Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 20 of 145
Found at i:7560437 original size:6 final size:6
Alignment explanation
Indices: 7560426--7560460 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
7560416 TGTTGAGGTC
7560426 GGTGCT GGTGCT GGTGCT GGTGCT GGTGCT GGTGC
1 GGTGCT GGTGCT GGTGCT GGTGCT GGTGCT GGTGC
7560461 AGGCGGTGGT
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:0.00, C:0.17, G:0.51, T:0.31
Consensus pattern (6 bp):
GGTGCT
Found at i:7560470 original size:18 final size:18
Alignment explanation
Indices: 7560429--7560471 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7560419 TGAGGTCGGT
* *
7560429 GCTGGTGCTGGTGCTGGT
1 GCTGGTGCTGGTGCAGGC
7560447 GCTGGTGCTGGTGCAGGC
1 GCTGGTGCTGGTGCAGGC
*
7560465 GGTGGTG
1 GCTGGTG
7560472 AGGCGGTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.02, C:0.16, G:0.53, T:0.28
Consensus pattern (18 bp):
GCTGGTGCTGGTGCAGGC
Found at i:7569535 original size:2 final size:2
Alignment explanation
Indices: 7569528--7569554 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7569518 CCCTCCTTTT
7569528 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
7569555 TTCTTCTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:7578187 original size:46 final size:46
Alignment explanation
Indices: 7578120--7578292 Score: 276
Period size: 46 Copynumber: 3.8 Consensus size: 46
7578110 TGGAATGTAG
7578120 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAAGTAA
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAAGTAA
* * *
7578166 GTATGATATTTCAGTAAAGAAAACCATACTGAGTTGTGAGAAGTAG
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAAGTAA
* *
7578212 GTATGGTATTTCAGTAACGAAAATTCATACTGAGTTGTGAAAAGT-A
1 GTATGGTATTTCAGTAAAGAAAA-CCATACTGAGTTGTGAAAAGTAA
*
7578258 GTATGGTATTTCAGTGAAGAAAACCATACTGAGTT
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
7578293 ATAGCATTGT
Statistics
Matches: 115, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
45 11 0.10
46 85 0.74
47 19 0.17
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (46 bp):
GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAAGTAA
Found at i:7579875 original size:2 final size:2
Alignment explanation
Indices: 7579870--7579912 Score: 52
Period size: 2 Copynumber: 20.5 Consensus size: 2
7579860 TTTTTTTTTG
7579870 TA TA TA TA TA TA TA TCA TA TA TA T- TGA TA TA TA TCA TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA T-A TA TA TA T-A TA TA TA
7579912 T
1 T
7579913 TGACTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
1 1 0.03
2 31 0.84
3 5 0.14
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7579899 original size:19 final size:19
Alignment explanation
Indices: 7579877--7579915 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
7579867 TTGTATATAT
7579877 ATATATATCATATATATTG
1 ATATATATCATATATATTG
7579896 ATATATATCATATATATTG
1 ATATATATCATATATATTG
7579915 A
1 A
7579916 CTTTTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (19 bp):
ATATATATCATATATATTG
Found at i:7594593 original size:4 final size:4
Alignment explanation
Indices: 7594586--7594612 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7594576 CCCTCCCTGT
7594586 CTGA CTGA CTGA CTGA CTGA CTGA CTG
1 CTGA CTGA CTGA CTGA CTGA CTGA CTG
7594613 TCTCTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (4 bp):
CTGA
Found at i:7612920 original size:30 final size:29
Alignment explanation
Indices: 7612884--7612940 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
7612874 TGATTTTAAT
* *
7612884 TCAGTCACTCAACTTTAGAAAAATGACAAA
1 TCAGTCACT-AACATTACAAAAATGACAAA
*
7612914 TCAGTCACTAACATTACAAAGATGACA
1 TCAGTCACTAACATTACAAAAATGACA
7612941 GAAAGTTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.23
Consensus pattern (29 bp):
TCAGTCACTAACATTACAAAAATGACAAA
Found at i:7623467 original size:44 final size:43
Alignment explanation
Indices: 7623399--7623707 Score: 214
Period size: 44 Copynumber: 6.8 Consensus size: 43
7623389 AAGATCCTTT
* * *
7623399 AATCCGCTCCACTGTAATATCAGGGAGA-AGGGATTATTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATA-AGATT-TTAGCTTC
*
7623443 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT-TAGCTTC
* * * *
7623487 AATCTGATACGATCTACTCTACTGTAA-CTTCAGAGAGATAAAATCCTTTA-TTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TTTAGCTTC
* * **
7623541 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACGAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-TTAGCTTC
* * * *
7623585 AATCTGCTCCGCTGTAATATCAGGGAGATGAGATTTCTAGCTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT-TAGCTTC
* * *
7623629 AATCTGCTCCACTGTAA-CATCAGGGAGATGAGATTTTTGGCTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGA-TTTTAGCTTC
*
7623673 AATCTACTCCACTGTAA-CATCAGGGAGATAAGATT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATT
7623708 CACCATTTCC
Statistics
Matches: 214, Mismatches: 30, Indels: 43
0.75 0.10 0.15
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 163 0.76
45 6 0.03
46 1 0.00
47 3 0.01
49 2 0.01
51 2 0.01
52 1 0.00
53 2 0.01
54 26 0.12
55 1 0.00
56 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (43 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTTAGCTTC
Found at i:7623525 original size:137 final size:138
Alignment explanation
Indices: 7623313--7623634 Score: 495
Period size: 142 Copynumber: 2.3 Consensus size: 138
7623303 TTCGGTCTAT
*
7623313 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAAC
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATACGATCTACTCTACTGTAAC
* **
7623378 TTCAGAGAGATAAGATCC-TTTAATCCGCTCCACTGTAATATCAGGGAGA-AGGGATTATTAGCT
66 TTCAGAGAGATAAAATCCTTTTAATCCGCTCCACTGTAATATCAGGGAGATA-GGATTACGAGCT
7623441 TCAATCTGC
130 TCAATCTGC
7623450 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATACGATCTACTCTACTGTAAC
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATACGATCTACTCTACTGTAAC
*
7623515 TTCAGAGAGATAAAATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACGA
66 TTCAGAGAGATAAAATCC----TTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACGA
7623580 GCTTCAATCTGC
127 GCTTCAATCTGC
* * * * *
7623592 TCCGCTGTAATATCAGGGAGATGAGATTTCTAGCTTTAATCTG
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTG
7623635 CTCCACTGTA
Statistics
Matches: 169, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
137 81 0.48
142 87 0.51
143 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (138 bp):
TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATACGATCTACTCTACTGTAAC
TTCAGAGAGATAAAATCCTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACGAGCTT
CAATCTGC
Found at i:7623990 original size:131 final size:131
Alignment explanation
Indices: 7623796--7624161 Score: 590
Period size: 131 Copynumber: 2.8 Consensus size: 131
7623786 CATTTCACTT
** * *
7623796 GAAGATAAGATTTACCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGCAATTTT
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTT
*
7623861 CAACCTATTCCACTGCTGGTCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGG
66 CAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGG
7623926 G
131 G
* * *
7623927 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGAGAGACAAGATTTGTAATTTC
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTT
* * *
7623992 CAATCTATTCCTCTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCTTGG
66 CAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGG
7624057 G
131 G
* *
7624058 GAAGATAAGATTCGCTGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAA-TTT
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTT
*
7624122 CTAACCTATTCCACTGCTGGTCAGGTACATAGGACTTGTG
66 C-AACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
7624162 ATTTCACCAA
Statistics
Matches: 215, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
130 3 0.01
131 212 0.99
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (131 bp):
GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTT
CAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGG
G
Found at i:7624108 original size:44 final size:43
Alignment explanation
Indices: 7623929--7624112 Score: 106
Period size: 44 Copynumber: 4.2 Consensus size: 43
7623919 CTCCTGGGGA
* * *
7623929 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGAG
1 AGATAAGATTCG-TGTCTTCAATCTGCTCCGCTACTGCTTAGGG
* * * ** * * * *
7623973 AGACAAGATTTGTAAT-TTCCAATCTATTCCTCTGCTGGTCAGGG
1 AGATAAGATTCGT-GTCTT-CAATCTGCTCCGCTACTGCTTAGGG
* * * * * *
7624017 ACATAGGACTT-GTGGCTTAAATCTGTTTCC-CTACT-CTTGGGG
1 AGATAAGA-TTCGTGTCTTCAATCTG-CTCCGCTACTGCTTAGGG
*
7624059 AAGATAAGATTCGCTGTCTTCGATCTGCTCCGCTACTGCTTAGGG
1 -AGATAAGATTCG-TGTCTTCAATCTGCTCCGCTACTGCTTAGGG
7624104 AGATAAGAT
1 AGATAAGAT
7624113 CTGTAATTTC
Statistics
Matches: 100, Mismatches: 30, Indels: 20
0.67 0.20 0.13
Matches are distributed among these distances:
42 6 0.06
43 21 0.21
44 65 0.65
45 8 0.08
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (43 bp):
AGATAAGATTCGTGTCTTCAATCTGCTCCGCTACTGCTTAGGG
Found at i:7628741 original size:15 final size:15
Alignment explanation
Indices: 7628721--7628750 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7628711 AATGGACTCT
*
7628721 AATGCATGTAATGCA
1 AATGCATGAAATGCA
7628736 AATGCATGAAATGCA
1 AATGCATGAAATGCA
7628751 TGCCTAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.23
Consensus pattern (15 bp):
AATGCATGAAATGCA
Found at i:7630970 original size:47 final size:47
Alignment explanation
Indices: 7630894--7630989 Score: 117
Period size: 47 Copynumber: 2.0 Consensus size: 47
7630884 AATCTAATCT
* * *
7630894 AATAATACATAAAAATTTATGATGTTAATAATAT-ATTGTAATTTAAA
