Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 106 of 328
Found at i:29598457 original size:27 final size:27
Alignment explanation
Indices: 29598330--29598470 Score: 155
Period size: 27 Copynumber: 5.2 Consensus size: 27
29598320 GTGACGAAGT
* *
29598330 CACCAGATACAGATAT-TCTGACAGAGC
1 CACCAGAT-CAGATATATGTGGCAGAGC
*
29598357 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATATATGTGGCAGAGC
* *
29598384 CACCAGATCAGATA-ATTGTGGCATAAC
1 CACCAGATCAGATATA-TGTGGCAGAGC
29598411 CACCAAGA-CAGATATATGTGGCAGAGC
1 CACC-AGATCAGATATATGTGGCAGAGC
* *
29598438 CACCAGATCAAATA-ATTGTGGCATAGC
1 CACCAGATCAGATATA-TGTGGCAGAGC
29598465 CACCAG
1 CACCAG
29598471 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
26 12 0.12
27 82 0.84
28 4 0.04
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (27 bp):
CACCAGATCAGATATATGTGGCAGAGC
Found at i:29604820 original size:27 final size:28
Alignment explanation
Indices: 29604764--29604833 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
29604754 AAATTTGTAC
29604764 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
29604792 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
29604819 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
29604834 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:29611742 original size:7 final size:7
Alignment explanation
Indices: 29611730--29611754 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29611720 GTTGTCTTCT
29611730 TGTTTGA
1 TGTTTGA
29611737 TGTTTGA
1 TGTTTGA
29611744 TGTTTGA
1 TGTTTGA
29611751 TGTT
1 TGTT
29611755 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:29612681 original size:27 final size:28
Alignment explanation
Indices: 29612625--29612694 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
29612615 AAATTTGTAC
29612625 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
29612653 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
29612680 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
29612695 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:29616261 original size:27 final size:27
Alignment explanation
Indices: 29616213--29616317 Score: 142
Period size: 27 Copynumber: 3.9 Consensus size: 27
29616203 GCGAGGCTGC
* * *
29616213 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCATAGCCACCAGATA
29616240 CAGATATTGTGGCATAGCCACCAGA-A
1 CAGATATTGTGGCATAGCCACCAGATA
*
29616266 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCATAGCCACCAGATA
29616293 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCATAGCCACCAG
29616318 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
26 8 0.11
27 60 0.86
28 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCATAGCCACCAGATA
Found at i:29616303 original size:54 final size:53
Alignment explanation
Indices: 29616213--29616317 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 53
29616203 GCGAGGCTGC
*
29616213 CAGATATTGTGACAAAGTCACCAGATACAGATATTGTGGCATAGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGATACAGATATTGTGGCATAGCCACCAGAA
* *
29616266 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAG
1 CAGATAT-TGTGACAAAGCCACCAGATACAGAT-ATTGTGGCATAGCCACCAG
29616318 GACGCTTCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
53 12 0.26
54 35 0.74
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (53 bp):
CAGATATTGTGACAAAGCCACCAGATACAGATATTGTGGCATAGCCACCAGAA
Found at i:29619696 original size:27 final size:27
Alignment explanation
Indices: 29619662--29620001 Score: 414
Period size: 27 Copynumber: 12.6 Consensus size: 27
29619652 AAAGTACTCC
*
29619662 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
29619689 C-AGGTTATAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
29619716 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
29619743 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
29619770 C-AGTTTACAGAATTACTATTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
29619797 CGATTTACAGAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
29619824 CAATTTACATAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
29619851 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
29619878 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
29619905 CAATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
29619932 CGATTTATAGAATTACTGTTTCACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
29619959 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
29619986 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
29620002 TAAAATACCC
Statistics
Matches: 270, Mismatches: 39, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 266 0.99
28 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:29620039 original size:81 final size:80
Alignment explanation
Indices: 29619693--29620045 Score: 228
Period size: 81 Copynumber: 4.3 Consensus size: 80
29619683 TACCCTCAGG
* ** * * *
29619693 TTATAGAATTACC-ATTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAAAATT
1 TTATAGAATTACCGA--ATACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATT
****
29619757 ACCGTTTTACCCTC-AGT
64 ACCAAAATACCCTCGA-T
* * * * * * *
29619774 TTACAGAATTA-CTATTTTACCATCGATTTACAGAATTACCGTTTTACCCCCAATTTACATAATT
1 TTATAGAATTACCGA--ATACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATT
*****
29619838 ACTGTTTTACCCTCGAT
64 ACCAAAATACCCTCGAT
* * * ** *
29619855 TTACATAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTACAGAATTA
1 TTATAGAATTACCG-AATACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTA
***
29619920 CCATTTTACCCTCGAT
65 CCAAAATACCCTCGAT
* ** * *
29619936 TTATAGAATTACTGTTTCACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTA
1 TTATAGAATTACCGAAT-ACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTA
* * *
29620001 CTAAAATACCCTTGGT
65 CCAAAATACCCTCGAT
* *
29620017 TTGT-GAAATTACCGCAATACCCTCAATTT
1 TTATAG-AATTACCG-AATACCCTCGATTT
29620046 GTAAAACTAC
Statistics
Matches: 228, Mismatches: 37, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
80 5 0.02
81 220 0.96
82 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (80 bp):
TTATAGAATTACCGAATACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTAC
CAAAATACCCTCGAT
Found at i:29621341 original size:9 final size:9
Alignment explanation
Indices: 29621329--29621405 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
29621319 TTTGATAAAC
29621329 ATGATATGT
1 ATGATATGT
*
29621338 ATGATATGCAC
1 ATGATATG--T
*
29621349 ATGACATGT
1 ATGATATGT
*
29621358 ATGATATGCAC
1 ATGATATG--T
*
29621369 ATGACATGT
1 ATGATATGT
*
29621378 ATGATATGCAC
1 ATGATATG--T
29621389 ATGATATGT
1 ATGATATGT
29621398 ATGATATG
1 ATGATATG
29621406 CACACGAGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (9 bp):
ATGATATGT
Found at i:29621417 original size:20 final size:20
Alignment explanation
Indices: 29621327--29621409 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
29621317 ATTTTGATAA
*
29621327 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
29621347 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
29621367 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
29621387 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
29621407 ACA
1 ACA
29621410 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:29621524 original size:24 final size:24
Alignment explanation
Indices: 29621464--29621653 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
29621454 GAGGAAGTGA
29621464 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
29621487 TAAAGGGCTGATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
29621511 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
29621535 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
29621559 AAAAGGGCTTACGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
29621583 -AAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
29621606 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
29621630 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
29621654 ATGATAAAGC
Statistics
Matches: 152, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
23 42 0.28
24 99 0.65
25 11 0.07
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:29621533 original size:47 final size:47
Alignment explanation
Indices: 29621464--29621632 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
29621454 GAGGAAGTGA
*
29621464 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTGATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
29621511 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* * *
29621559 AAAAGGGCTTACGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
29621606 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
29621633 AGAGGCTAGG
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
47 69 0.61
48 44 0.39
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:29621587 original size:71 final size:71
Alignment explanation
Indices: 29621463--29621653 Score: 278
Period size: 71 Copynumber: 2.7 Consensus size: 71
29621453 GGAGGAAGTG
* * *
29621463 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTGATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
29621528 AGTTAT
66 AGTTAT
*
29621534 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATC-AAAGGGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
29621598 CAGTTAT
65 CAGTTAT
* *
29621605 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
29621654 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
71 76 0.70
72 33 0.30
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:29638341 original size:19 final size:19
Alignment explanation
Indices: 29638317--29638370 Score: 94
Period size: 17 Copynumber: 2.9 Consensus size: 19
29638307 ATAATCTTCA
29638317 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
29638336 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
29638353 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
29638371 AGATATGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 17 0.52
19 16 0.48
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:29638360 original size:22 final size:19
Alignment explanation
Indices: 29638332--29638379 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
29638322 ATGCAATCTT
29638332 AGATATGATACAATCTTAGA
1 AGATATGAT-CAATCTTAGA
29638352 TATGATATG--CAATCTTAGA
1 -A-GATATGATCAATCTTAGA
29638371 AGATATGAT
1 AGATATGAT
