Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 2 of 210
Found at i:425038 original size:50 final size:50
Alignment explanation
Indices: 424984--425092 Score: 123
Period size: 50 Copynumber: 2.2 Consensus size: 50
424974 ACATGAGAGT
* * * *
424984 TCTCATACCGATGCCCATGCCATGTCCTAGACAT-GATCTTACGGGGGACC
1 TCTCATACCGATGCCAACGCCATGTCCCAGACATAG-TCTTACAGGGGACC
* * *
425034 TCTCAT-CTGGGTGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACC
1 TCTCATAC-CGATGCCAACGCCATGTCCCAGACATAGTCTTACAGGGGACC
425084 TCTCATACC
1 TCTCATACC
425093 CTTAATAATG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
49 1 0.02
50 45 0.94
51 2 0.04
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (50 bp):
TCTCATACCGATGCCAACGCCATGTCCCAGACATAGTCTTACAGGGGACC
Found at i:432841 original size:36 final size:36
Alignment explanation
Indices: 432800--432875 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
432790 CTAACTATAG
432800 TAAATACCTCCTAATGCACTAAAGTTATCTTTCTTC
1 TAAATACCTCCTAATGCACTAAAGTTATCTTTCTTC
*
432836 TAAATACCTCCTAATGCACTAAGGTTATCTTTCTTC
1 TAAATACCTCCTAATGCACTAAAGTTATCTTTCTTC
432872 TAAA
1 TAAA
432876 CTAAGTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.38
Consensus pattern (36 bp):
TAAATACCTCCTAATGCACTAAAGTTATCTTTCTTC
Found at i:435505 original size:53 final size:52
Alignment explanation
Indices: 435432--435576 Score: 200
Period size: 53 Copynumber: 2.7 Consensus size: 52
435422 TGCCCTGACG
* *
435432 CGATATGGTCTTCTTCCCATATGATACCATAACCCATCAATTACGATCTTACA
1 CGATATGGTC-TCTTTCCATATGATACCATAACCCACCAATTACGATCTTACA
* ** *
435485 CGATATGATCTGCTTTCCATATGATGGCATAACCCACCATTTACGATCTTACA
1 CGATATGGTCT-CTTTCCATATGATACCATAACCCACCAATTACGATCTTACA
*
435538 CGATATGGTCTTTTTCCCATATGATACCATAACCCACCA
1 CGATATGGTCTCTTT-CCATATGATACCATAACCCACCA
435577 GTTATGGTCT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
52 4 0.05
53 76 0.95
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (52 bp):
CGATATGGTCTCTTTCCATATGATACCATAACCCACCAATTACGATCTTACA
Found at i:445720 original size:21 final size:20
Alignment explanation
Indices: 445696--445748 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
445686 TCATATTTAG
*
445696 CAACTTCTTCTTCTTTAGCAA
1 CAACTTCTTCTTC-TAAGCAA
* *
445717 CAACTTCCTCTTCTAAGCAG
1 CAACTTCTTCTTCTAAGCAA
445737 CAACTTTCTTCT
1 CAAC-TTCTTCT
445749 CAACAACAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.40
Consensus pattern (20 bp):
CAACTTCTTCTTCTAAGCAA
Found at i:445723 original size:18 final size:18
Alignment explanation
Indices: 445691--445748 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
445681 CTTTTTCATA
**
445691 TTTAGCAACTTCTTCTTC
1 TTTAGCAACAACTTCTTC
*
445709 TTTAGCAACAACTTCCTC
1 TTTAGCAACAACTTCTTC
*
445727 TTCTAAGCAGCAACTTTCTTC
1 TT-T-AGCAACAAC-TTCTTC
445748 T
1 T
445749 CAACAACAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.53
19 1 0.03
20 8 0.25
21 6 0.19
ACGTcount: A:0.22, C:0.29, G:0.07, T:0.41
Consensus pattern (18 bp):
TTTAGCAACAACTTCTTC
Found at i:459902 original size:14 final size:14
Alignment explanation
Indices: 459883--459914 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
459873 GAGAAAAATA
459883 TAATAAAATAACTC
1 TAATAAAATAACTC
*
459897 TAATAAACTAACTC
1 TAATAAAATAACTC
459911 TAAT
1 TAAT
459915 TTCACTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (14 bp):
TAATAAAATAACTC
Found at i:460037 original size:17 final size:16
Alignment explanation
Indices: 460015--460049 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
460005 TTTTATTTAC
460015 AACTAAAAGTAAAATGT
1 AACTAAAAGTAAAA-GT
*
460032 AACTAAAATTAAAAGT
1 AACTAAAAGTAAAAGT
460048 AA
1 AA
460050 AAATAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.63, C:0.06, G:0.09, T:0.23
Consensus pattern (16 bp):
AACTAAAAGTAAAAGT
Found at i:460062 original size:12 final size:12
Alignment explanation
Indices: 460047--460080 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
460037 AAATTAAAAG
460047 TAAAAATAAACA
1 TAAAAATAAACA
*
460059 TAAACATAAACA
1 TAAAAATAAACA
*
460071 TAAATATAAA
1 TAAAAATAAA
460081 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (12 bp):
TAAAAATAAACA
Found at i:472394 original size:50 final size:50
Alignment explanation
Indices: 472205--472399 Score: 178
Period size: 50 Copynumber: 3.9 Consensus size: 50
472195 GATAATAACA
* * * * *
472205 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * * **
472254 TGCCAATGCCATATCCCAGATATGGTATTACATGAGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *** * *
472304 TGCCCACGCCATGTCTTAGACATGGTCTTATGGGGGACCTCCCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
472354 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGTACCTCTCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
472400 ATCTCAATAA
Statistics
Matches: 110, Mismatches: 34, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
48 1 0.01
49 37 0.34
50 72 0.65
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:481175 original size:26 final size:26
Alignment explanation
Indices: 481103--481161 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
481093 TCTCATCCCA
* *
481103 ATTTTACTCCCAATAAAATTTAGATG
1 ATTTTACTCCCGATAAAATTTAGACG
*
481129 ATTTTACTCCCGATAAAATTTTGACG
1 ATTTTACTCCCGATAAAATTTAGACG
481155 ATTTTAC
1 ATTTTAC
481162 CCTTGGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (26 bp):
ATTTTACTCCCGATAAAATTTAGACG
Found at i:481334 original size:6 final size:6
Alignment explanation
Indices: 481323--481357 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
481313 GCAAATGAAT
* *
481323 CATTGC CATTGC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
481358 TTGGAAACCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.31, G:0.06, T:0.46
Consensus pattern (6 bp):
CATTTC
Found at i:484582 original size:25 final size:25
Alignment explanation
Indices: 484554--484603 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
484544 AGGGTGGATT
484554 AGTTATTGATTAACCAATTATTACC
1 AGTTATTGATTAACCAATTATTACC
484579 AGTTATTGATTAACCAATTATTACC
1 AGTTATTGATTAACCAATTATTACC
484604 TGACTTAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (25 bp):
AGTTATTGATTAACCAATTATTACC
Found at i:484594 original size:15 final size:15
Alignment explanation
Indices: 484554--484600 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
484544 AGGGTGGATT
484554 AGTTATTGATTAACC
1 AGTTATTGATTAACC
484569 A---ATT-ATT-ACC
1 AGTTATTGATTAACC
484579 AGTTATTGATTAACC
1 AGTTATTGATTAACC
*
484594 AATTATT
1 AGTTATT
484601 ACCTGACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 10
0.70 0.03 0.27
Matches are distributed among these distances:
10 4 0.15
11 3 0.12
12 3 0.12
13 3 0.12
14 3 0.12
15 10 0.38
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (15 bp):
AGTTATTGATTAACC
Found at i:486150 original size:50 final size:50
Alignment explanation
Indices: 486078--486194 Score: 153
Period size: 50 Copynumber: 2.3 Consensus size: 50
486068 TAACCTAGAT
* ** * *
486078 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCACAC
1 ATGGTCTTACGTGGGACCTCTCATATCGGTGCCAACGCCATGTCCCACAC
* * *
486128 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACGTGGGACCTCTCATATCGGTGCCAACGCCATGTCCCACAC
*
486178 AAGGTCTTACGTGGGAC
1 ATGGTCTTACGTGGGAC
486195 TAGACCTCTC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.20, C:0.30, G:0.26, T:0.25
Consensus pattern (50 bp):
ATGGTCTTACGTGGGACCTCTCATATCGGTGCCAACGCCATGTCCCACAC
Found at i:486479 original size:30 final size:30
Alignment explanation
Indices: 486445--486503 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
486435 TCATTGACTC
486445 AAAC-TTTGACATAATTACAATTTTGCCCCT
1 AAACTTTTG-CATAATTACAATTTTGCCCCT
* *
486475 AAACTTTTGCATATTTACACTTTTGCCCC
1 AAACTTTTGCATAATTACAATTTTGCCCC
486504 AAAGCTCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCATAATTACAATTTTGCCCCT
Found at i:486834 original size:11 final size:12
Alignment explanation
Indices: 486810--486835 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
486800 CGAGGACTCT
486810 AAAAACATTAAA
1 AAAAACATTAAA
486822 AAAAACATTAAA
1 AAAAACATTAAA
486834 AA
1 AA
486836 CGGGGCTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAACATTAAA
Found at i:492101 original size:33 final size:33
Alignment explanation
Indices: 492064--492167 Score: 138
Period size: 33 Copynumber: 3.2 Consensus size: 33
492054 ATCCCTCCAA
* *
492064 CACACTAATGCTCATAAAAGCTAATACAACCAT
1 CACACCAATGCTCATAAGAGCTAATACAACCAT
* * *
492097 CACACCAATGCTTATAAGAGCTAATCCAGCCAT
1 CACACCAATGCTCATAAGAGCTAATACAACCAT
*
492130 CACACCAATGCTCAGAAGAGCTAA-ACCAACCAT
1 CACACCAATGCTCATAAGAGCTAATA-CAACCAT
492163 CACAC
1 CACAC
492168 TGAATAGAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.41, C:0.32, G:0.10, T:0.17
Consensus pattern (33 bp):
CACACCAATGCTCATAAGAGCTAATACAACCAT
Found at i:506328 original size:35 final size:35
Alignment explanation
Indices: 506280--506418 Score: 206
Period size: 35 Copynumber: 4.0 Consensus size: 35
506270 TACATGGTTA
*
506280 ACCATCCAACACACCACATGCTCATAAGAGCCAGT
1 ACCATCCAACACACCAGATGCTCATAAGAGCCAGT
* *
506315 ACCATCTAGCACACCAGATGCTCATAAGAGCCAGT
1 ACCATCCAACACACCAGATGCTCATAAGAGCCAGT
* * *
506350 ACCATCCAGCATACCAGATGCTCATAAGAGCCAAT
1 ACCATCCAACACACCAGATGCTCATAAGAGCCAGT
* *
506385 ACCATTCAACACACCAAATGCTCATAAGAGCCAG
1 ACCATCCAACACACCAGATGCTCATAAGAGCCAG
506419 ACCTACCGAT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 93 1.00
ACGTcount: A:0.37, C:0.33, G:0.14, T:0.16
Consensus pattern (35 bp):
ACCATCCAACACACCAGATGCTCATAAGAGCCAGT
Found at i:510819 original size:26 final size:26
Alignment explanation
Indices: 510789--510862 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
510779 TTCTCATCCC
*
510789 ATTTTACCCCTAGTAAAATTTTAACG
1 ATTTTACCCCTAGTAAAATTTTAACA
* *
510815 ATTTTA-CCCTCATTAAAATTTTTGACA
1 ATTTTACCCCT-AGTAAAA-TTTTAACA
* *
510842 ACTTTACCCCAAGT-AAATTTT
1 ATTTTACCCCTAGTAAAATTTT
510863 CAAGAAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
25 8 0.21
26 15 0.38
27 13 0.33
28 3 0.08
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTAACA
Found at i:513492 original size:26 final size:26
Alignment explanation
Indices: 513462--513535 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
513452 TTCTCATCCC
*
513462 ATTTTACCCCTAGTAAAATTTTAACG
1 ATTTTACCCCTAGTAAAATTTTAACA
* *
513488 ATTTTA-CCCTCATTAAAATTTTTGACA
1 ATTTTACCCCT-AGTAAAA-TTTTAACA
* *
513515 ACTTTACCCCAAGT-AAATTTT