1 AATAATACATAAAAATTTATAATGCTAAT-ATATGATTGTAATATAAA
7630941 AATAATACATAATGAAA-TTA-AATGCTAATATATGATTGTAATATAAA
1 AATAATACATAA--AAATTTATAATGCTAATATATGATTGTAATATAAA
7630988 AA
1 AA
7630990 AAATTAAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
46 4 0.09
47 33 0.77
48 3 0.07
49 3 0.07
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.36
Consensus pattern (47 bp):
AATAATACATAAAAATTTATAATGCTAATATATGATTGTAATATAAA
Found at i:7636212 original size:45 final size:44
Alignment explanation
Indices: 7636161--7636251 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 44
7636151 GGTTCACTGT
7636161 AATGGAATAGAGCTGTAATAATAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATAAT-ATTC-ATGTGTTTGGTTGAATGG
* *
7636206 AATGGAATAGAGCTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATAATATTCATGTGTTTGGTTGAATGG
7636250 AA
1 AA
7636252 GGATGTTGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.49
45 21 0.49
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAGCTGTAATAATATTCATGTGTTTGGTTGAATGG
Found at i:7636419 original size:58 final size:58
Alignment explanation
Indices: 7636357--7636482 Score: 155
Period size: 58 Copynumber: 2.2 Consensus size: 58
7636347 TTTTAATAAG
* * *
7636357 ATTATTATTAAAAATGATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACAAAATTCTTAACATA
* ** * * *
7636415 ATTATTATTAAATATAATTTAATAAAATTTTATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
7636473 ATTATTATTA
1 ATTATTATTA
7636483 TATGAATTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 20 0.34
58 38 0.66
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:7636443 original size:10 final size:10
Alignment explanation
Indices: 7636425--7636463 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
7636415 ATTATTATTA
*
7636425 AATATAATTT
1 AATAAAATTT
7636435 AATAAAATTT
1 AATAAAATTT
* *
7636445 TATATAATTT
1 AATAAAATTT
7636455 AATAAAATT
1 AATAAAATT
7636464 CTTAATATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AATAAAATTT
Found at i:7636451 original size:20 final size:22
Alignment explanation
Indices: 7636425--7636475 Score: 88
Period size: 20 Copynumber: 2.4 Consensus size: 22
7636415 ATTATTATTA
7636425 AATATAATTTAATAAAATT-TT
1 AATATAATTTAATAAAATTCTT
7636446 -ATATAATTTAATAAAATTCTT
1 AATATAATTTAATAAAATTCTT
7636467 AATATAATT
1 AATATAATT
7636476 ATTATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.64
21 2 0.07
22 8 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATAATTTAATAAAATTCTT
Found at i:7636508 original size:58 final size:56
Alignment explanation
Indices: 7636344--7636508 Score: 147
Period size: 58 Copynumber: 2.9 Consensus size: 56
7636334 TATTGTTATT
* * * *
7636344 AAATTTTAATA-AGATTATTATTAAAAATGATTTAATAAAA-ATAATAAATAATTTAACC
1 AAATTTTAACATA-ATTATTATT-AATATAATTTAATAAAATATAAT--ATAATTTAACA
* * * *
7636402 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATTTTATATAATTTAATA
1 AAATTTTAACATAATTATTATT-AATATAATTTAATAAAATATAATATAATTTAACA
* *
7636459 AAATTCTTAATATAATTATTATT-ATATGAATTTACTAAAATCATAATATA
1 AAATT-TTAACATAATTATTATTAATAT-AATTTAATAAAAT-ATAATATA
7636509 TAATACTATA
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
56 4 0.04
57 25 0.28
58 56 0.63
59 4 0.04
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (56 bp):
AAATTTTAACATAATTATTATTAATATAATTTAATAAAATATAATATAATTTAACA
Found at i:7636616 original size:14 final size:14
Alignment explanation
Indices: 7636597--7636635 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7636587 TCATTAGTTT
7636597 ATATGTCATAAACC
1 ATATGTCATAAACC
* * *
7636611 ATATGTTATTAAGC
1 ATATGTCATAAACC
7636625 ATATGTCATAA
1 ATATGTCATAA
7636636 TTTATTAAGC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (14 bp):
ATATGTCATAAACC
Found at i:7641058 original size:6 final size:6
Alignment explanation
Indices: 7641049--7641073 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7641039 TCAGTCCCAT
7641049 GATGGA GATGGA GATGGA GATGGA G
1 GATGGA GATGGA GATGGA GATGGA G
7641074 TTGTGATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (6 bp):
GATGGA
Found at i:7651858 original size:22 final size:23
Alignment explanation
Indices: 7651833--7651885 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
7651823 ATATACATAT
7651833 AAATAT-GAAAATATTCATTAAA
1 AAATATAGAAAATATTCATTAAA
*
7651855 AAATATAGGAAAATATTCGTTAAA
1 AAATATA-GAAAATATTCATTAAA
*
7651879 ATATATA
1 AAATATA
7651886 TATATATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 6 0.22
24 21 0.78
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.32
Consensus pattern (23 bp):
AAATATAGAAAATATTCATTAAA
Found at i:7651868 original size:24 final size:24
Alignment explanation
Indices: 7651839--7651885 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
7651829 ATATAAATAT
7651839 GAAAATATTCATTAAAAAATATAG
1 GAAAATATTCATTAAAAAATATAG
* *
7651863 GAAAATATTCGTTAAAATATATA
1 GAAAATATTCATTAAAAAATATA
7651886 TATATATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.32
Consensus pattern (24 bp):
GAAAATATTCATTAAAAAATATAG
Found at i:7652504 original size:21 final size:22
Alignment explanation
Indices: 7652478--7652530 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
7652468 AAATGGTATC
*
7652478 TACAAATTAAAT-CTCTAAGAT
1 TACAAATCAAATCCTCTAAGAT
*
7652499 TACAAAATCATATCCTCTAAGAT
1 TAC-AAATCAAATCCTCTAAGAT
*
7652522 TACATATCA
1 TACAAATCA
7652531 TATCTAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.11
22 12 0.44
23 12 0.44
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (22 bp):
TACAAATCAAATCCTCTAAGAT
Found at i:7652533 original size:22 final size:23
Alignment explanation
Indices: 7652490--7652534 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
7652480 CAAATTAAAT
7652490 CTCTAAGATTACAAAATCATATC
1 CTCTAAGATTACAAAATCATATC
*
7652513 CTCTAAGATTAC-ATATCATATC
1 CTCTAAGATTACAAAATCATATC
7652535 TAAGATTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.33
Consensus pattern (23 bp):
CTCTAAGATTACAAAATCATATC
Found at i:7652571 original size:18 final size:19
Alignment explanation
Indices: 7652514--7652587 Score: 105
Period size: 21 Copynumber: 3.8 Consensus size: 19
7652504 AATCATATCC
*
7652514 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
7652533 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
7652554 TCTAGGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
7652572 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
7652588 CTCAAAAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
18 17 0.35
19 14 0.29
21 18 0.37
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:7666695 original size:89 final size:89
Alignment explanation
Indices: 7666600--7666762 Score: 227
Period size: 89 Copynumber: 1.8 Consensus size: 89
7666590 ATCGAATATA
* * * *
7666600 CAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCCTGCCTTCATGTAC
1 CAGATCTTACCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCCTGCCTTCATGTAC
*
7666665 TGGCGTGAAGTAGATCTTAGATAC
66 CGGCGTGAAGTAGATCTTAGATAC
* * * * **
7666689 CAGATCTTGCCTTCTCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTTTTCATGTAC
1 CAGATCTTACCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCCTGCCTTCATGTAC
7666754 CGGCGTGAA
66 CGGCGTGAA
7666763 ACAGATCAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 63 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (89 bp):
CAGATCTTACCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCCTGCCTTCATGTAC
CGGCGTGAAGTAGATCTTAGATAC
Found at i:7666857 original size:89 final size:89
Alignment explanation
Indices: 7666764--7667008 Score: 262
Period size: 89 Copynumber: 2.8 Consensus size: 89
7666754 CGGCGTGAAA
* * * * *
7666764 CAGATCAAAGATAGTAGGTCCTGTCTTCCTATA-TCGGTAGCGAAGTGGATCAAATATA-CAGAT
1 CAGATCAAAGAAAGCAGATCCTGTCTTCATATACT-GG-AGCGAAGTAGATCAAATATACCAGAT
* *
7666827 CTTATCTTCCCATACTGGTGGCGAAG
64 CTTACCTTCCCATACTGGTGGCAAAG
* * * * *
7666853 CAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGATATACCAGATCT
1 CAGATCAAAGAAAGCAGATCCTGTCTTCATATACTGGAGCGAAGTAGATCAAATATACCAGATCT
*
7666918 TGCCTTCCCATACTGGTGGCAAAG
66 TACCTTCCCATACTGGTGGCAAAG
* * * * * * *
7666942 CAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAATATTA-CAGATC
1 CAGATCAAAGAAAGCAGATCCTGTCTTCATATACTGGAGCGAAGTAGATCAAATA-TACCAGATC
7667006 TTA
65 TTA
7667009 TCTCCCTAAG
Statistics
Matches: 135, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
88 16 0.12
89 116 0.86
90 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (89 bp):
CAGATCAAAGAAAGCAGATCCTGTCTTCATATACTGGAGCGAAGTAGATCAAATATACCAGATCT
TACCTTCCCATACTGGTGGCAAAG
Found at i:7666946 original size:222 final size:222
Alignment explanation
Indices: 7666560--7666984 Score: 706
Period size: 222 Copynumber: 1.9 Consensus size: 222
7666550 AAGCAGCAGA
*
7666560 TCCTGTCTTCCTATATCGGTAGCGAAGTGGATCGAATATACAGATCTTATCTTCCCATACTGGTG
1 TCCTGTCTTCCTATATCGGTAGCGAAGTGGATCAAATATACAGATCTTATCTTCCCATACTGGTG
* * * **
7666625 GTGAAGTAGATCGAAGAAAACAGATCCTGCCTTCATGTACTGGCGTGAAGTAGATCTTAGATACC
66 GCGAAGCAGATCAAAGAAAACAGATCCTGCCTTCATGTACTGGCGTGAAGTAGATCAGAGATACC
* * * *
7666690 AGATCTTGCCTTCTCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTTTTCATGTACC
131 AGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACC
7666755 GGCGTGAAACAGATCAAAGATAGTAGG
196 GGCGTGAAACAGATCAAAGATAGTAGG
7666782 TCCTGTCTTCCTATATCGGTAGCGAAGTGGATCAAATATACAGATCTTATCTTCCCATACTGGTG
1 TCCTGTCTTCCTATATCGGTAGCGAAGTGGATCAAATATACAGATCTTATCTTCCCATACTGGTG
* * * *
7666847 GCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGATATACC
66 GCGAAGCAGATCAAAGAAAACAGATCCTGCCTTCATGTACTGGCGTGAAGTAGATCAGAGATACC
* *
7666912 AGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