29638380 TTTGTAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 10 0.42
21 1 0.04
22 6 0.25
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (19 bp):
AGATATGATCAATCTTAGA
Found at i:29638396 original size:22 final size:22
Alignment explanation
Indices: 29638317--29638393 Score: 71
Period size: 17 Copynumber: 3.8 Consensus size: 22
29638307 ATAATCTTCA
29638317 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
29638336 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
29638353 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
29638375 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
29638394 GATTTAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
17 17 0.34
19 13 0.26
22 8 0.16
23 12 0.24
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:29638681 original size:17 final size:17
Alignment explanation
Indices: 29638659--29638694 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
29638649 CATGTTTCCC
29638659 TAATTTTTT-ATATATTT
1 TAATTTTTTAATA-ATTT
29638676 TAATTTTTTAATAATTT
1 TAATTTTTTAATAATTT
29638693 TA
1 TA
29638695 GTATCATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TAATTTTTTAATAATTT
Found at i:29642363 original size:18 final size:19
Alignment explanation
Indices: 29642319--29642363 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
29642309 TTTAGAGGAA
*
29642319 TCTCAGGATTTTGATGATG
1 TCTCAGGATTGTGATGATG
29642338 TCT-AGGATTGTGATG-TG
1 TCTCAGGATTGTGATGATG
*
29642355 TCTCCGGAT
1 TCTCAGGAT
29642364 CTGTTGAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.22
18 15 0.65
19 3 0.13
ACGTcount: A:0.18, C:0.13, G:0.29, T:0.40
Consensus pattern (19 bp):
TCTCAGGATTGTGATGATG
Found at i:29646835 original size:78 final size:78
Alignment explanation
Indices: 29646739--29647263 Score: 743
Period size: 78 Copynumber: 6.8 Consensus size: 78
29646729 CAAAGAGACA
** * *
29646739 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
29646804 TCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
29646817 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
29646882 GCAGATCTAAGAT
66 GCAGATCCAAGAT
* * * *
29646895 GATTTGGCACCTCTGTATTAGATGGGGAGCAGATCGAAGACATAACAGATCTGACATTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
29646960 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
29646973 GATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
29647036 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* ** * *
29647050 GATTTGGTATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
**
29647115 GCAGATTTAAGAT
66 GCAGATCCAAGAT
* *
29647128 GATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
29647191 AGCAAATCCAAGAT
65 AGCAGATCCAAGAT
* * * * *
29647205 GATTTGGCATATCTGTATCATACGGGGAGTAGATCGAAGACATAGCAGATCTAACCTTC
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTC
29647264 GGATGTCTTC
Statistics
Matches: 398, Mismatches: 43, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
76 2 0.01
77 136 0.34
78 258 0.65
79 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:29647099 original size:155 final size:155
Alignment explanation
Indices: 29646739--29647263 Score: 775
Period size: 155 Copynumber: 3.4 Consensus size: 155
29646729 CAAAGAGACA
29646739 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
* * * **
29646804 TCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGTAGATCT
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAAGACATAACAGAT-T
*
29646869 -GACCTTCATTGAAGCAGATCTAAGAT
129 GGACCTTCATTGAAGCAGATCCAAGAT
* ** * * * * *
29646895 GATTTGGCACCTCTGTATTAGATGGGGAGCAGATCGAAGACATAACAGATCTGACATTCATTGAA
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
29646960 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGACATAACAGATTGG
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGACATAACAGATTGG
29647025 ACCTTCATTGAAGCAGATCCAAGAT
131 ACCTTCATTGAAGCAGATCCAAGAT
*
29647050 GATTTGGTATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
** *
29647115 GCAGATTTAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAGACATAACAGATTGG
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGACATAACAGATTGG
*
29647180 ACCTTCATTGAAGCAAATCCAAGAT
131 ACCTTCATTGAAGCAGATCCAAGAT
* ** * * * *
29647205 GATTTGGCATATCTGTA-TCATACGGGGAGTAGATCGAAGACATAGCAGATCTAACCTTC
1 GATTTGGCATCTCCATATTC-GACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTC
29647264 GGATGTCTTC
Statistics
Matches: 332, Mismatches: 35, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
154 3 0.01
155 238 0.72
156 91 0.27
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (155 bp):
GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGACATAACAGATTGG
ACCTTCATTGAAGCAGATCCAAGAT
Found at i:29647241 original size:233 final size:234
Alignment explanation
Indices: 29646759--29647263 Score: 784
Period size: 233 Copynumber: 2.2 Consensus size: 234
29646749 CTCCATATTC
* *
29646759 GACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAATCAGATCCAAGATGATTTGG
1 GACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGG
* * *
29646824 CATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGTAGATCTGACCTTCATTGAAGCAGATC
66 CATCTCCATATTAGACGGAGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATC
* *
29646889 TAAGATGATTTGGCACCTCTGTATTAGATGGGGAGCAGATCGAAGACATAACAGATCTGACATTC
131 TAAGATGATTTGGCACCTCTGTATTAGATCGGGAGCAGATCAAAGACATAACAGATCTGACATTC
* * *
29646954 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTA
196 ATTGAAGCAAATCCAAGATGATTTGGCATATCTGTATCA
*
29646993 GAC-GGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGAAGCAGATCCAAGATGATTTG
1 GACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTG
* * *
29647056 GTATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGAT
65 GCATCTCCATATTAGACGGAGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGAT
* * *
29647121 TTAAGATGATTTGGCATCTCTGTATTAGA-CGGGAGCAGATCAAAGACATAACAGAT-TGGACCT
130 CTAAGATGATTTGGCACCTCTGTATTAGATCGGGAGCAGATCAAAGACATAACAGATCT-GACAT
29647184 TCATTGAAGCAAATCCAAGATGATTTGGCATATCTGTATCA
194 TCATTGAAGCAAATCCAAGATGATTTGGCATATCTGTATCA
* * *
29647225 TACGGGGAGTAGATCGAAGACATAGCAGATCTAACCTTC
1 GACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTC
29647264 GGATGTCTTC
Statistics
Matches: 246, Mismatches: 21, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
231 1 0.00
232 70 0.28
233 171 0.70
234 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (234 bp):
GACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGG
CATCTCCATATTAGACGGAGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATC
TAAGATGATTTGGCACCTCTGTATTAGATCGGGAGCAGATCAAAGACATAACAGATCTGACATTC
ATTGAAGCAAATCCAAGATGATTTGGCATATCTGTATCA
Found at i:29647533 original size:78 final size:77
Alignment explanation
Indices: 29647425--29647715 Score: 404
Period size: 78 Copynumber: 3.7 Consensus size: 77
29647415 CGAAGAAACA
** * * * *
29647425 GATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAGACATAGTAGACCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACGG-GAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAA
* *
29647490 CCAAATCCAAGAT
65 GCAGATCCAAGAT
* * *
29647503 GATTTGCCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAA
29647568 GCAGATCCAAGAT
65 GCAGATCCAAGAT
* * * *
29647581 GATTTGGCATCTCTGTATTAGATAGGGAGCAGATCGAAGACATAACATAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGA-CGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTTATTGA
29647645 AGCAGATCCAAGAT
64 AGCAGATCCAAGAT
29647659 GATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGACATAGCAGATCTGACCTT
1 GATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGACATAGCAGATCTGACCTT
29647716 CATGTGTTTA
Statistics
Matches: 188, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
77 31 0.16
78 155 0.82
79 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (77 bp):
GATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAAG
CAGATCCAAGAT
Found at i:29647837 original size:45 final size:44
Alignment explanation
Indices: 29647659--29647873 Score: 229
Period size: 45 Copynumber: 4.8 Consensus size: 44
29647649 GATCCAAGAT
*
29647659 GATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
29647705 GATCTGACCT-TCATGTGTTTACATC-GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGAGCAGATCGAAGATAACA
* *
29647750 AATTTGGCATCTCTGTATTAGACGGGAGCAAATC-AGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGAGCAGATCGA-AGATAACA
29647794 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAAGATAACA
*
29647839 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC
1 GATTTGGCATCTCTGTATTAGAC-GGGAGCAGATC
29647874 AAAAATAGCA
Statistics
Matches: 139, Mismatches: 22, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
43 2 0.01
44 41 0.29
45 66 0.47
46 13 0.09
47 16 0.12
48 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGATAACA
Found at i:29647914 original size:89 final size:86
Alignment explanation
Indices: 29647659--29647921 Score: 235
Period size: 89 Copynumber: 2.9 Consensus size: 86
29647649 GATCCAAGAT
* * *
29647659 GATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGTT
1 GATTTGGCATCTCTGTATTAGACGGGAGCAGATC-AA-AAATAGCAGAT-TG-CCTTCCTGAG-T
* * *
29647724 TACA-TCGAAGCAGATCCAAGATGACA
61 TGCAGT-GAAGCAGATCGAAGATAACA
* * * * * * *
29647750 AATTTGGCATCTCTGTATTAGACGGGAGCAAATCAGAGATAACAGATTTGGCATCTCTGTA-TTA
1 GATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAAATAGCAGA-TTGCCTTC-CTG-AGTT-
*
29647814 GACAG-GGAGCAGATCGAAGATAACA
62 G-CAGTGAAGCAGATCGAAGATAACA
*
29647839 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAAATAGCAGATATCGCCTTCCTGAGTTG
1 GATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCAAAAATAGCAGAT-T-GCCTTCCTGAGTTG
*
29647904 CAGTGAAGCAGATTGAAG
63 CAGTGAAGCAGATCGAAG
29647922 CCGTCAATAG
Statistics
Matches: 138, Mismatches: 23, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
88 8 0.06
89 65 0.47
90 29 0.21
91 36 0.26
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (86 bp):
GATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAAATAGCAGATTGCCTTCCTGAGTTGCAG
TGAAGCAGATCGAAGATAACA
Found at i:29648196 original size:22 final size:19
Alignment explanation
Indices: 29648170--29648217 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
29648160 ATGCAATCTT
29648170 AGATATGATACAATCTTAGA
1 AGATATGAT-CAATCTTAGA
29648190 TATGATATG--CAATCTTAGA
1 -A-GATATGATCAATCTTAGA
29648209 AGATATGAT
1 AGATATGAT