1 ATTTTACCCCTAGTAAAATTTT
513536 CAAGAAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
25 8 0.21
26 15 0.38
27 13 0.33
28 3 0.08
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTAACA
Found at i:517688 original size:6 final size:6
Alignment explanation
Indices: 517677--517711 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
517667 TGTAATTAAT
517677 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
517712 TGGACACCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.51
Consensus pattern (6 bp):
CATTTC
Found at i:522334 original size:21 final size:21
Alignment explanation
Indices: 522310--522352 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
522300 TTCGATTGAT
*
522310 TAGTGTTTGGTTGGCTAGAAA
1 TAGTGTTTAGTTGGCTAGAAA
522331 TAGTGTTTAGTTGGCTAGAAA
1 TAGTGTTTAGTTGGCTAGAAA
522352 T
1 T
522353 GGACTTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.30, T:0.40
Consensus pattern (21 bp):
TAGTGTTTAGTTGGCTAGAAA
Found at i:524591 original size:23 final size:24
Alignment explanation
Indices: 524565--524617 Score: 99
Period size: 23 Copynumber: 2.2 Consensus size: 24
524555 AATTTCTATC
524565 AATATAAAAATTAAATATATTA-T
1 AATATAAAAATTAAATATATTATT
524588 AATATAAAAATTAAATATATTATT
1 AATATAAAAATTAAATATATTATT
524612 AATATA
1 AATATA
524618 TTTAATTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 22 0.76
24 7 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AATATAAAAATTAAATATATTATT
Found at i:525097 original size:15 final size:15
Alignment explanation
Indices: 525061--525098 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
525051 ATTAAATTTG
525061 ATCAAAATAAAAATA
1 ATCAAAATAAAAATA
*
525076 ATAAAAATAAATAA-A
1 ATCAAAATAAA-AATA
525091 ATCAAAAT
1 ATCAAAAT
525099 TGTGGTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 18 0.90
16 2 0.10
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (15 bp):
ATCAAAATAAAAATA
Found at i:537676 original size:20 final size:20
Alignment explanation
Indices: 537629--537676 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
537619 AAACTTTAAC
*
537629 CCTAAAAATAAAACCCTACT
1 CCTAAAAATAAAACCCTAAT
**
537649 TTTAAAAATTAAAACCCTAAT
1 CCTAAAAA-TAAAACCCTAAT
537670 CCTAAAA
1 CCTAAAA
537677 GGGGAACGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (20 bp):
CCTAAAAATAAAACCCTAAT
Found at i:538880 original size:22 final size:23
Alignment explanation
Indices: 538855--538908 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 23
538845 AACATGAAAT
*
538855 AAAAAAT-ACAAATGTGAGTAGG
1 AAAAAATAACAAATGTAAGTAGG
538877 AAAAGAATCAAACAAATGTAAGTAGG
1 AAAA-AAT--AACAAATGTAAGTAGG
538903 AAAAAA
1 AAAAAA
538909 ATCAAACCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 4 0.15
23 3 0.11
25 2 0.07
26 18 0.67
ACGTcount: A:0.61, C:0.06, G:0.19, T:0.15
Consensus pattern (23 bp):
AAAAAATAACAAATGTAAGTAGG
Found at i:538891 original size:26 final size:26
Alignment explanation
Indices: 538862--538915 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
538852 AATAAAAAAT
* *
538862 ACAAATGTGAGTAGGAAAAGAATCAA
1 ACAAATGTAAGTAGGAAAAAAATCAA
538888 ACAAATGTAAGTAGGAAAAAAATCAA
1 ACAAATGTAAGTAGGAAAAAAATCAA
538914 AC
1 AC
538916 CTGAGACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.57, C:0.09, G:0.19, T:0.15
Consensus pattern (26 bp):
ACAAATGTAAGTAGGAAAAAAATCAA
Found at i:545669 original size:13 final size:13
Alignment explanation
Indices: 545651--545676 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
545641 TAAGTAAAAC
545651 TATTATATTATTA
1 TATTATATTATTA
545664 TATTATATTATTA
1 TATTATATTATTA
545677 GAAAAAGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:546326 original size:21 final size:20
Alignment explanation
Indices: 546300--546358 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
546290 GGCTTTGCCG
546300 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCAC-TTATGTGTCGT
**
546321 ATCAGGCACATCGTGTGTCGT
1 ATCAGGCAC-TTATGTGTCGT
*
546342 TTCAGGCACTTATGTGT
1 ATCAGGCACTTATGTGT
546359 TGTTTACTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 6 0.19
21 26 0.81
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
ATCAGGCACTTATGTGTCGT
Found at i:549064 original size:14 final size:14
Alignment explanation
Indices: 549047--549078 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
549037 AATCCCTTAG
549047 GTACGATCCTCGGA
1 GTACGATCCTCGGA
549061 GTACGATCCTCGGA
1 GTACGATCCTCGGA
549075 GTAC
1 GTAC
549079 TTCTCGGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Consensus pattern (14 bp):
GTACGATCCTCGGA
Found at i:550665 original size:35 final size:35
Alignment explanation
Indices: 550613--550691 Score: 104
Period size: 35 Copynumber: 2.3 Consensus size: 35
550603 CCGTGATAAT
*
550613 GATATATAGGTCCTTCAGGACGTCACCATTAAAAC
1 GATATATAGGTCCTTCAGGACGACACCATTAAAAC
* * * *
550648 GATATATATGTCTTTCAGGGCGACACCATTTAAAC
1 GATATATAGGTCCTTCAGGACGACACCATTAAAAC
*
550683 AATATATAG
1 GATATATAG
550692 ATTCTTTAGG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (35 bp):
GATATATAGGTCCTTCAGGACGACACCATTAAAAC
Found at i:561328 original size:50 final size:50
Alignment explanation
Indices: 561265--561545 Score: 268
Period size: 50 Copynumber: 5.7 Consensus size: 50
561255 TCATTCGATA
*
561265 CACGTAGTAGCCTTCACATAGTACTACACACGTGAGCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
*
561315 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
* * * * *** * * *
561365 CACGTAGTAGCCTTCACTTGGTACTACACATGTCACCATCATTAATGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
* * * *
561415 CACGTAGTAGCCTTCACACAGTACCACACACGTGACCAAAGCTTCT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACGGTT
* * * * *** *
561466 CACATTGTAGCCTTCAC-T--TAGT--ACATGTGACCATCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTA-CGGTT
*
561512 CACATAGTAGCCTTCACATAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
561546 TTCATCGATA
Statistics
Matches: 181, Mismatches: 41, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
44 2 0.01
45 1 0.01
46 28 0.15
47 1 0.01
48 2 0.01
49 3 0.02
50 119 0.66
51 24 0.13
52 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
Found at i:561378 original size:100 final size:99
Alignment explanation
Indices: 561263--561545 Score: 315
Period size: 100 Copynumber: 2.8 Consensus size: 99
561253 TATCATTCGA
* * *** *
561263 TACACGTAGTAGCCTTCACATAGTACTACACACGTGAGCAAGTTTTACGGTTCACGTAGTAGCCT
1 TACACGTAGTAGCCTTCAC-T-GTACTACACATGTGACCATCATTTACGATTCACGTAGTAGCCT
* *
561328 TCACATAGTACTACACACGTGATC-AAG-TTTTACGG
64 TCACATAGTACTACACACGTGACCAAAGCTTCT-CGG
* * * *
561363 TTCACGTAGTAGCCTTCACTTGGTACTACACATGTCACCATCATTAATGATTCACGTAGTAGCCT
1 TACACGTAGTAGCCTTCAC-T-GTACTACACATGTGACCATCATTTACGATTCACGTAGTAGCCT
* *
561428 TCACACAGTACCACACACGTGACCAAAGCTTCTCGG
64 TCACATAGTACTACACACGTGACCAAAGCTTCTCGG
* * * *
561464 TACACATTGTAGCCTTCACT-TAGT--ACATGTGACCATCATTTATCGATTCACATAGTAGCCTT
1 TACACGTAGTAGCCTTCACTGTACTACACATGTGACCATCATTTA-CGATTCACGTAGTAGCCTT
561526 CACATAGTACTACACACGTG
65 CACATAGTACTACACACGTG
561546 TTCATCGATA
Statistics
Matches: 154, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
96 16 0.10
97 35 0.23
98 3 0.02
100 75 0.49
101 22 0.14
102 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (99 bp):
TACACGTAGTAGCCTTCACTGTACTACACATGTGACCATCATTTACGATTCACGTAGTAGCCTTC
ACATAGTACTACACACGTGACCAAAGCTTCTCGG
Found at i:567277 original size:52 final size:53
Alignment explanation
Indices: 567214--567364 Score: 141
Period size: 54 Copynumber: 2.8 Consensus size: 53
567204 GGGCTATTTT
*
567214 GAGAGTTACACGGCCTGACACACGGGCT-GACACAGCCGTGTGAT-CCTA-CTC
1 GAGAGTTACACGGCCTGAGACACGGGCTGGACACAGCCGTGTG-TCCCTAGCTC
* * * *
567265 AGAGAGTTACACGG-GTGAGGACACGGGCTGGGACACGGTCGTGTGTCCCTAGTTC
1 -GAGAGTTACACGGCCTGA-GACACGGGCT-GGACACAGCCGTGTGTCCCTAGCTC
* *
567320 GA-AGGTTACACGGCCTGAGACACGGGCGTGTGTCTCAGCCGTGTG
1 GAGA-GTTACACGGCCTGAGACACGGGC-TG-GACACAGCCGTGTG
567365 AGGCGCACGG
Statistics
Matches: 80, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
51 3 0.04
52 22 0.28
53 2 0.03
54 37 0.46
55 16 0.20
ACGTcount: A:0.21, C:0.26, G:0.34, T:0.19
Consensus pattern (53 bp):
GAGAGTTACACGGCCTGAGACACGGGCTGGACACAGCCGTGTGTCCCTAGCTC
Found at i:570879 original size:3 final size:3
Alignment explanation
Indices: 570873--570906 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
570863 AAAGTTTATT
*
570873 ATC ATC ATC ATC ATC ATC ATT ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
570907 AGGATCGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:573636 original size:86 final size:86
Alignment explanation
Indices: 573540--573828 Score: 305
Period size: 86 Copynumber: 3.4 Consensus size: 86
573530 TGCATAATTG
* * * * **
573540 CTTTAGTTTATCTGATGATGCACTACGTGTGCTAGTATAATTGTTTCAGCTTGTTTGATGATGTG
1 CTTTAGTTTATCCGATGATGCACTACATGTGCTAGTATAATTGTTTCGGCTTGTCTGATGATGCA
* * *
573605 TTGTCTGTGCCAGTATATTTC
66 CTGTATGTGACAGTATATTTC
* * ** * * *
573626 CTTTGGTTTATCCAATGATGCACTACACATGCTAGTATAATCGCTTCGGCTTGTCCGATGATGCA
1 CTTTAGTTTATCCGATGATGCACTACATGTGCTAGTATAATTGTTTCGGCTTGTCTGATGATGCA
* * *
573691 CTATGTGTGACATTATATTTC
66 CTGTATGTGACAGTATATTTC
* * *
573712 TTTTTA-TTTATCTGATGATGCACTACATGTGATAGTATAATTGCTTT-GGCTTGTCTGATGATG
1 -CTTTAGTTTATCCGATGATGCACTACATGTGCTAGTATAATTG-TTTCGGCTTGTCTGATGATG
* *
573775 CACTGTATATGTCAGTATATTTC
64 CACTGTATGTGACAGTATATTTC
* *
573798 CTTCAGTTTATCCGATGATACACTACA-GTGC
1 CTTTAGTTTATCCGATGATGCACTACATGTGC
573829 CAGATTGGGA
Statistics
Matches: 162, Mismatches: 38, Indels: 7
0.78 0.18 0.03
Matches are distributed among these distances:
85 6 0.04
86 151 0.93
87 5 0.03
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (86 bp):
CTTTAGTTTATCCGATGATGCACTACATGTGCTAGTATAATTGTTTCGGCTTGTCTGATGATGCA
CTGTATGTGACAGTATATTTC
Found at i:573769 original size:43 final size:43
Alignment explanation
Indices: 573421--573778 Score: 151
Period size: 43 Copynumber: 8.4 Consensus size: 43
573411 TACTCCGGTA
* * ** *
573421 TATCCGATGATGCACTGCGCGTGCCAGTATAATTGCTTTGG-T
1 TATCTGATGATGCACTACATGTGCTAGTATAATTGCTTTGGCT
* ** * * *
573463 ATATCCGATGATGCA-TTTATGTG-TCAGTATATTTTCTTCGG-T
1 -TATCTGATGATGCACTACATGTGCT-AGTATAATTGCTTTGGCT
* * * * * * *
573505 ACATCCGGTGATGCACT-CACGTGCCT-GCATAATTGCTTTAGTT
1 -TATCTGATGATGCACTACATGTG-CTAGTATAATTGCTTTGGCT
* *
573548 TATCTGATGATGCACTACGTGTGCTAGTATAATTG-TTTCAGCT
1 TATCTGATGATGCACTACATGTGCTAGTATAATTGCTTT-GGCT
* * *** * * * * *