131 AGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACC
7666977 GGCGTGAA
196 GGCGTGAA
7666985 GTAGATCGAA
Statistics
Matches: 187, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
222 187 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (222 bp):
TCCTGTCTTCCTATATCGGTAGCGAAGTGGATCAAATATACAGATCTTATCTTCCCATACTGGTG
GCGAAGCAGATCAAAGAAAACAGATCCTGCCTTCATGTACTGGCGTGAAGTAGATCAGAGATACC
AGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACC
GGCGTGAAACAGATCAAAGATAGTAGG
Found at i:7666991 original size:133 final size:133
Alignment explanation
Indices: 7666689--7666970 Score: 307
Period size: 133 Copynumber: 2.1 Consensus size: 133
7666679 TCTTAGATAC
** * * *
7666689 CAGATCTTGCCTTCTCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTTTTCATGTAC
1 CAGATCTTATCTTCACATACTGGTCGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
** * * * * **
7666754 CGGCGTGAAACAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGGTAGCGAAGTGGATCAAAT
66 CGGCGTGAAACAGATCAAAGATACCAGATCCTGCCTTCCCATATCGGTAGCAAAGCAGATCAAAT
*
7666819 ATA
131 AAA
* *
7666822 CAGATCTTATCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
1 CAGATCTTATCTTCACATACTGGTCGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
* ** * * * *
7666887 TGGCGTGAAGTAGATCAGATATACCAGATCTTGCCTTCCCATA-CTGGTGGCAAAGCAGATCGAA
66 CGGCGTGAAACAGATCAAAGATACCAGATCCTGCCTTCCCATATC-GGTAGCAAAGCAGATC-AA
7666951 GA-AAA
129 -ATAAA
*
7666956 CAGATCTTGTCTTCA
1 CAGATCTTATCTTCA
7666971 TGTACTGGCG
Statistics
Matches: 124, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
132 1 0.01
133 105 0.85
134 17 0.14
135 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (133 bp):
CAGATCTTATCTTCACATACTGGTCGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
CGGCGTGAAACAGATCAAAGATACCAGATCCTGCCTTCCCATATCGGTAGCAAAGCAGATCAAAT
AAA
Found at i:7667006 original size:44 final size:43
Alignment explanation
Indices: 7666583--7667007 Score: 183
Period size: 44 Copynumber: 9.6 Consensus size: 43
7666573 TATCGGTAGC
* * *** *
7666583 GAAGTGGATCGAATATACAGATCTTATCTTCCCATACTGGTGGT
1 GAAGTAGATCGAATATACAGATCTTGTCTTCATGTACTGG-CGT
* * * *
7666627 GAAGTAGATCGAAGAAAACAGATCCTGCCTTCATGTACTGGCGT
1 GAAGTAGATCGAA-TATACAGATCTTGTCTTCATGTACTGGCGT
** * * * * *
7666671 GAAGTAGATCTTAGATACCAGATCTTGCCTTC-TCATACTGGTGGC
1 GAAGTAGATCGAATATA-CAGATCTTGTCTTCAT-GTACTGG-CGT
* * * * * *
7666716 GAAGCAGATCAAAGAAAGCAGATCTTGTTTTCATGTACCGGCGT
1 GAAGTAGATCGAATATA-CAGATCTTGTCTTCATGTACTGGCGT
** * * * * * * * * *
7666760 GAAACAGATCAAAGATAGTAGGTCCTGTCTTCCTATA-TCGGTAGC
1 GAAGTAGATCGAATATA-CAGATCTTGTCTTCATGTACT-GG-CGT
* * * *** * *
7666805 GAAGTGGATCAAATATACAGATCTTATCTTCCCATACTGGTGGC
1 GAAGTAGATCGAATATACAGATCTTGTCTTCATGTACTGG-CGT
* * * *
7666849 GAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGT
1 GAAGTAGATCGAATATA-CAGATCTTGTCTTCATGTACTGGCGT
* *** *
7666893 GAAGTAGATC-AGATATACCAGATCTTGCCTTCCCATACTGGTG-
1 GAAGTAGATCGA-ATATA-CAGATCTTGTCTTCATGTACTGGCGT
* * *
7666936 GCAAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
1 G--AAGTAGATCGAA-TATACAGATCTTGTCTTCATGTACTGGCGT
7666982 GAAGTAGATCGAATATTACAGATCTT
1 GAAGTAGATCGAATA-TACAGATCTT
7667008 ATCTCCCTAA
Statistics
Matches: 285, Mismatches: 80, Indels: 32
0.72 0.20 0.08
Matches are distributed among these distances:
43 6 0.02
44 161 0.56
45 113 0.40
46 5 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
GAAGTAGATCGAATATACAGATCTTGTCTTCATGTACTGGCGT
Found at i:7668642 original size:3 final size:3
Alignment explanation
Indices: 7668636--7668674 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
7668626 TTTTAACTGT
7668636 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7668675 AACATTCATG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7673010 original size:25 final size:25
Alignment explanation
Indices: 7672977--7673028 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
7672967 AAAATATTTG
* *
7672977 AATACTTTAATATAATTTAAAATAA
1 AATACTTTAACATAATATAAAATAA
* *
7673002 AATATTTTAACATAATATAATATAA
1 AATACTTTAACATAATATAAAATAA
7673027 AA
1 AA
7673029 ATAATTATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (25 bp):
AATACTTTAACATAATATAAAATAA
Found at i:7673065 original size:21 final size:22
Alignment explanation
Indices: 7673031--7673079 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
7673021 ATATAAAAAT
7673031 AATTATATTAAAAATATTG-TTA
1 AATTATATTAAAAATA-TGATTA
7673053 AATTATA-TAAAAATATGATTA
1 AATTATATTAAAAATATGATTA
7673074 AATTAT
1 AATTAT
7673080 TTATTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.08
21 17 0.65
22 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
AATTATATTAAAAATATGATTA
Found at i:7673101 original size:11 final size:11
Alignment explanation
Indices: 7673031--7673107 Score: 52
Period size: 11 Copynumber: 7.1 Consensus size: 11
7673021 ATATAAAAAT
7673031 AATTA-TATTAA
1 AATTATTATT-A
* *
7673042 AAATATTGTTA
1 AATTATTATTA
*
7673053 AATTA-TATAA
1 AATTATTATTA
* *
7673063 AAATATGATTA
1 AATTATTATTA
7673074 AATTATTTATT-
1 AATTA-TTATTA
*
7673085 ATTTATTATTA
1 AATTATTATTA
*
7673096 AATTATTTTTA
1 AATTATTATTA
7673107 A
1 A
7673108 TAATCATTCT
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
10 12 0.24
11 30 0.61
12 7 0.14
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (11 bp):
AATTATTATTA
Found at i:7673320 original size:16 final size:16
Alignment explanation
Indices: 7673295--7673330 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7673285 AATTACTGAC
7673295 TACAACTCTATTACAT
1 TACAACTCTATTACAT
* *
7673311 TACAATTCTATTCCAT
1 TACAACTCTATTACAT
7673327 TACA
1 TACA
7673331 GCGAACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (16 bp):
TACAACTCTATTACAT
Found at i:7686076 original size:19 final size:20
Alignment explanation
Indices: 7686034--7686076 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
7686024 TCATGCTTTC
*
7686034 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
*
7686054 -ATTCATATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
7686072 TATTC
1 TATTC
7686077 TACAATCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:7689164 original size:132 final size:133
Alignment explanation
Indices: 7688916--7689180 Score: 523
Period size: 132 Copynumber: 2.0 Consensus size: 133
7688906 AAGAGGAAAG
7688916 GTATTGGGAACAGAGAGCACGGGCTAATTGGCTTAAGTTAGGGGATAAGAATACAGCATTTTTTC
1 GTATTGGGAACAGAGAGCACGGGCTAATTGGCTTAAGTTAGGGGATAAGAATACAGCATTTTTTC
7688981 ATAAATATGCCTCAATGCGGAAAAGAATTAATACAATAAGCAGGTTGGACACAGATGATGGAATT
66 ATAAATATGCCTCAATGCGGAAAAGAATTAATACAATAAGCAGGTTGGACACAGATGATGGAATT
7689046 GGA
131 GGA
7689049 GTATTGGGAA-AGAGAGCACGGGCTAATTGGCTTAAGTTAGGGGATAAGAATACAGCATTTTTTC
1 GTATTGGGAACAGAGAGCACGGGCTAATTGGCTTAAGTTAGGGGATAAGAATACAGCATTTTTTC
7689113 ATAAATATGCCTCAATGCGGAAAAGAATTAATACAATAAGCAGGTTGGACACAGATGATGGAATT
66 ATAAATATGCCTCAATGCGGAAAAGAATTAATACAATAAGCAGGTTGGACACAGATGATGGAATT
7689178 GGA
131 GGA
7689181 ATTCACGAGG
Statistics
Matches: 132, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
132 122 0.92
133 10 0.08
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (133 bp):
GTATTGGGAACAGAGAGCACGGGCTAATTGGCTTAAGTTAGGGGATAAGAATACAGCATTTTTTC
ATAAATATGCCTCAATGCGGAAAAGAATTAATACAATAAGCAGGTTGGACACAGATGATGGAATT
GGA
Found at i:7694214 original size:14 final size:14
Alignment explanation
Indices: 7694197--7694223 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7694187 AAAAAAAAAA
7694197 AAAAAAAAAACGGG
1 AAAAAAAAAACGGG
7694211 AAAAAAAAAACGG
1 AAAAAAAAAACGG
7694224 TAAGAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.07, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAACGGG
Found at i:7701214 original size:17 final size:17
Alignment explanation
Indices: 7701192--7701226 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7701182 TGACTCGATA
7701192 TCCACTTTGAAGCATTG
1 TCCACTTTGAAGCATTG
7701209 TCCACTTTGAAGCATTG
1 TCCACTTTGAAGCATTG
7701226 T
1 T
7701227 TGTATTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (17 bp):
TCCACTTTGAAGCATTG
Found at i:7709557 original size:42 final size:42
Alignment explanation
Indices: 7709492--7709591 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
7709482 TTATATGAAC
*
7709492 AGCACTAAGTGTGCAAAACTAAAAT-GACGAGGTTGAATAAAG
1 AGCACTAAGTGTGCGAAACTAAAATGGA-GAGGTTGAATAAAG
* * * * *
7709534 GGCACTAAGCGTGCGAAATTAAAATGGAGATGTTGAATAACG
1 AGCACTAAGTGTGCGAAACTAAAATGGAGAGGTTGAATAAAG
7709576 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
7709592 TACCGAGAGC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 47 0.96
43 2 0.04
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (42 bp):
AGCACTAAGTGTGCGAAACTAAAATGGAGAGGTTGAATAAAG
Found at i:7711676 original size:15 final size:16
Alignment explanation
Indices: 7711642--7711676 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7711632 AAAAATTAAT
7711642 TTTAAGGCATAATAAA
1 TTTAAGGCATAATAAA
*
7711658 TTTAAGGCCTAAT-AA
1 TTTAAGGCATAATAAA
7711673 TTTA
1 TTTA
7711677 TTAGGCCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (16 bp):
TTTAAGGCATAATAAA
Found at i:7720221 original size:13 final size:13
Alignment explanation
Indices: 7720203--7720228 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7720193 TTGTTTTCAG
7720203 GTCATTTTCATTT
1 GTCATTTTCATTT
7720216 GTCATTTTCATTT
1 GTCATTTTCATTT
7720229 TGGAGAAAAC
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:0.08, T:0.62
Consensus pattern (13 bp):
GTCATTTTCATTT
Found at i:7720276 original size:51 final size:51
Alignment explanation
Indices: 7720208--7720328 Score: 165
Period size: 51 Copynumber: 2.4 Consensus size: 51
7720198 TTCAGGTCAT