29648218 TTTGTAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 10 0.42
21 1 0.04
22 6 0.25
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (19 bp):
AGATATGATCAATCTTAGA
Found at i:29648215 original size:17 final size:19
Alignment explanation
Indices: 29648155--29648208 Score: 85
Period size: 17 Copynumber: 2.9 Consensus size: 19
29648145 ATAATCTTTA
*
29648155 ATGACATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
29648174 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
29648191 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
29648209 AGATATGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 17 0.53
19 15 0.47
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:29648234 original size:22 final size:22
Alignment explanation
Indices: 29648187--29648231 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
29648177 ATACAATCTT
29648187 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
29648209 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
29648232 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:29648521 original size:17 final size:17
Alignment explanation
Indices: 29648499--29648532 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
29648489 TGTTTCCCTG
29648499 ATTTTTT-ATATATTTTA
1 ATTTTTTAATA-ATTTTA
29648516 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
29648533 GTATCATATC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:29651425 original size:12 final size:14
Alignment explanation
Indices: 29651405--29651440 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
29651395 TACATGAAAT
29651405 TTAAATTTAAAGAA
1 TTAAATTTAAAGAA
29651419 -T-AATTT-AAGAA
1 TTAAATTTAAAGAA
29651430 TTAAATTTAAA
1 TTAAATTTAAA
29651441 ATGGTCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.26
12 6 0.32
13 6 0.32
14 2 0.11
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (14 bp):
TTAAATTTAAAGAA
Found at i:29652862 original size:29 final size:29
Alignment explanation
Indices: 29652828--29652894 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
29652818 ATAAACACCC
29652828 TAGGAGGCACCTAGAGGGCACACACAGAG
1 TAGGAGGCACCTAGAGGGCACACACAGAG
29652857 TAGGAGGCACCTAGAGGGCACACACAGAG
1 TAGGAGGCACCTAGAGGGCACACACAGAG
29652886 TAGGAGGCA
1 TAGGAGGCA
29652895 AGGAAGTACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.34, C:0.22, G:0.36, T:0.07
Consensus pattern (29 bp):
TAGGAGGCACCTAGAGGGCACACACAGAG
Found at i:29667780 original size:40 final size:39
Alignment explanation
Indices: 29667725--29667804 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
29667715 GATAAGTTGA
29667725 TTTTTGAGAATAAAAAATTTTTAGGTTG-TTTCCCTAAGT
1 TTTTTGAGAATAAAAAATTTTTAGGTTGTTTTCCC-AAGT
*
29667764 TTTTTTAGAATAAAAAATTTTTAGGTTGTTTTCCCAAGT
1 TTTTTGAGAATAAAAAATTTTTAGGTTGTTTTCCCAAGT
29667803 TT
1 TT
29667805 AGGTATTATC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 33 0.85
40 6 0.15
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (39 bp):
TTTTTGAGAATAAAAAATTTTTAGGTTGTTTTCCCAAGT
Found at i:29675288 original size:40 final size:39
Alignment explanation
Indices: 29675146--29675295 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
29675136 ACAGTAACTC
* * *
29675146 GCACGAATGCCTTCGGGA-CTCAACCCGGATTTAGTAGCTT
1 GCACGAAAGCCTTC-GGATCTTAGCCCGGATTTAGTA-CTT
* * * *
29675186 GCTCGAAAGCCTTCGGATCTTAGTCCGAATTTAGTAACTC
1 GCACGAAAGCCTTCGGATCTTAGCCCGGATTTAGT-ACTT
* * * *
29675226 GCACGTATGCCGTCGGATCTTAGTCCGGATTTAGTCACTT
1 GCACGAAAGCCTTCGGATCTTAGCCCGGATTTAGT-ACTT
29675266 AGCAC-AAAGCCTTCGGGA-CTTAGCCCGGAT
1 -GCACGAAAGCCTTC-GGATCTTAGCCCGGAT
29675296 ATCATTCGAA
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 3 0.03
40 77 0.88
41 8 0.09
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
GCACGAAAGCCTTCGGATCTTAGCCCGGATTTAGTACTT
Found at i:29680204 original size:48 final size:48
Alignment explanation
Indices: 29679875--29680206 Score: 272
Period size: 48 Copynumber: 6.9 Consensus size: 48
29679865 AATGAATTGT
* * * * *
29679875 CGATGCCATGTTCCAAACATGGTCTTACACCAGCTTACATGTCGA-GGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC-ATGGC
* * **
29679923 CGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATGGC
* * * * * * **
29679971 CAATGCCATATCCCAGACATGGTCTTAAACTGGCTCTCATGTTGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATGGC
*
29680019 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC-ATGGC
* * * * * * * * * * *
29680067 CAATGCTATATCCTAGACATGGTCTTCCATTGGCTCTCACAACATTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATGGC
* * * * * * *
29680115 TGATGCCATGTTCCAAACATGTTCTTACACTGGCTCTCATATCGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATGGC
** * *
29680163 CGACCCCATGTCCCAGACATGGTCTTACACTAACACACATATCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
29680207 CCCAAATGTC
Statistics
Matches: 218, Mismatches: 63, Indels: 6
0.76 0.22 0.02
Matches are distributed among these distances:
47 3 0.01
48 214 0.98
49 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATGGC
Found at i:29686970 original size:17 final size:17
Alignment explanation
Indices: 29686948--29687032 Score: 62
Period size: 17 Copynumber: 5.0 Consensus size: 17
29686938 CGATGTGGTG
*
29686948 TGAATGAATTATTATAT
1 TGAATGAACTATTATAT
*
29686965 TGAATGAACTGTTATAT
1 TGAATGAACTATTATAT
* * * *
29686982 TGTACGAACTGTTATGT
1 TGAATGAACTATTATAT
* * * *
29686999 GGAATAAACTGTTATTT
1 TGAATGAACTATTATAT
* *
29687016 TGCATGAACTGTTATAT
1 TGAATGAACTATTATAT
29687033 GGATATTTTA
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 54 1.00
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (17 bp):
TGAATGAACTATTATAT
Found at i:29687025 original size:34 final size:34
Alignment explanation
Indices: 29686959--29687035 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 34
29686949 GAATGAATTA
* * *
29686959 TTATATTGAATGAACTGTTATATTGTACGAACTG
1 TTATATGGAATAAACTGTTATATTGCACGAACTG
* * *
29686993 TTATGTGGAATAAACTGTTATTTTGCATGAACTG
1 TTATATGGAATAAACTGTTATATTGCACGAACTG
29687027 TTATATGGA
1 TTATATGGA
29687036 TATTTTATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (34 bp):
TTATATGGAATAAACTGTTATATTGCACGAACTG
Found at i:29687058 original size:17 final size:17
Alignment explanation
Indices: 29687036--29687099 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
29687026 GTTATATGGA
29687036 TATTTTATATGAATTAT
1 TATTTTATATGAATTAT
** **
29687053 TATTTTGCATGAGCTAT
1 TATTTTATATGAATTAT
* * *
29687070 CATTTTGTATGAATTTT
1 TATTTTATATGAATTAT
*
29687087 TATTTCATATGAA
1 TATTTTATATGAA
29687100 CAAATGTTTG
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (17 bp):
TATTTTATATGAATTAT
Found at i:29687164 original size:18 final size:18
Alignment explanation
Indices: 29687143--29687193 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
29687133 CCTCCCATTT
*
29687143 TATGAGAATTTCTTATTA
1 TATGAGAATTGCTTATTA
* * * *
29687161 TATGTGCACTGCTTATTT
1 TATGAGAATTGCTTATTA
29687179 TATGAGAATTG-TTAT
1 TATGAGAATTGCTTAT
29687194 GTCGTGTAAG
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (18 bp):
TATGAGAATTGCTTATTA
Found at i:29690487 original size:30 final size:30
Alignment explanation
Indices: 29690452--29690511 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
29690442 TCATTTTACT
29690452 ATTGAATGCTCATATTTAATTTTATTTTAA
1 ATTGAATGCTCATATTTAATTTTATTTTAA
*
29690482 ATTGAATGCTCATATTTCATTTTATTTTAA
1 ATTGAATGCTCATATTTAATTTTATTTTAA
29690512 GTTTTCTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.08, G:0.07, T:0.53
Consensus pattern (30 bp):
ATTGAATGCTCATATTTAATTTTATTTTAA
Found at i:29692431 original size:21 final size:21
Alignment explanation
Indices: 29692372--29692432 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
29692362 TCAAGCAAAC
*
29692372 AAGGGCAA-ACGCCTGTGTGG
1 AAGGGCAACACGCCCGTGTGG
**
29692392 AAGGGCAACACGCAGGTGTGG
1 AAGGGCAACACGCCCGTGTGG
29692413 AAGGGCAACACGCCCGTGTG
1 AAGGGCAACACGCCCGTGTG
29692433 TCTTCCTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 8 0.22
21 28 0.78
ACGTcount: A:0.26, C:0.23, G:0.39, T:0.11
Consensus pattern (21 bp):
AAGGGCAACACGCCCGTGTGG
Found at i:29693791 original size:48 final size:47
Alignment explanation
Indices: 29693649--29693878 Score: 176
Period size: 48 Copynumber: 4.8 Consensus size: 47
29693639 CTGCTGATTC
* * * * * * *
29693649 CATGTCCCAGACATGTTCTTACACTGGCTCACATGTCGAGGTCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGACGATG
* * * * * * * * *
29693696 CCATGT-TCGGAACATCGTCTTACACTAACTCTCATCTAAATGCCGATG
1 -CATGTCCCAG-ACATGGTCTTACACTAGCACACATATCAATGACGATG
* * * **
29693744 CAATGTCCCAAACATGGTCTTACACTAGCTCTCATAATGTA-GACGATG
1 C-ATGTCCCAGACATGGTCTTACACTAGCACACAT-ATCAATGACGATG
*
29693792 TCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGACGATG
* *
29693840 CCATGTCCCAGACATGGTCTTACACTAGCGCACGTATCA
1 -CATGTCCCAGACATGGTCTTACACTAGCACACATATCA
29693879 CCCAAATGTC
Statistics
Matches: 146, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
47 6 0.04
48 136 0.93
49 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGACGATG
Found at i:29697087 original size:110 final size:111
Alignment explanation
Indices: 29696973--29697186 Score: 304
Period size: 110 Copynumber: 1.9 Consensus size: 111
29696963 TCAATAATTT
* * ** *
29696973 TTTTTAGGTGCCACCTCTTCATATGGAGGCACAAAAATTTGTAAAAAACCATTCTTTGGCCATAG
1 TTTTTAGGTGCCACATCCTCATATGGAGGCACAAAAATTTGTAAAAAAAAATTCTTTGGCCATAA
* *
29697038 CTCCAAATGTGGCGGCACCAATGTCAATAAATT-TTTTTAAAAAAA
66 CTCCAAATGCGACGGCACCAATGTCAATAAATTCTTTTTAAAAAAA
* * * *
29697083 TTTTTGGGTGCCGCATCCTCATATGGAGGCACCAAAATTTGTAAAAAAAAATTCTTTGGTCATAA
1 TTTTTAGGTGCCACATCCTCATATGGAGGCACAAAAATTTGTAAAAAAAAATTCTTTGGCCATAA
* *
29697148 CTCCAAATGCGATGGCACCAATGTCAATAATTTCTTTTT
66 CTCCAAATGCGACGGCACCAATGTCAATAAATTCTTTTT
29697187 GGGTGCCGCC
Statistics
Matches: 90, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
110 85 0.94
111 5 0.06
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (111 bp):
TTTTTAGGTGCCACATCCTCATATGGAGGCACAAAAATTTGTAAAAAAAAATTCTTTGGCCATAA
CTCCAAATGCGACGGCACCAATGTCAATAAATTCTTTTTAAAAAAA
Found at i:29697284 original size:99 final size:95
Alignment explanation
Indices: 29697181--29697510 Score: 277
Period size: 99 Copynumber: 3.3 Consensus size: 95
29697171 TCAATAATTT
* *
29697181 CTTTTTGGGTGCCGCCTTTTCATGTGAAGGCACCAAAATTTGAAATAAAAAATTATTAATTCCAA
1 CTTTTTGGGTGCCGCCTCTTCATGTGAAGGCACCAAAA--T-CAATAAAAAATTATTAATTCCAA
* *
