Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 32 of 93
Found at i:12694388 original size:23 final size:23
Alignment explanation
Indices: 12694342--12694395 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
12694332 TTATTGAATT
*
12694342 GCGTGACTAGATGATATGGGATC
1 GCGTGACTAGATGATATGGCATC
* * *
12694365 GCGTGACTAGTTGATCTTGCATC
1 GCGTGACTAGATGATATGGCATC
*
12694388 GTGTGACT
1 GCGTGACT
12694396 CACCTATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (23 bp):
GCGTGACTAGATGATATGGCATC
Found at i:12700389 original size:22 final size:22
Alignment explanation
Indices: 12700361--12700409 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
12700351 CAACCACTCT
*
12700361 CGCAATACATAACAATAGGTAA
1 CGCAATACATAAAAATAGGTAA
* * *
12700383 CGCAATATATAAAAATCGGTCA
1 CGCAATACATAAAAATAGGTAA
12700405 CGCAA
1 CGCAA
12700410 CCCTAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.18
Consensus pattern (22 bp):
CGCAATACATAAAAATAGGTAA
Found at i:12700534 original size:228 final size:222
Alignment explanation
Indices: 12700254--12700686 Score: 579
Period size: 228 Copynumber: 1.9 Consensus size: 222
12700244 GCCATATATA
* * * *
12700254 ACAACAGGTCACGTAATATATAAAAACCAGTAACGCAATCCTAAAAAACTACTGAACAAAAGCCT
1 ACAACAGGTAACGCAATATATAAAAACCAGTAACGCAAGCCTAAAAAACTACTAAACAAAAGCCT
* *
12700319 CTA-AATAATACATGAATTGCACAAGTCACGTGCAACCACTCTCGCAATACATAACAATAGGTAA
66 C-AGAACAATACATGAATTGCACAAGTCACGCGCAACCACTCTCGC--T--ATAAC---AGGTAA
* * * *
12700383 CGCAATATATAAAA-ATCGGTCACGCAAC-CCTAAAAAAC-ATTAAACAAAAGCCTTTAAA-CAA
123 CGCAATATATAAAAGCT-AGTCACGC-ACGCCTAAAAAACTACTAAACAAAAGCC-TCAAAGCAA
12700444 CACATGAATTGCACAAGTCATGCGCCACCACTCATGTT
185 CACATGAATTGCACAAGTCATGCGCCACCACTCATGTT
* * *
12700482 ACAATAGGTAACGCAATATATATAAACCAGTCACGCAAGCCTAAAAAACTACTAAACAAAAGCCT
1 ACAACAGGTAACGCAATATATAAAAACCAGTAACGCAAGCCTAAAAAACTACTAAACAAAAGCCT
* *
12700547 CAGAACAATACATGAATTGCACAAGTCACGCGCCACCACTCTCGCTATAACAGGTAACGTAATAT
66 CAGAACAATACATGAATTGCACAAGTCACGCGCAACCACTCTCGCTATAACAGGTAACGCAATAT
*
12700612 ATAAAAGCTAGTCACGCACTGCCTAAAAAACTACTGAACAAAAGCCTCAAAGCAACACATGAATT
131 ATAAAAGCTAGTCACGCAC-GCCTAAAAAACTACTAAACAAAAGCCTCAAAGCAACACATGAATT
12700677 GCACAAGTCA
195 GCACAAGTCA
12700687 GGCATGCACC
Statistics
Matches: 183, Mismatches: 16, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
220 2 0.01
221 26 0.14
222 15 0.08
223 35 0.19
224 5 0.03
226 1 0.01
227 1 0.01
228 98 0.54
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (222 bp):
ACAACAGGTAACGCAATATATAAAAACCAGTAACGCAAGCCTAAAAAACTACTAAACAAAAGCCT
CAGAACAATACATGAATTGCACAAGTCACGCGCAACCACTCTCGCTATAACAGGTAACGCAATAT
ATAAAAGCTAGTCACGCACGCCTAAAAAACTACTAAACAAAAGCCTCAAAGCAACACATGAATTG
CACAAGTCATGCGCCACCACTCATGTT
Found at i:12700573 original size:111 final size:110
Alignment explanation
Indices: 12700254--12700686 Score: 501
Period size: 111 Copynumber: 3.8 Consensus size: 110
12700244 GCCATATATA
* * * * *
12700254 ACAACAGGTCACGTAATATATAAAAACCAGTAACGCAATCCTAAAAAACTACTGAACAAAAGCCT
1 ACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTAAACAAAAGCCT
* * * *
12700319 CTAAATAATACATGAATTGCACAAGTCACGTGCAACCACTCTCGCAATACAT
66 C-AAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCG---T---T
* * * * *
12700371 AACAATAGGTAACGCAATATATAAAAATCGGTCACGCAACCCTAAAAAAC-ATTAAACAAAAGCC
1 -ACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTAAACAAAAGCC
* *
12700435 TTTAAACAACACATGAATTGCACAAGTCATGCGCCACCACTCAT-GTT
65 -TCAAACAACACATGAATTGCACAAGTCACGCGCCACCACTC-TCGTT
* *
12700482 ACAATAGGTAACGCAATATATATAAACCAGTCACGCAAGCCTAAAAAACTACTAAACAAAAGCCT
1 ACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTAAACAAAAGCCT
* *
12700547 CAGAACAATACATGAATTGCACAAGTCACGCGCCACCACTCTCGCT
66 CA-AACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGTT
* * * * * *
12700593 ATAACAGGTAACGTAATATATAAAAGCTAGTCACGCACTGCCTAAAAAACTACTGAACAAAAGCC
1 ACAACAGGTAACGCAATATATAAAAACCAGTCACGCA-AGCCTAAAAAACTACTAAACAAAAGCC
12700658 TCAAAGCAACACATGAATTGCACAAGTCA
65 TCAAA-CAACACATGAATTGCACAAGTCA
12700687 GGCATGCACC
Statistics
Matches: 275, Mismatches: 33, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
110 48 0.17
111 85 0.31
112 50 0.18
114 1 0.00
117 47 0.17
118 44 0.16
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (110 bp):
ACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTAAACAAAAGCCT
CAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGTT
Found at i:12701965 original size:48 final size:48
Alignment explanation
Indices: 12701884--12702084 Score: 170
Period size: 48 Copynumber: 4.0 Consensus size: 48
12701874 AGGTAGCTAA
* * * **
12701884 AGTCATGTAATGCCTACAAATAGGTCACGCAATGCTCAACAAATATTC
1 AGTCACGTAATGCCTATAAAGAACTCACGCAATGCTCAACAAATATTC
* * *
12701932 AGTCACGTAATGCCTATAAAGAACTCACACAATGCTTAACAAATATTT
1 AGTCACGTAATGCCTATAAAGAACTCACGCAATGCTCAACAAATATTC
* * * *** * *
12701980 AGTTAGGTAATATTCAGTCACGTATTAA-CTGTCACGCAACGCTCAACATATATTC
1 AGTCACGT-A-A-T--G-C-C-TATAAAGAACTCACGCAATGCTCAACAAATATTC
*
12702035 AGTCACGTAATGCCTATAAAGAACTCACGTAATGCTCAACAAATATTC
1 AGTCACGTAATGCCTATAAAGAACTCACGCAATGCTCAACAAATATTC
12702083 AG
1 AG
12702085 GCACCTAAAG
Statistics
Matches: 116, Mismatches: 28, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
47 5 0.04
48 70 0.60
49 2 0.02
50 2 0.02
51 1 0.01
52 1 0.01
53 2 0.02
54 2 0.02
55 26 0.22
56 5 0.04
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (48 bp):
AGTCACGTAATGCCTATAAAGAACTCACGCAATGCTCAACAAATATTC
Found at i:12707455 original size:22 final size:22
Alignment explanation
Indices: 12707427--12707469 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
12707417 AATATTGATA
12707427 GATTACTAACGAAATCTCAACG
1 GATTACTAACGAAATCTCAACG
*
12707449 GATTACTAACGGAATCTCAAC
1 GATTACTAACGAAATCTCAAC
12707470 AGAATACACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (22 bp):
GATTACTAACGAAATCTCAACG
Found at i:12709916 original size:23 final size:26
Alignment explanation
Indices: 12709890--12709937 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 26
