATTATTAGAAATTAATTTAAAA
1 AATAAAA--AATA-TTATAAAAATTATTAGAAATTAATTTAAAA
1004774 TCATAAAATT
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
62 4 0.05
63 47 0.53
64 9 0.10
65 28 0.32
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (63 bp):
AATAAAAAATATTATAAAAATTATTAGAAATTAATTTAAAAGAATAAAGCTTTATAAATTTAT
Found at i:1004686 original size:12 final size:12
Alignment explanation
Indices: 1004669--1004693 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1004659 TAAATTTATA
1004669 ATAAAAAATATT
1 ATAAAAAATATT
1004681 ATAAAAAATATT
1 ATAAAAAATATT
1004693 A
1 A
1004694 GAAATTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAAAAAATATT
Done.