*
7720208 TTTCATTTGT-CATTTTCATTTTGGAGAAAACCATAATCATTTG-AAAATGA
1 TTTCATTTCTCCATTTTCATTTTGGAGAAAACCATAATCA-TTGCAAAATGA
* * *
7720258 TTTCATTTCTCCATTTTCATTTTGGAGAAAATCATAATCATTGCCAAATGT
1 TTTCATTTCTCCATTTTCATTTTGGAGAAAACCATAATCATTGCAAAATGA
*
7720309 TTTATATTTCTCCATTTTCA
1 TTT-CATTTCTCCATTTTCA
7720329 CCATTCAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
50 12 0.19
51 36 0.57
52 15 0.24
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (51 bp):
TTTCATTTCTCCATTTTCATTTTGGAGAAAACCATAATCATTGCAAAATGA
Found at i:7720343 original size:32 final size:32
Alignment explanation
Indices: 7720302--7720365 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
7720292 TAATCATTGC
7720302 CAAATGTTTTATATTTCTCCATTTTCACCATT
1 CAAATGTTTTATATTTCTCCATTTTCACCATT
7720334 CAAATGTTTTATATTTCTCCATTTTCACCATT
1 CAAATGTTTTATATTTCTCCATTTTCACCATT
7720366 TCTATTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.22, G:0.03, T:0.50
Consensus pattern (32 bp):
CAAATGTTTTATATTTCTCCATTTTCACCATT
Found at i:7721444 original size:17 final size:17
Alignment explanation
Indices: 7721422--7721454 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7721412 ATAATCAATG
*
7721422 AATTTGTTTTATTAACT
1 AATTTGTTCTATTAACT
7721439 AATTTGTTCTATTAAC
1 AATTTGTTCTATTAAC
7721455 CCTTGTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (17 bp):
AATTTGTTCTATTAACT
Found at i:7724265 original size:64 final size:63
Alignment explanation
Indices: 7724167--7724288 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 63
7724157 CATGAAGAGA
* * * * * * *
7724167 CATATATCGGGACGCTCATAAGAGTTGCGGTATGTCCGCAATACATGCAGGATCAATATCGAT
1 CATATAACAGGACGCTCAAAAGAGCTGCGGTATGTCCACAACACATACAGGATCAATATCGAT
7724230 CATATAACAGGACGCTCACAAAGAGCTGCGGTATGTCCACAACACATACAGGATCAATA
1 CATATAACAGGACGCTCA-AAAGAGCTGCGGTATGTCCACAACACATACAGGATCAATA
7724289 CAGATCGGGA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 16 0.31
64 35 0.69
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (63 bp):
CATATAACAGGACGCTCAAAAGAGCTGCGGTATGTCCACAACACATACAGGATCAATATCGAT
Found at i:7725962 original size:11 final size:11
Alignment explanation
Indices: 7725946--7726003 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
7725936 TTATATAAGA
*
7725946 AATAAAATTAT
1 AATAAAATAAT
7725957 AATAAAATAAT
1 AATAAAATAAT
*
7725968 AATAAAATATCT
1 AATAAAATA-AT
* *
7725980 CATTAAAATATT
1 -AATAAAATAAT
7725992 AATAAAATAAT
1 AATAAAATAAT
7726003 A
1 A
7726004 TTGATCTTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
11 29 0.74
12 2 0.05
13 8 0.21
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:7729969 original size:18 final size:19
Alignment explanation
Indices: 7729946--7729985 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
7729936 TTATATATAT
*
7729946 TATTATTACTTATTAAA-A
1 TATTATTACTTAATAAAGA
7729964 TATTATTACTTAATAAAGA
1 TATTATTACTTAATAAAGA
7729983 TAT
1 TAT
7729986 CATGAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (19 bp):
TATTATTACTTAATAAAGA
Found at i:7731250 original size:2 final size:2
Alignment explanation
Indices: 7731243--7731269 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7731233 CCTAAATCGC
7731243 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7731270 CCTAATCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7731547 original size:44 final size:44
Alignment explanation
Indices: 7731483--7731623 Score: 194
Period size: 44 Copynumber: 3.2 Consensus size: 44
7731473 ACCTTTGAAA
* * * **
7731483 TTCTTACCTAAACAATCAACCAAGACAATTATATTACATGACCAT
1 TTCTTACCAAAACAATCAACCAA-ACAATTATAATGCATGTTCAT
*
7731528 TTCTTACC-AAACAATCAACCAAACATTTATAATGCATGTTCAT
1 TTCTTACCAAAACAATCAACCAAACAATTATAATGCATGTTCAT
* *
7731571 TTATTACCAAAACAATCAATCAAACAATTATAATGCATGTTCAT
1 TTCTTACCAAAACAATCAACCAAACAATTATAATGCATGTTCAT
7731615 TTCTTACCA
1 TTCTTACCA
7731624 TTTAACAACT
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
43 23 0.27
44 55 0.64
45 8 0.09
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.32
Consensus pattern (44 bp):
TTCTTACCAAAACAATCAACCAAACAATTATAATGCATGTTCAT
Found at i:7747229 original size:55 final size:55
Alignment explanation
Indices: 7747164--7747272 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 55
7747154 TCATTCCATT
* *
7747164 GATGCTTAATGTGCATAGCTGCCAAAAATTAGGGGTTTAACCCAATTAATTCATC
1 GATGCTTAATGTACATAGCTACCAAAAATTAGGGGTTTAACCCAATTAATTCATC
* *
7747219 GATGCTTAATGTACATAGCTACCAAGAATTGGGGGTTTAACCCAATTAATTCAT
1 GATGCTTAATGTACATAGCTACCAAAAATTAGGGGTTTAACCCAATTAATTCAT
7747273 GTATTCACCT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (55 bp):
GATGCTTAATGTACATAGCTACCAAAAATTAGGGGTTTAACCCAATTAATTCATC
Found at i:7760587 original size:3 final size:3
Alignment explanation
Indices: 7760579--7760635 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
7760569 TTAATTTTCC
* *
7760579 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TTT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
7760625 T-T TAT T-T TAT T
1 TAT TAT TAT TAT T
7760636 TTTGTAGGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 40 0.85
4 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:7760625 original size:13 final size:14
Alignment explanation
Indices: 7760567--7760632 Score: 53
Period size: 15 Copynumber: 4.6 Consensus size: 14
7760557 AAGAAAAAAT
* *
7760567 TTTTAATTTTCCTA
1 TTTTATTTTTACTA
* *
7760581 TTATTATTATTATTA
1 TT-TTATTTTTACTA
* *
7760596 TTATTATTATTATTA
1 TT-TTATTTTTACTA
7760611 -TTTATTTTTACTA
1 TTTTATTTTTACTA
7760624 TTTTATTTT
1 TTTTATTTT
7760633 ATTTTTGTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.23
14 11 0.25
15 23 0.52
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTATTTTTACTA
Found at i:7760856 original size:12 final size:12
Alignment explanation
Indices: 7760839--7760864 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7760829 CAAAACAGGC
7760839 TTTTAGCGGCGT
1 TTTTAGCGGCGT
7760851 TTTTAGCGGCGT
1 TTTTAGCGGCGT
7760863 TT
1 TT
7760865 GGACAAAAAA
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:7760914 original size:41 final size:40
Alignment explanation
Indices: 7760870--7760986 Score: 121
Period size: 40 Copynumber: 3.0 Consensus size: 40
7760860 CGTTTGGACA
* *
7760870 AAAAACGCCACTAAAAATCAAGCTTTAGCGGCGCTTTTAT
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTAT
* ** * *
7760910 AAAAACGTCGCTAAAGGTCGAGCATTAGCGGCGCATTTT-G
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGC-TTTTAT
* * *
7760950 AAAAACGCTGCTAAAAAT-AAGCATTAGCAGCGTTTTT
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT
7760987 TGAAAAGCAT
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
38 4 0.06
39 12 0.19
40 42 0.68
41 4 0.06
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTAT
Found at i:7761099 original size:41 final size:41
Alignment explanation
Indices: 7761041--7761156 Score: 191
Period size: 41 Copynumber: 2.9 Consensus size: 41
7761031 AAGTTTTTGG
*
7761041 GGCCTTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCT-C
1 GGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCC
7761081 GAGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCC
1 G-GCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCC
*
7761123 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCC-CTAA
1 GGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAA
7761157 GTAATGTTTC
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
40 5 0.07
41 65 0.90
42 2 0.03
ACGTcount: A:0.19, C:0.25, G:0.28, T:0.28
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCC
Found at i:7761968 original size:33 final size:33
Alignment explanation
Indices: 7761922--7761993 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
7761912 ATTAAATAAT
* * * *
7761922 GTTTAGGGGTTAGGGGTTCGGGGCCGGGTTAAG
1 GTTTAGGGATTAGGGATTCAGGGCCAGGTTAAG
* *
7761955 GTTTAGGGATTAGGGATTCAGGGTCAGGTTAGG
1 GTTTAGGGATTAGGGATTCAGGGCCAGGTTAAG
7761988 GTTTAG
1 GTTTAG
7761994 TATTTAGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.17, C:0.07, G:0.46, T:0.31
Consensus pattern (33 bp):
GTTTAGGGATTAGGGATTCAGGGCCAGGTTAAG
Found at i:7763245 original size:146 final size:147
Alignment explanation
Indices: 7763073--7763379 Score: 526
Period size: 146 Copynumber: 2.1 Consensus size: 147
7763063 CAAATAAAAT
** * *
7763073 AAAATAGCTTCATTTTATATAGCAAAACAGTGTCGTTTTATTCCAAATAAAATAGCTTTTTGCGG
1 AAAATAGCGCCATTCTATATAGCAAAACAGTGTCGTTTTATTCCAAATAAAATAGCTTTTTGCGA
*
7763138 CGTTTTTATGAAAAACGCCGCAATAGATAAGCAATAGCAGCGTTTTTATAAAAAACGCCACAAAA
66 CGTTTTTATGAAAAACGCCGCAATAGATAAGCAATAGCAGCGTTTTTATAAAAAAAGCCACAAAA
7763203 TAAAATTTACTTTTA-A
131 TAAAATTTACTTTTACA
* **
7763219 AAAATTGCGCCATTCTATATAGCAAAACAGTGTCGTTTTATTCCAAATAAAATATTTTTTTGCGA
1 AAAATAGCGCCATTCTATATAGCAAAACAGTGTCGTTTTATTCCAAATAAAATAGCTTTTTGCGA
*
7763284 CGTTTTTATGAAAAACGCCGCAATAGATAAGCAATAGCGGCGTTTTTATAAAAAAAGCCACAAAA
66 CGTTTTTATGAAAAACGCCGCAATAGATAAGCAATAGCAGCGTTTTTATAAAAAAAGCCACAAAA
7763349 TAAAATTTACTTTTACA
131 TAAAATTTACTTTTACA
7763366 AAAATAGCGCCATT
1 AAAATAGCGCCATT
7763380 TTAAAAAAAT
Statistics
Matches: 150, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
146 136 0.91
147 14 0.09
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (147 bp):
AAAATAGCGCCATTCTATATAGCAAAACAGTGTCGTTTTATTCCAAATAAAATAGCTTTTTGCGA
CGTTTTTATGAAAAACGCCGCAATAGATAAGCAATAGCAGCGTTTTTATAAAAAAAGCCACAAAA
TAAAATTTACTTTTACA
Found at i:7768189 original size:43 final size:43
Alignment explanation
Indices: 7768093--7768388 Score: 357
Period size: 43 Copynumber: 6.9 Consensus size: 43
7768083 AGGTTATATT
* * * * *
7768093 TTTAGCGGCGTTT-TTGCAAGAAACGCCGTTAAAGG-CTTGTTC
1 TTTAGCGGCGTTTGTGGGAA-AAGCGCCGCTAAAGGTCTTGATC