573591 TGTTTGATGATGTGTTGTC-TGTGCCAGTATATTTCCTTTGGTT
1 TATCTGATGATGCACT-ACATGTGCTAGTATAATTGCTTTGGCT
** ** * *
573634 TATCCAATGATGCACTACACATGCTAGTATAATCGCTTCGGCT
1 TATCTGATGATGCACTACATGTGCTAGTATAATTGCTTTGGCT
* * ** * * ***
573677 TGTCCGATGATGCACTATGTGTGAC-ATTAT-ATTTCTTTTTATT
1 TATCTGATGATGCACTACATGTG-CTAGTATAATTGC-TTTGGCT
*
573720 TATCTGATGATGCACTACATGTGATAGTATAATTGCTTTGGCT
1 TATCTGATGATGCACTACATGTGCTAGTATAATTGCTTTGGCT
*
573763 TGTCTGATGATGCACT
1 TATCTGATGATGCACT
573779 GTATATGTCA
Statistics
Matches: 225, Mismatches: 75, Indels: 30
0.68 0.23 0.09
Matches are distributed among these distances:
42 67 0.30
43 148 0.66
44 10 0.04
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (43 bp):
TATCTGATGATGCACTACATGTGCTAGTATAATTGCTTTGGCT
Found at i:575511 original size:18 final size:16
Alignment explanation
Indices: 575480--575514 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
575470 GTATTATGGT
575480 GATTTTTTATTGGATA
1 GATTTTTTATTGGATA
575496 GATTTTATTAATTGGATA
1 GATTTT-TT-ATTGGATA
575514 G
1 G
575515 TTAGTCAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 2 0.12
18 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (16 bp):
GATTTTTTATTGGATA
Found at i:580807 original size:15 final size:16
Alignment explanation
Indices: 580778--580807 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
580768 ATGAGAAAAA
580778 TTCAAACTCAAGAAAG
1 TTCAAACTCAAGAAAG
580794 TTCAAACT-AAGAAA
1 TTCAAACTCAAGAAA
580808 ATTTGAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.17, G:0.10, T:0.20
Consensus pattern (16 bp):
TTCAAACTCAAGAAAG
Found at i:590334 original size:40 final size:40
Alignment explanation
Indices: 590286--590597 Score: 364
Period size: 40 Copynumber: 7.7 Consensus size: 40
590276 ATTTCGTCTA
590286 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTG
* *
590326 CTCCACTACTTCTTAGGGAGATAAGATCTGTG-GTTCTG-TCTG
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-GATCTG
* * *
590368 CTCTACTATTGCTTAGGGAGATAAGACTTGAGGCTATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTG
* *
590408 CTCCACTACTGCTTAAGGAGATAAGATCTGTG-GTTCTG-TCTG
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-GATCTG
590450 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTG
* *
590490 CTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTATCTG
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GCGATCTG
* *
590532 CTCCACTACTACTTAGGGAGATAAGACTTGAGGCAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTG
* * *
590572 CTTCAGTACTACTTAGGGAGATAAGA
1 CTCCACTACTGCTTAGGGAGATAAGA
590598 TCTGTGGTTC
Statistics
Matches: 235, Mismatches: 21, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
39 1 0.00
40 120 0.51
41 18 0.08
42 95 0.40
43 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (40 bp):
CTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTG
Found at i:590381 original size:82 final size:82
Alignment explanation
Indices: 590281--590629 Score: 583
Period size: 82 Copynumber: 4.3 Consensus size: 82
590271 GGTTTATTTC
* *
590281 GTCTACTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTTCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAG
590346 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
* * * *
590363 GTCTGCTCTACTATTGCTTAGGGAGATAAGACTTGAGGCTATCTGCTCCACTACTGCTTAAGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAG
590428 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
590445 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAG
590510 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
* * * * * *
590527 ATCTGCTCCACTACTACTTAGGGAGATAAGACTTGAGGCAATCTGCTTCAGTACTACTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAG
590592 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
590609 GTCTGCTCCACTACTG-TTAGG
1 GTCTGCTCCACTACTGCTTAGG
590630 AAAGTAAGAT
Statistics
Matches: 249, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
81 5 0.02
82 244 0.98
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (82 bp):
GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATCTGTGGTTCT
Found at i:590732 original size:50 final size:49
Alignment explanation
Indices: 590678--591082 Score: 200
Period size: 50 Copynumber: 8.1 Consensus size: 49
590668 TGCAATGTTG
* *
590678 GGGAAGCAAGATTCGGCATCGTAGCTTTAATCTGCTCCACTGCATCGCCA
1 GGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCAT-GCCA
* * * * ** ** * * *
590728 GGGAAGTAAGATTCGTCGTTGCAGCTTTAATCTTTTTAATTGCAATGTCG
1 GGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC-ATGCCA
* *
590778 GGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTGCCCCACTGCATTGCCA
1 GGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCA-TGCCA
* * * * * ** * ** ** * * * *
590828 TGGAAGTAAGATTGGCCATTGCGGCTTCAATCTTTTAAATTGTAATGTCG
1 GGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTG-CATGCCA
* * * * * * *
590878 GGGAA-CAAGATTCACCGTTGTAGCTTCAATTTGATCCACTGCATCACCT
1 GGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCAT-GCCA
* * * * * ** ** * **
590927 GGGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTAAATTGCAATATCA
1 GGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC-ATGCCA
* * *
590977 GGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTGCTACACTGTACTGCCA
1 GGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCA-TGCCA
*** * * *
591027 GGGAAATGAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCACTGCCA
1 GGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCA-TGCCA
591077 GGGAAG
1 GGGAAG
591083 GTAACTTCAT
Statistics
Matches: 254, Mismatches: 94, Indels: 14
0.70 0.26 0.04
Matches are distributed among these distances:
48 2 0.01
49 32 0.13
50 215 0.85
51 5 0.02
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (49 bp):
GGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCATGCCA
Found at i:590804 original size:100 final size:100
Alignment explanation
Indices: 590652--591059 Score: 487
Period size: 100 Copynumber: 4.1 Consensus size: 100
590642 GCCGTTGTGA
* * * *
590652 CTTCAATCTTTTTAATTGCAATGTTGGGGAAGCAAGATTCGGCATCGTAGCTTTAATCTGCTCCA
1 CTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCA
* *
590717 CTGCATCGCCAGGGAAGTAAGATTCGTCGTTGCAG
66 CTGCATCGCCAGGGAAGTAAGATTCGCCATTGCAG
* * * *
590752 CTTTAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTGCCCCA
1 CTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCA
* * * *
590817 CTGCATTGCCATGGAAGTAAGATTGGCCATTGCGG
66 CTGCATCGCCAGGGAAGTAAGATTCGCCATTGCAG
* * * * * *
590852 CTTCAATCTTTTAAATTGTAATGTCGGGGAA-CAAGATTCACCGTTGTAGCTTCAATTTGATCCA
1 CTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCA
* * **
590916 CTGCATCACCTGGGAAGTAAGATTCGCCATTGTGG
66 CTGCATCGCCAGGGAAGTAAGATTCGCCATTGCAG
* * * *
590951 CTTCAATCTTTTAAATTGCAATATCAGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTGCTACA
1 CTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCA
* * * * * *
591016 CTGTA-CTGCCAGGGAAATGAGATTCACCGTTGTAG
66 CTGCATC-GCCAGGGAAGTAAGATTCGCCATTGCAG
591051 CTTCAATCT
1 CTTCAATCT
591060 GCTCCACTGC
Statistics
Matches: 260, Mismatches: 46, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
99 84 0.32
100 176 0.68
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (100 bp):
CTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCA
CTGCATCGCCAGGGAAGTAAGATTCGCCATTGCAG
Found at i:590972 original size:199 final size:200
Alignment explanation
Indices: 590652--591011 Score: 533
Period size: 199 Copynumber: 1.8 Consensus size: 200
590642 GCCGTTGTGA
* * ** * *
590652 CTTCAATCTTTTTAATTGCAATGTTGGGGAAGCAAGATTCGGCATCGTAGCTTTAATCTGCTCCA
1 CTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCATCGTAGCTTCAATCTGATCCA
* * * * * * *
590717 CTGCATCGCCAGGGAAGTAAGATTCGTCGTTGCAGCTTTAATCTTTTTAATTGCAATGTCGGGGA
66 CTGCATCACCAGGGAAGTAAGATTCGCCATTGCAGCTTCAATCTTTTAAATTGCAATATCAGGGA
590782 AGCAAGATTTGCCGTCGTAGCTTTAATCTGCCCCACTGCATTGCCATGGAAGTAAGATTGGCCAT
131 AGCAAGATTTGCCGTCGTAGCTTTAATCTGCCCCACTGCATTGCCATGGAAGTAAGATTGGCCAT
590847 TGCGG
196 TGCGG
* * * *
590852 CTTCAATCTTTTAAATTGTAATGTCGGGGAA-CAAGATTCACCGTTGTAGCTTCAATTTGATCCA
1 CTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCATCGTAGCTTCAATCTGATCCA
* **
590916 CTGCATCACCTGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTAAATTGCAATATCAGGGA
66 CTGCATCACCAGGGAAGTAAGATTCGCCATTGCAGCTTCAATCTTTTAAATTGCAATATCAGGGA
590981 AGCAAGATTTGCCGTCGTAGCTTTAATCTGC
131 AGCAAGATTTGCCGTCGTAGCTTTAATCTGC
591012 TACACTGTAC
Statistics
Matches: 140, Mismatches: 20, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
199 112 0.80
200 28 0.20
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (200 bp):
CTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCATCGTAGCTTCAATCTGATCCA
CTGCATCACCAGGGAAGTAAGATTCGCCATTGCAGCTTCAATCTTTTAAATTGCAATATCAGGGA
AGCAAGATTTGCCGTCGTAGCTTTAATCTGCCCCACTGCATTGCCATGGAAGTAAGATTGGCCAT
TGCGG
Found at i:591056 original size:199 final size:199
Alignment explanation
Indices: 590628--591059 Score: 524
Period size: 199 Copynumber: 2.2 Consensus size: 199
590618 ACTACTGTTA
* * * * *
590628 GGAAAGTAAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCAATGTTGGGGAAGCAAGATTCG
1 GGAAA-TAAGATTCACCGTTGTG-CTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCA
* * * * * * *
590693 GCATCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAAGTAAGATTCGTCGTTGCAGCTTTAA
64 CCATCGTAGCTTCAATCTGATCCACTGCATCACCAGGGAAGTAAGATTCGCCATTGCAGCTTCAA
* * * * *
590758 TCTTTTTAATTGCAATGTCGGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTGCCCCACTGCAT
129 TCTTTTAAATTGCAATATCAGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTGCCACACTGCAC
*
590823 TGCCAT
194 TGCCAG
* ** * * *
590829 GGAAGTAAGATTGGCCATTGCGGCTTCAATCTTTTAAATTGTAATGTCGGGGAA-CAAGATTCAC
1 GGAAATAAGATTCACCGTTG-TGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCAC
* * * * **
590893 CGTTGTAGCTTCAATTTGATCCACTGCATCACCTGGGAAGTAAGATTCGCCATTGTGGCTTCAAT
65 CATCGTAGCTTCAATCTGATCCACTGCATCACCAGGGAAGTAAGATTCGCCATTGCAGCTTCAAT
* *
590958 CTTTTAAATTGCAATATCAGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTGCTACACTGTACT
130 CTTTTAAATTGCAATATCAGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTGCCACACTGCACT
591023 GCCAG
195 GCCAG
*
591028 GGAAATGAGATTCACCGTTGTAGCTTCAATCT
1 GGAAATAAGATTCACCGTTGT-GCTTCAATCT
591060 GCTCCACTGC
Statistics
Matches: 193, Mismatches: 36, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
199 148 0.77
200 40 0.21