29697246 CACCAAATGTGGCTGCACTAGTAATTTCTTTTTA
63 CACCAAATGTGGCAGCACCAGTAATTT-TTTTTA
* ** * * * * ** *
29697280 CTTTTTTGGTGTTGCATCTTCATATGGAGGCACCAAAATCAATAAAAATATTTCCTTGGTACCAA
1 CTTTTTGGGTGCCGCCTCTTCATGTGAAGGCACCAAAATCAATAAAAA-A-TT-ATTAATTCCAA
* *
29697345 CTA-CAAATGTGGCGGCACCAGCAATTTTTTTTA
63 C-ACCAAATGTGGCAGCACCAGTAATTTTTTTTA
* * * * * **
29697378 ATTTTTCGGTGTCGCCTCTTCATGTAAAGACACCAAAATCAATAAAAAATTATTTCTCTGGTGCC
1 CTTTTTGGGTGCCGCCTCTTCATGTGAAGGCACCAAAATCAATAAAAAATTA-TT-AAT--T-CC
* * *
29697443 AACACCAAATTTGACAGCACCAATAATTTTTTTTA
61 AACACCAAATGTGGCAGCACCAGTAATTTTTTTTA
*
29697478 CTTTCTGGGTGCCGCCTCTTCATGT-AGAGGCAC
1 CTTTTTGGGTGCCGCCTCTTCATGTGA-AGGCAC
29697511 TACATTTCGT
Statistics
Matches: 183, Mismatches: 37, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
96 12 0.07
97 4 0.02
98 48 0.26
99 62 0.34
100 57 0.31
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (95 bp):
CTTTTTGGGTGCCGCCTCTTCATGTGAAGGCACCAAAATCAATAAAAAATTATTAATTCCAACAC
CAAATGTGGCAGCACCAGTAATTTTTTTTA
Found at i:29697416 original size:98 final size:100
Alignment explanation
Indices: 29697242--29697503 Score: 298
Period size: 100 Copynumber: 2.6 Consensus size: 100
29697232 ATTATTAATT
* * * * * * **
29697242 CCAACACCAAATGTGGCTGCACTAGTAATTTCTTTTTACTTTTTTGGTGTTGCATCTTCATATGG
1 CCAACACCAAATGTGGCAGCACCAGTAATTT-TTTTTACTTTTTCGGTGTCGCCTCTTCATGTAA
*
29697307 AGGCACCAAAATCAAT-AAAAA-TATTTC-CTTGGTA
65 AGACACCAAAATCAATAAAAAATTATTTCTC-TGGTA
* * *
29697341 CCAACTA-CAAATGTGGCGGCACCAGCAATTTTTTTTAATTTTTCGGTGTCGCCTCTTCATGTAA
1 CCAAC-ACCAAATGTGGCAGCACCAGTAATTTTTTTTACTTTTTCGGTGTCGCCTCTTCATGTAA
*
29697405 AGACACCAAAATCAATAAAAAATTATTTCTCTGGTG
65 AGACACCAAAATCAATAAAAAATTATTTCTCTGGTA
* * * * * *
29697441 CCAACACCAAATTTGACAGCACCAATAATTTTTTTTACTTTCTGGGTGCCGCCTCTTCATGTA
1 CCAACACCAAATGTGGCAGCACCAGTAATTTTTTTTACTTTTTCGGTGTCGCCTCTTCATGTA
29697504 GAGGCACTAC
Statistics
Matches: 137, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
98 41 0.30
99 32 0.23
100 63 0.46
101 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (100 bp):
CCAACACCAAATGTGGCAGCACCAGTAATTTTTTTTACTTTTTCGGTGTCGCCTCTTCATGTAAA
GACACCAAAATCAATAAAAAATTATTTCTCTGGTA
Found at i:29701717 original size:50 final size:51
Alignment explanation
Indices: 29701541--29701783 Score: 203
Period size: 50 Copynumber: 4.8 Consensus size: 51
29701531 GTAACTGAAG
** *
29701541 CTATCTGGTATGCATAGTAGCCTACACTTAGTA-TACACATGCGACC-AATA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-A
* * * * * *
29701591 AT-TC-GGTACACGTAGTAGCCTGCACTTATTACTACACATGTGA-TTGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAA
* * *
29701639 GT-TGTAGGGTACACATAGTAGTCTGCACTTAGTACTACACATGCGACCT-AA
1 CTATCT--GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAA
* * * *
29701690 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTATACACGTGACCTAAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AAA
* *** * *
29701742 CCATCTTAAACACATAGTAGTCTGCACATAGTACTACACATG
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG
29701784 TGTTCTCACA
Statistics
Matches: 152, Mismatches: 32, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
48 25 0.16
49 13 0.09
50 38 0.25
51 38 0.25
52 38 0.25
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (51 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAA
Found at i:29701725 original size:101 final size:99
Alignment explanation
Indices: 29701553--29701734 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 99
29701543 ATCTGGTATG
29701553 CATAGTAGCCTACACTTAGTATACACATGCGACCAATAATTCGGTACACGTAGTAGCCTGCACTT
1 CATAGTAGCCTACACTTAGTATACACATGCGACCAATAATTCGGTACACGTAGTAGCCTGCACTT
* *
29701618 ATTACTACACATGTGATTGAAGTTGTAGGGTACA
66 AGTACTACACACGTGATTGAAGTTGTAGGGTACA
* *
29701652 CATAGTAGTCTGCACTTAGTACTACACATGCGACC--TAACTATCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTACACTTAGTA-TACACATGCGACCAATAA-T-TC-GGTACACGTAGTAGCCTGC
*
29701715 ACTTAGTACTATACACGTGA
62 ACTTAGTACTACACACGTGA
29701735 CCTAAAACCA
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
98 3 0.04
99 20 0.27
100 15 0.20
101 36 0.49
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (99 bp):
CATAGTAGCCTACACTTAGTATACACATGCGACCAATAATTCGGTACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATTGAAGTTGTAGGGTACA
Found at i:29712123 original size:26 final size:26
Alignment explanation
Indices: 29712087--29712170 Score: 143
Period size: 26 Copynumber: 3.2 Consensus size: 26
29712077 CATGAAATTC
29712087 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
29712113 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
29712139 TTATCAT-AGAACATTTACCTAACCTA
1 TTATCATGA-AACATTTACCTAACCCA
29712165 TTATCA
1 TTATCA
29712171 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
25 1 0.02
26 55 0.98
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:29714615 original size:20 final size:22
Alignment explanation
Indices: 29714578--29714622 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
29714568 TTAGCATGTT
* *
29714578 AAAATAATATTAACTAAAT-AC
1 AAAATAATATAAAATAAATAAC
29714599 AAAA-AATATAAAATAAATAAC
1 AAAATAATATAAAATAAATAAC
29714620 AAA
1 AAA
29714623 TCATGAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAATAATATAAAATAAATAAC
Found at i:29716547 original size:58 final size:58
Alignment explanation
Indices: 29716457--29716574 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
29716447 TTTCTACCAC
*
29716457 TCGATCTTCTTCACTAATCTCAACATTGATTTGTTAGAGTATAGGCTCTATTCGAAAA
1 TCGATCTTCTTCACTAATCTCAACATTGATTTGTTAGAGCATAGGCTCTATTCGAAAA
*
29716515 TCGATCTTCTTCACTAATCTCAACATTGATTTGTTAGAGCATAGGCTCTATTCGGAAA
1 TCGATCTTCTTCACTAATCTCAACATTGATTTGTTAGAGCATAGGCTCTATTCGAAAA
29716573 TC
1 TC
29716575 AATGAAAACT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (58 bp):
TCGATCTTCTTCACTAATCTCAACATTGATTTGTTAGAGCATAGGCTCTATTCGAAAA
Found at i:29724515 original size:10 final size:10
Alignment explanation
Indices: 29724500--29724528 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
29724490 GAGGTGGTTT
29724500 TTCATAATTC
1 TTCATAATTC
29724510 TTCATAATTC
1 TTCATAATTC
29724520 TTCATAATT
1 TTCATAATT
29724529 TTATTTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.52
Consensus pattern (10 bp):
TTCATAATTC
Found at i:29732017 original size:17 final size:19
Alignment explanation
Indices: 29731980--29732019 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
29731970 AATTTAAGTG
*
29731980 TTTTTATATTTTTTAAATA
1 TTTTTATATTGTTTAAATA
29731999 TTTTTATA-TGTTT-AATA
1 TTTTTATATTGTTTAAATA
29732016 TTTT
1 TTTT
29732020 AACAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 8 0.40
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTTATATTGTTTAAATA
Found at i:29734503 original size:31 final size:31
Alignment explanation
Indices: 29734457--29734519 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
29734447 TATGAGCATA
* * * *
29734457 CTTGCTCAAATATTACTCCTTTTACCATATG
1 CTTGCTAAAAAATTACTCATTTTACCACATG
*
29734488 CTTGCTAAAAAATTACTCATTTTGCCACATG
1 CTTGCTAAAAAATTACTCATTTTACCACATG
29734519 C
1 C
29734520 ATTTATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (31 bp):
CTTGCTAAAAAATTACTCATTTTACCACATG
Found at i:29736860 original size:40 final size:40
Alignment explanation
Indices: 29736816--29736992 Score: 309
Period size: 40 Copynumber: 4.4 Consensus size: 40
29736806 GGCTCGGATG
*
29736816 TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
*
29736856 TAATAACCCGCACGAATGCCTTCGGGACTTAGCCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
*
29736896 TAATAACCCGCACGAATGCCTTCGGGACTTACCCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
*
29736936 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCAGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
*
29736976 CAATAACCCGCACGAAT
1 TAATAACCCGCACGAAT
29736993 ACTATGCACA
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (40 bp):
TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
Found at i:29747730 original size:26 final size:26
Alignment explanation
Indices: 29747694--29747743 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
29747684 TTCAAAGCAT
*
29747694 ACACTATGGCGGCCAACTCTAAGTTG
1 ACACTATGGCGACCAACTCTAAGTTG
29747720 ACACTATGGCGACCAACTCTAAGT
1 ACACTATGGCGACCAACTCTAAGT
29747744 CATATGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (26 bp):
ACACTATGGCGACCAACTCTAAGTTG
Found at i:29751071 original size:31 final size:29
Alignment explanation
Indices: 29751005--29751071 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
29750995 GTTTTTAAGA
* *
29751005 GTCACACGCCCGTATGCGTAGGCCGTGTG
1 GTCACACACTCGTATGCGTAGGCCGTGTG
*
29751034 GTCACACACTCGTATGTGTAGGCCGTGTG
1 GTCACACACTCGTATGCGTAGGCCGTGTG
29751063 GTCACACAC
1 GTCACACAC
29751072 GACCGTGTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.18, C:0.30, G:0.30, T:0.22
Consensus pattern (29 bp):
GTCACACACTCGTATGCGTAGGCCGTGTG
Found at i:29758901 original size:21 final size:21
Alignment explanation
Indices: 29758877--29758916 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
29758867 TATAAATTAA
29758877 TTAATTAATCT-AAAAAATATT
1 TTAATTAAT-TGAAAAAATATT
29758898 TTAATTAATTGAAAAAATA
1 TTAATTAATTGAAAAAATA
29758917 CTTGTATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (21 bp):
TTAATTAATTGAAAAAATATT
Found at i:29759180 original size:86 final size:86
Alignment explanation
Indices: 29759034--29759200 Score: 298
Period size: 86 Copynumber: 1.9 Consensus size: 86
29759024 TCTATTAAAC
*
29759034 ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTAAATATTTTTACTCAATTTGATTAGG
1 ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTAAATATTTTTACTCAAATTGATTAGG
*
29759099 GTTAATAAATGGTCAACGTAG
66 GTTAATAAATAGTCAACGTAG
* *
29759120 ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTGAATATTTTTACTCAAATTGATTATG
1 ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTAAATATTTTTACTCAAATTGATTAGG
29759185 GTTAATAAATAGTCAA
66 GTTAATAAATAGTCAA
29759201 TTTAGCCACA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 77 1.00
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (86 bp):
ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTAAATATTTTTACTCAAATTGATTAGG
GTTAATAAATAGTCAACGTAG
Found at i:29761877 original size:3 final size:3
Alignment explanation
Indices: 29761869--29761908 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
29761859 GTGCATCCAT