* ** *
7768135 TTTAGTGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATC
**
7768178 TTTAGCGGCGTTTGT-GGAATAAGCGCCGCTAAAGGTCACGATC
1 TTTAGCGGCGTTTGTGGGAA-AAGCGCCGCTAAAGGTCTTGATC
* *
7768221 TATAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCTTTG-TC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-TTGATC
* * *
7768264 TTTAGCGGCGTTTGTGGGTAAAGCGCCGTTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATC
* * * *
7768307 TTTAGCGGCGTTTGTGGGAAAAGCACCTCTAAAAGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATC
7768350 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTT
7768389 AGTTCTAAAG
Statistics
Matches: 223, Mismatches: 25, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
42 30 0.13
43 189 0.85
44 4 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATC
Found at i:7778207 original size:31 final size:29
Alignment explanation
Indices: 7778172--7778246 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
7778162 TAACGCTCAA
* *
7778172 TGACTAAAATGTTACAATACAATAACGTAAG
1 TGACTAAAATGTAACAATAC-A-AACATAAG
* * *
7778203 TGACTAAAACGTAACATTTCAAACATAAG
1 TGACTAAAATGTAACAATACAAACATAAG
7778232 TGACTAAAATGTAAC
1 TGACTAAAATGTAAC
7778247 CTGAGATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 21 0.55
30 1 0.03
31 16 0.42
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (29 bp):
TGACTAAAATGTAACAATACAAACATAAG
Found at i:7779230 original size:23 final size:23
Alignment explanation
Indices: 7779201--7779248 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
7779191 TATTAAAGTA
*
7779201 AAAATA-TTATATTTTTTTTGAAT
1 AAAATATTTATATATTTTTT-AAT
*
7779224 AAAATATTTTTATATTTTTTAAT
1 AAAATATTTATATATTTTTTAAT
7779247 AA
1 AA
7779249 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
AAAATATTTATATATTTTTTAAT
Found at i:7779975 original size:16 final size:16
Alignment explanation
Indices: 7779954--7779995 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
7779944 AATAATTTGA
*
7779954 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
7779970 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
7779986 TAGTTTTAAT
1 TAATTTTAAT
7779996 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:7780246 original size:27 final size:27
Alignment explanation
Indices: 7780174--7780235 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
7780164 GGTCTAGTAA
*
7780174 TGGCGCCTCTCTATAAGGCACCTTCAT
1 TGGCGCCTCTCTATGAGGCACCTTCAT
7780201 TGGCGCCTCTCTATGAGGCACCTTCAT
1 TGGCGCCTCTCTATGAGGCACCTTCAT
7780228 TGGCGCCT
1 TGGCGCCT
7780236 ACCTGATAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.15, C:0.34, G:0.23, T:0.29
Consensus pattern (27 bp):
TGGCGCCTCTCTATGAGGCACCTTCAT
Found at i:7799251 original size:32 final size:33
Alignment explanation
Indices: 7799202--7799273 Score: 137
Period size: 32 Copynumber: 2.2 Consensus size: 33
7799192 AATGTTACAT
7799202 CCAAAAGAAAATATCAATATTCCTACTAAGGAA
1 CCAAAAGAAAATATCAATATTCCTACTAAGGAA
7799235 CCAAAAG-AAATATCAATATTCCTACTAAGGAA
1 CCAAAAGAAAATATCAATATTCCTACTAAGGAA
7799267 CCAAAAG
1 CCAAAAG
7799274 CCATGAAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
32 32 0.82
33 7 0.18
ACGTcount: A:0.51, C:0.19, G:0.10, T:0.19
Consensus pattern (33 bp):
CCAAAAGAAAATATCAATATTCCTACTAAGGAA
Found at i:7809229 original size:39 final size:39
Alignment explanation
Indices: 7809184--7809342 Score: 318
Period size: 39 Copynumber: 4.1 Consensus size: 39
7809174 AATTTTGTTA
7809184 ATCGATTCAGAAGAAGAATTGATGGGTATAGTTTGCACT
1 ATCGATTCAGAAGAAGAATTGATGGGTATAGTTTGCACT
7809223 ATCGATTCAGAAGAAGAATTGATGGGTATAGTTTGCACT
1 ATCGATTCAGAAGAAGAATTGATGGGTATAGTTTGCACT
7809262 ATCGATTCAGAAGAAGAATTGATGGGTATAGTTTGCACT
1 ATCGATTCAGAAGAAGAATTGATGGGTATAGTTTGCACT
7809301 ATCGATTCAGAAGAAGAATTGATGGGTATAGTTTGCACT
1 ATCGATTCAGAAGAAGAATTGATGGGTATAGTTTGCACT
7809340 ATC
1 ATC
7809343 TCTCGATGAA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 120 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (39 bp):
ATCGATTCAGAAGAAGAATTGATGGGTATAGTTTGCACT
Found at i:7823409 original size:139 final size:140
Alignment explanation
Indices: 7823252--7823530 Score: 551
Period size: 139 Copynumber: 2.0 Consensus size: 140
7823242 ATTCTTCTAT
7823252 TGTTTTTATTTTTTTTAGGAACGCAGGTTGTCTTGGGCAAGACTCTGCCTGGGATATCACGAAAC
1 TGTTTTTATTTTTTTTAGGAACGCAGGTTGTCTTGGGCAAGACTCTGCCTGGGATATCACGAAAC
7823317 AAGATATTTTGCAAGTCCAGTCCCTGAGGATTTGACCCTACTTCCCTTTTACTATTCTTTTCATT
66 AAGATATTTTGCAAGTCCAGTCCCTGAGGATTTGACCCTACTTCCCTTTTACTATTCTTTTCATT
7823382 ATTTATTAGG
131 ATTTATTAGG
7823392 TGTTTTTA-TTTTTTTAGGAACGCAGGTTGTCTTGGGCAAGACTCTGCCTGGGATATCACGAAAC
1 TGTTTTTATTTTTTTTAGGAACGCAGGTTGTCTTGGGCAAGACTCTGCCTGGGATATCACGAAAC
7823456 AAGATATTTTGCAAGTCCAGTCCCTGAGGATTTGACCCTACTTCCCTTTTACTATTCTTTTCATT
66 AAGATATTTTGCAAGTCCAGTCCCTGAGGATTTGACCCTACTTCCCTTTTACTATTCTTTTCATT
7823521 ATTTATTAGG
131 ATTTATTAGG
7823531 GATAAGATAT
Statistics
Matches: 139, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
139 131 0.94
140 8 0.06
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (140 bp):
TGTTTTTATTTTTTTTAGGAACGCAGGTTGTCTTGGGCAAGACTCTGCCTGGGATATCACGAAAC
AAGATATTTTGCAAGTCCAGTCCCTGAGGATTTGACCCTACTTCCCTTTTACTATTCTTTTCATT
ATTTATTAGG
Found at i:7829730 original size:73 final size:73
Alignment explanation
Indices: 7829633--7829785 Score: 288
Period size: 73 Copynumber: 2.1 Consensus size: 73
7829623 TCGAGAAGAC
*
7829633 TTCCATTTTTAGGCATCAACATCATTCCTTTGATAATCTCATCTTTCACTTTGATTATTTTTGAA
1 TTCCATTTTTAGGCATCAACATCATTCCTTTGATAATATCATCTTTCACTTTGATTATTTTTGAA
7829698 CACATGGT
66 CACATGGT
7829706 TTCCATTTTTAGGCATCAACATCATTCCTTTGATAATATCATCTTTCACTTTGATTATTTTTGAA
1 TTCCATTTTTAGGCATCAACATCATTCCTTTGATAATATCATCTTTCACTTTGATTATTTTTGAA
7829771 CACATGGT
66 CACATGGT
*
7829779 TTTCATT
1 TTCCATT
7829786 AATTGATGTT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
73 78 1.00
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.46
Consensus pattern (73 bp):
TTCCATTTTTAGGCATCAACATCATTCCTTTGATAATATCATCTTTCACTTTGATTATTTTTGAA
CACATGGT
Found at i:7831385 original size:53 final size:53
Alignment explanation
Indices: 7831314--7831415 Score: 186
Period size: 53 Copynumber: 1.9 Consensus size: 53
7831304 AGCTCACACG
7831314 AAGTGTGCCTTTACATATAATCGTAACCTTTCCTCTACATCAATGCTCAAATT
1 AAGTGTGCCTTTACATATAATCGTAACCTTTCCTCTACATCAATGCTCAAATT
* *
7831367 AAGTGTGTCTTTACATATAATCGTAACCTTTCCTTTACATCAATGCTCA
1 AAGTGTGCCTTTACATATAATCGTAACCTTTCCTCTACATCAATGCTCA
7831416 CACGAGCTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (53 bp):
AAGTGTGCCTTTACATATAATCGTAACCTTTCCTCTACATCAATGCTCAAATT
Found at i:7833481 original size:11 final size:11
Alignment explanation
Indices: 7833444--7833508 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
7833434 ACAATAACAA
*
7833444 CAAAATAGTAG
1 CAAAATAATAG
*
7833455 CAACATAATAG
1 CAAAATAATAG
* *
7833466 TAAAATGATAG
1 CAAAATAATAG
7833477 CAAAATAATGAG
1 CAAAATAAT-AG
*
7833489 -AAAACAATAAG
1 CAAAATAAT-AG
7833500 -AAAATAATA
1 CAAAATAATA
7833509 TTAAAAAACA
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
10 1 0.02
11 40 0.93
12 2 0.05
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.18
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:7838898 original size:25 final size:25
Alignment explanation
Indices: 7838869--7838948 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 25
7838859 ACATCAACTC
7838869 CAAGCAATATCTAAGAAAAAAAAAA
1 CAAGCAATATCTAAGAAAAAAAAAA
* * * ***
7838894 CAAGCAGA-AACATCAGAAACATCAACTC
1 CAAGCA-ATATC-TAAGAAA-A-AAAAAA
7838922 CAAGCAATATCTAAGAAAAAAAAAA
1 CAAGCAATATCTAAGAAAAAAAAAA
7838947 CA
1 CA
7838949 TTCTTCCATT
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
25 12 0.32
26 8 0.21
27 8 0.21
28 10 0.26
ACGTcount: A:0.61, C:0.19, G:0.09, T:0.11
Consensus pattern (25 bp):
CAAGCAATATCTAAGAAAAAAAAAA
Found at i:7838923 original size:53 final size:53
Alignment explanation
Indices: 7838843--7838948 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
7838833 CAAGCGGTTC
7838843 AGCAGAAACATCAGAAACATCAACTCCAAGCAATATCTAAGAAAAAAAAAACA
1 AGCAGAAACATCAGAAACATCAACTCCAAGCAATATCTAAGAAAAAAAAAACA
7838896 AGCAGAAACATCAGAAACATCAACTCCAAGCAATATCTAAGAAAAAAAAAACA
1 AGCAGAAACATCAGAAACATCAACTCCAAGCAATATCTAAGAAAAAAAAAACA
7838949 TTCTTCCATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.58, C:0.21, G:0.09, T:0.11
Consensus pattern (53 bp):
AGCAGAAACATCAGAAACATCAACTCCAAGCAATATCTAAGAAAAAAAAAACA
Found at i:7838926 original size:28 final size:28
Alignment explanation
Indices: 7838843--7838927 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 28
7838833 CAAGCGGTTC
7838843 AGCAGAAACATCAGAAACATCAACTCCA
1 AGCAGAAACATCAGAAACATCAACTCCA
* * * ***
7838871 AGCA-ATATC-TAAGAAA-A-AAAAAACA
1 AGCAGA-AACATCAGAAACATCAACTCCA
7838896 AGCAGAAACATCAGAAACATCAACTCCA
1 AGCAGAAACATCAGAAACATCAACTCCA
7838924 AGCA
1 AGCA
7838928 ATATCTAAGA
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
25 10 0.25
26 8 0.20
27 8 0.20
28 14 0.35
ACGTcount: A:0.55, C:0.24, G:0.11, T:0.11
Consensus pattern (28 bp):
AGCAGAAACATCAGAAACATCAACTCCA
Found at i:7844329 original size:19 final size:20
Alignment explanation
Indices: 7844305--7844345 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
7844295 GAATTTAGGA
7844305 AAATATTGAATA-AAAATTG
1 AAATATTGAATATAAAATTG
* *
7844324 AAATATTTAATATGAAATTG
1 AAATATTGAATATAAAATTG
7844344 AA
1 AA
7844346 TTGTGTTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (20 bp):
AAATATTGAATATAAAATTG
Found at i:7845255 original size:19 final size:20
Alignment explanation
Indices: 7845231--7845271 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