201 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (199 bp):
GGAAATAAGATTCACCGTTGTGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACC
ATCGTAGCTTCAATCTGATCCACTGCATCACCAGGGAAGTAAGATTCGCCATTGCAGCTTCAATC
TTTTAAATTGCAATATCAGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTGCCACACTGCACTG
CCAG
Found at i:591395 original size:24 final size:24
Alignment explanation
Indices: 591362--591419 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
591352 CCGGACTGCC
591362 CCACTGTAATCTTCAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
* *
591386 CCACTATAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
591410 CCACTGTAAT
1 CCACTGTAAT
591420 TTAGGGACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.33
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:592054 original size:97 final size:93
Alignment explanation
Indices: 591892--592073 Score: 267
Period size: 97 Copynumber: 1.9 Consensus size: 93
591882 CAAAAATGCT
*
591892 TGAAAAAGATTATCACAATGGATAAAATTTTATTGAGAACAAAGCTCGAAATGAATAAATTAATC
1 TGAAAAAGATTATCACAATGGATAAAATTTTATTGAGAACAAAGCTCGAAATGAATAAATCAATC
*
591957 AAGATAGCAAA-TTTTGCTAAGATAAGA
66 AAGATAACAAATTTTTGCTAAGATAAGA
* * *
591984 TGAAAAAGATTATCACAATGGATAAGGTGAAATTTTATTGAGAATAAAGCTTGAAATGAATGAAT
1 TGAAAAAGATTATCACAATGGAT-A----AAATTTTATTGAGAACAAAGCTCGAAATGAATAAAT
592049 CAATCAAGATAACAAATTTTTGCTA
61 CAATCAAGATAACAAATTTTTGCTA
592074 GAATGAGAAT
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
92 23 0.29
93 1 0.01
97 47 0.59
98 8 0.10
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (93 bp):
TGAAAAAGATTATCACAATGGATAAAATTTTATTGAGAACAAAGCTCGAAATGAATAAATCAATC
AAGATAACAAATTTTTGCTAAGATAAGA
Found at i:592416 original size:22 final size:19
Alignment explanation
Indices: 592389--592449 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 19
592379 TGGCCTCTCC
592389 TTTTTCTTTTTCGTTCTTCTTT
1 TTTTTCTTTTT--TTCTT-TTT
592411 TTTTTCTTCTCTTTTCTTTTT
1 TTTTTCTT-T-TTTTCTTTTT
592432 TTGTTTCTTTTTTT-TTTT
1 TT-TTTCTTTTTTTCTTTT
592450 CAAGTGAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
19 4 0.11
20 4 0.11
21 6 0.17
22 19 0.53
23 1 0.03
24 2 0.06
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (19 bp):
TTTTTCTTTTTTTCTTTTT
Found at i:592417 original size:12 final size:12
Alignment explanation
Indices: 592392--592450 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
592382 CCTCTCCTTT
*
592392 TTCTTTTTCGTTC
1 TTCTTTTT-TTTC
592405 TTCTTTTTTTTC
1 TTCTTTTTTTTC
*
592417 TTC--TCTTTTC
1 TTCTTTTTTTTC
592427 TT-TTTTTGTTTC
1 TTCTTTTT-TTTC
*
592439 TTTTTTTTTTTC
1 TTCTTTTTTTTC
592451 AAGTGAAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 8 0.21
11 2 0.05
12 16 0.41
13 13 0.33
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (12 bp):
TTCTTTTTTTTC
Found at i:592423 original size:14 final size:16
Alignment explanation
Indices: 592395--592450 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
592385 CTCCTTTTTC
592395 TTTTTCGTTCTTCTTT
1 TTTTTCGTTCTTCTTT
*
592411 TTTTTC-TTCTCTTTTCT
1 TTTTTCGTTCT-TCTT-T
* *
592428 TTTTTTGTTTCTTTTTT
1 TTTTTCG-TTCTTCTTT
592445 TTTTTC
1 TTTTTC
592451 AAGTGAAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 4 0.12
16 9 0.27
17 12 0.36
18 4 0.12
19 4 0.12
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (16 bp):
TTTTTCGTTCTTCTTT
Found at i:592427 original size:19 final size:18
Alignment explanation
Indices: 592405--592449 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
592395 TTTTTCGTTC
592405 TTCTTTTTTT-TCTTCTCTT
1 TTCTTTTTTTGT-TTCT-TT
592424 TTCTTTTTTTGTTTCTTT
1 TTCTTTTTTTGTTTCTTT
592442 TT-TTTTTT
1 TTCTTTTTT
592450 CAAGTGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 14 0.56
20 1 0.04
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.84
Consensus pattern (18 bp):
TTCTTTTTTTGTTTCTTT
Found at i:595715 original size:19 final size:20
Alignment explanation
Indices: 595691--595737 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
595681 TGAGAAAATC
*
595691 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGCAATG
*
595710 TAATGCAAATGCATGGAATG
1 TAATGCAAATGCATGCAATG
595730 -AATGCAAA
1 TAATGCAAA
595738 AAGAGACGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGCAATG
Found at i:600086 original size:17 final size:17
Alignment explanation
Indices: 600064--600097 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
600054 TTCGATAATT
600064 AATTAAAA-ATGTAAAAG
1 AATTAAAAGATG-AAAAG
600081 AATTAAAAGATGAAAAG
1 AATTAAAAGATGAAAAG
600098 GCTATCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.21
Consensus pattern (17 bp):
AATTAAAAGATGAAAAG
Found at i:604073 original size:78 final size:78
Alignment explanation
Indices: 603944--604102 Score: 309
Period size: 78 Copynumber: 2.0 Consensus size: 78
603934 TTTCGGAGGC
603944 ATTTTTGATAAAATTTCTAACTAGAGAGACTAACTTAATGTCAAACAATATATTTCTAACGCAAC
1 ATTTTTGATAAAATTTCTAACTAGAGAGACTAACTTAATGTCAAACAATATATTTCTAACGCAAC
604009 AGTAAAAGTTTTA
66 AGTAAAAGTTTTA
*
604022 ATTTTTGATAAAATTTCTAACTAGAGAGACTAACTTAATGTCAAACAATATATTTCTAACGCAAG
1 ATTTTTGATAAAATTTCTAACTAGAGAGACTAACTTAATGTCAAACAATATATTTCTAACGCAAC
604087 AGTAAAAGTTTTA
66 AGTAAAAGTTTTA
604100 ATT
1 ATT
604103 GGAACATTTA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (78 bp):
ATTTTTGATAAAATTTCTAACTAGAGAGACTAACTTAATGTCAAACAATATATTTCTAACGCAAC
AGTAAAAGTTTTA
Found at i:604077 original size:39 final size:39
Alignment explanation
Indices: 603956--604081 Score: 107
Period size: 39 Copynumber: 3.2 Consensus size: 39
603946 TTTTGATAAA
603956 ATTTCTAACTAGAGAGACTAACTTAATGTCAAACAATAT
1 ATTTCTAACTAGAGAGACTAACTTAATGTCAAACAATAT
* * * * * *** *
603995 ATTTCTAACGCA-ACAGTA-AAAGTTTTAATTTTTGATAA-A-
1 ATTTCTAAC-TAGAGAG-ACTAA--CTTAATGTCAAACAATAT
604034 ATTTCTAACTAGAGAGACTAACTTAATGTCAAACAATAT
1 ATTTCTAACTAGAGAGACTAACTTAATGTCAAACAATAT
604073 ATTTCTAAC
1 ATTTCTAAC
604082 GCAAGAGTAA
Statistics
Matches: 61, Mismatches: 18, Indels: 16
0.64 0.19 0.17
Matches are distributed among these distances:
37 9 0.15
38 3 0.05
39 37 0.61
40 3 0.05
41 9 0.15
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (39 bp):
ATTTCTAACTAGAGAGACTAACTTAATGTCAAACAATAT
Found at i:610056 original size:25 final size:25
Alignment explanation
Indices: 610028--610076 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
610018 TTAAGTGTTT
* *
610028 TCAGTACAGCCTATCTATAGTAGTC
1 TCAGTACAGACTACCTATAGTAGTC
* *
610053 TCAGTATATACTACCTATAGTAGT
1 TCAGTACAGACTACCTATAGTAGT
610077 TTTAGGATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (25 bp):
TCAGTACAGACTACCTATAGTAGTC
Found at i:610086 original size:25 final size:25
Alignment explanation
Indices: 610042--610090 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
610032 TACAGCCTAT
*
610042 CTATAGTAGTCTCAGTATATACTAC
1 CTATAGTAGTCTCAGGATATACTAC
* *
610067 CTATAGTAGTTTTAGGATATACTA
1 CTATAGTAGTCTCAGGATATACTA
610091 TCAAAATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (25 bp):
CTATAGTAGTCTCAGGATATACTAC
Found at i:613955 original size:19 final size:21
Alignment explanation
Indices: 613917--613955 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
613907 CTTTTTTTAA
*
613917 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
613938 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
613956 AGTAAGCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:614171 original size:19 final size:19
Alignment explanation
Indices: 614147--614202 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
614137 AATCACATCT
614147 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
614166 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
614187 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
614203 CTCAAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 14 0.44
21 18 0.56
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:614184 original size:21 final size:21
Alignment explanation
Indices: 614158--614201 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
614148 CTAAGATTAC
614158 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
614179 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
614200 AT
1 AT
614202 CCTCAAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:617316 original size:27 final size:25
Alignment explanation
Indices: 617262--617316 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
617252 TAAACTCTTC
* *
617262 TAAAAGAAAACTCAAGAGAAATTCT
1 TAAAAGAAAACCCAAGAGAAATTAT
*
617287 TAAAAGAAAAACCCAAAGAGAATTTAT
1 TAAAAG-AAAACCC-AAGAGAAATTAT
617314 TAA
1 TAA
617317 CTCAAAAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.24
26 6 0.24
27 13 0.52
ACGTcount: A:0.58, C:0.11, G:0.11, T:0.20
Consensus pattern (25 bp):
TAAAAGAAAACCCAAGAGAAATTAT
Found at i:621407 original size:30 final size:29
Alignment explanation
Indices: 621338--621438 Score: 103
Period size: 30 Copynumber: 3.4 Consensus size: 29
621328 TACGGCTTTA
* * * *
621338 GAAAATGGATAGTAACGACCATGAATAAT
1 GAAAAGGGATGGTGACGACCATGAATTAT
* *
621367 GAAAAAGGATGGTGACGACCATCGAATTTT
1 GAAAAGGGATGGTGACGACCAT-GAATTAT
* **
621397 GAAAAGGGATGGTGACAATAATTGAATTAT
1 GAAAAGGGATGGTGACGACCA-TGAATTAT
621427 GAAAAGGGATGG
1 GAAAAGGGATGG
621439 CTTTGACTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
29 19 0.32
30 40 0.67
31 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.28, T:0.22
Consensus pattern (29 bp):
GAAAAGGGATGGTGACGACCATGAATTAT
Found at i:628777 original size:30 final size:30
Alignment explanation
Indices: 628737--629149 Score: 322
Period size: 30 Copynumber: 13.8 Consensus size: 30
628727 TCATCGACTA
* *
628737 ATGAAAAGGGATGGCTTCGGCTATCAAAAT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* *
628767 ATGGAAAGGGATGGCTTCGACTATCAAAAT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * *
628797 ATGGAAAGAGATGACTTC-ATCTATCAAATT
1 ATGAAAAGGGATGGCTTCGA-CTATCAAATT
*
628827 ATGAAAAGGGATAGCTTCGACTATCAAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * * *
628857 ATGAAAAGGGGTAGCTTCGGCTATCGAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * * * **
628887 ATCAAAAAGGATAGCTTCAACTATTGAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * *
628917 GTGAAAAGGGATGGGTTCGGCTATCAAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * *
628947 ATGAAAAGGGATGG-TAACAACCATCAACA--
1 ATGAAAAGGGATGGCT-TCGACTATCAA-ATT
* * * *
628976 ATGAAAAGAGATGG-TCACGACCATCGAATT
1 ATGAAAAGGGATGGCT-TCGACTATCAAATT
*