12709880 AATTTAGAAC
12709890 AAAATTACC-TT-TAA-ATAAATTTA
1 AAAATTACCATTATAACATAAATTTA
12709913 AAAATTACCATTATAACATAAATTT
1 AAAATTACCATTATAACATAAATTT
12709938 TCTTCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.41
24 2 0.09
25 3 0.14
26 8 0.36
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (26 bp):
AAAATTACCATTATAACATAAATTTA
Found at i:12710002 original size:31 final size:31
Alignment explanation
Indices: 12709954--12710031 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
12709944 ATTTTCACAT
*
12709954 TTTCTTTCTCTCTCTACCCATCTTTTACTTA
1 TTTCCTTCTCTCTCTACCCATCTTTTACTTA
* *
12709985 TTTCCTTCTTTCTCTACCCATCTTTTACTTT
1 TTTCCTTCTCTCTCTACCCATCTTTTACTTA
*
12710016 TTTCCTTCTCTTTCTA
1 TTTCCTTCTCTCTCTA
12710032 AAGTCCTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.10, C:0.32, G:0.00, T:0.58
Consensus pattern (31 bp):
TTTCCTTCTCTCTCTACCCATCTTTTACTTA
Found at i:12710375 original size:14 final size:14
Alignment explanation
Indices: 12710331--12710383 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
12710321 AAATTAAATT
12710331 AAATTTTAATTATA
1 AAATTTTAATTATA
*** *
12710345 AAAAAATAATATTTA
1 AAATTTTAAT-TATA
12710360 AAATTTTAATTATA
1 AAATTTTAATTATA
*
12710374 AATTTTTAAT
1 AAATTTTAAT
12710384 ATTTTAAAAA
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 19 0.66
15 10 0.34
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTTTAATTATA
Found at i:12710396 original size:22 final size:22
Alignment explanation
Indices: 12710346--12710397 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
12710336 TTAATTATAA
12710346 AAAAAT-AATATTTAAAATTTT
1 AAAAATAAATATTTAAAATTTT
** * *
12710367 AATTATAAATTTTTAATATTTT
1 AAAAATAAATATTTAAAATTTT
12710389 AAAAATAAA
1 AAAAATAAA
12710398 ATAATTATAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAAATAAATATTTAAAATTTT
Found at i:12710598 original size:58 final size:58
Alignment explanation
Indices: 12710523--12710640 Score: 191
Period size: 58 Copynumber: 2.0 Consensus size: 58
12710513 CTTATTGTAT
* * *
12710523 TTCTATAAACGAAATTATATAATAACTACTCCTTCCTTTTTCTATTCTCGCGAAATGA
1 TTCTATAAACCAAATTATATAATAACTACTCCTCCCTTATTCTATTCTCGCGAAATGA
* *
12710581 TTCTATGAACCAAATTATATAATAACTACTCCTCCCTTATTCTATTCTCGTGAAATGA
1 TTCTATAAACCAAATTATATAATAACTACTCCTCCCTTATTCTATTCTCGCGAAATGA
12710639 TT
1 TT
12710641 ATTCCATTCC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (58 bp):
TTCTATAAACCAAATTATATAATAACTACTCCTCCCTTATTCTATTCTCGCGAAATGA
Found at i:12717990 original size:20 final size:20
Alignment explanation
Indices: 12717951--12717999 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
12717941 TTCAAGTTTT
*
12717951 AATTGGGTCAAATCTGACCC
1 AATTGGGTCAAATCTAACCC
12717971 AATTGGGTCAAAATC-AACCC
1 AATTGGGTC-AAATCTAACCC
*
12717991 ATTTGGGTC
1 AATTGGGTC
12718000 TTTATCCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (20 bp):
AATTGGGTCAAATCTAACCC
Found at i:12719462 original size:55 final size:53
Alignment explanation
Indices: 12719388--12719567 Score: 153
Period size: 55 Copynumber: 3.3 Consensus size: 53
12719378 TGAATAGTTA
* * * *
12719388 TTTTAACGTGTCACAGCTGTTACTGGCATGTTGTGGGTTAACTAGTTATTTGGGT
1 TTTTAGCGTGTCACGGCTGTT-CTGGCGTGTCGTGGGTTAACTAGTT-TTTGGGT
* * * * *
12719443 TGTTAGCGTGTCACGGCTGTTCTTGGGGTGTGGTGGGTTAACTGAATTTATGGGT
1 TTTTAGCGTGTCACGGCTGTTC-TGGCGTGTCGTGGGTTAACT-AGTTTTTGGGT
* * * * * * * *
12719498 TTTTGGCGTGTCATGGTTGTTCCTGGTGTGCCGTGAGTTAACTGGTTTTTTAGGT
1 TTTTAGCGTGTCACGGCTGTT-CTGGCGTGTCGTGGGTTAACTAG-TTTTTGGGT
12719553 TTTTAGCGTGTCACG
1 TTTTAGCGTGTCACG
12719568 AATGTTGGTG
Statistics
Matches: 99, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
54 1 0.01
55 94 0.95
56 4 0.04
ACGTcount: A:0.13, C:0.13, G:0.32, T:0.42
Consensus pattern (53 bp):
TTTTAGCGTGTCACGGCTGTTCTGGCGTGTCGTGGGTTAACTAGTTTTTGGGT
Found at i:12719628 original size:23 final size:23
Alignment explanation
Indices: 12719602--12719685 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
12719592 TTACAGTGAT
12719602 TGGCGTGTCACGACAATGATGCA
1 TGGCGTGTCACGACAATGATGCA
* *
12719625 TGGCGTGTCACGGCAGTGATGCA
1 TGGCGTGTCACGACAATGATGCA
* *
12719648 TGGCGTGTCACGATACTGATGCA
1 TGGCGTGTCACGACAATGATGCA
12719671 TGGCGTGTCACGACA
1 TGGCGTGTCACGACA
12719686 TTTGACTTGA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (23 bp):
TGGCGTGTCACGACAATGATGCA
Found at i:12719733 original size:31 final size:30
Alignment explanation
Indices: 12719666--12719747 Score: 76
Period size: 31 Copynumber: 2.6 Consensus size: 30
12719656 CACGATACTG
* *
12719666 ATGCATGGCGTGTCACGACATTTGACTTGAT
1 ATGCAT-GCGTGTAACAACATTTGACTTGAT
* *
12719697 ATGCATGACGTGTTACAACATTTTACGTT-AT
1 ATGCATG-CGTGTAACAACATTTGAC-TTGAT
*
12719728 TTGCATTGCGTGTAACAACA
1 ATGCA-TGCGTGTAACAACA
12719748 CGACTGACAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
30 1 0.02
31 38 0.88
32 4 0.09
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (30 bp):
ATGCATGCGTGTAACAACATTTGACTTGAT
Found at i:12723297 original size:62 final size:62
Alignment explanation
Indices: 12723227--12723432 Score: 180
Period size: 62 Copynumber: 3.3 Consensus size: 62
12723217 TAAATGTGAG
* ** *
12723227 ACACGCCATGCATAACAAGTTAAATGTTGTCACACGTTGA-GCATATCAAATAAAATATTGTA
1 ACACGCCATGCATAACAAGTAAAATGTTGTCACACG-CCATGCATAACAAATAAAATATTGTA
* * *** * * * *
12723289 ACACGCCATTCATAACAAGAAAAATGAAATGACACGCCATGCATAACAAGTAAAATGTTGTG
1 ACACGCCATGCATAACAAGTAAAATGTTGTCACACGCCATGCATAACAAATAAAATATTGTA
* * * * * * ** * * *
12723351 ACACGCCATGCATAACAAGTAAAAGGTTGTGACAAGCCAAGGATGACAAGCAAAATGTTCTG
1 ACACGCCATGCATAACAAGTAAAATGTTGTCACACGCCATGCATAACAAATAAAATATTGTA
12723413 ACACGCCATGCATAACAAGT
1 ACACGCCATGCATAACAAGT
12723433 TCTGGTGTGT
Statistics
Matches: 118, Mismatches: 25, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
61 1 0.01
62 117 0.99
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (62 bp):
ACACGCCATGCATAACAAGTAAAATGTTGTCACACGCCATGCATAACAAATAAAATATTGTA
Found at i:12723313 original size:31 final size:30
Alignment explanation