7845221 GAATTTAGGA
7845231 AAATATTGAATA-AAAATTG
1 AAATATTGAATATAAAATTG
* *
7845250 AAATATTTAATATGAAATTG
1 AAATATTGAATATAAAATTG
7845270 AA
1 AA
7845272 TTGTGTTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (20 bp):
AAATATTGAATATAAAATTG
Found at i:7847625 original size:20 final size:23
Alignment explanation
Indices: 7847597--7847647 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
7847587 GATTTTTACT
*
7847597 AAAATAATA-CAAAAGAA-ATA-
1 AAAAAAATACCAAAAGAATATAC
*
7847617 AAAAAAATACCAAAATAATATAC
1 AAAAAAATACCAAAAGAATATAC
7847640 AAAAAAAT
1 AAAAAAAT
7847648 TTATTTACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.31
21 7 0.27
22 3 0.12
23 8 0.31
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAAAAATACCAAAAGAATATAC
Found at i:7847631 original size:11 final size:10
Alignment explanation
Indices: 7847597--7847647 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
7847587 GATTTTTACT
*
7847597 AAAATAATAC
1 AAAAAAATAC
7847607 AAAAGAAATA-
1 AAAA-AAATAC
7847617 AAAAAAATACC
1 AAAAAAATA-C
7847628 AAAATAATATAC
1 AAAA-AA-ATAC
7847640 AAAAAAAT
1 AAAAAAAT
7847648 TTATTTACCA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
9 5 0.14
10 10 0.29
11 10 0.29
12 7 0.20
13 3 0.09
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.16
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:7849576 original size:27 final size:27
Alignment explanation
Indices: 7849538--7849596 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
7849528 AATCCTATGT
*
7849538 CGCCTATGGGAAAGGCACCATCGGTGC
1 CGCCTATGGGAAAGACACCATCGGTGC
* *
7849565 CGCCTATGGGAAAGACACCTTTGGTGC
1 CGCCTATGGGAAAGACACCATCGGTGC
7849592 CGCCT
1 CGCCT
7849597 TTCCATTACC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.19
Consensus pattern (27 bp):
CGCCTATGGGAAAGACACCATCGGTGC
Found at i:7849680 original size:9 final size:10
Alignment explanation
Indices: 7849646--7849696 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 10
7849636 TTGATAAATA
7849646 ATTTTTTTGT
1 ATTTTTTTGT
7849656 ATATTATTTTGGT
1 AT-TT-TTTT-GT
7849669 ATTTTTTT-T
1 ATTTTTTTGT
7849678 ATTTCTTTTGT
1 ATTT-TTTTGT
7849689 ATTATTTT
1 ATT-TTTT
7849697 AGTAAAAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
9 5 0.14
10 6 0.17
11 13 0.37
12 7 0.20
13 4 0.11
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.75
Consensus pattern (10 bp):
ATTTTTTTGT
Found at i:7849690 original size:20 final size:23
Alignment explanation
Indices: 7849646--7849696 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
7849636 TTGATAAATA
7849646 ATTTTTTTGTATATTATTTTGGT
1 ATTTTTTTGTATATTATTTTGGT
*
7849669 ATTTTTTT-TAT-TTCTTTT-GT
1 ATTTTTTTGTATATTATTTTGGT
*
7849689 ATTATTTT
1 ATTTTTTT
7849697 AGTAAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 9 0.35
21 6 0.23
22 3 0.12
23 8 0.31
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.75
Consensus pattern (23 bp):
ATTTTTTTGTATATTATTTTGGT
Found at i:7856120 original size:157 final size:158
Alignment explanation
Indices: 7855938--7856253 Score: 625
Period size: 157 Copynumber: 2.0 Consensus size: 158
7855928 ATTATTATAT
7855938 TAAAAAACTATAAAAATTTAAAATTAATTAAATTAAAATATAAAGACTAAATCCACCAATGCAGA
1 TAAAAAACTATAAAAATTTAAAATTAATTAAATTAAAATATAAAGACTAAATCCACCAATGCAGA
7856003 TTACAAAGTCTAATAAGGAGTTACCAATTAGAATGTAAGCTTTTGAAAAAGCTGGAATGAGGTCA
66 TTACAAAGTCTAATAAGGAGTTACCAATTAGAATGTAAGCTTTTGAAAAAGCTGGAATGAGGTCA
7856068 GAATGCAAAGATTCGGGCTAGCTAGTTC
131 GAATGCAAAGATTCGGGCTAGCTAGTTC
7856096 TAAAAAACTAT-AAAATTTAAAATTAATTAAATTAAAATATAAAGACTAAATCCACCAATGCAGA
1 TAAAAAACTATAAAAATTTAAAATTAATTAAATTAAAATATAAAGACTAAATCCACCAATGCAGA
7856160 TTACAAAGTCTAATAAGGAGTTACCAATTAGAATGTAAGCTTTTGAAAAAGCTGGAATGAGGTCA
66 TTACAAAGTCTAATAAGGAGTTACCAATTAGAATGTAAGCTTTTGAAAAAGCTGGAATGAGGTCA
7856225 GAATGCAAAGATTCGGGCTAGCTAGTTC
131 GAATGCAAAGATTCGGGCTAGCTAGTTC
7856253 T
1 T
7856254 TCATTGCTTA
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
157 147 0.93
158 11 0.07
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (158 bp):
TAAAAAACTATAAAAATTTAAAATTAATTAAATTAAAATATAAAGACTAAATCCACCAATGCAGA
TTACAAAGTCTAATAAGGAGTTACCAATTAGAATGTAAGCTTTTGAAAAAGCTGGAATGAGGTCA
GAATGCAAAGATTCGGGCTAGCTAGTTC
Found at i:7864218 original size:40 final size:40
Alignment explanation
Indices: 7864158--7864244 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
7864148 AATTCATTAC
* * *
7864158 TTCACTAATTTCACAGTTCAATGCAGTACACATAA-CAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACA-AATCAATA
* *
7864198 TTCAGTAACTTCACAATTCAATTCAGTACTCAAATCAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAATCAATA
*
7864238 TTTAGTA
1 TTCAGTA
7864245 TTCCATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAATCAATA
Found at i:7866033 original size:41 final size:41
Alignment explanation
Indices: 7865972--7866111 Score: 147
Period size: 41 Copynumber: 3.4 Consensus size: 41
7865962 TTTTTTGGGA
* *
7865972 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTATTGCTCTAGTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTAGTC
* * * * * *
7866013 TTTAGCGGTGTTTTTGAAGAAGCGTCGCGAAAGACCCAAG-C
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATG-CTCTAGTC
* * * *
7866054 ATTAGCGGCGTTTTTGAAGAATCGCCACTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTAGTC
*
7866095 TTTAGCGACGTTTTTGA
1 TTTAGCGGCGTTTTTGA
7866112 TTTAGCGGTG
Statistics
Matches: 77, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
40 3 0.04
41 70 0.91
42 4 0.05
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTAGTC
Found at i:7866484 original size:32 final size:32
Alignment explanation
Indices: 7866444--7866515 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
7866434 TCGACATTAG
*
7866444 GGGGAGAGAAATAATAACTTGTAATGAGTTAA
1 GGGGAGAGAAATAATAACTTATAATGAGTTAA
*
7866476 GGGGAGAGAAATAATAACTTATAATGAGTTAG
1 GGGGAGAGAAATAATAACTTATAATGAGTTAA
7866508 GGGGAGAG
1 GGGGAGAG
7866516 TAATTTGAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.42, C:0.03, G:0.33, T:0.22
Consensus pattern (32 bp):
GGGGAGAGAAATAATAACTTATAATGAGTTAA
Found at i:7869054 original size:16 final size:16
Alignment explanation
Indices: 7869016--7869054 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
7869006 CAAAAAAAAT
*
7869016 AAATAAAATATTCAAA
1 AAATAAAACATTCAAA
7869032 AATATAAAACATTCAAA
1 AA-ATAAAACATTCAAA
7869049 AAATAA
1 AAATAA
7869055 TCAATCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAACATTCAAA
Found at i:7874640 original size:33 final size:33
Alignment explanation
Indices: 7874578--7874640 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
7874568 CCATTTATAA
* * **
7874578 ATCTATACACTATATGCTATAAATTAATTATGT
1 ATCTATAAACTATATACTATAAACGAATTATGT
*
7874611 ATCTATAAACTATATATTATAAACGAATTA
1 ATCTATAAACTATATACTATAAACGAATTA
7874641 CAAGGTAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (33 bp):
ATCTATAAACTATATACTATAAACGAATTATGT
Found at i:7876250 original size:60 final size:60
Alignment explanation
Indices: 7876125--7876250 Score: 137
Period size: 60 Copynumber: 2.1 Consensus size: 60
7876115 GAAATAAGTA
* * * * * ***
7876125 AATGATGATCTTTGTAAGAATAGATATATGTAGTGAACACTTCAATGAAGGGGTTCATTTG
1 AATGATGAACTTTGAAAGAATAGATATA-GTAATGAACACTCCAATGAAGGGATTCACCCG
* *
7876186 AATGATTGAACTTTGAAAGAATAGATATA-TAATGAACTCTCCGATGAAGGGATTCACCCG
1 AATGA-TGAACTTTGAAAGAATAGATATAGTAATGAACACTCCAATGAAGGGATTCACCCG
7876246 AATGA
1 AATGA
7876251 GTTGTTGGAC
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
60 28 0.52
61 5 0.09
62 21 0.39
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.30
Consensus pattern (60 bp):
AATGATGAACTTTGAAAGAATAGATATAGTAATGAACACTCCAATGAAGGGATTCACCCG
Found at i:7880205 original size:10 final size:10
Alignment explanation
Indices: 7880190--7880251 Score: 61
Period size: 10 Copynumber: 5.8 Consensus size: 10
7880180 TTTTTATCAT
7880190 AAAAATTATA
1 AAAAATTATA
7880200 AAAAATTAGATA
1 AAAAATT--ATA
*
7880212 AAAAGTTATAA
1 AAAAATTAT-A
*
7880223 AAAAATTAGA
1 AAAAATTATA
*
7880233 AAACATTATTA
1 AAAAATTA-TA
7880244 AAAAATTA
1 AAAAATTA
7880252 AATATTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
10 17 0.40
11 16 0.38
12 9 0.21
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (10 bp):
AAAAATTATA
Found at i:7880220 original size:22 final size:21
Alignment explanation
Indices: 7880188--7880251 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
7880178 TATTTTTATC
7880188 ATAAAAATTATAAAAAATTAG
1 ATAAAAATTATAAAAAATTAG
7880209 ATAAAAAGTTATAAAAAAATTAG
1 ATAAAAA-TTAT-AAAAAATTAG
*
7880232 A-AAACATTATTAAAAAATTA
1 ATAAAAATTA-TAAAAAATTA
7880252 AATATTAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
21 19 0.49
22 9 0.23
23 11 0.28
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (21 bp):
ATAAAAATTATAAAAAATTAG
Found at i:7881374 original size:18 final size:19
Alignment explanation
Indices: 7881340--7881401 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
7881330 NNNNNNNNNN
* *
7881340 TAATTTTTATATTTTTTGA
1 TAATTTTTATATATTTTAA
*
7881359 TTATTTTT-TATATTTTAA
1 TAATTTTTATATATTTTAA
*
7881377 TAATTTTTGTGAT-TTTTAA
1 TAATTTTTAT-ATATTTTAA
7881396 TAATTT
1 TAATTT
7881402 GTATGATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 15 0.41
19 20 0.54
20 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TAATTTTTATATATTTTAA
Found at i:7881408 original size:19 final size:19
Alignment explanation
Indices: 7881371--7881408 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7881361 ATTTTTTATA
* *
7881371 TTTTAATAATTTTTGTGAT
1 TTTTAATAATTTGTATGAT
7881390 TTTTAATAATTTGTATGAT
1 TTTTAATAATTTGTATGAT
7881409 AAAAATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (19 bp):