629006 ATGACAAGGGATGGCTTCGACTATCAAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * *
629036 ATGAAAAGGGATGG-TAACAACCATCAACA--
1 ATGAAAAGGGATGGCT-TCGACTATCAA-ATT
* * *
629065 ATGAAAAGAGATGG-TGACGACCATCAAATT
1 ATGAAAAGGGATGGCT-TCGACTATCAAATT
* * *
629095 ATGACAAGGGATGGCTTCAACTATCAAAAT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
** * *
629125 ATGGTAAGGGATAGCTTCGGCTATC
1 ATGAAAAGGGATGGCTTCGACTATC
629150 GAACTATAAA
Statistics
Matches: 312, Mismatches: 59, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
28 2 0.01
29 50 0.16
30 255 0.82
31 5 0.02
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (30 bp):
ATGAAAAGGGATGGCTTCGACTATCAAATT
Found at i:629031 original size:89 final size:89
Alignment explanation
Indices: 628912--629136 Score: 360
Period size: 89 Copynumber: 2.5 Consensus size: 89
628902 TTCAACTATT
* * * *
628912 GAATTGTGAAAAGGGATGGGTTCGGCTATCAAATTATGAAAAGGGATGGTAACAACCATCAACAA
1 GAATTATGACAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGATGGTAACAACCATCAACAA
628977 TGAAAAGAGATGGTCACGACCATC
66 TGAAAAGAGATGGTCACGACCATC
629001 GAATTATGACAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGATGGTAACAACCATCAACAA
1 GAATTATGACAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGATGGTAACAACCATCAACAA
*
629066 TGAAAAGAGATGGTGACGACCATC
66 TGAAAAGAGATGGTCACGACCATC
* * * **
629090 AAATTATGACAAGGGATGGCTTCAACTATCAAAATATGGTAAGGGAT
1 GAATTATGACAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGAT
629137 AGCTTCGGCT
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 126 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (89 bp):
GAATTATGACAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGATGGTAACAACCATCAACAA
TGAAAAGAGATGGTCACGACCATC
Found at i:629032 original size:59 final size:59
Alignment explanation
Indices: 628943--629108 Score: 149
Period size: 59 Copynumber: 2.8 Consensus size: 59
628933 TCGGCTATCA
* *
628943 AATTATGAAAAGGGATGGTAACAACCATCAACA-ATGAAAAGAGATGGTCACGACCATCG
1 AATTATGAAAAGGGATGGTAACAACCATCAA-ATATGAAAAGAGATGGTAACAACCATCG
* * * * *
629002 AATTATGACAAGGGATGGCT-TCGACTATCAAATTATGAAAAGGGATGGTAACAACCATC-
1 AATTATGAAAAGGGATGG-TAACAACCATCAAA-TATGAAAAGAGATGGTAACAACCATCG
** * * * * *
629061 AACAATGAAAAGAGATGGTGACGACCATCAAATTATGACAAGGGATGG
1 AATTATGAAAAGGGATGGTAACAACCATCAAA-TATGAAAAGAGATGG
629109 CTTCAACTAT
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
58 2 0.02
59 64 0.72
60 23 0.26
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.19
Consensus pattern (59 bp):
AATTATGAAAAGGGATGGTAACAACCATCAAATATGAAAAGAGATGGTAACAACCATCG
Found at i:634663 original size:5 final size:5
Alignment explanation
Indices: 634653--634686 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
634643 AATTTTAATA
634653 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
634687 CTACTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:638748 original size:41 final size:41
Alignment explanation
Indices: 638691--638789 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 41
638681 CATTGAATGT
* * * *
638691 AAGGGGCTACTAAGTGCAAATTCCCTGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAAATTCCCCGAAACACTGATCAAA
* * *
638732 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGTTCAAA
1 AAGGGGTTGCTAAGTGCAAATTCCCCGAAACACTGATCAAA
638773 AAGGGGTTGCTAAGTGC
1 AAGGGGTTGCTAAGTGC
638790 TGATTACACC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAAATTCCCCGAAACACTGATCAAA
Found at i:640482 original size:257 final size:259
Alignment explanation
Indices: 640025--640552 Score: 880
Period size: 257 Copynumber: 2.0 Consensus size: 259
640015 TGGGTTACCA
* * *
640025 TCTGAAAATTTGTAGGTGAGGTTACTTCTTTATAAAGGGGATTATGTCAAAATTTTCGTTAAAAA
1 TCTGAAAATTTGTAGGTGAGGTTACATATTTATAAAGGGGATCATGTCAAAATTTTCGTTAAAAA
* * * *
640090 AAAATCTCAGTTCGAACGATGACAAGTGTTTGTGCTCTAGTAATACCTTATACTCTATTCCGGCA
66 AAAATCTAAGTTCGAACAATAACAAGTGTTTGTGCTCTAGTAATACCTCATACTCTATTCCGGCA
640155 AGGAACACAAGTAAGGGGTGTTACATTTTAGTGGTATCAGAGCTATGGTTTAATCAGTTCTCGGA
131 AGGAACACAAGTAAGGGGTGTTACATTTTAGTGGTATCAGAGCTATGGTTTAATCAGTTCTCGGA
640220 TTAATTTAATGTGTGTGAAAGTCCATCTATACATGCCATAGATATATTGTGATA-GTGATGATT
196 TTAATTTAATGTGTGTGAAAGTCCATCTATACATGCCATAGATATATTGTGATAGGTGATGATT
*
640283 TCTGAAAATTTGTAGGTGAGGTTACATATTTATAAAGGGGATCATGTCAAAATTTTTG-TAAAAA
1 TCTGAAAATTTGTAGGTGAGGTTACATATTTATAAAGGGGATCATGTCAAAATTTTCGTTAAAAA
* * * * **
640347 AAAATCTAAGTTGGAACAATAACAAGTGTTTGTGTTCTAGTAATACCTCATACTCTGTTTCGGTG
66 AAAATCTAAGTTCGAACAATAACAAGTGTTTGTGCTCTAGTAATACCTCATACTCTATTCCGGCA
* *
640412 AGGAACACGAGTAAGGGGTGTTACATTTTAGTGGTATCAGAGCTATGGTTTAGTCAGTTCTCGGA
131 AGGAACACAAGTAAGGGGTGTTACATTTTAGTGGTATCAGAGCTATGGTTTAATCAGTTCTCGGA
640477 TTAATTTAATGTGTGTGAAAGTCCATCTATACATGCCATAGATATATTGTGATAGTGTGATGATT
196 TTAATTTAATGTGTGTGAAAGTCCATCTATACATGCCATAGATATATTGTGATAG-GTGATGATT
*
640542 TCTGACAATTT
1 TCTGAAAATTT
640553 AAATTGTGTT
Statistics
Matches: 251, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
257 178 0.71
258 54 0.22
259 19 0.08
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (259 bp):
TCTGAAAATTTGTAGGTGAGGTTACATATTTATAAAGGGGATCATGTCAAAATTTTCGTTAAAAA
AAAATCTAAGTTCGAACAATAACAAGTGTTTGTGCTCTAGTAATACCTCATACTCTATTCCGGCA
AGGAACACAAGTAAGGGGTGTTACATTTTAGTGGTATCAGAGCTATGGTTTAATCAGTTCTCGGA
TTAATTTAATGTGTGTGAAAGTCCATCTATACATGCCATAGATATATTGTGATAGGTGATGATT
Found at i:646454 original size:41 final size:41
Alignment explanation
Indices: 646395--646619 Score: 118
Period size: 41 Copynumber: 5.5 Consensus size: 41
646385 TGTAAGGGGC
* *
646395 TGCTAAGTGCAG-TTCCCCGAATCACTAATCCAA-AAAGGGT
1 TGCTAAATGCAGATACCCCGAATCACTAAT-CAAGAAAGGGT
* * **
646435 TGCTAAATGTAGATACCCCGAATCACTGATCAAGATGGGGT
1 TGCTAAATGCAGATACCCCGAATCACTAATCAAGAAAGGGT
* * * * * *
646476 TGCTAAGTGCAGATTCCCCGAAACTCTGAT-AAAAAAGGGGT
1 TGCTAAATGCAGATACCCCGAATCACTAATCAAGAAA-GGGT
* * * * * * *
646517 TGCTAAGTGCAAATTCCCCGAAACTCTGAT-AAAAAAGGGGT
1 TGCTAAATGCAGATACCCCGAATCACTAATCAAGAAA-GGGT
* * * * * * *
646558 TGCTAAGTGCAAATTCCCCGAAACTCTGAT-AAAAAAGGGGT
1 TGCTAAATGCAGATACCCCGAATCACTAATCAAGAAA-GGGT
* * *
646599 TGCTAAGTACAGATTCCCCGA
1 TGCTAAATGCAGATACCCCGA
646620 GGGGTTGCTA
Statistics
Matches: 165, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 16 0.10
41 149 0.90
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (41 bp):
TGCTAAATGCAGATACCCCGAATCACTAATCAAGAAAGGGT
Found at i:646536 original size:82 final size:82
Alignment explanation
Indices: 646388--646619 Score: 297
Period size: 82 Copynumber: 2.8 Consensus size: 82
646378 CATTGAATGT
* * * * * * * *
646388 AAGGGGCTGCTAAGTGCAG-TTCCCCGAATCACTAATCCAAAAA-GGGTTGCTAAATGTAGATAC
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGAT-AAAAAAGGGGTTGCTAAGTGCAGATTC
* * *
646451 CCCGAATCACTGATCAAG
65 CCCGAAACACTGATAAAA
* *
646469 ATGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATAAAAAAGGGGTTGCTAAGTGCAAATTCC
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATAAAAAAGGGGTTGCTAAGTGCAGATTCC
*
646534 CCGAAACTCTGATAAAA
66 CCGAAACACTGATAAAA
* *
646551 AAGGGGTTGCTAAGTGCAAATTCCCCGAAACTCTGATAAAAAAGGGGTTGCTAAGTACAGATTCC
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATAAAAAAGGGGTTGCTAAGTGCAGATTCC
646616 CCGA
66 CCGA
646620 GGGGTTGCTA
Statistics
Matches: 131, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
81 22 0.17
82 109 0.83
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (82 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATAAAAAAGGGGTTGCTAAGTGCAGATTCC
CCGAAACACTGATAAAA
Found at i:646606 original size:123 final size:122
Alignment explanation
Indices: 646388--646619 Score: 295
Period size: 123 Copynumber: 1.9 Consensus size: 122
646378 CATTGAATGT
* * * * *
646388 AAGGGGCTGCTAAGTGCAGTTCCCCGAATCACTAATCCAAAAAGGGTTGCTAAATGTAGATACCC
1 AAGGGGCTGCTAAGTGCAATTCCCCGAAACACTAATCAAAAAAGGGTTGCTAAATGCAAATACCC
* * * * *
646453 CGAATCACTGATCAAGATGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATAAAA
66 CGAAACACTGATAAAAAAGGGGTTGCTAAGTACAGATTCCCCGAAACTCTGATAAAA
* * * * *
646510 AAGGGGTTGCTAAGTGCAAATTCCCCGAAACTCTGAT-AAAAAAGGGGTTGCTAAGTGCAAATTC
1 AAGGGGCTGCTAAGTGC-AATTCCCCGAAACACTAATCAAAAAA-GGGTTGCTAAATGCAAATAC
*
646574 CCCGAAACTCTGATAAAAAAGGGGTTGCTAAGTACAGATTCCCCGA
64 CCCGAAACACTGATAAAAAAGGGGTTGCTAAGTACAGATTCCCCGA
646620 GGGGTTGCTA
Statistics
Matches: 92, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
122 21 0.23
123 71 0.77
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (122 bp):
AAGGGGCTGCTAAGTGCAATTCCCCGAAACACTAATCAAAAAAGGGTTGCTAAATGCAAATACCC
CGAAACACTGATAAAAAAGGGGTTGCTAAGTACAGATTCCCCGAAACTCTGATAAAA
Found at i:646753 original size:43 final size:42
Alignment explanation
Indices: 646622--646805 Score: 174
Period size: 42 Copynumber: 4.4 Consensus size: 42
646612 TTCCCCGAGG
* * * * * * *
646622 GGTTGCTAAGTGGTGATTGCCTGAATTATTTATTCTAAAGTT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTCTAAAGGT
* * *
646664 GGTTGGTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTCTAAAGGT
* *
646706 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTCT-AAAGGT
* * * * *
646749 GGTTGCTATGTGCTGATTCTCCGTATCACTGAATAT-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTCTAAAGGT
*
646790 GGTTTCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
646806 CTCCACCAAG
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
40 4 0.03
41 14 0.12
42 67 0.56
43 30 0.25
44 5 0.04
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTCTAAAGGT
Found at i:648584 original size:22 final size:23
Alignment explanation
Indices: 648536--648584 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
648526 GAATCTTTTG
* *
648536 TTTGGTCAGTTGTAGGAATTTTCA
1 TTTGGCCACTTGTAGGAA-TTTCA
648560 TTTGGCCACTTGTAGGAA-TTCA
1 TTTGGCCACTTGTAGGAATTTCA
648582 TTT
1 TTT
648585 CCATGTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.30
24 16 0.70
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.45
Consensus pattern (23 bp):
TTTGGCCACTTGTAGGAATTTCA
Found at i:650361 original size:51 final size:52
Alignment explanation
Indices: 650277--650404 Score: 188
Period size: 52 Copynumber: 2.5 Consensus size: 52
650267 CGGATACCCG
* * *
650277 GTGGCCTGCACATAGTACCACCCTTGTAGCCAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTATAGCCAAAGCTATCCTTCTTCACAAA
* *
650328 GTGGCCTTCACATAATACCACACTTAT-GACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTATAG-CCAAAGCTATCCTTCTTCACAAA
650380 GTGGCCTTCACATAGTACCACACTT
1 GTGGCCTTCACATAGTACCACACTT
650405 GAGTCACTAG