29761869 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
29761909 CTATCGTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:29776602 original size:3 final size:3
Alignment explanation
Indices: 29776594--29776637 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
29776584 AAGGGTCAAA
* * * *
29776594 ATT ATT ATT ATT ATC ATT ACT ACT ACT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
29776638 CTTTTTTTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:29777167 original size:154 final size:153
Alignment explanation
Indices: 29776959--29777264 Score: 464
Period size: 154 Copynumber: 2.0 Consensus size: 153
29776949 GTTTTTTTTA
29776959 AAAAAGGAGATAGTTTAGATTTTAAAAATAAAATATGTTTTTTAGTCATTTTAAAGGAAAA-TTT
1 AAAAAGGAGATAGTTTAGATTTTAAAAATAAAATATGTTTTTTAGTCATTTTAAAGGAAAAGTTT
* *
29777023 AAATTTTTAAAACAAAGTTTT-ATTTTTTTTTCAACTATTTC-AAATAAAATCTTTGATTTTTAA
66 AAATTTTTAAAACAAAGTTTTGA--TCTTTTTCAACTATTTCGAAAT-AAAGCTTTGATTTTTAA
*
29777086 GAAAAGTAGTGA-TTTTTTAAAAGAG
128 GAAAAATAGTGATTTTTTTAAAAGAG
29777111 AAAAAGGA-A-AGTTTAGATTTTTAAAAATAAAAATCTAAT-TTTTTTAGTCATTTTAAAGGAAA
1 AAAAAGGAGATAGTTTAGA-TTTTAAAAAT-AAAA--T-ATGTTTTTTAGTCATTTTAAAGGAAA
29777173 AGTTTAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGCTTTGATTTTT
61 AGTTTAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGCTTTGATTTTT
29777238 AAGAAAAATAGTGATTTTTTTAAAAGA
126 AAGAAAAATAGTGATTTTTTTAAAAGA
29777265 AAACTTTAAT
Statistics
Matches: 142, Mismatches: 3, Indels: 15
0.89 0.02 0.09
Matches are distributed among these distances:
150 8 0.06
151 11 0.08
152 12 0.08
154 68 0.48
155 42 0.30
156 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (153 bp):
AAAAAGGAGATAGTTTAGATTTTAAAAATAAAATATGTTTTTTAGTCATTTTAAAGGAAAAGTTT
AAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAAGAA
AAATAGTGATTTTTTTAAAAGAG
Found at i:29778937 original size:17 final size:16
Alignment explanation
Indices: 29778915--29778974 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 16
29778905 ATAACAGATT
29778915 TAAAATATAATATATAA
1 TAAAATATAATATAT-A
*
29778932 TAAAATAT-ATATTTA
1 TAAAATATAATATATA
29778947 TAAGAATAATAAT-TATA
1 TAA-AAT-ATAATATATA
29778964 TAAAAATATAA
1 T-AAAATATAA
29778975 AAATTGGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 4 0.11
16 12 0.32
17 17 0.46
18 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAATATAATATATA
Found at i:29788724 original size:39 final size:39
Alignment explanation
Indices: 29788677--29788769 Score: 132
Period size: 39 Copynumber: 2.4 Consensus size: 39
29788667 TATATGAGAT
*
29788677 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTACATGC
* * * *
29788716 TGGAAATATATCCAGACTTGAGGTCCGCAGGTTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTACATGC
*
29788755 TGGAAAAATATCCGG
1 TGGAAATATATCCGG
29788770 GTTAAAGACC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTACATGC
Found at i:29788992 original size:2 final size:2
Alignment explanation
Indices: 29788987--29789040 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
29788977 TATATATATA
29788987 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
29789029 TG TG TG TG TG TG
1 TG TG TG TG TG TG
29789041 AATGAATTTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:29792242 original size:35 final size:35
Alignment explanation
Indices: 29792175--29792242 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
29792165 TAGGATCACG
* *
29792175 TATCTTTGAAGATCTCCTTCCATATTTTCCAAGCA
1 TATCTTTGAAGATCACCTTCCATATTTGCCAAGCA
* * *
29792210 TATCTTTGAAGATCACTTTCTATGTTTGCCAAG
1 TATCTTTGAAGATCACCTTCCATATTTGCCAAG
29792243 TTCCGAAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (35 bp):
TATCTTTGAAGATCACCTTCCATATTTGCCAAGCA
Found at i:29794749 original size:40 final size:39
Alignment explanation
Indices: 29794705--29794830 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
29794695 GGGACTCAAC
*
29794705 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
29794745 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
29794785 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
29794825 CCGGAT
1 CCGGAT
29794831 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:29794789 original size:80 final size:80
Alignment explanation
Indices: 29794644--29794830 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
29794634 GCTACACATT
* * *
29794644 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
29794708 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
29794724 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
29794787 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
29794805 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
29794831 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:29802834 original size:40 final size:39
Alignment explanation
Indices: 29802790--29802915 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
29802780 GGGACTCAAC
*
29802790 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
29802830 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
29802870 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
29802910 CCGGAT
1 CCGGAT
29802916 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:29802874 original size:80 final size:80
Alignment explanation
Indices: 29802729--29802915 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
29802719 GCTACACATT
* * *
29802729 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
29802793 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
29802809 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
29802872 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
29802890 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
29802916 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:29805548 original size:42 final size:43
Alignment explanation
Indices: 29805436--29805600 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
29805426 AACTCGTACA
* * **
29805436 ATGCCAATGTCCCAGACGTGGTCTTACATGTTATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * *
29805479 ATACCACTGTCCCAGACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * *
29805521 ATGCCAATATCCCGGACATGGTCTTACACGTATATCTCAA-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATC-AAATATCG
* ** *
29805565 ATGCCAACGTCCCAGATGTGGTCTTACACAAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
29805601 CATACCGGAA
Statistics
Matches: 95, Mismatches: 24, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
42 27 0.28
43 41 0.43
44 27 0.28
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:29805588 original size:86 final size:85
Alignment explanation
Indices: 29805436--29805605 Score: 202
Period size: 86 Copynumber: 2.0 Consensus size: 85
29805426 AACTCGTACA
* * *
29805436 ATGCCAATGTCCCAGACGTGGTCTTACATGTTATCAAATATCGATACCACTGTCCCAGACAGGGT
1 ATGCCAATATCCCAGACATGGTCTTACACGTTATCAAATATCGATACCACTGTCCCAGACAGGGT
* *
29805501 CTTACACGAAATCATATACG
66 CTTACACAAAATCACATACG
* * * *
29805521 ATGCCAATATCCCGGACATGGTCTTACACGTATATCTCAA-ATCGATGCCAAC-GTCCCAGA-TG
1 ATGCCAATATCCCAGACATGGTCTTACACGT-TATC-AAATATCGATACC-ACTGTCCCAGACAG
29805583 TGGTCTTACACAAAATCACATAC
63 -GGTCTTACACAAAATCACATAC
29805606 CGGAATCCTA
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 28 0.39
86 40 0.56
87 4 0.06
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (85 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTTATCAAATATCGATACCACTGTCCCAGACAGGGT
CTTACACAAAATCACATACG
Found at i:29807870 original size:43 final size:43
Alignment explanation
Indices: 29807807--29807922 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
29807797 TACCGTACCA
* *
29807807 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATAGCCCAGATATGGTCTTACATGTAAGTCTCATATCG
* * *
29807849 ATGCCAATAGCCTAGCTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATAGCCCAGATATGGTCTTACATGTAAGTCTCATATCG
* *
29807892 ATGCCATATCCCAGATATGGTGTTACATGTA
1 ATGCCATAGCCCAGATATGGTCTTACATGTA
29807923 TTATAATCTC
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 26 0.43
43 35 0.57
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (43 bp):
ATGCCATAGCCCAGATATGGTCTTACATGTAAGTCTCATATCG
Found at i:29810629 original size:24 final size:22
Alignment explanation
Indices: 29810602--29810649 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
29810592 GTGCTATAAA
*
29810602 AAATATTATATAATTATATATGTT
1 AAATA-TA-ATAATTATATATATT
29810626 -AA-ATAATAATTATATATATT
1 AAATATAATAATTATATATATT
29810646 AAAT
1 AAAT
29810650 CAATAACCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
20 14 0.67
21 4 0.19
22 1 0.05
23 2 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
AAATATAATAATTATATATATT
Found at i:29810634 original size:20 final size:21
Alignment explanation
Indices: 29810611--29810655 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
29810601 AAAATATTAT
*
29810611 ATAATTATATATGTTAAAT-A
1 ATAATTATATATATTAAATCA
29810631 ATAATTATATATATTAAATCA
1 ATAATTATATATATTAAATCA
29810652 ATAA
1 ATAA
29810656 CCTAATATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
ATAATTATATATATTAAATCA
Found at i:29810835 original size:40 final size:40
Alignment explanation
Indices: 29810753--29810842 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 40
29810743 TAAATTTATA
* ** *
29810753 TTTAATACAATAAAATATTTATTATATTTATTTGTGTTTT
1 TTTAATATAATAAAATATTTATTATATTTATGAGTGTGTT
29810793 TTTAATATAATAAAACT-TTTATTATATTTA-GAGTAGTGTT
1 TTTAATATAATAAAA-TATTTATTATATTTATGAGT-GTGTT
29810833 TTTAATATAA
1 TTTAATATAA
29810843 ATATTTTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
39 2 0.05
40 41 0.93
41 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (40 bp):
TTTAATATAATAAAATATTTATTATATTTATGAGTGTGTT
Found at i:29814773 original size:39 final size:39
Alignment explanation
Indices: 29814706--29814782 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
29814696 CTAACTACTC
* *** *
29814706 TAATCAAATACCAATATTTTTTACGGATACTAAAATTTT
1 TAATCAAATACAAATATTTCAAACGGATACCAAAATTTT
*
29814745 TAATCAAATACAAATATTTCAAATGGATACCAAAATTT
1 TAATCAAATACAAATATTTCAAACGGATACCAAAATTT
29814783 CTAACTAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.36
Consensus pattern (39 bp):
TAATCAAATACAAATATTTCAAACGGATACCAAAATTTT
Found at i:29814820 original size:19 final size:20
Alignment explanation
Indices: 29814771--29814818 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