Indices: 12723227--12723432 Score: 155
Period size: 31 Copynumber: 6.7 Consensus size: 30
12723217 TAAATGTGAG
* *
12723227 ACACGCCATGCATAACAAGTTAAATGTTGT
1 ACACGCCATGCATAACAAGTAAAATATTGT
** * *
12723257 CACACGTTGA-GCATATCAAATAAAATATTGT
1 -ACACG-CCATGCATAACAAGTAAAATATTGT
* * *
12723288 AACACGCCATTCATAACAAGAAAAATGAAATG-
1 -ACACGCCATGCATAACAAGTAAAAT--ATTGT
*
12723320 ACACGCCATGCATAACAAGTAAAATGTTGT
1 ACACGCCATGCATAACAAGTAAAATATTGT
**
12723350 GACACGCCATGCATAACAAGTAAAAGGTTGT
1 -ACACGCCATGCATAACAAGTAAAATATTGT
* * * * * * *
12723381 GACAAGCCAAGGATGACAAGCAAAATGTTCT
1 -ACACGCCATGCATAACAAGTAAAATATTGT
12723412 GACACGCCATGCATAACAAGT
1 -ACACGCCATGCATAACAAGT
12723433 TCTGGTGTGT
Statistics
Matches: 138, Mismatches: 31, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
29 2 0.01
30 1 0.01
31 131 0.95
32 1 0.01
33 3 0.02
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (30 bp):
ACACGCCATGCATAACAAGTAAAATATTGT
Found at i:12723400 original size:93 final size:93
Alignment explanation
Indices: 12723226--12723432 Score: 236
Period size: 93 Copynumber: 2.2 Consensus size: 93
12723216 ATAAATGTGA
* ** * *
12723226 GACACGCCATGCATAACAAGTTAAATGTTGTCACACGTTGAGCATATCAAATAAAATATTGTAAC
1 GACACGCCATGCATAACAAGTAAAATGTTGTCACACGTCCAGCATAACAAATAAAAGATTGTAAC
* **
12723291 ACGCCATTCATAACAAGAAAAATGAAAT
66 AAGCCAAGCATAACAAGAAAAATGAAAT
* * * *
12723319 GACACGCCATGCATAACAAGTAAAATGTTGTGACACG-CCATGCATAACAAGTAAAAGGTTGTGA
1 GACACGCCATGCATAACAAGTAAAATGTTGTCACACGTCCA-GCATAACAAATAAAAGATTGTAA
* * * ***
12723383 CAAGCCAAGGATGACAAGCAAAATGTTCT
65 CAAGCCAAGCATAACAAGAAAAATGAAAT
12723412 GACACGCCATGCATAACAAGT
1 GACACGCCATGCATAACAAGT
12723433 TCTGGTGTGT
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
92 1 0.01
93 94 0.99
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.21
Consensus pattern (93 bp):
GACACGCCATGCATAACAAGTAAAATGTTGTCACACGTCCAGCATAACAAATAAAAGATTGTAAC
AAGCCAAGCATAACAAGAAAAATGAAAT
Found at i:12723750 original size:55 final size:55
Alignment explanation
Indices: 12723664--12723785 Score: 174
Period size: 55 Copynumber: 2.2 Consensus size: 55
12723654 TGCCAACCTG
* *
12723664 GGGTGACACGCGACGGCCCAATTCTTATGACACGCTGACTGGAAGCAGATTTAT-
1 GGGTGACACGCCACGACCCAATTCTTATGACACGCTGACTGGAAGCAGATTTATC
* * *
12723718 GTGGTGACACGCCACGACCCAATTGTTTTGACACGCTGAGTGGAAGCAGATTTATC
1 G-GGTGACACGCCACGACCCAATTCTTATGACACGCTGACTGGAAGCAGATTTATC
*
12723774 GGTTGACACGCC
1 GGGTGACACGCC
12723786 GAGTGTTAGT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
54 1 0.02
55 58 0.97
56 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (55 bp):
GGGTGACACGCCACGACCCAATTCTTATGACACGCTGACTGGAAGCAGATTTATC
Found at i:12725689 original size:31 final size:31
Alignment explanation
Indices: 12725651--12725721 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
12725641 TATAAAATAC
*
12725651 CAAGTAAAATGTTGTCACACACCACGCAAAA
1 CAAGTAAAATGTCGTCACACACCACGCAAAA
* * * *
12725682 CAAGTAAAATGTCGTGACACGCCATGCATAA
1 CAAGTAAAATGTCGTCACACACCACGCAAAA
12725713 CAAGATAAA
1 CAAG-TAAA
12725722 CTTGGTGACA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 30 0.88
32 4 0.12
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (31 bp):
CAAGTAAAATGTCGTCACACACCACGCAAAA
Found at i:12725730 original size:31 final size:31
Alignment explanation
Indices: 12725695--12725924 Score: 161
Period size: 31 Copynumber: 7.4 Consensus size: 31
12725685 GTAAAATGTC
12725695 GTGACACGCCATGCATAACAAGATAAACTTG
1 GTGACACGCCATGCATAACAAGATAAACTTG
* * * * *
12725726 GTGACACGCCAAGGATAATGAGGA-AAA-TGTT
1 GTGACACGCCATGCATAA-CAAGATAAACT-TG
12725757 GTGACACGCCATGCATAACAAGATAAACTTG
1 GTGACACGCCATGCATAACAAGATAAACTTG
* * * *
12725788 GTGACACGTCAAAG-ATAACCAGGA-AAA-TATT
1 GTGACACG-CCATGCATAA-CAAGATAAACT-TG
* *
12725819 ATGACACACCATGCATAACAAGATAAACTTG
1 GTGACACGCCATGCATAACAAGATAAACTTG
* * * *
12725850 GTGACACGCCAAGGAAAACAAGCA-AAA-TGTT
1 GTGACACGCCATGCATAACAAG-ATAAACT-TG
* * *
12725881 CTGACACGCCATGCATATCAAAATCAAACGTT-
1 GTGACACGCCATGCATAACAAGAT-AAAC-TTG
12725913 GTGACACGCCAT
1 GTGACACGCCAT
12725925 AAATAACATA
Statistics
Matches: 150, Mismatches: 33, Indels: 31
0.70 0.15 0.14
Matches are distributed among these distances:
30 14 0.09
31 107 0.71
32 27 0.18
33 1 0.01
34 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (31 bp):
GTGACACGCCATGCATAACAAGATAAACTTG
Found at i:12725765 original size:62 final size:62
Alignment explanation
Indices: 12725680--12725923 Score: 328
Period size: 62 Copynumber: 3.9 Consensus size: 62
12725670 CACCACGCAA
* *
12725680 AACAAGTAAAATGTCGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGAT
1 AACAAGGAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGAT
** * *
12725742 AATGAGGAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGTCAAAGAT
1 AACAAGGAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGAT
* * * * *
12725804 AACCAGGAAAATATTATGACACACCATGCATAACAAGATAAACTTGGTGACACGCCAAGGAA
1 AACAAGGAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGAT
* * * *
12725866 AACAAGCAAAATGTTCTGACACGCCATGCATATCAAAATCAAACGTT-GTGACACGCCA
1 AACAAGGAAAATGTTGTGACACGCCATGCATAACAAGAT-AAAC-TTGGTGACACGCCA
12725924 TAAATAACAT
Statistics
Matches: 159, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
62 142 0.89
63 15 0.09
64 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.18
Consensus pattern (62 bp):
AACAAGGAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGAT
Found at i:12726564 original size:156 final size:155
Alignment explanation
Indices: 12726278--12726773 Score: 703
Period size: 156 Copynumber: 3.2 Consensus size: 155
12726268 CAACTGGGTC
* * *
12726278 AACTACAATAACATATATAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCG
1 AACTGCAATTACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCG
* * * * ** * *
12726343 TTACAACTTTAATATCCTAACCGACTGCTCATTAGCAGTCTACAGTGGAGCCGGACCGATTGGTG
66 TTACAACTTTAATATCCTTACCG-CTGCTCGTTAGCAGTCTGCAGTTGAGTTGGACTGATCGGTG
*
12726408 CTTCAGGACCTGTTGTCGCTTTCG-A
130 CTTCAGGACCTGTCGTCGCTTTCGCA
*