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
50 1 0.01
51 32 0.46
52 36 0.52
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTATAGCCAAAGCTATCCTTCTTCACAAA
Found at i:652801 original size:27 final size:27
Alignment explanation
Indices: 652771--652993 Score: 229
Period size: 27 Copynumber: 8.3 Consensus size: 27
652761 ATTCGTGGGC
*
652771 AAATGACCAAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
652798 AAATGATCGAAATATCCCT-GAGGGGTG
1 AAATGACCGAAATA-CCCTCGAAGGGTA
* *
652825 AAATGATCGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
652852 AAATGACTGAAATACCCTCGAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
652879 AAATGACTGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
652906 AAATGACCGAAATACCCT-GTAGAGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
652932 AAATAGA-GGAAATACCCCCCATAGGGTA
1 AAAT-GACCGAAATACCCTCGA-AGGGTA
*
652960 AAATGACCGAAATACCC-CCATAGGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
*
652987 GAATGAC
1 AAATGAC
652994 TATTATACCC
Statistics
Matches: 167, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
26 22 0.13
27 123 0.74
28 22 0.13
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:654678 original size:50 final size:50
Alignment explanation
Indices: 654575--654764 Score: 195
Period size: 50 Copynumber: 3.7 Consensus size: 50
654565 GGGAATGAGA
* *
654575 TCCCATGTAAGACCATGTTTGGGACATGGCATTAGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC---GAG---ATGAGAGG
654631 TCCCATGTAAGACCATGTCTGGGACATGG-AGTTGGCATCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCATCGAGATGAGAGG
* * * * * **
654681 TTCCC-TGTAAGAACATGTCTAGGACATGGCATGGGCACCGATATGAGAAC
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGG
* *
654731 TCCCATGTAAGACCATATCTGGGATATGGCATTG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTG
654765 CAGTACAGAA
Statistics
Matches: 116, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
49 4 0.03
50 68 0.59
51 5 0.04
53 3 0.03
55 1 0.01
56 35 0.30
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGG
Found at i:655030 original size:12 final size:12
Alignment explanation
Indices: 655013--655051 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
655003 ATGAGTTATT
655013 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
655025 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
655037 TAAGTGAGTAAG
1 TAAGTAAGCAAG
655049 TAA
1 TAA
655052 AGAAGCGAGT
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:656119 original size:28 final size:28
Alignment explanation
Indices: 656087--656160 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
656077 GGGGTGTTAC
**
656087 AGGCCCACACTGCTACTGTATTGGGCTA
1 AGGCCCACACTGCTACTGTATCAGGCTA
*
656115 AGGCCCACATTGCTACTGTATCAGGCTA
1 AGGCCCACACTGCTACTGTATCAGGCTA
656143 AGGCCCACACTG-TACTGT
1 AGGCCCACACTGCTACTGT
656161 TACTGAATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 6 0.14
28 36 0.86
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (28 bp):
AGGCCCACACTGCTACTGTATCAGGCTA
Found at i:665949 original size:272 final size:272
Alignment explanation
Indices: 665463--666008 Score: 1092
Period size: 272 Copynumber: 2.0 Consensus size: 272
665453 TTATCGGGCC
665463 AACCAGGCTTCAATCTGATAGGCTTCTCTAATAGTTCTTTGAATCGGGCTAGCTCTCATGGGCTA
1 AACCAGGCTTCAATCTGATAGGCTTCTCTAATAGTTCTTTGAATCGGGCTAGCTCTCATGGGCTA
665528 AATGTTCCCCATCTAATCGATAGACCTCCATGGGGCACATCTTGTGCAGTGGTCACGGGCTTTAC
66 AATGTTCCCCATCTAATCGATAGACCTCCATGGGGCACATCTTGTGCAGTGGTCACGGGCTTTAC
665593 TTTTTATAGTATCGCCAAGTCAGTTCGAGGATCACAAGAAACAATAAAGTTTTAGAATGCATAAA
131 TTTTTATAGTATCGCCAAGTCAGTTCGAGGATCACAAGAAACAATAAAGTTTTAGAATGCATAAA
665658 GAAACAATAAAAAGCAAAAACAAATGAAAACCAAAGTCTAAAAGTCAACGAAAATCCCTGAAACC
196 GAAACAATAAAAAGCAAAAACAAATGAAAACCAAAGTCTAAAAGTCAACGAAAATCCCTGAAACC
665723 CGAAAACCCCAA
261 CGAAAACCCCAA
665735 AACCAGGCTTCAATCTGATAGGCTTCTCTAATAGTTCTTTGAATCGGGCTAGCTCTCATGGGCTA
1 AACCAGGCTTCAATCTGATAGGCTTCTCTAATAGTTCTTTGAATCGGGCTAGCTCTCATGGGCTA
665800 AATGTTCCCCATCTAATCGATAGACCTCCATGGGGCACATCTTGTGCAGTGGTCACGGGCTTTAC
66 AATGTTCCCCATCTAATCGATAGACCTCCATGGGGCACATCTTGTGCAGTGGTCACGGGCTTTAC
665865 TTTTTATAGTATCGCCAAGTCAGTTCGAGGATCACAAGAAACAATAAAGTTTTAGAATGCATAAA
131 TTTTTATAGTATCGCCAAGTCAGTTCGAGGATCACAAGAAACAATAAAGTTTTAGAATGCATAAA
665930 GAAACAATAAAAAGCAAAAACAAATGAAAACCAAAGTCTAAAAGTCAACGAAAATCCCTGAAACC
196 GAAACAATAAAAAGCAAAAACAAATGAAAACCAAAGTCTAAAAGTCAACGAAAATCCCTGAAACC
665995 CGAAAACCCCAA
261 CGAAAACCCCAA
666007 AA
1 AA
666009 ATTGTGAAGC
Statistics
Matches: 274, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
272 274 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.24
Consensus pattern (272 bp):
AACCAGGCTTCAATCTGATAGGCTTCTCTAATAGTTCTTTGAATCGGGCTAGCTCTCATGGGCTA
AATGTTCCCCATCTAATCGATAGACCTCCATGGGGCACATCTTGTGCAGTGGTCACGGGCTTTAC
TTTTTATAGTATCGCCAAGTCAGTTCGAGGATCACAAGAAACAATAAAGTTTTAGAATGCATAAA
GAAACAATAAAAAGCAAAAACAAATGAAAACCAAAGTCTAAAAGTCAACGAAAATCCCTGAAACC
CGAAAACCCCAA
Found at i:666626 original size:33 final size:33
Alignment explanation
Indices: 666541--666616 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
666531 TAAAACAATT
* * *
666541 AAAATAAATAAGTAAGATAAATAAAATAGAGAAA
1 AAAATAAATGA-TTAGAAAAATAAAATAGAGAAA
* *
666575 TAAATCAATGATTAGAAAAAT-AAATAAGAGAAA
1 AAAATAAATGATTAGAAAAATAAAAT-AGAGAAA
666608 AAAATAAAT
1 AAAATAAAT
666617 ATATGGAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
32 4 0.12
33 22 0.65
34 8 0.24
ACGTcount: A:0.68, C:0.01, G:0.11, T:0.20
Consensus pattern (33 bp):
AAAATAAATGATTAGAAAAATAAAATAGAGAAA
Found at i:666804 original size:27 final size:26
Alignment explanation
Indices: 666774--666824 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
666764 AAAATATTGT
666774 TAAACTCTTCTAAAAT-AAAACTCAAGA
1 TAAACTC-T-TAAAATAAAAACTCAAGA
*
666801 TAAATTCTTAAAATAAAAACTCAA
1 TAAACTCTTAAAATAAAAACTCAA
666825 AGAGAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 10 0.45
27 6 0.27
ACGTcount: A:0.55, C:0.16, G:0.02, T:0.27
Consensus pattern (26 bp):
TAAACTCTTAAAATAAAAACTCAAGA
Found at i:666838 original size:27 final size:25
Alignment explanation
Indices: 666784--666838 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
666774 TAAACTCTTC
* *
666784 TAAAATAAAACTCAAGATAAATTCT
1 TAAAATAAAACTCAAGAGAAATTAT
*
666809 TAAAATAAAAACTCAAAGAGAATTTAT
1 TAAAAT-AAAACTC-AAGAGAAATTAT
666836 TAA
1 TAA
666839 CTCAAAAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.24
26 7 0.28
27 12 0.48
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.27
Consensus pattern (25 bp):
TAAAATAAAACTCAAGAGAAATTAT
Found at i:670901 original size:30 final size:29
Alignment explanation
Indices: 670857--671051 Score: 133
Period size: 30 Copynumber: 6.4 Consensus size: 29
670847 TCATCGACCA
670857 ATGAAAAGGGATGGCTTCGGCTATCAAAAT
1 ATGAAAA-GGATGGCTTCGGCTATCAAAAT
*
670887 ATAGAAAAGGATGGCTTCGACTATCAAAAT
1 AT-GAAAAGGATGGCTTCGGCTATCAAAAT
* * ** *
670917 ATGGAAAGGGATAGCTTTAGCTATCAAATT
1 AT-GAAAAGGATGGCTTCGGCTATCAAAAT
* * * * *
670947 ATGAAAAGGGGATAGCTTTGACTATCGAATT
1 ATGAAAA--GGATGGCTTCGGCTATCAAAAT
* *** * *
670978 ATGAAAAGGGATAGCTTTC-AAAATCGAATT
1 ATGAAAA-GGATGGC-TTCGGCTATCAAAAT
671008 ATGAAAAGTGATGGCTTCGGCTATC-AAAT
1 ATGAAAAG-GATGGCTTCGGCTATCAAAAT
671037 CATGAAAAGGGATGG
1 -ATGAAAA-GGATGG
671052 TAATGACCAT
Statistics
Matches: 137, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
29 11 0.08
30 92 0.67
31 34 0.25
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGATGGCTTCGGCTATCAAAAT
Found at i:670940 original size:60 final size:58
Alignment explanation
Indices: 670857--671049 Score: 199
Period size: 60 Copynumber: 3.2 Consensus size: 58
670847 TCATCGACCA
* ** *
670857 ATGAAAAGGGATGGCTTCGGCTATCAAAATATAGAAAAGGATGGCTTCGACTATCAAAAT
1 ATGAAAAGGGATAGCTTTAGCTATCAAATTAT-GAAAAGGATGGCTTCGACTATC-AAAT
* * * *
670917 ATGGAAAGGGATAGCTTTAGCTATCAAATTATGAAAAGGGGATAGCTTTGACTATCGAATT
1 ATGAAAAGGGATAGCTTTAGCTATCAAATTATGAAAA--GGATGGCTTCGACTATC-AAAT
** * *
670978 ATGAAAAGGGATAGCTTTCA-AAATCGAATTATGAAAAGTGATGGCTTCGGCTATCAAAT
1 ATGAAAAGGGATAGCTTT-AGCTATCAAATTATGAAAAG-GATGGCTTCGACTATCAAAT
671037 CATGAAAAGGGAT
1 -ATGAAAAGGGAT
671050 GGTAATGACC
Statistics
Matches: 111, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
59 9 0.08
60 52 0.47
61 49 0.44
62 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTTAGCTATCAAATTATGAAAAGGATGGCTTCGACTATCAAAT
Found at i:671064 original size:30 final size:29
Alignment explanation
Indices: 671034--671169 Score: 159
Period size: 29 Copynumber: 4.6 Consensus size: 29
671024 TCGGCTATCA
* *
671034 AATCATGAAAAGGGATGGTAATGACCATC
1 AATCATGAAAAGGGATGGTGACGACCATC
*
671063 AA-CAATGAAAAGGGATGGTGACGGCCATC
1 AATC-ATGAAAAGGGATGGTGACGACCATC
*
671092 GAATTATGAAAAGGGATGGTGACGACCATC
1 -AATCATGAAAAGGGATGGTGACGACCATC
*
671122 AA-CAATGAAAAGGGATGGTGACGACCATTG
1 AATC-ATGAAAAGGGATGGTGACGACCA-TC
* *
671152 AATTATGAAAATGGATGG
1 AATCATGAAAAGGGATGG
671170 CTTTAGCTAT
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
28 1 0.01
29 49 0.53
30 42 0.46
ACGTcount: A:0.40, C:0.12, G:0.29, T:0.19
Consensus pattern (29 bp):
AATCATGAAAAGGGATGGTGACGACCATC
Found at i:671076 original size:29 final size:29
Alignment explanation
Indices: 671038--671149 Score: 170
Period size: 29 Copynumber: 3.8 Consensus size: 29
671028 CTATCAAATC
* *
671038 ATGAAAAGGGATGGTAATGACCATCAACA
1 ATGAAAAGGGATGGTGACGACCATCAACA
* **
671067 ATGAAAAGGGATGGTGACGGCCATCGAATT
1 ATGAAAAGGGATGGTGACGACCATC-AACA
671097 ATGAAAAGGGATGGTGACGACCATCAACA
1 ATGAAAAGGGATGGTGACGACCATCAACA
671126 ATGAAAAGGGATGGTGACGACCAT
1 ATGAAAAGGGATGGTGACGACCAT
671150 TGAATTATGA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 48 0.65
30 26 0.35
ACGTcount: A:0.39, C:0.14, G:0.29, T:0.17
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAACA
Found at i:671101 original size:59 final size:59
Alignment explanation
Indices: 671038--671169 Score: 219
Period size: 59 Copynumber: 2.2 Consensus size: 59
671028 CTATCAAATC
* *
671038 ATGAAAAGGGATGGTAATGACCATCAACAATGAAAAGGGATGGTGACGGCCATCGAATT
1 ATGAAAAGGGATGGTAACGACCATCAACAATGAAAAGGGATGGTGACGACCATCGAATT
* *
671097 ATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACCATTGAATT
1 ATGAAAAGGGATGGTAACGACCATCAACAATGAAAAGGGATGGTGACGACCATCGAATT
*
671156 ATGAAAATGGATGG
1 ATGAAAAGGGATGG
671170 CTTTAGCTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 68 1.00
ACGTcount: A:0.39, C:0.12, G:0.30, T:0.19