TTTTAATAATTTGTATGAT
Found at i:7881499 original size:16 final size:19
Alignment explanation
Indices: 7881478--7881514 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
7881468 ATCAATAACG
7881478 AAAATT-ATT-AAT-GAGA
1 AAAATTAATTGAATAGAGA
7881494 AAAATTAATTGAATAGAGA
1 AAAATTAATTGAATAGAGA
7881513 AA
1 AA
7881515 CTTAATGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
17 3 0.17
18 3 0.17
19 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (19 bp):
AAAATTAATTGAATAGAGA
Found at i:7899916 original size:17 final size:19
Alignment explanation
Indices: 7899894--7899930 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7899884 CCGAGGTCAG
7899894 TTGATTTT-T-ATAATTTA
1 TTGATTTTATAATAATTTA
7899911 TTGATTTTATAATAATTTA
1 TTGATTTTATAATAATTTA
7899930 T
1 T
7899931 ACTTAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 1 0.06
19 9 0.50
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTGATTTTATAATAATTTA
Found at i:7920470 original size:20 final size:20
Alignment explanation
Indices: 7920447--7920488 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
7920437 TTCTTTCTTG
*
7920447 TTTT-GTATTTTTATCATTTA
1 TTTTAGTATATTTAT-ATTTA
*
7920467 TTTTATTATATTTATATTTA
1 TTTTAGTATATTTATATTTA
7920487 TT
1 TT
7920489 CTTTAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTAGTATATTTATATTTA
Found at i:7920486 original size:15 final size:16
Alignment explanation
Indices: 7920452--7920488 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
7920442 TCTTGTTTTG
7920452 TATTT-TTATCATTTA
1 TATTTATTATCATTTA
7920467 T-TTTATTAT-ATTTA
1 TATTTATTATCATTTA
7920481 TATTTATT
1 TATTTATT
7920489 CTTTAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTATTATCATTTA
Found at i:7924831 original size:9 final size:9
Alignment explanation
Indices: 7924817--7924905 Score: 54
Period size: 10 Copynumber: 9.2 Consensus size: 9
7924807 CGTGTGTATA
7924817 TATAATTTT
1 TATAATTTT
7924826 TATAATTTT
1 TATAATTTT
* *
7924835 TAAAACTTT
1 TATAATTTT
*
7924844 TAAAAGTTATT
1 TATAA-TT-TT
7924855 TA-AATTTTCT
1 TATAA-TTT-T
*
7924865 TATAATTCAT
1 TATAATT-TT
*
7924875 AATAATTTT
1 TATAATTTT
*
7924884 TAAATATTTT
1 TATA-ATTTT
7924894 TATAATTATT
1 TATAATT-TT
7924904 TA
1 TA
7924906 AGAAACCACT
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
9 28 0.44
10 29 0.46
11 6 0.10
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.56
Consensus pattern (9 bp):
TATAATTTT
Found at i:7925839 original size:31 final size:29
Alignment explanation
Indices: 7925783--7925858 Score: 107
Period size: 31 Copynumber: 2.6 Consensus size: 29
7925773 AAGCACAAAC
**
7925783 TCATAATATAAATAAATCGTCACCAAAAG
1 TCATAATATAAATAAAAAGTCACCAAAAG
7925812 TCATAATATAAATATTAAAAGTCACCAAAAG
1 TCATAATATAAATA--AAAAGTCACCAAAAG
*
7925843 TCATAATGTAAATAAA
1 TCATAATATAAATAAA
7925859 GTAACAAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 16 0.38
31 26 0.62
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (29 bp):
TCATAATATAAATAAAAAGTCACCAAAAG
Found at i:7927337 original size:6 final size:6
Alignment explanation
Indices: 7927324--7927355 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
7927314 GAAATATAAA
7927324 TTTA-T TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
7927356 TTCCTTCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:7953018 original size:9 final size:9
Alignment explanation
Indices: 7953006--7953032 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
7952996 TTTAATTAAT
7953006 TTTTTAAAA
1 TTTTTAAAA
7953015 TTTTTAAAA
1 TTTTTAAAA
7953024 TTTTTAAAA
1 TTTTTAAAA
7953033 ATTAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:7953018 original size:10 final size:10
Alignment explanation
Indices: 7953003--7953035 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
7952993 AAATTTAATT
7953003 AATTTTTTAA
1 AATTTTTTAA
7953013 AA-TTTTTAA
1 AATTTTTTAA
*
7953022 AATTTTTAAA
1 AATTTTTTAA
7953032 AATT
1 AATT
7953036 AAAATTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:7955161 original size:20 final size:20
Alignment explanation
Indices: 7955133--7955171 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7955123 ATAAAATTTA
7955133 TTTAGAATATATAAACTATAT
1 TTTAGAATATATAAA-TATAT
*
7955154 TTTA-AATATTTAAATATA
1 TTTAGAATATATAAATATA
7955172 ACCATTGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTAGAATATATAAATATAT
Found at i:7961649 original size:118 final size:119
Alignment explanation
Indices: 7961483--7961721 Score: 471
Period size: 118 Copynumber: 2.0 Consensus size: 119
7961473 ACAATAACGT
7961483 AAGTGACTAAAACATAACATTTCAAACATAAGTGACTAAAATATAATCCGAAGCAAACAAAAACG
1 AAGTGACTAAAACATAACATTTCAAACATAAGTGACTAAAATATAATCCGAAGCAAACAAAAACG
7961548 ACCACTTTTGTAGTTTACCCTTTATTTTTTAAAATTAGTTTTCTGTTGCAACCA
66 ACCACTTTTGTAGTTTACCCTTTATTTTTTAAAATTAGTTTTCTGTTGCAACCA
7961602 AAGTGACT-AAACATAACATTTCAAACATAAGTGACTAAAATATAATCCGAAGCAAACAAAAACG
1 AAGTGACTAAAACATAACATTTCAAACATAAGTGACTAAAATATAATCCGAAGCAAACAAAAACG
7961666 ACCACTTTTGTAGTTTACCCTTTATTTTTTAAAATTAGTTTTCTGTTGCAACCA
66 ACCACTTTTGTAGTTTACCCTTTATTTTTTAAAATTAGTTTTCTGTTGCAACCA
7961720 AA
1 AA
7961722 TGGTCGGAAA
Statistics
Matches: 120, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
118 112 0.93
119 8 0.07
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.32
Consensus pattern (119 bp):
AAGTGACTAAAACATAACATTTCAAACATAAGTGACTAAAATATAATCCGAAGCAAACAAAAACG
ACCACTTTTGTAGTTTACCCTTTATTTTTTAAAATTAGTTTTCTGTTGCAACCA
Found at i:7962824 original size:17 final size:17
Alignment explanation
Indices: 7962802--7962860 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
7962792 CTATATATAA
7962802 TAAAAATAATAAAATAT
1 TAAAAATAATAAAATAT
**
7962819 TAAAAATACAT-TTATAT
1 TAAAAATA-ATAAAATAT
*
7962836 T--AAGTAATAAAATAT
1 TAAAAATAATAAAATAT
7962851 TAAAAATAAT
1 TAAAAATAAT
7962861 GTTACTATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
14 2 0.06
15 9 0.28
17 19 0.59
18 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
TAAAAATAATAAAATAT
Found at i:7965286 original size:17 final size:17
Alignment explanation
Indices: 7965264--7965322 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
7965254 CTATATATAA
7965264 TAAAAATAATAAAATAT
1 TAAAAATAATAAAATAT
**
7965281 TAAAAATACAT-TTATAT
1 TAAAAATA-ATAAAATAT
*
7965298 T--AAGTAATAAAATAT
1 TAAAAATAATAAAATAT
7965313 TAAAAATAAT
1 TAAAAATAAT
7965323 GTTACTATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
14 2 0.06
15 9 0.28
17 19 0.59
18 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
TAAAAATAATAAAATAT
Found at i:7967306 original size:21 final size:20
Alignment explanation
Indices: 7967257--7967306 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
7967247 ATTGTAAATG
7967257 TAATATTAATTATGATTTTT
1 TAATATTAATTATGATTTTT
*
7967277 TAA-ATTTAACTTAT-TTTTATT
1 TAATA-TTAA-TTATGATTT-TT
7967298 TAATATTAA
1 TAATATTAA
7967307 ATTTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 1 0.04
20 10 0.40
21 13 0.52
22 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
TAATATTAATTATGATTTTT
Found at i:7979188 original size:21 final size:21
Alignment explanation
Indices: 7979155--7979205 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
7979145 CATTGTTTCT
** * *
7979155 AATCTCATTGCTATAGTATCC
1 AATCTCACCGCTACAGTAACC
*
7979176 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
7979197 AATCTCACC
1 AATCTCACC
7979206 ACCACCGCTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.29
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:7979957 original size:43 final size:43
Alignment explanation
Indices: 7979894--7980078 Score: 253
Period size: 43 Copynumber: 4.3 Consensus size: 43
7979884 GCGCCGCCAA
** *
7979894 AAACGCCGCTAAAGGTCATGATCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
7979937 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
7979980 AAACGCCGCTAAAGACCATGACCTTTAGCGTCGCTTTTCCCAG
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * * * **
7980023 AAACGCCGCTATAGACCATGATCTTTAGTGACGTTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
7980066 AAACGCCGCTAAA
1 AAACGCCGCTAAA
7980079 AATATAATCT
Statistics
Matches: 126, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 126 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:7986448 original size:19 final size:19
Alignment explanation
Indices: 7986422--7986468 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
7986412 CTGAAACCAA
7986422 AATTTATAATAGGCATTCT
1 AATTTATAATAGGCATTCT
*
7986441 AGTTTATAATAGGCATTCT
1 AATTTATAATAGGCATTCT
7986460 AATTTATAA
1 AATTTATAA
7986469 CAGATTCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (19 bp):
AATTTATAATAGGCATTCT
Found at i:7987446 original size:148 final size:148
Alignment explanation
Indices: 7987039--7987434 Score: 659
Period size: 148 Copynumber: 2.7 Consensus size: 148
7987029 AAACAGGTTG
* * *
7987039 AAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTT-TTAAAAACCGTCACAAAAAATTATTTTA
1 AAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTTCATAAAAA-CGCCGCAAAAAATTATTTTA
* * *
7987103 TTTGGAATAAAACGATAATGTTTTGATATGCTAAAAGGGTGCTATTTTTTTAAAGTAAAATTATT
65 TTTGGAATAAAACGACATTGTTTTGCTATGCTAAAAGGGTGCTATTTTTTTAAAGTAAAATTATT
*
7987168 ATTTGTGGCGTTTTTTATA
130 ATTTGTGACGTTTTTTATA
* * *
7987187 AAAACGCCGCTATTGCTTTCCTTTTGCGGCGTTTTTCAAAAAAACGCCGCAAAAAATTATTTCAT
1 AAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTTCATAAAAACGCCGCAAAAAATTATTTTAT
7987252 TTGGAATAAAACGACATTGTTTTGCTATGCTAAAAGGGTGCTATTTTTTTAAAGTAAAATTATTA
66 TTGGAATAAAACGACATTGTTTTGCTATGCTAAAAGGGTGCTATTTTTTTAAAGTAAAATTATTA
7987317 TTTGTGACGTTTTTTATA
131 TTTGTGACGTTTTTTATA