12726433 ATACTGCAATTACATATTTAACTGTGTTATTCAATAATCATGTAT-GAATTTGTTGAACATTAAC
1 A-ACTGCAATTACATATATAACTGTGTTATTCAATAATCATGTATGGAA-TTGTTGAACATTAAC
* *
12726497 TGTTACAACTTTAATATCCTTACCGTTAGCTCGTTAGCAGTCTGCAGTTGAGTTGGACTGATCGG
64 CGTTACAACTTTAATATCCTTACCGCT-GCTCGTTAGCAGTCTGCAGTTGAGTTGGACTGATCGG
*
12726562 TGCTTCAGGACCTGTCGTCGTTTTCGCA
128 TGCTTCAGGACCTGTCGTCGCTTTCGCA
*
12726590 AACTGCAATTACATATATAACTGTGTTATTCAATAATCATGTTTGGAATTGTTGAACATTAACCG
1 AACTGCAATTACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCG
* *
12726655 TTACAACTTTAATATCCTTACCGCTGGCTCGTTAGCTGTCTGCGGTTG-GTCTGGACTGATCGGT
66 TTACAACTTTAATATCCTTACCGCT-GCTCGTTAGCAGTCTGCAGTTGAGT-TGGACTGATCGGT
*
12726719 GCTTGAGGACCTGTCGTCGC-TTCTGCA
129 GCTTCAGGACCTGTCGTCGCTTTC-GCA
* *
12726746 AACTGCAATTACATAAATTACTGTGTTA
1 AACTGCAATTACATATATAACTGTGTTA
12726774 CTCGATAAAC
Statistics
Matches: 307, Mismatches: 27, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
155 10 0.03
156 292 0.95
157 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (155 bp):
AACTGCAATTACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCG
TTACAACTTTAATATCCTTACCGCTGCTCGTTAGCAGTCTGCAGTTGAGTTGGACTGATCGGTGC
TTCAGGACCTGTCGTCGCTTTCGCA
Found at i:12728441 original size:31 final size:31
Alignment explanation
Indices: 12728406--12729117 Score: 457
Period size: 31 Copynumber: 22.5 Consensus size: 31
12728396 TATAAGGAAT
**
12728406 AAATGTTGTGACACGCCATGCATTGCAA-TCA
1 AAATGTTGTGACACGCCATGCATAACAAGT-A
12728437 AAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
12728468 AAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
12728499 AAATGTTGTCAAACGCCATGCATAACAAGT-
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
12728529 AAATTTTGTGACACGACATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * * *
12728560 AAATGCTATCAAACACCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * * *
12728591 AAATGCTGTGACATGACATGCATATCAGGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
12728622 AAATGCTGTCAAACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
12728653 AAATGCTGTCAAATGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
12728684 AAAT-TCTGTGACACGACATGCATATCAAGTAA
1 AAATGT-TGTGACACGCCATGCATAACAAGT-A
*** * * ***** *** *
12728716 AANCATAACAAGTAAAATATTGTGACACGCCATGCATA
1 AA--AT--GTTGTGACACGCCATG-CATAACAAG--TA
* ** **** * *
12728754 TCAA-GTAAAATGTTGTGACATACAATGCCTAACAAGTA
1 -AAATGT--TGTGACACGCCATGC-A----TAACAAGTA
12728792 AAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
12728823 AAATCTTGTAACACGCCATGCATATCAAGTC
1 AAATGTTGTGACACGCCATGCATAACAAGTA
*
12728854 AAATGTTGTGACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
*
12728885 AAATGTTGTGATACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
12728916 AAAT-TCTGTGACATGACATGCATATCAAGTA
1 AAATGT-TGTGACACGCCATGCATAACAAGTA
* * * *
12728947 AAATGCTATCACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
12728978 AAATGCTGTCAACATGCCATGCATAACAGGTA
1 AAATGTTGT-GACACGCCATGCATAACAAGTA
* * * * *
12729010 AAATGCTATCAAACGCCATGCACAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
12729041 AAAT-TCTGTGACATGACATGCATATCAAGTA
1 AAATGT-TGTGACACGCCATGCATAACAAGTA
* * * * *
12729072 AAACGTTGT-CCATGCCATGCATATCGAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
12729102 AAATGCTGTCACACGC
1 AAATGTTGTGACACGC
12729118 TAATAATTAA
Statistics
Matches: 532, Mismatches: 122, Indels: 54
0.75 0.17 0.08
Matches are distributed among these distances:
30 51 0.10
31 410 0.77
32 31 0.06
34 2 0.00
35 2 0.00
36 18 0.03
37 8 0.02
38 5 0.01
39 2 0.00
40 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGTA
Found at i:12728740 original size:46 final size:45
Alignment explanation
Indices: 12728673--12728763 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 45
12728663 AAATGCCATG
12728673 CATAACAAGTAAAATTCTGTGACACGACATGCATATCAAGTAAAA
1 CATAACAAGTAAAATTCTGTGACACGACATGCATATCAAGTAAAA
*
12728718 NCATAACAAGTAAAATAT-TGTGACACGCCATGCATATCAAGTAAAA
1 -CATAACAAGTAAAAT-TCTGTGACACGACATGCATATCAAGTAAAA
12728764 TGTTGTGACA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 42 0.98
47 1 0.02
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (45 bp):
CATAACAAGTAAAATTCTGTGACACGACATGCATATCAAGTAAAA
Found at i:12728790 original size:77 final size:76
Alignment explanation
Indices: 12728642--12728794 Score: 184
Period size: 77 Copynumber: 2.0 Consensus size: 76
12728632 AAACGCCATG
* *
12728642 CATAACAAGTAAAATGCTGTCAAATGCCATGCATAACAAGTAAAATTCTGTGACACGACATGCAT
1 CATAACAAGTAAAATACTGTCAAACGCCATGCATAACAAGTAAAATTCTGTGACACGACATGCAT
*
12728707 ATCAAGTAAAA
66 AACAAGTAAAA
* * * * *
12728718 NCATAACAAGTAAAATATTGTGACACGCCATGCATATCAAGTAAAATGT-TGTGACA-TACAATG
1 -CATAACAAGTAAAATACTGTCAAACGCCATGCATAACAAGTAAAAT-TCTGTGACACGAC-ATG
*
12728781 CCTAACAAGTAAAA
63 CATAACAAGTAAAA
12728795 TGTTGTGACA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
76 2 0.03
77 62 0.95
78 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.23
Consensus pattern (76 bp):
CATAACAAGTAAAATACTGTCAAACGCCATGCATAACAAGTAAAATTCTGTGACACGACATGCAT
AACAAGTAAAA
Found at i:12729657 original size:53 final size:52
Alignment explanation
Indices: 12729597--12729707 Score: 152
Period size: 53 Copynumber: 2.1 Consensus size: 52
12729587 AAACCATGAT
* * * *
12729597 GTGTCAGCTGCTT-AAGCATTGCCGTGTCACGCACTCTAAACCATGACCATGGC
1 GTGTCAGCT-CTTCAAGCAATACCGTGTCACACACTCTAAA-CATGACCACGGC
*
12729650 GTGTCAGCTTTTCAAGCAATACCGTGTCACACACTCTAAACATGACCACGGC
1 GTGTCAGCTCTTCAAGCAATACCGTGTCACACACTCTAAACATGACCACGGC
12729702 GTGTCA
1 GTGTCA
12729708 CCAACTCTGA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
52 19 0.37
53 33 0.63
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (52 bp):
GTGTCAGCTCTTCAAGCAATACCGTGTCACACACTCTAAACATGACCACGGC
Found at i:12729778 original size:47 final size:47
Alignment explanation
Indices: 12729705--12729809 Score: 113
Period size: 47 Copynumber: 2.2 Consensus size: 47
12729695 CCACGGCGTG
* **
12729705 TCACCAACTCTGAACGCTAGCATGTCACAGATTCCCTCCATGACGTC