Consensus pattern (59 bp):
ATGAAAAGGGATGGTAACGACCATCAACAATGAAAAGGGATGGTGACGACCATCGAATT
Found at i:678658 original size:31 final size:31
Alignment explanation
Indices: 678620--678935 Score: 167
Period size: 30 Copynumber: 10.5 Consensus size: 31
678610 ATCGACCAAT
* *
678620 GAAAAGGGATGGATTCGGCTATCAAAATATG
1 GAAAAGGGATGGCTTCGACTATCAAAATATG
*
678651 GAAAAGGGATGGCTTTGACTATCAAAATATG
1 GAAAAGGGATGGCTTCGACTATCAAAATATG
* *
678682 G-AAATGGATGGCTTC-AGCTATCAAATTATG
1 GAAAAGGGATGGCTTCGA-CTATCAAAATATG
* ** * * *
678712 AAAAAAAGATAGCTTCGACTATGAAATTAT-
1 GAAAAGGGATGGCTTCGACTATCAAAATATG
* ** * *
678742 GAAAAGGGATAGCTTTAAACAATCAACA-AT-
1 GAAAAGGGATGGC-TTCGACTATCAAAATATG
* * * *
678772 GAAAAGGGATGG-TGACGACCATCGAATTAT-
1 GAAAAGGGATGGCT-TCGACTATCAAAATATG
*
678802 GAAAAGGGATGGCTTCGACTATCAAATTAT-
1 GAAAAGGGATGGCTTCGACTATCAAAATATG
* * * *
678832 TAAAAGGGATGG-TGACGACAATCAACA-AT-
1 GAAAAGGGATGGCT-TCGACTATCAAAATATG
* * * * * *
678861 GAAAAGAGATGG-TGACAACCATCGAATTAT-
1 GAAAAGGGATGGCT-TCGACTATCAAAATATG
* *
678891 GAAAACGGATGACTTC-AGCTATCAAAATATG
1 GAAAAGGGATGGCTTCGA-CTATCAAAATATG
*
678922 G-AAAGGGATAGCTT
1 GAAAAGGGATGGCTT
678936 TGGCTATCGA
Statistics
Matches: 220, Mismatches: 53, Indels: 25
0.74 0.18 0.08
Matches are distributed among these distances:
28 1 0.00
29 31 0.14
30 125 0.57
31 62 0.28
32 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.23
Consensus pattern (31 bp):
GAAAAGGGATGGCTTCGACTATCAAAATATG
Found at i:678732 original size:61 final size:61
Alignment explanation
Indices: 678618--678756 Score: 161
Period size: 61 Copynumber: 2.3 Consensus size: 61
678608 TCATCGACCA
* * * ** * *
678618 ATGAAAAGGGATGGATTCGGCTATCAAAATATGGAAAAGGGATGGCTTTGACTATCAAAAT
1 ATGAAAAGGGATGGCTTCAGCTATCAAAATATGAAAAAAAGATAGCTTCGACTATCAAAAT
* * * * *
678679 ATGGAAATGGATGGCTTCAGCTATCAAATTATGAAAAAAAGATAGCTTCGACTATGAAATT
1 ATGAAAAGGGATGGCTTCAGCTATCAAAATATGAAAAAAAGATAGCTTCGACTATCAAAAT
*
678740 ATGAAAAGGGATAGCTT
1 ATGAAAAGGGATGGCTT
678757 TAAACAATCA
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (61 bp):
ATGAAAAGGGATGGCTTCAGCTATCAAAATATGAAAAAAAGATAGCTTCGACTATCAAAAT
Found at i:678876 original size:89 final size:90
Alignment explanation
Indices: 678705--678933 Score: 284
Period size: 89 Copynumber: 2.5 Consensus size: 90
678695 TCAGCTATCA
* * * * *
678705 AATTATGAAAAAAAGATAGCTTCGACTATGAAATTATGAAAAGGGATAGCTTTAAACAATCAACA
1 AATTATG-AAAAAGGATGGCTTCGACTATCAAATTATGAAAAGGGATAGCGTGAAACAATCAACA
* *
678770 ATGAAAAGGGATGGTGACGACCATCG
65 ATGAAAAGAGATGGTGACAACCATCG
* * *
678796 AATTATGAAAAGGGATGGCTTCGACTATCAAATTATTAAAAGGGAT-G-GTGACGACAATCAACA
1 AATTATGAAAAAGGATGGCTTCGACTATCAAATTATGAAAAGGGATAGCGTGA-AACAATCAACA
678859 ATGAAAAGAGATGGTGACAACCATCG
65 ATGAAAAGAGATGGTGACAACCATCG
* * * *
678885 AATTATGAAAACGGATGACTTC-AGCTATCAAAATATGGAAAGGGATAGC
1 AATTATGAAAAAGGATGGCTTCGA-CTATCAAATTATGAAAAGGGATAGC
678934 TTTGGCTATC
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
88 3 0.03
89 74 0.62
90 35 0.29
91 7 0.06
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (90 bp):
AATTATGAAAAAGGATGGCTTCGACTATCAAATTATGAAAAGGGATAGCGTGAAACAATCAACAA
TGAAAAGAGATGGTGACAACCATCG
Found at i:678889 original size:59 final size:60
Alignment explanation
Indices: 678770--678901 Score: 151
Period size: 59 Copynumber: 2.2 Consensus size: 60
678760 ACAATCAACA
* ** * * * *
678770 ATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGGATGGCTTCGACTATCAAATT
1 ATGAAAAGGGATGGTGACGACAATCGAACAATGAAAAGAGATGGCTACAACCATCAAATT
* *
678830 ATTAAAAGGGATGGTGACGACAATC-AACAATGAAAAGAGATGG-TGACAACCATCGAATT
1 ATGAAAAGGGATGGTGACGACAATCGAACAATGAAAAGAGATGGCT-ACAACCATCAAATT
*
678889 ATGAAAACGGATG
1 ATGAAAAGGGATG
678902 ACTTCAGCTA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
58 1 0.02
59 36 0.60
60 23 0.38
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (60 bp):
ATGAAAAGGGATGGTGACGACAATCGAACAATGAAAAGAGATGGCTACAACCATCAAATT
Found at i:681752 original size:298 final size:296
Alignment explanation
Indices: 681214--681778 Score: 925
Period size: 298 Copynumber: 1.9 Consensus size: 296
681204 TTACACACAT
681214 AACAAACACATTCCAAACTCATCAAAAATAGCCTTCAACAAAACAAACAGTAAGGAAAACACAAT
1 AACAAACACATTCCAAACTCATCAAAAATAGCCTTCAACAAAACAAACAGTAAGGAAAACACAAT
* *
681279 TCAAGCCTTTCATTTCTCATTGTCAAAAACTAGCTAGTTTTACCGAAATTGAAGTTTCGACATTC
66 TCAAGCCTCTCATTTCTCATTGTCAAAAACTAGCTAGTTTTACCAAAATTGAAGTTTCGACATTC
681344 TAATATCATTTCTAATCCTCAATTTTGACCTCAAAAATCCTAAATATCATTTAATTTCATATCTA
131 TAATATCATTTCTAATCCTCAATTTTGACCTCAAAAATCCTAAATATCATTTAATTTCATATCTA
* ** * * * *
681409 AAGCATTAAATTTACCTACATCTGTGGTTTCTAAAATTTTCAGAAAATTCGAGCTTTCAAGAGCA
196 AAGCATTAAATTTACCTAAATCCATGATTTCTAAAATTCTCAGAAAATTCAAGC-TTCAAGAACA
681474 TGCAAAAGGGGAAAATGTTTGTTTCTTAAAAATTCGG
260 TGCAAAAGGGGAAAATGTTTGTTTCTTAAAAATTCGG
* * *
681511 AACAAACATATTCCAAACTCATCAAAAATAGCCTTCAACACAACCAAATAGTAAGGAAAACACAA
1 AACAAACACATTCCAAACTCATCAAAAATAGCCTTCAACA-AAACAAACAGTAAGGAAAACACAA
* *
681576 TTCAAGCCTCTCATTTCTCATTGTCAAACACTAGCTAGTTTTGCCAAAATTGAAGTTTCGACATT
65 TTCAAGCCTCTCATTTCTCATTGTCAAAAACTAGCTAGTTTTACCAAAATTGAAGTTTCGACATT
* * * **
681641 CTAATCTCCTTTTTAATCCTCAATTTTGATTTCAAAAATCCTAAATATCATTTAATTTCATATCT
130 CTAATATCATTTCTAATCCTCAATTTTGACCTCAAAAATCCTAAATATCATTTAATTTCATATCT
681706 AAA-CTATTAAATTTACCTAAATCCATGATTTCTAAAATTCTCAGAAAATTCAAGCTTCAAGAAC
195 AAAGC-ATTAAATTTACCTAAATCCATGATTTCTAAAATTCTCAGAAAATTCAAGCTTCAAGAAC
681770 ATGCAAAAG
259 ATGCAAAAG
681779 AGTAACTTTA
Statistics
Matches: 247, Mismatches: 19, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
297 57 0.23
298 190 0.77
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (296 bp):
AACAAACACATTCCAAACTCATCAAAAATAGCCTTCAACAAAACAAACAGTAAGGAAAACACAAT
TCAAGCCTCTCATTTCTCATTGTCAAAAACTAGCTAGTTTTACCAAAATTGAAGTTTCGACATTC
TAATATCATTTCTAATCCTCAATTTTGACCTCAAAAATCCTAAATATCATTTAATTTCATATCTA
AAGCATTAAATTTACCTAAATCCATGATTTCTAAAATTCTCAGAAAATTCAAGCTTCAAGAACAT
GCAAAAGGGGAAAATGTTTGTTTCTTAAAAATTCGG
Found at i:686352 original size:20 final size:19
Alignment explanation
Indices: 686323--686370 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
686313 GAGAAAGATG
686323 TATGAAAATT-CTTAAGGCTA
1 TATGAAAATTAC-TAA-GCTA
*
686343 TATGAGAATTACTAAGCTA
1 TATGAAAATTACTAAGCTA
686362 TATGAAAAT
1 TATGAAAAT
686371 CCATTGGACG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 12 0.48
20 12 0.48
21 1 0.04
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (19 bp):
TATGAAAATTACTAAGCTA
Found at i:698596 original size:16 final size:16
Alignment explanation
Indices: 698577--698607 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
698567 AAGCATGATG
*
698577 AAGTCTCTACATGAGT
1 AAGTCTCTAAATGAGT
698593 AAGTCTCTAAATGAG
1 AAGTCTCTAAATGAG
698608 GAGTCTATGT
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:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
AAGTCTCTAAATGAGT
Found at i:698874 original size:54 final size:53
Alignment explanation
Indices: 698732--698882 Score: 173
Period size: 54 Copynumber: 2.8 Consensus size: 53
698722 GCGAACACCG
* * *
698732 TATAGTGTAACGCCTTGCCATTAGCTATGACATCATCT-GGAAATGAAGACCA
1 TATAGTGTAAAGCCTAGCCATTAGCTATGACATCATATGGGAAATGAAGACCA
* * * *
698784 TATAGTGT-AAGTCCTAGTCGTTAGCTACGGA-GTCATATGGGGAAATGAAGACCA
1 TATAGTGTAAAG-CCTAGCCATTAGCTA-TGACATCATAT-GGGAAATGAAGACCA
*
698838 TATAGTGTAAAGCCTAGCCATTAGCTATAACATCATATAGGGAAA
1 TATAGTGTAAAGCCTAGCCATTAGCTATGACATCATAT-GGGAAA
698883 GGACGGCCAC
Statistics
Matches: 80, Mismatches: 13, Indels: 10
0.78 0.13 0.10
Matches are distributed among these distances:
51 2 0.03
52 25 0.31
53 3 0.04
54 47 0.59
55 3 0.04
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.26
Consensus pattern (53 bp):
TATAGTGTAAAGCCTAGCCATTAGCTATGACATCATATGGGAAATGAAGACCA
Found at i:699092 original size:29 final size:29
Alignment explanation
Indices: 699057--699126 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
699047 GTGACTAAAT
* * **
699057 CTATTATATGTTAGTCTTTGTGGTTGAAC
1 CTATTATATGTGAGCCTTTGTGGCAGAAC
* *
699086 CTGTTATATGTGAGCCTTTGTTGCAGAAC
1 CTATTATATGTGAGCCTTTGTGGCAGAAC
699115 CTATTATATGTG
1 CTATTATATGTG
699127 GAAGCATTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.44
Consensus pattern (29 bp):
CTATTATATGTGAGCCTTTGTGGCAGAAC
Found at i:704060 original size:38 final size:38
Alignment explanation
Indices: 704018--704093 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
704008 CAGCGTTTTT
704018 AAAGAAATGAGAAAGAATCGAATGGAGAATACTATTCC
1 AAAGAAATGAGAAAGAATCGAATGGAGAATACTATTCC
704056 AAAGAAATGAGAAAGAATCGAATGGAGAATACTATTCC
1 AAAGAAATGAGAAAGAATCGAATGGAGAATACTATTCC
704094 TAGGCTACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.50, C:0.11, G:0.21, T:0.18
Consensus pattern (38 bp):
AAAGAAATGAGAAAGAATCGAATGGAGAATACTATTCC
Found at i:710997 original size:34 final size:34
Alignment explanation
Indices: 710954--711022 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
710944 GTAAGAAGTA
*
710954 GAAGCTCGTGTATATTGTTGTTGTCTTTGTCCTT
1 GAAGCTCGTGTATATTGTTGTTATCTTTGTCCTT
710988 GAAGCTCGTGTATATTGTTGTTATCTTTGTCCTT
1 GAAGCTCGTGTATATTGTTGTTATCTTTGTCCTT
711022 G
1 G
711023 TTCGGATTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.13, C:0.14, G:0.23, T:0.49
Consensus pattern (34 bp):
GAAGCTCGTGTATATTGTTGTTATCTTTGTCCTT
Found at i:714018 original size:50 final size:50
Alignment explanation
Indices: 713893--714078 Score: 198
Period size: 50 Copynumber: 3.7 Consensus size: 50
713883 GATAATAACA
* * * * *
713893 TGCCAAAGCCATGTCCCAAACATGGTCTCACATGGGATGTT-TCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* * *
713942 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* ** ** *
713992 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
*
714042 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
714079 TCTCGTTACC
Statistics
Matches: 113, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
48 4 0.04
49 35 0.31
50 74 0.65
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:715075 original size:12 final size:12
Alignment explanation
Indices: 715058--715082 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
715048 CTCCAATGGA
715058 AATTTTCATAAC
1 AATTTTCATAAC
715070 AATTTTCATAAC
1 AATTTTCATAAC
715082 A
1 A
715083 TTTCTCCCCC
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:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTTTCATAAC
Found at i:723125 original size:35 final size:35
Alignment explanation