*
7987335 AAAACGCCGCTATTGCTTACCTTTTGCGTCGTTTTTCATAAAAACGCCGCAAAAAATTATTTTAT
1 AAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTTCATAAAAACGCCGCAAAAAATTATTTTAT
* *
7987400 TTGGAATAAAATGACATTGTTTTGCTATACTAAAA
66 TTGGAATAAAACGACATTGTTTTGCTATGCTAAAA
7987435 ATCTTTTATT
Statistics
Matches: 231, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
148 226 0.98
149 5 0.02
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (148 bp):
AAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTTCATAAAAACGCCGCAAAAAATTATTTTAT
TTGGAATAAAACGACATTGTTTTGCTATGCTAAAAGGGTGCTATTTTTTTAAAGTAAAATTATTA
TTTGTGACGTTTTTTATA
Found at i:7988253 original size:89 final size:90
Alignment explanation
Indices: 7988118--7988368 Score: 316
Period size: 89 Copynumber: 2.8 Consensus size: 90
7988108 ACCAACTATT
* * *
7988118 AACCCCAAACCCCAAACCCCTAAACCTTA-TTAATATACAAATTTAAAAACACTAATTAATCTAA
1 AACCCCAAACCCCTAACCCCTAAACATTATTTAATATATAAATTTAAAAACACTAATTAATCTAA
*
7988182 ATCCCAAACT-CT-AACCCGACCCC
66 ATCCCAAACTCCTAAACCCGAACCC
* * * *
7988205 AAATCCCTAACCCCTAACCCCCAAACATTATTTAATATATAAATTTAAAAACTCTAATTAATCTA
1 -AACCCCAAACCCCTAACCCCTAAACATTATTTAATATATAAATTTAAAAACACTAATTAATCTA
* *
7988270 AATCCTAAA-TCCTAAACCCTAACCC
65 AATCCCAAACTCCTAAACCCGAACCC
* * *
7988295 GACCCCAAATCCCTAACCCCTAAACATTATTTAATATATAAA-TTAAAACACACTAATTAATTTA
1 AACCCCAAACCCCTAACCCCTAAACATTATTTAATATATAAATTTAAAA-ACACTAATTAATCTA
7988359 AA-CCCTAAAC
65 AATCCC-AAAC
7988369 CTTAACTTGA
Statistics
Matches: 139, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
88 33 0.24
89 97 0.70
90 9 0.06
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.25
Consensus pattern (90 bp):
AACCCCAAACCCCTAACCCCTAAACATTATTTAATATATAAATTTAAAAACACTAATTAATCTAA
ATCCCAAACTCCTAAACCCGAACCC
Found at i:7988398 original size:89 final size:88
Alignment explanation
Indices: 7988132--7988399 Score: 285
Period size: 89 Copynumber: 3.0 Consensus size: 88
7988122 CCAAACCCCA
* *
7988132 AACCCCTAAACCTTA-TTAATATACAAATTTAAAAACACTAATTAATCTAAATCCC-AAA-CTCT
1 AACCCCTAAACATTATTTAATATATAAATTTAAAAACACTAATTAATCTAAA-CCCTAAACCT-T
* * * *
7988194 AACCCGACCCCAAATCCCTAACCCCT
64 AACCTGA-CCCGAATCCATAAACCCT
* * * *
7988220 AACCCCCAAACATTATTTAATATATAAATTTAAAAACTCTAATTAATCTAAATCCTAAATCCTAA
1 AACCCCTAAACATTATTTAATATATAAATTTAAAAACACTAATTAATCTAAACCCTAAA-CCTTA
* ** *
7988285 ACCCTAACCCGACCCCA-AATCCCT
65 A-CCTGACCCGAATCCATAAACCCT
*
7988309 AACCCCTAAACATTATTTAATATATAAA-TTAAAACACACTAATTAATTTAAACCCTAAACCTTA
1 AACCCCTAAACATTATTTAATATATAAATTTAAAA-ACACTAATTAATCTAAACCCTAAACCTTA
* *
7988373 ACTTGACACCGAATCAATAAACCCT
65 ACCTGAC-CCGAATCCATAAACCCT
7988398 AA
1 AA
7988400 ATCCCTAACT
Statistics
Matches: 148, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
87 4 0.03
88 32 0.22
89 99 0.67
90 8 0.05
91 5 0.03
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.26
Consensus pattern (88 bp):
AACCCCTAAACATTATTTAATATATAAATTTAAAAACACTAATTAATCTAAACCCTAAACCTTAA
CCTGACCCGAATCCATAAACCCT
Found at i:7988486 original size:14 final size:15
Alignment explanation
Indices: 7988469--7988501 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
7988459 TTTAAATCAG
7988469 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
7988483 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
7988498 AATC
1 AATC
7988502 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:7988970 original size:41 final size:42
Alignment explanation
Indices: 7988911--7989023 Score: 151
Period size: 41 Copynumber: 2.7 Consensus size: 42
7988901 AATTGTTTTT
*
7988911 GCGGCGCTTTTCAAAAAACGCCGCTAAAGCCTC-GAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCTCTGAGCATTA
*** *
7988952 GCGGCG-TTTCTTGGAAAACGCCGCTAAAG-ATCTGAGCATTA
1 GCGGCGCTTT-TCCAAAAACGCCGCTAAAGCCTCTGAGCATTA
7988993 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCC
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCC
7989024 CCGAAAGGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
40 5 0.08
41 52 0.87
42 3 0.05
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.20
Consensus pattern (42 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCTCTGAGCATTA
Found at i:8004482 original size:12 final size:12
Alignment explanation
Indices: 8004465--8004489 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8004455 GGTGTTCATT
8004465 CGGTTAACCGAC
1 CGGTTAACCGAC
8004477 CGGTTAACCGAC
1 CGGTTAACCGAC
8004489 C
1 C
8004490 CGAAATAATA
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:8004803 original size:106 final size:106
Alignment explanation
Indices: 8004676--8004993 Score: 591
Period size: 106 Copynumber: 3.0 Consensus size: 106
8004666 CCGAATTAAT
* *
8004676 CGAATTAACCGAATTACCCGAATTACCCGAATTAACCGAATTACCCGAATAAACGAATTATCCGA
1 CGAATTATCCGAATTAACCGAATTACCCGAATTAACCGAATTACCCGAATAAACGAATTATCCGA
8004741 ATTAACCGAATTACCCGAATTAACCGAATTACCCAAATTGA
66 ATTAACCGAATTACCCGAATTAACCGAATTACCCAAATTGA
8004782 CGAATTATCCGAATTAACCGAATTACCCGAATTAACCGAATTACCCGAATAAACGAATTATCCGA
1 CGAATTATCCGAATTAACCGAATTACCCGAATTAACCGAATTACCCGAATAAACGAATTATCCGA
* **
8004847 ATTAACCGAATTACCCGAATTAACCGAATTACCCGAATAAA
66 ATTAACCGAATTACCCGAATTAACCGAATTACCCAAATTGA
8004888 CGAATTATCCGAATTAACCGAATTACCCGAATTAACCGAATTACCCGAATAAACGAATTATCCGA
1 CGAATTATCCGAATTAACCGAATTACCCGAATTAACCGAATTACCCGAATAAACGAATTATCCGA
8004953 ATTAACCGAATTACCCGAATTAACCGAATTACCCAAATTGA
66 ATTAACCGAATTACCCGAATTAACCGAATTACCCAAATTGA
8004994 ATCACTACAT
Statistics
Matches: 204, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 204 1.00
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (106 bp):
CGAATTATCCGAATTAACCGAATTACCCGAATTAACCGAATTACCCGAATAAACGAATTATCCGA
ATTAACCGAATTACCCGAATTAACCGAATTACCCAAATTGA
Found at i:8004986 original size:53 final size:53
Alignment explanation
Indices: 8004660--8004983 Score: 325
Period size: 53 Copynumber: 6.1 Consensus size: 53
8004650 AAATTAACTA
* * * * *
8004660 AATTAACCGAATTAATCGAATTAACCGAATTACCCGAATTACCCGAATTAACCG
1 AATTATCCGAATTAACCGAATTACCCGAATTAACCGAATTACCCGAA-TAAACG
* * * *
8004714 AATTACCCGAA-TAAACGAATTATCCGAATTAACCGAATTACCCGAATTAACCG
1 AATTATCCGAATTAACCGAATTACCCGAATTAACCGAATTACCCGAA-TAAACG
* * * * *
8004767 AATTACCCAAATTGA-CGAATTATCCGAATTAACCGAATTACCCGAATTAACCG
1 AATTATCCGAATTAACCGAATTACCCGAATTAACCGAATTACCCGAA-TAAACG
* * * *
8004820 AATTACCCGAA-TAAACGAATTATCCGAATTAACCGAATTACCCGAATTAACCG
1 AATTATCCGAATTAACCGAATTACCCGAATTAACCGAATTACCCGAA-TAAACG
* * * *
8004873 AATTACCCGAA-TAAACGAATTATCCGAATTAACCGAATTACCCGAATTAACCG
1 AATTATCCGAATTAACCGAATTACCCGAATTAACCGAATTACCCGAA-TAAACG
* * * *
8004926 AATTACCCGAA-TAAACGAATTATCCGAATTAACCGAATTACCCGAATTAACCG
1 AATTATCCGAATTAACCGAATTACCCGAATTAACCGAATTACCCGAA-TAAACG
8004979 AATTA
1 AATTA
8004984 CCCAAATTGA
Statistics
Matches: 260, Mismatches: 8, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
52 2 0.01
53 246 0.95
54 12 0.05
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.23
Consensus pattern (53 bp):
AATTATCCGAATTAACCGAATTACCCGAATTAACCGAATTACCCGAATAAACG
Found at i:8004991 original size:9 final size:9
Alignment explanation
Indices: 8004660--8004983 Score: 397
Period size: 9 Copynumber: 36.6 Consensus size: 9
8004650 AAATTAACTA
8004660 AATTAACCG
1 AATTAACCG
*
8004669 AATTAATCG
1 AATTAACCG
8004678 AATTAACCG
1 AATTAACCG
*
8004687 AATTACCCG
1 AATTAACCG
*
8004696 AATTACCCG
1 AATTAACCG
8004705 AATTAACCG
1 AATTAACCG
*
8004714 AATTACCCG
1 AATTAACCG
*
8004723 AA-TAAACG
1 AATTAACCG
*
8004731 AATTATCCG
1 AATTAACCG
8004740 AATTAACCG
1 AATTAACCG
*
8004749 AATTACCCG
1 AATTAACCG
8004758 AATTAACCG
1 AATTAACCG
* *
8004767 AATTACCCA
1 AATTAACCG
*
8004776 AATTGA-CG
1 AATTAACCG
*
8004784 AATTATCCG
1 AATTAACCG
8004793 AATTAACCG
1 AATTAACCG
*
8004802 AATTACCCG
1 AATTAACCG
8004811 AATTAACCG
1 AATTAACCG
*
8004820 AATTACCCG
1 AATTAACCG
*
8004829 AA-TAAACG
1 AATTAACCG
*
8004837 AATTATCCG
1 AATTAACCG
8004846 AATTAACCG
1 AATTAACCG
*
8004855 AATTACCCG
1 AATTAACCG
8004864 AATTAACCG
1 AATTAACCG
*
8004873 AATTACCCG
1 AATTAACCG
*
8004882 AA-TAAACG
1 AATTAACCG
*
8004890 AATTATCCG
1 AATTAACCG
8004899 AATTAACCG
1 AATTAACCG
*
8004908 AATTACCCG
1 AATTAACCG
8004917 AATTAACCG
1 AATTAACCG
*
8004926 AATTACCCG
1 AATTAACCG
*
8004935 AA-TAAACG
1 AATTAACCG
*
8004943 AATTATCCG
1 AATTAACCG
8004952 AATTAACCG
1 AATTAACCG
*
8004961 AATTACCCG
1 AATTAACCG
8004970 AATTAACCG
1 AATTAACCG
8004979 AATTA
1 AATTA
8004984 CCCAAATTGA
Statistics
Matches: 264, Mismatches: 46, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
8 29 0.11
9 235 0.89
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:8005138 original size:18 final size:18
Alignment explanation
Indices: 8005098--8005141 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8005088 TAATTTTATG
**
8005098 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
8005116 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
8005134 CTTGGGTT
1 ATTGGGTT
8005142 TAGGTGAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:8012464 original size:15 final size:14
Alignment explanation
Indices: 8012431--8012464 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8012421 TTTAGAACTT
*
8012431 TAATTATTTAATTA
1 TAATTATTTAATAA
8012445 TAATTATTTAAATAA
1 TAATTATTT-AATAA
8012460 TAATT
1 TAATT
8012465 TGAAAATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATTATTTAATAA
Found at i:8022244 original size:3 final size:3
Alignment explanation
Indices: 8022236--8022290 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
8022226 AAATCTATCC
8022236 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8022284 TAT TAT T
1 TAT TAT T
8022291 TAACTAATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Done.