1 TCACCAACTCTGAACGCTAGCATGTCACACATTCCCAACATGACGTC
* * * * *
12729752 TCACCAACTCTGAGCGGT-GTCGTGTCATACATTCCCAACATGACGTT
1 TCACCAACTCTGAACGCTAG-CATGTCACACATTCCCAACATGACGTC
*
12729799 TCACGAACTCT
1 TCACCAACTCT
12729810 AAACCCTGCC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
46 1 0.02
47 47 0.98
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (47 bp):
TCACCAACTCTGAACGCTAGCATGTCACACATTCCCAACATGACGTC
Found at i:12733666 original size:79 final size:79
Alignment explanation
Indices: 12733495--12733668 Score: 197
Period size: 79 Copynumber: 2.2 Consensus size: 79
12733485 ATCTCTTAAA
** **
12733495 ATAATAT-CAAATTTAGACCAATAAAAATTTACCCATTAGTCATTTAATCTATCTCTAAACAAAT
1 ATAATATCCAAATTT-GTTCAATAAAAATTTACCCATTAGTCATCCAATCTATCTCTAAACAAAT
* *
12733559 TAAGATAATTTAGGG
65 CAAGATAATTTAGAG
** * ** * *
12733574 ATAATATTTAAATTTGTTCAATTAAAATTTACTTATTAGTCATCCAATTTATCTCTAAATAAATC
1 ATAATATCCAAATTTGTTCAATAAAAATTTACCCATTAGTCATCCAATCTATCTCTAAACAAATC
*
12733639 ATGATAATTTAGAG
66 AAGATAATTTAGAG
*
12733653 ATAGTATCCAAATTTG
1 ATAATATCCAAATTTG
12733669 GTCATCCAAT
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
79 72 0.92
80 6 0.08
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (79 bp):
ATAATATCCAAATTTGTTCAATAAAAATTTACCCATTAGTCATCCAATCTATCTCTAAACAAATC
AAGATAATTTAGAG
Found at i:12734225 original size:26 final size:26
Alignment explanation
Indices: 12734164--12734250 Score: 63
Period size: 30 Copynumber: 3.2 Consensus size: 26
12734154 TCTTAAATAA
* *
12734164 ATAATTTAATTAACTAAATATATATTAGT
1 ATAA-TTAATTAAATAATTA-ATATTA-T
12734193 ACGTAATTAATTAAATAATTAATATTAT
1 A--TAATTAATTAAATAATTAATATTAT
12734221 ATAATATAA--AAACTAATTAA-ATTAT
1 ATAAT-TAATTAAA-TAATTAATATTAT
*
12734246 TTAAT
1 ATAAT
12734251 GTATTACTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
25 12 0.24
26 11 0.22
27 3 0.06
28 2 0.04
29 7 0.14
30 13 0.25
31 3 0.06
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (26 bp):
ATAATTAATTAAATAATTAATATTAT
Found at i:12734980 original size:28 final size:28
Alignment explanation
Indices: 12734948--12735004 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
12734938 AATCCTAACG
12734948 TTGCAACCTTCTTTTCCTCGTTAAATGA
1 TTGCAACCTTCTTTTCCTCGTTAAATGA
* *
12734976 TTGCAACCTTTTTTTCCTTGTTAAATGA
1 TTGCAACCTTCTTTTCCTCGTTAAATGA
12735004 T
1 T
12735005 GTCGATGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (28 bp):
TTGCAACCTTCTTTTCCTCGTTAAATGA
Found at i:12744645 original size:18 final size:20
Alignment explanation
Indices: 12744622--12744660 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
12744612 TTAGTAATTA
*
12744622 ATTAAGTAAAC-TTT-AGTT
1 ATTAAGCAAACATTTAAGTT
12744640 ATTAAGCAAACATTTAAGTT
1 ATTAAGCAAACATTTAAGTT
12744660 A
1 A
12744661 ATAGAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (20 bp):
ATTAAGCAAACATTTAAGTT
Found at i:12745456 original size:117 final size:114
Alignment explanation
Indices: 12745272--12745504 Score: 313
Period size: 117 Copynumber: 2.0 Consensus size: 114
12745262 AAAAATGTTC
*
12745272 TAGTAATTAACCAATTAACTAAATTATTATTATTTAATTTTAAAAATATTTACATAAATGAAGGT
1 TAGTAATTAACCAATTAACTAAATTATTATTATTTAATTTTAAAAATATTTAAATAAATGAAGGT
* *
12745337 GTTAAAAAAGTTAATTAAATAATTTAGTTAATTAAGTAATGTAATGTGT
66 GTTAAAAAAGGTAATTAAATAATTTAGTTAATTAAGTAATGGAATGTGT
* * * * *
12745386 TAGTACTTAAGCAATTAACTAAATTAGTAATATTATTTAGTTTTAAAAATGTTTAAATAAATTAA
1 TAGTAATTAACCAATTAACTAAATTA-T--TATTATTTAATTTTAAAAATATTTAAATAAATGAA
* *** * *
12745451 GGTGTTTACTGAGGTAATTAAGTAATTTAGTTAATTAAGTTATGGAATGTGT
63 GGTGTTAAAAAAGGTAATTAAATAATTTAGTTAATTAAGTAATGGAATGTGT
12745503 TA
1 TA
12745505 TAAGTCCCTA
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
114 24 0.24
115 1 0.01
117 77 0.75
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (114 bp):
TAGTAATTAACCAATTAACTAAATTATTATTATTTAATTTTAAAAATATTTAAATAAATGAAGGT
GTTAAAAAAGGTAATTAAATAATTTAGTTAATTAAGTAATGGAATGTGT
Found at i:12745957 original size:14 final size:14
Alignment explanation
Indices: 12745934--12745963 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12745924 TTATATAATA
*
12745934 TTTTATTTAAGGTT
1 TTTTAATTAAGGTT
12745948 TTTTAATTAAGGTT
1 TTTTAATTAAGGTT
12745962 TT
1 TT
12745964 AGGGAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.63
Consensus pattern (14 bp):
TTTTAATTAAGGTT
Found at i:12750349 original size:3 final size:3
Alignment explanation
Indices: 12750343--12750387 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
12750333 ATCATACATA
12750343 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12750388 GCTTTTGTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12763124 original size:32 final size:32
Alignment explanation
Indices: 12763088--12763179 Score: 157
Period size: 32 Copynumber: 2.9 Consensus size: 32
12763078 GATTTATTAC
*
12763088 AAATATATCTTGAATAAAGAGATCTTCTGCTA
1 AAATATCTCTTGAATAAAGAGATCTTCTGCTA
*
12763120 AAATATCTCTTGAATAAAGAGTTCTTCTGCTA
1 AAATATCTCTTGAATAAAGAGATCTTCTGCTA
*
12763152 AAATATCTCTTGCATAAAGAGATCTTCT
1 AAATATCTCTTGAATAAAGAGATCTTCT
12763180 TTTGTTTGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (32 bp):
AAATATCTCTTGAATAAAGAGATCTTCTGCTA
Found at i:12763176 original size:17 final size:17
Alignment explanation
Indices: 12763095--12763176 Score: 59
Period size: 16 Copynumber: 5.1 Consensus size: 17
12763085 TACAAATATA
*
12763095 TCTTGAATAAAGAGATC
1 TCTTGCATAAAGAGATC
*
12763112 T-TCTGC-TAAA-ATATC
1 TCT-TGCATAAAGAGATC
* *
12763127 TCTTGAATAAAGAGTTC
1 TCTTGCATAAAGAGATC
*
12763144 T-TCTGC-TAAA-ATATC
1 TCT-TGCATAAAGAGATC
12763159 TCTTGCATAAAGAGATC
1 TCTTGCATAAAGAGATC
12763176 T
1 T
12763177 TCTTTTGTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
15 14 0.29
16 20 0.42
17 14 0.29
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (17 bp):
TCTTGCATAAAGAGATC
Found at i:12774226 original size:56 final size:58
Alignment explanation
Indices: 12774164--12774343 Score: 238
Period size: 56 Copynumber: 3.0 Consensus size: 58
12774154 CTAACCCTAA
*
12774164 GTCCAAATTTGATCTGGTCCCTAGTCATGAAAGTCATTTTGTTGCATATATATA-GT-