29814761 TTTCAAATGG
* *
29814771 ATACCAAAATTTCTAACTAA
1 ATACTAAAATTCCTAACTAA
29814791 ATACTAAAATTCCTAA-TAA
1 ATACTAAAATTCCTAACTAA
29814810 ATACATAAA
1 ATAC-TAAA
29814819 TTTTTAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (20 bp):
ATACTAAAATTCCTAACTAA
Found at i:29814826 original size:19 final size:18
Alignment explanation
Indices: 29814732--29814827 Score: 75
Period size: 19 Copynumber: 4.9 Consensus size: 18
29814722 TTTTTTACGG
*
29814732 ATACTAAAATTTTTAATCAA
1 ATAC-AAAATTTCTAAT-AA
* **
29814752 ATACAAATATTTCAAATGG
1 ATACAAA-ATTTCTAATAA
29814771 ATACCAAAATTTCTAACTAA
1 ATA-CAAAATTTCTAA-TAA
*
29814791 ATACTAAAATTCCTAATAA
1 ATAC-AAAATTTCTAATAA
*
29814810 ATACATAAATTTTTAATA
1 ATACA-AAATTTCTAATA
29814828 GATGCCAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
18 1 0.02
19 31 0.51
20 29 0.48
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.35
Consensus pattern (18 bp):
ATACAAAATTTCTAATAA
Found at i:29814861 original size:25 final size:24
Alignment explanation
Indices: 29814816--29814863 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
29814806 ATAAATACAT
**
29814816 AAATTTTTAATAGATGCCAAAATC
1 AAATTTTTAATAGATAACAAAATC
*
29814840 AAATTTTATAATGGATAACAAAAT
1 AAATTTT-TAATAGATAACAAAAT
29814864 TATATAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (24 bp):
AAATTTTTAATAGATAACAAAATC
Found at i:29815388 original size:19 final size:20
Alignment explanation
Indices: 29815354--29815394 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
29815344 GAACTCAAAC
*
29815354 CCCTAAACTTTAAACTTGAA
1 CCCTAAACTCTAAACTTGAA
29815374 CCCTAAAC-CTAAACTTGAA
1 CCCTAAACTCTAAACTTGAA
29815393 CC
1 CC
29815395 TCGAACCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.39, C:0.32, G:0.05, T:0.24
Consensus pattern (20 bp):
CCCTAAACTCTAAACTTGAA
Found at i:29815400 original size:26 final size:26
Alignment explanation
Indices: 29815355--29815409 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
29815345 AACTCAAACC
* *
29815355 CCTAAACTTTAAACTTGAACCCTAAA
1 CCTAAACTTGAAACTCGAACCCTAAA
* *
29815381 CCTAAACTTGAACCTCGAACCTTAAA
1 CCTAAACTTGAAACTCGAACCCTAAA
29815407 CCT
1 CCT
29815410 TCAATTCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.31, G:0.05, T:0.25
Consensus pattern (26 bp):
CCTAAACTTGAAACTCGAACCCTAAA
Found at i:29815401 original size:19 final size:20
Alignment explanation
Indices: 29815330--29815407 Score: 70
Period size: 21 Copynumber: 3.9 Consensus size: 20
29815320 ATTATCCCAA
* **
29815330 AACCCTTAAACCTTGAACTCA
1 AACCC-TAAACCTTAAACTTG
*
29815351 AACCCCTAAACTTTAAACTTG
1 AA-CCCTAAACCTTAAACTTG
29815372 AACCCTAAACC-TAAACTTG
1 AACCCTAAACCTTAAACTTG
*
29815391 AA-CCTCGAACCTTAAAC
1 AACCCT-AAACCTTAAAC
29815408 CTTCAATTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
18 3 0.06
19 14 0.29
20 13 0.27
21 15 0.31
22 3 0.06
ACGTcount: A:0.40, C:0.32, G:0.05, T:0.23
Consensus pattern (20 bp):
AACCCTAAACCTTAAACTTG
Found at i:29819948 original size:113 final size:112
Alignment explanation
Indices: 29819831--29820252 Score: 400
Period size: 114 Copynumber: 3.8 Consensus size: 112
29819821 TTGTGGTGTA
* * * * *
29819831 TTTTATTAAGTTTAAGTTTATTTTAAAAGTATGATTTGTTTATTTTATTATTGTTTTTATGATAT
1 TTTTATTAAGTTTAAGTTTGTATTAAATGTATGATTAGTTTATTTTATTAATGTTTTTATG-TAT
* *
29819896 CTTATAATAGTTTTTTGTATTT-AGAAGAAAGAAT-TTTTTTTAGTTATG
65 CTTATATTAGTTTTTTGTATTTAAG-AGAAAGAATATTTTGTT-GTTATG
29819944 TTTTA-TAAGATTTAAGTTTGTATTAAATGTATGATTAGTTTATTTTATTAATGTTTTTATTGTA
1 TTTTATTAAG-TTTAAGTTTGTATTAAATGTATGATTAGTTTATTTTATTAATGTTTTTA-TGTA
* * * *
29820008 TCTTATATTAGCTTTTTTGTATTTAAGGGGAAGGATATTTTGTTGTTGTG
64 TCTTATATTAG-TTTTTTGTATTTAAGAGAAAGAATATTTTGTTGTTATG
* * * * *
29820058 TTTTATT-AGTTTTAGATTTGTATTAAATGTATGATTAATTTGTTTTATTAATATTTTTGTGGTA
1 TTTTATTAAGTTTAAG-TTTGTATTAAATGTATGATTAGTTTATTTTATTAATGTTTTTAT-GTA
* * **
29820122 TCTTATATTTGTTTTTCGTATTTAAG-GAAA-AA-A---AATTGTTATG
64 TCTTATATTAGTTTTTTGTATTTAAGAGAAAGAATATTTTGTTGTTATG
* * * * * * * *
29820165 TTTTATTAGGTTTAAGTTTGTACT-AAGGTTTGATTAATTTATTTTATTAATCTTTTTTAAGAAT
1 TTTTATTAAGTTTAAGTTTGTATTAAATGTATGATTAGTTTATTTTATTAAT-GTTTTTATGTAT
* *
29820229 CTTATA-TCGATTTTTCGTATTTAA
65 CTTATATTAG-TTTTTTGTATTTAA
29820253 TGTATAAGCA
Statistics
Matches: 264, Mismatches: 34, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
105 2 0.01
106 47 0.18
107 26 0.10
108 6 0.02
110 1 0.00
111 1 0.00
112 7 0.03
113 81 0.31
114 84 0.32
115 9 0.03
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.56
Consensus pattern (112 bp):
TTTTATTAAGTTTAAGTTTGTATTAAATGTATGATTAGTTTATTTTATTAATGTTTTTATGTATC
TTATATTAGTTTTTTGTATTTAAGAGAAAGAATATTTTGTTGTTATG
Found at i:29823244 original size:25 final size:25
Alignment explanation
Indices: 29823197--29823246 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
29823187 TGTGAGCTTG
****
29823197 TAACAGGAAGCTTATTCGGGCTTAA
1 TAACAGGAAGCTTATAAAAGCTTAA
29823222 TAACAGGAAGCTTATAAAAGCTTAA
1 TAACAGGAAGCTTATAAAAGCTTAA
29823247 ATCAGAAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (25 bp):
TAACAGGAAGCTTATAAAAGCTTAA
Found at i:29827429 original size:32 final size:29
Alignment explanation
Indices: 29827342--29827429 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 29
29827332 TAAAATACTA
29827342 TTATAAATTATATTTAATAATAA-TTATT
1 TTATAAATTATATTTAATAATAATTTATT
* * *
29827370 TTA-AAA-TATGATTAAATTAT-TTATTATT
1 TTATAAATTAT-ATTTAATAATAAT-TTATT
29827398 TATATTAAATTATATTTAATAATAATCTTATT
1 T-TA-TAAATTATATTTAATAATAAT-TTATT
29827430 AAAATTTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
26 3 0.07
27 11 0.24
28 9 0.20
29 2 0.04
31 11 0.24
32 9 0.20
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
TTATAAATTATATTTAATAATAATTTATT
Found at i:29835765 original size:57 final size:57
Alignment explanation
Indices: 29835696--29835812 Score: 234
Period size: 57 Copynumber: 2.1 Consensus size: 57
29835686 CTTTTAACGA
29835696 TGTTGTTAATGTGGAGGTTACGTGTTAAAAGATTTGGAGCTTTGAATTTTTTGACAT
1 TGTTGTTAATGTGGAGGTTACGTGTTAAAAGATTTGGAGCTTTGAATTTTTTGACAT
29835753 TGTTGTTAATGTGGAGGTTACGTGTTAAAAGATTTGGAGCTTTGAATTTTTTGACAT
1 TGTTGTTAATGTGGAGGTTACGTGTTAAAAGATTTGGAGCTTTGAATTTTTTGACAT
29835810 TGT
1 TGT
29835813 ACGGCTTCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.24, C:0.05, G:0.26, T:0.44
Consensus pattern (57 bp):
TGTTGTTAATGTGGAGGTTACGTGTTAAAAGATTTGGAGCTTTGAATTTTTTGACAT
Found at i:29837687 original size:14 final size:14
Alignment explanation
Indices: 29837665--29837696 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
29837655 AAGCCTCCCC
*
29837665 TTCATTTGTAATCA
1 TTCAATTGTAATCA
29837679 TTCAATTGTAATCA
1 TTCAATTGTAATCA
29837693 TTCA
1 TTCA
29837697 TAGTAATTTA
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:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (14 bp):
TTCAATTGTAATCA
Found at i:29840380 original size:40 final size:40
Alignment explanation
Indices: 29840090--29840373 Score: 464
Period size: 40 Copynumber: 7.1 Consensus size: 40
29840080 CCCAAGTACT
* * *
29840090 TTCGGGATTTAG-TCGGATATAG-CAACTCGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCC
*
29840129 TTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
*
29840169 TTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
* *
29840209 TTTGGGACTTAGCCTGGATATAGTCACTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
29840249 TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
*
29840289 TTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
*
29840329 TTCGGGACTTAGCCCGGATATAGTCACTAGCACCAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
29840369 TTCGG
1 TTCGG
29840374 ATCTTAGTCC
Statistics
Matches: 231, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 11 0.05
40 219 0.95
41 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
Found at i:29841772 original size:13 final size:13
Alignment explanation
Indices: 29841754--29841779 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29841744 ATTTTTATTT
29841754 TTAACATAAAATA
1 TTAACATAAAATA
29841767 TTAACATAAAATA
1 TTAACATAAAATA
29841780 ATTATAATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:29844857 original size:177 final size:177
Alignment explanation
Indices: 29844561--29844907 Score: 586
Period size: 177 Copynumber: 2.0 Consensus size: 177
29844551 AAGCTTCTAG
* * *
29844561 AATGCAAAATTTTCATCTTATTCAGTTTGGTCCCTAAAGTTCAATTAGACATTTTATGCATATAA
1 AATGCAAAATTTGCATATTATTCAGTTTGATCCCTAAAGTTCAATTAGACATTTTATGCATATAA
*
29844626 TTTCTTCACGAAACTTTCACATAAGCATGCATTCATATCATAGACCTCATAAGAATCATATAATA
66 TTTCTTCACGAAACTTTCACATAAGCATGCATTCATATCATAGAACTCATAAGAATCATATAATA
* * * *
29844691 ATTATTTATATCTCAAATTTGTTGTCTCGAAACTACTGTTCCGACTA
131 ATTATTTATATCTCAAATTTATGGTCTCAAAACCACTGTTCCGACTA
*
29844738 AATGCAAAATTTGCATATTATTCAGTTTGATCCCTAAAGTTCAATTAGACATTTTATGCATGTAA
1 AATGCAAAATTTGCATATTATTCAGTTTGATCCCTAAAGTTCAATTAGACATTTTATGCATATAA
*
29844803 TTTCTTCTCGAAACTTTCACATAAGCATGCATTCATATCATAGAACTCATAAGAATCATATAATA
66 TTTCTTCACGAAACTTTCACATAAGCATGCATTCATATCATAGAACTCATAAGAATCATATAATA
* *
29844868 ATTATTTCTATCTCGAATTTATGGTCTCAAAACCACTGTT
131 ATTATTTATATCTCAAATTTATGGTCTCAAAACCACTGTT
29844908 GATGTTACAA
Statistics
Matches: 158, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
177 158 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (177 bp):
AATGCAAAATTTGCATATTATTCAGTTTGATCCCTAAAGTTCAATTAGACATTTTATGCATATAA
TTTCTTCACGAAACTTTCACATAAGCATGCATTCATATCATAGAACTCATAAGAATCATATAATA
ATTATTTATATCTCAAATTTATGGTCTCAAAACCACTGTTCCGACTA
Found at i:29848516 original size:20 final size:20
Alignment explanation
Indices: 29848493--29848533 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
29848483 TTTTGTGTAA
29848493 GTGTAACTTGAATTGTTTAC
1 GTGTAACTTGAATTGTTTAC
29848513 GTGTAACTTGAATTGTTTAC
1 GTGTAACTTGAATTGTTTAC
29848533 G
1 G
29848534 ATTTGGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (20 bp):
GTGTAACTTGAATTGTTTAC
Found at i:29849403 original size:42 final size:42
Alignment explanation
Indices: 29849352--29849441 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
29849342 ATGTACTGGG
*
29849352 CCGTGTCCTCCACACGGCTGAGACACACGGACGTGTCTCTGC
1 CCGTGTCCTCCACACGGCTGAGACACAAGGACGTGTCTCTGC
* * *
29849394 CCGTTTCCTCCACATGGCTGAGACACAAGGCCGTGTCTCTGC
1 CCGTGTCCTCCACACGGCTGAGACACAAGGACGTGTCTCTGC
29849436 CCGTGT
1 CCGTGT
29849442 GTTTATTACC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.16, C:0.37, G:0.26, T:0.22