Indices: 723063--723148 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
723053 TTTTATGTGT
*
723063 TTTA-ATTATATAATTAATGATATTTAAA-TATAA
1 TTTATATTATATAATTAATGATAATTAAATTATAA
*
723096 TTTATATTATATGAATTTATGATAATTAAATTATAA
1 TTTATATTATAT-AATTAATGATAATTAAATTATAA
* *
723132 -TGATATTATATTATTAA
1 TTTATATTATATAATTAA
723149 ATGAATTTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.09
34 11 0.24
35 25 0.56
36 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (35 bp):
TTTATATTATATAATTAATGATAATTAAATTATAA
Found at i:723134 original size:25 final size:23
Alignment explanation
Indices: 723090--723150 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
723080 TGATATTTAA
*
723090 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
723114 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
723139 ATATTATTAAAT
1 ATATAATTAAAT
723151 GAATTTACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:724896 original size:45 final size:44
Alignment explanation
Indices: 724829--724929 Score: 116
Period size: 45 Copynumber: 2.2 Consensus size: 44
724819 TATGCGCCGA
724829 TTACTGTTACCAATTAGACACTTTGTGTGTCAG-ATACTGTTACCG
1 TTACTGTTA-CAATTAGACACTTTGTGTGT-AGAATACTGTTACCG
* * *
724874 TTACTGTTACAGATTCAG-CACTTTGTGTGTTGAATGCTGTTACTG
1 TTACTGTTACA-ATT-AGACACTTTGTGTGTAGAATACTGTTACCG
724919 TTACTGATTAC
1 TTACTG-TTAC
724930 TATTCTCGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
44 3 0.06
45 40 0.82
46 6 0.12
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.41
Consensus pattern (44 bp):
TTACTGTTACAATTAGACACTTTGTGTGTAGAATACTGTTACCG
Found at i:735088 original size:6 final size:6
Alignment explanation
Indices: 735055--735095 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
735045 TAGTTTTATA
* * *
735055 TTTTTG TTTGTG TTTGTG TTTTTG TTTTTG TTTTTA TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
735096 TATTTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.02, C:0.00, G:0.17, T:0.80
Consensus pattern (6 bp):
TTTTTG
Found at i:735094 original size:18 final size:18
Alignment explanation
Indices: 735047--735095 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
735037 ATCTAATTTA
735047 GTTTTATATTTTTGTTTGT
1 GTTTT-TATTTTTGTTTGT
* * *
735066 GTTTGTGTTTTTGTTTTT
1 GTTTTTATTTTTGTTTGT
735084 GTTTTTATTTTT
1 GTTTTTATTTTT
735096 TATTTTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.06, C:0.00, G:0.16, T:0.78
Consensus pattern (18 bp):
GTTTTTATTTTTGTTTGT
Found at i:735123 original size:13 final size:13
Alignment explanation
Indices: 735079--735131 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
735069 TGTGTTTTTG
*
735079 TTTTTGTTTTTAT
1 TTTTTGATTTTAT
735092 TTTTT-ATTTT-T
1 TTTTTGATTTTAT
735103 TATTTTGATTTTAT
1 T-TTTTGATTTTAT
*
735117 TTTTTGATTTGAT
1 TTTTTGATTTTAT
735130 TT
1 TT
735132 GATTCGATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 2 0.06
12 8 0.23
13 23 0.66
14 2 0.06
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (13 bp):
TTTTTGATTTTAT
Found at i:735127 original size:5 final size:5
Alignment explanation
Indices: 735106--735166 Score: 90
Period size: 5 Copynumber: 12.6 Consensus size: 5
735096 TATTTTTTAT
* *
735106 TTTGA TTTTA TTT-- TTTGA TTTGA TTTGA TTCGA TTTGA TTTGA TTTGA
1 TTTGA TTTGA TTTGA TTTGA TTTGA TTTGA TTTGA TTTGA TTTGA TTTGA
735154 TTTGA TTTGA TTT
1 TTTGA TTTGA TTT
735167 TATTATGCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
3 3 0.06
5 48 0.94
ACGTcount: A:0.18, C:0.02, G:0.16, T:0.64
Consensus pattern (5 bp):
TTTGA
Found at i:736305 original size:70 final size:71
Alignment explanation
Indices: 736165--736305 Score: 239
Period size: 70 Copynumber: 2.0 Consensus size: 71
736155 TATTTCTTGC
* *
736165 TGATGTTAATTATTTTAATTCAGCATTTGATTTTTTTAGTTTGACAATTTATCAACTCGATTCTC
1 TGATGTTAATTACTTTAATTCAGCATTTGATTTTTTTAGTTTGACAATTTATCAACTCAATTCTC
736230 GATTGT
66 GATTGT
* *
736236 TGATGTTAATTACTTTAATTCAGCATTTGA-TTTTTTAGTTTGGCAGTTTATCAACTCAATTCTC
1 TGATGTTAATTACTTTAATTCAGCATTTGATTTTTTTAGTTTGACAATTTATCAACTCAATTCTC
736300 GATTGT
66 GATTGT
736306 AACCAACTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 37 0.56
71 29 0.44
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.50
Consensus pattern (71 bp):
TGATGTTAATTACTTTAATTCAGCATTTGATTTTTTTAGTTTGACAATTTATCAACTCAATTCTC
GATTGT
Found at i:740595 original size:18 final size:17
Alignment explanation
Indices: 740562--740595 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
740552 TGAATAGTGA
*
740562 ATGATTAATAATTATTG
1 ATGATTAATAAATATTG
740579 ATGATTAAATAAATATT
1 ATGATT-AATAAATATT
740596 TTAGATTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
ATGATTAATAAATATTG
Found at i:741569 original size:29 final size:30
Alignment explanation
Indices: 741531--741661 Score: 85
Period size: 29 Copynumber: 4.5 Consensus size: 30
741521 TTTTTAAGCT
*
741531 GAGATAGCCACAAAGACATCCATTT-AACA
1 GAGATCGCCACAAAGACATCCATTTAAACA
*
741560 GAGATCGCCACAAATG-CA-CCCTTTAAACA
1 GAGATCGCCACAAA-GACATCCATTTAAACA
* * * *
741589 GTGATCACCACAAA-AGCTTCTATTT-AACA
1 GAGATCGCCACAAAGA-CATCCATTTAAACA
* * * * *
741618 AAGATTGCCACAAAGGCTTCC-TTTGAACA
1 GAGATCGCCACAAAGACATCCATTTAAACA
* *
741647 AAGATCGCCATAAAG
1 GAGATCGCCACAAAG
741662 GCTCACTTAT
Statistics
Matches: 80, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
28 8 0.10
29 67 0.84
30 5 0.06
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.21
Consensus pattern (30 bp):
GAGATCGCCACAAAGACATCCATTTAAACA
Found at i:742814 original size:13 final size:13
Alignment explanation
Indices: 742796--742821 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
742786 ACTTCGTCAA
742796 ACATTTTCTTTTT
1 ACATTTTCTTTTT
742809 ACATTTTCTTTTT
1 ACATTTTCTTTTT
742822 CTCTATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
ACATTTTCTTTTT
Found at i:744752 original size:21 final size:21
Alignment explanation
Indices: 744723--744767 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
744713 TTTAGGGGCA
*
744723 TGTCGTGACACCACTAGACTG
1 TGTCATGACACCACTAGACTG
*
744744 TGTCATGACACCACTAGTCTG
1 TGTCATGACACCACTAGACTG
744765 TGT
1 TGT
744768 TGCGACATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (21 bp):
TGTCATGACACCACTAGACTG
Found at i:751355 original size:3 final size:3
Alignment explanation
Indices: 751347--751456 Score: 66
Period size: 3 Copynumber: 36.7 Consensus size: 3
751337 TAGCAAAAAC
* *
751347 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A GAA TAA -AGA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
* ** * * *
751391 TAA TCA TGG TAG TAA GTAA TAA TACA -AC T-A TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* *
751436 TAT TAA TCAA TGA TAA TAA TA
1 TAA TAA T-AA TAA TAA TAA TA
751457 TCAATAATTA
Statistics
Matches: 82, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
2 3 0.04
3 71 0.87
4 8 0.10
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:754027 original size:20 final size:20
Alignment explanation
Indices: 754004--754048 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
753994 CACTACCACC
*
754004 CCTCTAATTGCACTTCGATG
1 CCTCTAATTACACTTCGATG
*
754024 CCTCTAATTACACTTCGGTG
1 CCTCTAATTACACTTCGATG
754044 CCTCT
1 CCTCT
754049 GTTAGCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.18, C:0.33, G:0.13, T:0.36
Consensus pattern (20 bp):
CCTCTAATTACACTTCGATG
Found at i:757358 original size:20 final size:20
Alignment explanation
Indices: 757330--757372 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
757320 CCTTTAAAAT
*
757330 TTTCCTTATTTT-CATTTGCA
1 TTTCATTATTTTCCA-TTGCA
757350 TTTCATTATTTTCCATTGCA
1 TTTCATTATTTTCCATTGCA
757370 TTT
1 TTT
757373 AGTCTCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.16, C:0.19, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTCATTATTTTCCATTGCA
Found at i:758038 original size:25 final size:25
Alignment explanation
Indices: 758014--758101 Score: 106
Period size: 25 Copynumber: 3.5 Consensus size: 25
758004 ATACATGTAT
* *
758014 GCTCATACGAGCTATGAATTGGTAT
1 GCTCATACGAGCTATGAATCGGTAA
*
758039 GCTC-TCACGAGCTGTGAATCGGTAA
1 GCTCAT-ACGAGCTATGAATCGGTAA
* * *
758064 GCTTATACGAGCTAAGAATCGATAA
1 GCTCATACGAGCTATGAATCGGTAA
758089 GCTCATACGAGCT
1 GCTCATACGAGCT
758102 GAAAATCAGT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.02
25 51 0.96
26 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (25 bp):
GCTCATACGAGCTATGAATCGGTAA
Found at i:758108 original size:25 final size:25
Alignment explanation
Indices: 758045--758108 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
758035 GTATGCTCTC
** * *
758045 ACGAGCTGTGAATCGGTAAGCTTAT
1 ACGAGCTGAAAATCGATAAGCTCAT
758070 ACGAGCT-AAGAATCGATAAGCTCAT
1 ACGAGCTGAA-AATCGATAAGCTCAT
758095 ACGAGCTGAAAATC
1 ACGAGCTGAAAATC
758109 AGTAAGATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 31 0.94
26 2 0.06
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (25 bp):
ACGAGCTGAAAATCGATAAGCTCAT
Found at i:758114 original size:25 final size:24
Alignment explanation
Indices: 758045--758120 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 24
758035 GTATGCTCTC
** *
758045 ACGAGCTGTGAATCGGTAAGCTTAT
1 ACGAGCTGAAAATC-GTAAGCTCAT
758070 ACGAGCT-AAGAATCGATAAGCTCAT
1 ACGAGCTGAA-AATCG-TAAGCTCAT
*
758095 ACGAGCTGAAAATCAGTAAGATCAT
1 ACGAGCTGAAAATC-GTAAGCTCAT
758120 A
1 A
758121 AGAGTTGTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
24 1 0.02
25 39 0.91
26 3 0.07
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.22
Consensus pattern (24 bp):
ACGAGCTGAAAATCGTAAGCTCAT
Found at i:758114 original size:50 final size:50
Alignment explanation
Indices: 758018--758114 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
758008 ATGTATGCTC
* * * * ** *
758018 ATACGAGCTATGAATTGGTATGCTCTCACGAGCTGTGAATCGGTAAGCTT
1 ATACGAGCTAAGAATCGATAAGCTCTCACGAGCTGAAAATCAGTAAGCTT
758068 ATACGAGCTAAGAATCGATAAGCTCAT-ACGAGCTGAAAATCAGTAAG
1 ATACGAGCTAAGAATCGATAAGCTC-TCACGAGCTGAAAATCAGTAAG
758115 ATCATAAGAG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 38 0.97
51 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (50 bp):
ATACGAGCTAAGAATCGATAAGCTCTCACGAGCTGAAAATCAGTAAGCTT
Found at i:759047 original size:5 final size:5
Alignment explanation
Indices: 759037--759068 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
759027 AACATTTTGG
759037 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
759069 GTAAAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Done.