1 GTCCAAATTTGATCTGGTCCCTAGTCATGAAAGTCATTTTGTTGCATATATATATATG
*
12774220 GTCCAAATTTGATCTGGTCCCTAGTCATGAAAGTCATTTTGATGCATATATATATATATATATAT
1 GTCCAAATTTGATCTGGTCCCTAGTCATGAAAGTCATTTTGTTGC--------ATATATATATAT
12774285 G
58 G
*
12774286 GTCCAAATATGATCTGGTCCCTAGTCATGAAAGTCATTTTTGTTGCATATATATATAT
1 GTCCAAATTTGATCTGGTCCCTAGTCATGAAAGTCA-TTTTGTTGCATATATATATAT
12774344 ATATATAGTT
Statistics
Matches: 109, Mismatches: 4, Indels: 19
0.83 0.03 0.14
Matches are distributed among these distances:
56 44 0.40
59 12 0.11
64 9 0.08
65 1 0.01
66 35 0.32
67 8 0.07
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.39
Consensus pattern (58 bp):
GTCCAAATTTGATCTGGTCCCTAGTCATGAAAGTCATTTTGTTGCATATATATATATG
Found at i:12774291 original size:66 final size:67
Alignment explanation
Indices: 12774209--12774352 Score: 247
Period size: 66 Copynumber: 2.2 Consensus size: 67
12774199 ATTTTGTTGC
*
12774209 ATATATATAGTGTCCAAATTTGATCTGGTCCCTAGTCATGAAAGTCA-TTTTGATGCATATATAT
1 ATATATATAGTGTCCAAATATGATCTGGTCCCTAGTCATGAAAGTCATTTTTGATGCATATATAT
12774273 AT
66 AT
*
12774275 ATATATATA-TGGTCCAAATATGATCTGGTCCCTAGTCATGAAAGTCATTTTTGTTGCATATATA
1 ATATATATAGT-GTCCAAATATGATCTGGTCCCTAGTCATGAAAGTCATTTTTGATGCATATATA
12774339 TAT
65 TAT
12774342 ATATATATAGT
1 ATATATATAGT
12774353 TTTGACGTCA
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
65 1 0.01
66 44 0.60
67 27 0.37
68 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (67 bp):
ATATATATAGTGTCCAAATATGATCTGGTCCCTAGTCATGAAAGTCATTTTTGATGCATATATAT
AT
Found at i:12775026 original size:18 final size:17
Alignment explanation
Indices: 12774980--12775028 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 17
12774970 ATGTGATGAC
12774980 ATTAATATATTTAAATT
1 ATTAATATATTTAAATT
**
12774997 AAAAAT-TA-TTAAATT
1 ATTAATATATTTAAATT
12775012 ATTAATTATATTTAAAT
1 ATTAA-TATATTTAAAT
12775029 AATATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
15 10 0.40
16 3 0.12
17 6 0.24
18 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTAATATATTTAAATT
Found at i:12775426 original size:21 final size:21
Alignment explanation
Indices: 12775402--12775441 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12775392 AAAATATTTT
*
12775402 ATATATATATATATACTTTAA
1 ATATAAATATATATACTTTAA
*
12775423 ATATAAATATATTTACTTT
1 ATATAAATATATATACTTT
12775442 CTATTTTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATAAATATATATACTTTAA
Found at i:12780214 original size:252 final size:252
Alignment explanation
Indices: 12778997--12780496 Score: 1532
Period size: 252 Copynumber: 5.9 Consensus size: 252
12778987 TATTATTATA
* * * * * * * **
12778997 ACTTGTTACATTAAATCTCATACCTTTATGTTAATATTTTGACAATTCTTTTTTTACCTTTATAA
1 ACTTGTTACGTTAAATCTCACACATTTACGTCAATATTTTGACAATGCTTGTTCCACCTTTATAA
* * * * * * *
12779062 TGTTTTATGTTAATTCTTACCACTTTATGTTAAGGTTTTTTAACAAATAAATTTT-ACCATAATT
66 TGTTTTACGTTAATTCTTACCATTTTATGTCAAGATTTTTCAACTACT-AATTTTCACCATAATT
* * * ** **
12779126 CTTTTTATCCTTATTATTATTTATGCATAAATTAAAATTTATAAGCTTTAAATTACTTTAAACTC
130 CTTTTTATCCTTACTATTATTTACGCATAGATTAAAATTTATAAGCCGTAAAACACTTTAAACTC
* * **
12779191 GAGAATAAAAATTTAATTGCATAATTTTTTCAAAAATTATGTTTATTTGACATAATTG
195 GAGAATAACAATTTAAATGTTTAATTTTTTCAAAAATTATGTTTATTTGACATAATTG
* * * * * * *
12779249 ACTTATTACGTTAAATATCACACATTTACATTAATATTTTGAAAATGCTTATTGCACCTTTATAA
1 ACTTGTTACGTTAAATCTCACACATTTACGTCAATATTTTGACAATGCTTGTTCCACCTTTATAA
* * * * * *
12779314 TGTTTTACATTAATTCTTACCGTTTTATGTCAAGGCTTTTT-AAATACTAATTTTTACCGTAATT
66 TGTTTTACGTTAATTCTTACCATTTTATGTCAA-GATTTTTCAACTACTAATTTTCACCATAATT
* * * *
12779378 -TGTTTTATCCTTACTATTATTCT-TGCATAGATT-AAATTTTTAAGCCGTAAAATACTTTACAC
130 CT-TTTTATCCTTACTATTATT-TACGCATAGATTAAAATTTATAAGCCGTAAAACACTTTAAAC
* * *
12779440 TCAAGAATAACAATTTAAATGTTTTATTTTTTTTCAAAAATTATGTTTATTTGACATAATTA
193 TCGAGAATAACAATTTAAATG-TTTA-ATTTTTTCAAAAATTATGTTTATTTGACATAATTG
* * * * * * * * *
12779502 ATTTGTTACATTAAATCTCACATATTTACGTCAATACTTTGACAATCCTCGTTCAAGCTTTGTAA
1 ACTTGTTACGTTAAATCTCACACATTTACGTCAATATTTTGACAATGCTTGTTCCACCTTTATAA
* * * * * *
12779567 TATTTTACATTAATTCTTACCGTTTTACGTCAAAACTTTTTGAA-TACTAATTTTCACCATAATT
66 TGTTTTACGTTAATTCTTACCATTTTATGTCAAGA-TTTTTCAACTACTAATTTTCACCATAATT
* ** * * *
12779631 CTTTTTATCCTTACTATTATTCACATACAGATTAAAATTTATCAGCTGTAAAACACTTTAAACTC
130 CTTTTTATCCTTACTATTATTTACGCATAGATTAAAATTTATAAGCCGTAAAACACTTTAAACTC
* * * *
12779696 GAAAATAA-ATATTCAAATATTTAATTTTTTCAAAAATTATATTTATTTGACATAATTG
195 GAGAATAACA-ATTTAAATGTTTAATTTTTTCAAAAATTATGTTTATTTGACATAATTG
* * * * * * *
12779754 ACTTATTACGTTAAATCTCACACATTTACGTTAATATTTTCACGATACTTGTTTCAACTTTATAA
1 ACTTGTTACGTTAAATCTCACACATTTACGTCAATATTTTGACAATGCTTGTTCCACCTTTATAA
* * * * **
12779819 TGTTTTACG-TAATTCTTACCATTTTATGTCAAG-GTTTTCAATTGCTAAATTTCAATATAATTC
66 TGTTTTACGTTAATTCTTACCATTTTATGTCAAGATTTTTCAACTACTAATTTTCACCATAATTC
* * * * * ** *
12779882 TTTATATCTTTACTATTATTCT-TGCATAAATTAAAATTTGTAAGCTATAAAACACTTTAAACTT
131 TTTTTATCCTTACTATTATT-TACGCATAGATTAAAATTTATAAGCCGTAAAACACTTTAAACTC
* * *
12779946 GAGAATAACAATTTAAATGTTTAATTTTTTCAAAAATTATGTTTATTAGATATATTTG
195 GAGAATAACAATTTAAATGTTTAATTTTTTCAAAAATTATGTTTATTTGACATAATTG
* * * *
12780004 ACTTGTTACGTTAAATCTCACACATTTATGTCAATATTTTTAAAATGCTTGTTCCACCTTAATAA
1 ACTTGTTACGTTAAATCTCACACATTTACGTCAATATTTTGACAATGCTTGTTCCACCTTTATAA
* * * * * * *
12780069 TGTTTTATGTGAATTCTTA-TAGTTTTAAGTCATGATTTTTCAACTAATAATTTTCATCATAATT
66 TGTTTTACGTTAATTCTTACCA-TTTTATGTCAAGATTTTTCAACTACTAATTTTCACCATAATT
* * * *
12780133 CTTTTTATCTTTACTATTATTTACGTATAGATTAAAATTTATAAGCCATAAAATACTTTAAACTC
130 CTTTTTATCCTTACTATTATTTACGCATAGATTAAAATTTATAAGCCGTAAAACACTTTAAACTC
* * * *
12780198 GAGAATAACAATTTAAATGTCT-AGTTTCTCAAAAAATTATATTTATTTTTGACATAATTG
195 GAGAATAACAATTTAAATGTTTAATTTTTTC-AAAAATTATGTTTA--TTTGACATAATTG
* * * * * * *
12780258 ACTTGTTACGTTAAATGTTATACATTTACGTCAATATTTTGACACTGTTTGTTCAACCCTTATAA
1 ACTTGTTACGTTAAATCTCACACATTTACGTCAATATTTTGACAATGCTTGTTCCACCTTTATAA
* * * * * * *
12780323 TGTTTTATGTTAACTCTTACCACTATAAGTCATGATTTTTTC-ACTACTAATTTTCATCATAATT