Consensus pattern (42 bp):
CCGTGTCCTCCACACGGCTGAGACACAAGGACGTGTCTCTGC
Found at i:29850244 original size:47 final size:47
Alignment explanation
Indices: 29850184--29850359 Score: 205
Period size: 47 Copynumber: 3.7 Consensus size: 47
29850174 TGGGTATAGT
* *
29850184 GCCGATGCCATGTCCCAGACATGGTCTTATATTGGTTCATATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCATATCTCAA
* * * **
29850231 GTCGATGCTATGTCCCTGACATGGTCTTACACTGACT-ATCATCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCAT-ATCTCA-A
* * *
29850279 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGTTCTTGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCATATCTCAA
*
29850324 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGG
29850360 CTCTCATAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 24 0.23
47 63 0.59
48 18 0.17
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.31
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCATATCTCAA
Found at i:29850353 original size:94 final size:93
Alignment explanation
Indices: 29850184--29850405 Score: 248
Period size: 94 Copynumber: 2.4 Consensus size: 93
29850174 TGGGTATAGT
* * * * * * *
29850184 GCCGATGCCATGTCCCAGACATGGTCTTATATTGGTTCATATCTCAAGTCGATGCTATGTCCCTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGTTCATATCTCAAGCCAATGCCATGTCCCAG
**
29850249 ACATGGTCTTACACTGACTATCATCTCA-TA
64 ACATGGTCTTACACTGACTATCAT-AAAGTA
* *
29850279 GCCGATGCATGTCCCAGACATGTCTTACACTAGTTCTTGTCTCAATGCCAATGCCATGTCCCAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGTTCATATCTCAA-GCCAATGCCATGTCCCAGA
* * *
29850344 CATGGTCTTACACTGGCTCTCATAAAGTG
65 CATGGTCTTACACTGACTATCATAAAGTA
* * *
29850373 GCCAATGCATGTCTCAGACATGTCTTGCACTAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG
29850406 CTCACACACA
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
93 20 0.19
94 81 0.75
95 7 0.06
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (93 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGTTCATATCTCAAGCCAATGCCATGTCCCAGAC
ATGGTCTTACACTGACTATCATAAAGTA
Found at i:29850384 original size:47 final size:44
Alignment explanation
Indices: 29850235--29850408 Score: 134
Period size: 47 Copynumber: 3.7 Consensus size: 44
29850225 TCTCAAGTCG
* * * ** *
29850235 ATGCTATGTCCCTGACATGGTCTTACACTGACTATCATCTCATAGCCG
1 ATGC-ATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-AAAT-GCCA
* * *
29850283 ATGCATGTCCCAGACATGTCTTACACTAGTTCTTGTC-TCAATGCCA
1 ATGCATGTCCCAGACATGTCTTACACT-G-GC-TCTCATAAATGCCA
29850329 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAAGTGGCCA
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAAA-T-GCCA
* * *
29850377 ATGCATGTCTCAGACATGTCTTGCACTAGCTC
1 ATGCATGTCCCAGACATGTCTTACACTGGCTC
29850409 ACACACAAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
45 3 0.03
46 33 0.31
47 44 0.42
48 23 0.22
49 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (44 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAATGCCA
Found at i:29853062 original size:13 final size:12
Alignment explanation
Indices: 29853021--29853061 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
29853011 AACAAATGGG
29853021 AAAGAAAGAAAGA
1 AAAGAAA-AAAGA
*
29853034 AAGGAGAAAAAGA
1 AAAGA-AAAAAGA
29853047 AAAGAAAAAAGA
1 AAAGAAAAAAGA
29853059 AAA
1 AAA
29853062 ATTAGGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 10 0.40
13 13 0.52
14 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAGA
Found at i:29853426 original size:22 final size:22
Alignment explanation
Indices: 29853388--29853435 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
29853378 AGAAATTAAG
29853388 TAGAAAAGAAGTATGAATTGAGT
1 TAGAAAAGAAG-ATGAATTGAGT
*
29853411 TAGAAAAGTAAG-TGAATTTAGT
1 TAGAAAAG-AAGATGAATTGAGT
29853433 TAG
1 TAG
29853436 GATTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (22 bp):
TAGAAAAGAAGATGAATTGAGT
Found at i:29856100 original size:28 final size:27
Alignment explanation
Indices: 29856068--29856148 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
29856058 TTAGAATACT
*
29856068 TTAGTTTACTAAAATTA-TCGAAATACCC
1 TTAGTTT-CTAAAAATACT-GAAATACCC
*
29856096 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTCTAAAAATACTGAAATACCC
* * *
29856123 -TCGATTTGTAAAATTACTGAAATACC
1 TTAG-TTTCTAAAAATACTGAAATACC
29856149 TTCGACTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.04
27 37 0.79
28 8 0.17
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACTGAAATACCC
Found at i:29856107 original size:27 final size:28
Alignment explanation
Indices: 29856077--29856166 Score: 107
Period size: 27 Copynumber: 3.3 Consensus size: 28
29856067 TTTAGTTTAC
29856077 TAAAATTA-TCGAAATACCCTTAG-TTTG
1 TAAAATTACT-GAAATACCCTTAGATTTG
* *
29856104 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
* *
29856131 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
29856158 TAAAATTAC
1 TAAAATTAC
29856167 CAAAGTACCC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.07
27 51 0.91
28 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (28 bp):
TAAAATTACTGAAATACCCTTAGATTTG
Found at i:29856383 original size:27 final size:27
Alignment explanation
Indices: 29856172--29856383 Score: 250
Period size: 27 Copynumber: 7.9 Consensus size: 27
29856162 ATTACCAAAG
*
29856172 TACCCCCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* * * *
29856199 TACCCCCGATTTGCATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
29856226 TACCC-CTGATTTACATAATTA-TCGTTT
1 TACCCTC-GATTTACAGAATTACT-GTTT
* *
29856253 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
29856280 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
29856307 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
29856334 TACGCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
29856361 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
29856384 AAAATACCCT
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 158 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:29856391 original size:27 final size:27
Alignment explanation
Indices: 29856280--29856584 Score: 120
Period size: 27 Copynumber: 11.2 Consensus size: 27
29856270 ATTACCGTTT
* ***
29856280 TACCCTCGATTTACAGAATTAC-AGTTT
1 TACCCTCGATTTACAAAATTACTA-AAA
* * ***
29856307 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * * ****
29856334 TACGCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
29856361 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
29856388 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* **
29856415 TACCC-CTATTTTGTAAAATTA-TCAAAA
1 TACCCTCGA-TTTACAAAATTACT-AAAA
* * *** **
29856442 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * *
29856469 TACCCTCAATTTATAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* *
29856496 TACCCTTGATTTACAAAGTTAC-AGAAA
1 TACCCTCGATTTACAAAATTACTA-AAA
*
29856523 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
29856552 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
29856579 TACCCT
1 TACCCT
29856585 TGGTTTGTAG
Statistics
Matches: 226, Mismatches: 39, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
26 2 0.01
27 197 0.87
28 8 0.04
29 19 0.08
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:29856408 original size:54 final size:53
Alignment explanation
Indices: 29856361--29856614 Score: 201
Period size: 54 Copynumber: 4.7 Consensus size: 53
29856351 ATTACTGTTT
* *
29856361 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAATACCCTT-GTTTGTAAAATTACCGAAA
* * *
29856415 TACCC-CTATTTTGTAAAATTA-TCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTATAAAATTACT-AAAATACCCTT-GTTTGTAAAATTACCGAAA
* * * *
29856469 TACCCTCAATTTATAAAATTACCAAAATACCCTTGATT-TACAAAGTTACAGAAA
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTGTTTGTA-AAA-TTACCGAAA
* * * ** *
29856523 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTAT-AAAATTACTA-AAATACCCTT-GTTTGTAAAATTACCGAAA
* * * * * *
29856579 TACCCTTGGTTTGTAGATTTACCAAAATACCCTTGT
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTGT
29856615 AGGATGAAAT
Statistics
Matches: 162, Mismatches: 26, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
52 1 0.01
53 11 0.07
54 99 0.61
55 12 0.07
56 32 0.20
57 6 0.04
58 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (53 bp):
TACCCTCGATTTATAAAATTACTAAAATACCCTTGTTTGTAAAATTACCGAAA
Found at i:29856524 original size:81 final size:81
Alignment explanation
Indices: 29856376--29856530 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 81
29856366 TCGATTTACA
* * * * **
29856376 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTATTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTCAATTTATAAAATTACCAAAATACCCCTATTTTACAAAATTATCAAA
29856441 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
* * *
29856457 AAATTACCGAAATACCCTCAATTTATAAAATTACCAAAATACCCTTGA-TTTACAAAGTTA-CAG
1 AAATTACCAAAATACCCTCAATTTATAAAATTACCAAAATACCCCT-ATTTTACAAAATTATCA-
29856520 AAATACCCTTG
64 AAATACCCTTG
29856531 ACTTTCTAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTATAAAATTACCAAAATACCCCTATTTTACAAAATTATCAAA
ATACCCTTGGTTTGTG
Found at i:29856590 original size:27 final size:27
Alignment explanation
Indices: 29856338--29856586 Score: 148
Period size: 27 Copynumber: 9.1 Consensus size: 27
29856328 CTATTTTACG
* ***
29856338 CTTGATTTACAGAATTACTGTTTTACC
1 CTTGATTTACAAAATTACTGAAATACC
* *
29856365 CTCGATTTACAAAATTACTAAAATACC
1 CTTGATTTACAAAATTACTGAAATACC
** **
29856392 CTT-AGTTTGTAAAATTACCAAAATACC
1 CTTGA-TTTACAAAATTACTGAAATACC
* ** *
29856419 CCT-ATTTTGTAAAATTA-TCAAAATACC
1 CTTGA-TTTACAAAATTACT-GAAATACC
* *** *
29856446 CTTGGTTTGTGAAATTACCGAAATACC
1 CTTGATTTACAAAATTACTGAAATACC
** * **
29856473 CTCAATTTATAAAATTACCAAAATACC
1 CTTGATTTACAAAATTACTGAAATACC
* *
29856500 CTTGATTTACAAAGTTACAGAAATACC
1 CTTGATTTACAAAATTACTGAAATACC
29856527 CTTGACTTT-CTAAAAATTA-TAGAAATACC
1 CTTGA-TTTAC--AAAATTACT-GAAATACC
* *
29856556 ATTGGTTTACAAAATTACTGAAATACC
1 CTTGATTTACAAAATTACTGAAATACC
29856583 CTTG
1 CTTG
29856587 GTTTGTAGAT
Statistics
Matches: 177, Mismatches: 35, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
26 1 0.01
27 151 0.85
28 7 0.04
29 18 0.10
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (27 bp):
CTTGATTTACAAAATTACTGAAATACC
Found at i:29856673 original size:26 final size:27
Alignment explanation
Indices: 29856631--29856703 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 27