66 TGTTTTACGTTAATTCTTACCATTTTATGTCAAGA-TTTTTCAACTACTAATTTTCACCATAATT
* * * * * * * * *
12780387 CTTTTTATCTTTATTGTTATTCACTCATATATTAAAATTTGTAAACCGTAAAACACTTTGAACTC
130 CTTTTTATCCTTACTATTATTTACGCATAGATTAAAATTTATAAGCCGTAAAACACTTTAAACTC
*
12780452 GAGAATAACAATTTAAATGTTTAATTTCTTCAAAAATTATGTTTA
195 GAGAATAACAATTTAAATGTTTAATTTTTTCAAAAATTATGTTTA
12780497 AAAAGCCTTG
Statistics
Matches: 1034, Mismatches: 189, Indels: 48
0.81 0.15 0.04
Matches are distributed among these distances:
249 6 0.01
250 181 0.18
251 96 0.09
252 323 0.31
253 173 0.17
254 243 0.24
255 12 0.01
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.45
Consensus pattern (252 bp):
ACTTGTTACGTTAAATCTCACACATTTACGTCAATATTTTGACAATGCTTGTTCCACCTTTATAA
TGTTTTACGTTAATTCTTACCATTTTATGTCAAGATTTTTCAACTACTAATTTTCACCATAATTC
TTTTTATCCTTACTATTATTTACGCATAGATTAAAATTTATAAGCCGTAAAACACTTTAAACTCG
AGAATAACAATTTAAATGTTTAATTTTTTCAAAAATTATGTTTATTTGACATAATTG
Found at i:12781357 original size:241 final size:236
Alignment explanation
Indices: 12781002--12781435 Score: 559
Period size: 241 Copynumber: 1.8 Consensus size: 236
12780992 ATAGCGGTAT
*
12781002 GAATTAACATAAAATATTATAAAGGTGAAACAAGTTCAAAATATTGACATAAATGTGTGAGATTT
1 GAATTAACATAAAATATTATAAAAGTGAAACAAGTTCAAAATATTGACATAAATGTGTGAGATTT
* * * * * *
12781067 AACGTAACCAGTTAATTATGTAAAACAAATATAATTTTCAGAGAAATTAAACACTTAAATTTTTA
66 AACATAACAAGTCAATTATATAAAACAAACATAATTTTCAGAAAAATTAAACACTTAAATTTTTA
* * * * *
12781132 TTTTCTAATTTAAATTGTTATGCAGCTT-ACAAATTTTAATCTATA-GATGAATAATAGTAAGGA
131 TTCTC-AAATTAAAGTGTT-TGAAGATTGACAAATTTTAATCTATACG-TGAATAATAGTAAGGA
12781195 TTAAATAATTATAGTATTAATTAGTTGTTGATGTAAAACAGTAG
193 TTAAATAATTATAGTATTAATTAGTTGTTGATGTAAAACAGTAG
* * ** *
12781239 GAATTAACGTAAAATATTATAAAAGTGGAACAAAGATTAACAAAATATTGATGTCAATGTGTGAG
1 GAATTAACATAAAATATTATAAAAGTGAAAC-AAG-TT--CAAAATATTGACATAAATGTGTGAG
* * * * * *
12781304 ATTTGACATAATAAGTCAATTATATCAAATAAACATAATTTTTTA-AAAAATTAAACATTTAAAT
62 ATTTAACATAACAAGTCAATTATATAAAACAAACATAA-TTTTCAGAAAAATTAAACACTTAAAT
*
12781368 TTTTATTCTCAAATTAAAGTGTTTTAAGATTGACAAATTTTAATCTATACGTGAATAATAGTAAG
126 TTTTATTCTCAAATTAAAGTGTTTGAAGATTGACAAATTTTAATCTATACGTGAATAATAGTAAG
12781433 GAT
191 GAT
12781436 AAAAAGATTT
Statistics
Matches: 166, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
237 28 0.17
238 3 0.02
239 7 0.04
240 45 0.27
241 78 0.47
242 5 0.03
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (236 bp):
GAATTAACATAAAATATTATAAAAGTGAAACAAGTTCAAAATATTGACATAAATGTGTGAGATTT
AACATAACAAGTCAATTATATAAAACAAACATAATTTTCAGAAAAATTAAACACTTAAATTTTTA
TTCTCAAATTAAAGTGTTTGAAGATTGACAAATTTTAATCTATACGTGAATAATAGTAAGGATTA
AATAATTATAGTATTAATTAGTTGTTGATGTAAAACAGTAG
Found at i:12781460 original size:241 final size:235
Alignment explanation
Indices: 12780789--12781460 Score: 632
Period size: 248 Copynumber: 2.8 Consensus size: 235
12780779 ACAAGTATTG
* * * * * * *
12780789 TCAAAATGTTGACGTAAATATATGAAATTTAACATAATAAGTCAATTATATTAACTAAACATAAT
1 TCAAAATATTGACATAAATGTGTGAGATTTAACATAATAAGTCAATTATATAAAATAAACATAAT
* * * ** *
12780854 TTTTAAAGAAATTAAATATTTATATTGTTATTCTCGAGCTTAAAGTGTTTTATGGCTTACAAATT
66 TTTTAAA-AAATTAAACATTTAAATTTTTATTCTCGAAATTAAAGTGTTTTA-AGCTTACAAATT
* * * *
12780919 TTAATCTACATGTAAATAATAGTCAGGATAAAAAGAATTATGATGAAAATTAGCATTTAAAAAAC
129 TTAATCTATA-GTGAATAATAGTAAGGATAAAAAG-ATTATGGTGAAAATTAG---TT-----A-
* * * * * *
12780984 TTTGATGTATAGCGGTATGAATTAACATAAAATATTATAAAGGTGAAACAAGT
183 GTTGATGTAAAACAGTAGGAATTAACATAAAATATTATAAAAGTGAAACAAGT
* ** * * * *
12781037 TCAAAATATTGACATAAATGTGTGAGATTTAACGTAACCAGTTAATTATGTAAAACAAATATAAT
1 TCAAAATATTGACATAAATGTGTGAGATTTAACATAATAAGTCAATTATATAAAATAAACATAAT
* * * * * * * **
12781102 TTTCAGAGAAATTAAACACTTAAATTTTTATTTTCTAATTTAAATTGTTATGCAGCTTACAAATT
66 TTTTA-AAAAATTAAACATTTAAATTTTTATTCTCGAAATTAAAGTGTT-TTAAGCTTACAAATT
* * *
12781167 TTAATCTATAGATGAATAATAGTAAGGATTAAATA-ATTATAGT-ATTAATTAGTT-GTTGATGT
129 TTAATCTATAG-TGAATAATAGTAAGGA-TAAAAAGATTATGGTGA-AAATTAGTTAGTTGATGT
* *
12781229 AAAACAGTAGGAATTAACGTAAAATATTATAAAAGTGGAACAAAGAT
191 AAAACAGTAGGAATTAACATAAAATATTATAAAAGTGAAAC-AAG-T
** * * *
12781276 TAACAAAATATTGATGTCAATGTGTGAGATTTGACATAATAAGTCAATTATATCAAATAAACATA
1 T--CAAAATATTGACATAAATGTGTGAGATTTAACATAATAAGTCAATTATATAAAATAAACATA
*
12781341 ATTTTTTAAAAAATTAAACATTTAAATTTTTATTCTC-AAATTAAAGTGTTTTAAGATTGACAAA
64 A-TTTTTAAAAAATTAAACATTTAAATTTTTATTCTCGAAATTAAAGTGTTTTAAGCTT-ACAAA
12781405 TTTTAATCTATACGTGAATAATAGTAAGGATAAAAAGATTTATGGTGAAAATTAGT
127 TTTTAATCTATA-GTGAATAATAGTAAGGATAAAAAGA-TTATGGTGAAAATTAGT
12781461 ATTTAAAAAA
Statistics
Matches: 342, Mismatches: 67, Indels: 37
0.77 0.15 0.08
Matches are distributed among these distances:
237 41 0.12
238 3 0.01
239 12 0.04
240 45 0.13
241 91 0.27
242 6 0.02
244 2 0.01
246 1 0.00
247 13 0.04
248 121 0.35
249 7 0.02
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.36
Consensus pattern (235 bp):
TCAAAATATTGACATAAATGTGTGAGATTTAACATAATAAGTCAATTATATAAAATAAACATAAT
TTTTAAAAAATTAAACATTTAAATTTTTATTCTCGAAATTAAAGTGTTTTAAGCTTACAAATTTT
AATCTATAGTGAATAATAGTAAGGATAAAAAGATTATGGTGAAAATTAGTTAGTTGATGTAAAAC
AGTAGGAATTAACATAAAATATTATAAAAGTGAAACAAGT
Found at i:12781707 original size:213 final size:211
Alignment explanation
Indices: 12781340--12781764 Score: 724
Period size: 213 Copynumber: 2.0 Consensus size: 211
12781330 AAATAAACAT
12781340 AATTTTTTAAAAAATTAAACATTTAAATTTTTATTCTCAAATTAAAGTGTTTTAAGATTGACAAA
1 AATTTTTTAAAAAATTAAACATTTAAATTTTTATTCTCAAATTAAAGTGTTTTAAGATTGACAAA
*
12781405 TTTTAATCTATACGTGAATAATAGTAAGGATAAAAAGATTTATGGTGAAAATTAGTATTTAAAAA
66 TTTTAATCTATAAGTGAATAATAGTAAGGATAAAAAGATTTATGGTGAAAATTAGTATTTAAAAA
12781470 ATCTTGACGTAAAGTTATAAGAATTAACGTAAAAATAAAAATTTAAATGTTTAATATTTCAGAAA
131 ATCTTGACGTAAAGTTATAAGAATTAACGTAAAAATAAAAATTTAAATGTTTAATATTTCAGAAA
12781535 ATTATGTTTATTTTAC
196 ATTATGTTTATTTTAC
* * ** * ** * *
12781551 ANATTTTTTAAAAAATTAAATATTTAAATTTTTATTTTTGAGTTCAAAGTGTTTTGTGGTTTACA
1 A-ATTTTTTAAAAAATTAAACATTTAAATTTTTATTCTCAAATT-AAAGTGTTTTAAGATTGACA
* *