29856621 AAATGACTAA
*
29856631 AATACCCCTATTA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
* **
29856658 AA-AGCCCTGTAGGGTAAAGTGACCGT
1 AATACCCCTGTAGGGTAAAAAGACCGT
*
29856684 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
29856704 TGACGAATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 2 0.05
26 19 0.51
27 16 0.43
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:29856700 original size:27 final size:26
Alignment explanation
Indices: 29856644--29856707 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
29856634 ACCCCTATTA
* *
29856644 GGTAAAAAGACCGTAAAGCCCTGTAG
1 GGTAAAATGACCGTAAACCCCTGTAG
* *
29856670 GGTAAAGTGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAA-ACCCCTGTAG
29856697 GGTAAAATGAC
1 GGTAAAATGAC
29856708 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (26 bp):
GGTAAAATGACCGTAAACCCCTGTAG
Found at i:29857656 original size:25 final size:25
Alignment explanation
Indices: 29857627--29857674 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
29857617 TTATAATATG
* *
29857627 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
29857652 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
29857675 GTTTATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:29857741 original size:20 final size:20
Alignment explanation
Indices: 29857718--29857801 Score: 150
Period size: 20 Copynumber: 4.2 Consensus size: 20
29857708 TAAACATGGT
29857718 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
29857738 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
29857758 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
29857778 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
29857798 ATGT
1 ATGT
29857802 TCATAAATGC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:29857758 original size:11 final size:11
Alignment explanation
Indices: 29857722--29857796 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
29857712 CATGGTATGT
29857722 ATGATATGCAC
1 ATGATATGCAC
* *
29857733 ATGACATG--T
1 ATGATATGCAC
29857742 ATGATATGCAC
1 ATGATATGCAC
*
29857753 ATGATATG--T
1 ATGATATGCAC
29857762 ATGATATGCAC
1 ATGATATGCAC
* *
29857773 ATGACATG--T
1 ATGATATGCAC
29857782 ATGATATGCAC
1 ATGATATGCAC
29857793 ATGA
1 ATGA
29857797 GATGTTCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:29857927 original size:25 final size:24
Alignment explanation
Indices: 29857848--29858041 Score: 261
Period size: 25 Copynumber: 8.0 Consensus size: 24
29857838 AGGAAGTGCA
29857848 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
29857871 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
29857894 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
29857919 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
29857944 GAAGGGCTTATGCCCCAGTTGTGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
29857969 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
29857993 AAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
29858017 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
29858042 GATAAAGCAG
Statistics
Matches: 157, Mismatches: 8, Indels: 10
0.90 0.05 0.06
Matches are distributed among these distances:
23 45 0.29
24 31 0.20
25 81 0.52
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:29858268 original size:31 final size:31
Alignment explanation
Indices: 29858233--29858296 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
29858223 CGTTTACAGT
* *
29858233 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
**
29858264 AAAGGCTTCGGCCCAATGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
29858295 AA
1 AA
29858297 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:29873796 original size:18 final size:18
Alignment explanation
Indices: 29873773--29873815 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
29873763 AAATATATAT
29873773 TTTTAAATT-TAATTTATC
1 TTTTAAATTATAA-TTATC
*
29873791 TTTTAAATTATAATTATT
1 TTTTAAATTATAATTATC
29873809 TTTTAAA
1 TTTTAAA
29873816 AAAATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTAAATTATAATTATC
Found at i:29878126 original size:22 final size:22
Alignment explanation
Indices: 29878101--29878143 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
29878091 ATATAATATC
29878101 GAAATGACAACAAAACAACAAT
1 GAAATGACAACAAAACAACAAT
* * *
29878123 GAAATGGCTATAAAACAACAA
1 GAAATGACAACAAAACAACAA
29878144 CAAAAAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.16, G:0.12, T:0.12
Consensus pattern (22 bp):
GAAATGACAACAAAACAACAAT
Found at i:29879864 original size:21 final size:21
Alignment explanation
Indices: 29879838--29879878 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29879828 TCAAAACAAC
**
29879838 ATAGTTTTTCCTTTTAACTTA
1 ATAGTTTTGACTTTTAACTTA
29879859 ATAGTTTTGACTTTTAACTT
1 ATAGTTTTGACTTTTAACTT
29879879 TAGAAAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.56
Consensus pattern (21 bp):
ATAGTTTTGACTTTTAACTTA
Found at i:29880152 original size:20 final size:21
Alignment explanation
Indices: 29880116--29880156 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
29880106 TTTGGGGGTA
29880116 AAGGGTGAAAAGTAAAAGTTT
1 AAGGGTGAAAAGTAAAAGTTT
29880137 AAGGG-GAAAA-TAAAAAGTTT
1 AAGGGTGAAAAGT-AAAAGTTT
29880157 TGAGGGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.05
20 13 0.68
21 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (21 bp):
AAGGGTGAAAAGTAAAAGTTT
Found at i:29892015 original size:20 final size:20
Alignment explanation
Indices: 29891989--29892107 Score: 78
Period size: 20 Copynumber: 6.0 Consensus size: 20
29891979 CTGCCAAAAT
*
29891989 TGCAGACAAGCTACCAGTAT
1 TGCAGACAAGCTACCAGTAA
* *
29892009 TGTAGACAAGCCACCAGTAA
1 TGCAGACAAGCTACCAGTAA
* * ** * *
29892029 TGCAAATAAATTGCTAGTAA
1 TGCAGACAAGCTACCAGTAA
* *
29892049 TGTAGACCAGCTACCAGTAA
1 TGCAGACAAGCTACCAGTAA
* * * *
29892069 TG-TGAACAGGCCACCAGTAT
1 TGCAG-ACAAGCTACCAGTAA
*
29892089 TGCAGACAAGCTGCCAGTA
1 TGCAGACAAGCTACCAGTA
29892108 CTTCATTATT
Statistics
Matches: 69, Mismatches: 28, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
19 1 0.01
20 67 0.97
21 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (20 bp):
TGCAGACAAGCTACCAGTAA
Found at i:29892251 original size:38 final size:38
Alignment explanation
Indices: 29892177--29892259 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
29892167 AGAACAATAC
*
29892177 AGTAGACATTATTAAAACATGCAATCAGTTGCAGAAAT
1 AGTAGACATGATTAAAACATGCAATCAGTTGCAGAAAT
* * *
29892215 AGTAGGCATGATTTAAACATGCAATCAG-TGATAGAAAT
1 AGTAGACATGATTAAAACATGCAATCAGTTG-CAGAAAT
29892253 AGT-GACA
1 AGTAGACA
29892260 CGAATTATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 5 0.13
38 34 0.87
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.25
Consensus pattern (38 bp):
AGTAGACATGATTAAAACATGCAATCAGTTGCAGAAAT
Found at i:29898393 original size:40 final size:40
Alignment explanation
Indices: 29898348--29898427 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
29898338 AAATAAAATA
* *
29898348 GAAATTGTGAT-AATTATACATTTTAAATTATAATT-TAATT
1 GAAATTGTGATAAATTACACA-TTTAAA-AATAATTATAATT
29898388 GAAATTGTGATAAATTACACATTTAAAAATAATTATAATT
1 GAAATTGTGATAAATTACACATTTAAAAATAATTATAATT
29898428 TATTTTACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
39 6 0.17
40 22 0.61
41 8 0.22
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.42
Consensus pattern (40 bp):
GAAATTGTGATAAATTACACATTTAAAAATAATTATAATT
Found at i:29898606 original size:20 final size:20
Alignment explanation
Indices: 29898581--29898624 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
29898571 ATTTAATTAA
29898581 TTTTTAAAATTTAAAAATAT
1 TTTTTAAAATTTAAAAATAT
* *
29898601 TTTTTATATTTTAAAAATAT
1 TTTTTAAAATTTAAAAATAT
29898621 TTTT
1 TTTT
29898625 AATGAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAAAATTTAAAAATAT
Found at i:29900868 original size:3 final size:3
Alignment explanation
Indices: 29900860--29901121 Score: 123
Period size: 3 Copynumber: 89.7 Consensus size: 3
29900850 AACATAGATA
* * **
29900860 AAT AAT AAT AAT AGT -AT CAA- AAT AAG AA- AAT -AT AAT AAT GGT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
29900902 AAT AAT AGT AAT AGT GAT AAT GAT AAT AA- AAA AAT AGT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * * *
29900949 -AT GTT AAAT AAT AAT AGT AA- AA- AAT AAT AGT AAT AAT AAT TAC
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
29900992 AAA AAT GAT AAT GAT AAT AA- AAT AAA AAT AAA AAT AGT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
29901039 ATT AAT AAT AAT AAT ATT GAT GAT AGAT AAT AAT AAT AAA AAGG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA-T AAT
* *
29901086 AAT AAT AAT AAT AGT AAT AAT AA- AA- AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
29901122 CAATTAATTC
Statistics
Matches: 191, Mismatches: 55, Indels: 26
0.70 0.20 0.10
Matches are distributed among these distances:
2 20 0.10
3 164 0.86
4 7 0.04
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:29901019 original size:24 final size:24
Alignment explanation
Indices: 29900955--29901121 Score: 69
Period size: 25 Copynumber: 7.1 Consensus size: 24
29900945 TAGTATGTTA
* *
29900955 AATAATAATAGTAAAAAATAATAGT
1 AATAATAA-AATAAAAAATAATAAT
* *
29900980 AATAAT-AATTACAAAAATGATAAT
1 AATAATAAAATA-AAAAATAATAAT
* *
29901004 GATAATAAAAT-AAAAATAAAAAT
1 AATAATAAAATAAAAAATAATAAT
* ** *
29901027 AGTAAT--AAT-AGTATTAATAAT
1 AATAATAAAATAAAAAATAATAAT
** * * *
29901048 AATAATATTGATGATAGATAATAAT
1 AATAATA-AAATAAAAAATAATAAT
** *
29901073 AAT-A-AAAAGGAATAATAATAAT
1 AATAATAAAATAAAAAATAATAAT
* *
29901095 AATAGTAATAATAAAAAACAATAAT
1 AATAATAA-AATAAAAAATAATAAT
29901120 AA
1 AA
29901122 CAATTAATTC
Statistics
Matches: 103, Mismatches: 30, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
21 16 0.16
22 14 0.14
23 18 0.17
24 21 0.20
25 34 0.33
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.28
Consensus pattern (24 bp):
AATAATAAAATAAAAAATAATAAT
Found at i:29902636 original size:27 final size:28
Alignment explanation
Indices: 29902597--29902649 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
29902587 GAGTATAATT
29902597 TAAAAAGTTAT-AACATTTAGATTATGTA
1 TAAAAAGTTATAAACATTTA-ATTATGTA
*
29902625 TAAAAA-TTATAAATATTTAATTATG
1 TAAAAAGTTATAAACATTTAATTATG
29902650 AACTTTTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.42
Consensus pattern (28 bp):
TAAAAAGTTATAAACATTTAATTATGTA
Done.