12781616 AATTTTAATTTATAAGTTAATAATAGTAAGGATAAAAAGATTTATGGTGAAAATTAGTATTTAAA
64 AATTTTAATCTATAAGTGAATAATAGTAAGGATAAAAAGATTTATGGTGAAAATTAGTATTTAAA
12781681 AAATCTTGACGTAAAGTTATAAGAATTAACGTAAAAATAAAAATTTAAATGTTTAATATTTCAGA
129 AAATCTTGACGTAAAGTTATAAGAATTAACGTAAAAATAAAAATTTAAATGTTTAATATTTCAGA
12781746 AAATTATGTTTATTTTAC
194 AAATTATGTTTATTTTAC
12781764 A
1 A
12781765 TAATTGACTT
Statistics
Matches: 200, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
211 1 0.00
212 37 0.19
213 162 0.81
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (211 bp):
AATTTTTTAAAAAATTAAACATTTAAATTTTTATTCTCAAATTAAAGTGTTTTAAGATTGACAAA
TTTTAATCTATAAGTGAATAATAGTAAGGATAAAAAGATTTATGGTGAAAATTAGTATTTAAAAA
ATCTTGACGTAAAGTTATAAGAATTAACGTAAAAATAAAAATTTAAATGTTTAATATTTCAGAAA
ATTATGTTTATTTTAC
Found at i:12783132 original size:252 final size:251
Alignment explanation
Indices: 12782666--12783770 Score: 1038
Period size: 252 Copynumber: 4.4 Consensus size: 251
12782656 AGTAATTAAC
*
12782666 GTAAAACAGTAAGAATTAACGTAAAACATTATAAAGGT-AGAACAAAG-A-TTAACAAAATATTA
1 GTAAAAC-GTAAGAATTAACGTAAAACATTATAAAGGTGA-AAC-AAGCATTTTA-AAAATATTA
* * ** * * * * * *
12782728 ACATAAATATGTAAGATTTAATATAACAAGTCAATTATGTCAAACAAATATAATTTTCAAGAAAA
62 ACGTAAATGTGTAAGATTTAACGTAACAAGTCAATTATATCTAATAAACATAATTTTTAAAAAAA
* * * * * * *
12782793 TTAAACATTTAAATTTTTATTCTCGAATTTAAAGTTTTTTACGGCTGACAAATTTTAATGTATGC
127 TTAAATATTTAAATTGTTATTCTCGAGTTTAAAGTGTTTTACGACTTACAAATTTTAATATATGC
* * * * * *
12782858 ATTAATAAT-GATAAGAATAAAAAGAATTATGATGAAAATTATTAATTGAGAAGTCATAAA
192 ATGAATAATAG-TAAGAATAAAAAGAATTATGATGAAAATTAATAGTTAAAAAATCATAAA
* * *
12782918 GTAAAACTGTAAGAATTAACGTGAAACATTATAAAGGTGAAACAAGTATTTTAAAAATATTTACG
1 GTAAAAC-GTAAGAATTAACGTAAAACATTATAAAGGTGAAACAAGCATTTTAAAAATATTAACG
**
12782983 TAAATGTGTAAGATTTAACGTAACAAGTCAATTATATCTAATAAACATAATTTTTTTAAAAATTA
65 TAAATGTGTAAGATTTAACGTAACAAGTCAATTATATCTAATAAACATAATTTTTAAAAAAATTA
* * *
12783048 AATATTTAAATTGTTATTCTCGAGTTTGATA-TGCTTTACGACTTACAAATTTTAATTTATGCGA
130 AATATTTAAATTGTTATTCTCGAGTTT-AAAGTGTTTTACGACTTACAAATTTTAATATATGC-A
* * * * * * * *
12783112 -GAATAATAGTAAGGATAAAAAAAATTATGGTAAAAATTAATATTTAAAAAGT-ATTGAC
193 TGAATAATAGTAAGAATAAAAAGAATTATGATGAAAATTAATAGTTAAAAAATCA-TAAA
*** * ****
12783170 GTAAAACGATAAGAATTAATACAAAACATTATAAAAGTGAAACAAGCATTTTAAAAATATTGGTA
1 GTAAAACG-TAAGAATTAACGTAAAACATTATAAAGGTGAAACAAGCATTTTAAAAATATTAACG
** * *
12783235 TAAATGTGCGAGATTTAACGTAACAAGTCAATTATACCTAATAAACATAATTTTTAGAAAAATTA
65 TAAATGTGTAAGATTTAACGTAACAAGTCAATTATATCTAATAAACATAATTTTTAAAAAAATTA
* *
12783300 AATATTTAAATTGTTATTCTCGAGTTTAAAGTGTTTTATGACTTACAATTTTTAATATATGCATG
130 AATATTTAAATTGTTATTCTCGAGTTTAAAGTGTTTTACGACTTACAAATTTTAATATATGCATG
* * * ** * * * * *
12783365 AATAATAATAAGAATAAAAATAATTACGCCGAAAAATAATAGTAAAAAAATCTTGAC
195 AATAATAGTAAGAATAAAAAGAATTATGATGAAAATTAATAGTTAAAAAATCATAAA
* * * * * * ** *
12783422 GTAAAGCGATAAAAATTAACATAAAATATTATAAGAGTTG-AACAAACATGACT-AAAATATTGA
1 GTAAAACG-TAAGAATTAACGTAAAACATTATAA-AGGTGAAACAAGCAT-TTTAAAAATATTAA
* * * * * * * *
12783485 TGTAAATGTGTGATATTTAACATAACAAATAAATTATGT-TAAATAAACATAATTTTTGAAAAAA
63 CGTAAATGTGTAAGATTTAACGTAACAAGTCAATTATATCT-AATAAACATAATTTTTAAAAAAA
* * * *
12783549 TTAAATATTTTAATTGTTATTCTTGAGTTTAAAGTATTTTACGGCTTACAAATTTTAATATATGC
127 TTAAATATTTAAATTGTTATTCTCGAGTTTAAAGTGTTTTACGACTTACAAATTTTAATATATGC
* * * * *
12783614 ATGAATAATAGTAAGGATAAAAAG-ATTAT-AGTGAAAATTAGTAGTTTATAAATCTTAACA
192 ATGAATAATAGTAAGAATAAAAAGAATTATGA-TGAAAATTAATAGTTAAAAAATCATAA-A
* * * *
12783674 -TAAAACCGTAAGAATTAACGTAAAAAATTATAAAAGT-AGAATAAG--TGTTGAAAAATATTAA
1 GTAAAA-CGTAAGAATTAACGTAAAACATTATAAAGGTGA-AACAAGCAT-TTTAAAAATATTAA
* * *
12783735 CGTAAATATGTGAAG-TTTACCGTAACAAGACAATTA
63 CGTAAATGTGT-AAGATTTAACGTAACAAGTCAATTA
12783771 AGTTAAAATA
Statistics
Matches: 703, Mismatches: 129, Indels: 44
0.80 0.15 0.05
Matches are distributed among these distances:
249 2 0.00
250 36 0.05
251 64 0.09
252 589 0.84
253 12 0.02
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (251 bp):
GTAAAACGTAAGAATTAACGTAAAACATTATAAAGGTGAAACAAGCATTTTAAAAATATTAACGT
AAATGTGTAAGATTTAACGTAACAAGTCAATTATATCTAATAAACATAATTTTTAAAAAAATTAA
ATATTTAAATTGTTATTCTCGAGTTTAAAGTGTTTTACGACTTACAAATTTTAATATATGCATGA
ATAATAGTAAGAATAAAAAGAATTATGATGAAAATTAATAGTTAAAAAATCATAAA
Found at i:12783622 original size:504 final size:501
Alignment explanation
Indices: 12782660--12783710 Score: 1147
Period size: 504 Copynumber: 2.1 Consensus size: 501
12782650 TTAATTAGTA
* * * * *
12782660 ATTAACGTAAAACAGTAAGAATTAACGTAAAACATTATAAAGGT-AGAACAAAG-A-TTAACAAA
1 ATTAACATAAAACCGTAAGAATTAAC-TAAAAAATTATAAAAGTGA-AAC-AAGCATTTTA-AAA
*** * ** * ** *
12782722 ATATTAACATAAATATGTAAGATTTAATATAACAAGTCAATTATGTCAAACAAATATAATTTTCA
62 ATATTGGTATAAATGTGCGAGATTTAACATAACAAGTCAATTATACCAAACAAACATAATTTTCA
* * *
12782787 AGAAAATTAAACATTTAAATTTTTATTCTCGAATTTAAAGTTTTTTACGGCTGACAAATTTTAAT
127 AGAAAATTAAACATTTAAATTGTTATTCTCGAATTTAAAGTGTTTTACGACTGACAAATTTTAAT
* * * * * * * ** * *
12782852 GTATGCATTAATAATGATAAGAATAAAAAGAATTATGATGAAAATTATTAATTGAGAAGTCATAA
192 ATATGCATGAATAATAATAAGAATAAAAAGAATTACGACGAAAAATAATAATAAAAAAATCATAA
* * * ** ** *
12782917 AGTAAAACTGTAAGAATTAACGTGAAACATTATAAAGGTGAAACAAGTATTTTAAAAATATTTAC
257 AGTAAAACTGTAAAAATTAACATAAAACATTATAAAGGTGAAACAAACATACTAAAAATATTGAC
* * * **
12782982 GTAAATGTGTAAGATTTAACGTAACAAGTCAATTATATCTAATAAACATAATTTTTTTAAAAATT
322 GTAAATGTGTAAGATTTAACATAACAAATAAATTATATCTAATAAACATAATTTTTGAAAAAATT
* *
12783047 AAATATTTAAATTGTTATTCTCGAGTTTGATATGCTTTACGACTTACAAATTTTAATTTATGCGA
387 AAATATTTAAATTGTTATTCTCGAGTTTAATAT-CTTTACGACTTACAAATTTTAATATATGCGA
*
12783112 GAATAATAGTAAGGATAAAAAAAATTATGGTAAAAATTAATA-TTTAAAAAGT
451 GAATAATAGTAAGGAT-AAAAAAATTATAGTAAAAATTAATAGTTTAAAAA-T
* *
12783164 ATTGACGTAAAA-CGATAAGAATTAA-TACAAAACATTATAAAAGTGAAACAAGCATTTTAAAAA
1 ATTAACATAAAACCG-TAAGAATTAACTA-AAAA-ATTATAAAAGTGAAACAAGCATTTTAAAAA
* * * *
12783227 TATTGGTATAAATGTGCGAGATTTAACGTAACAAGTCAATTATACCTAATAAACATAATTTT-TA
63 TATTGGTATAAATGTGCGAGATTTAACATAACAAGTCAATTATACCAAACAAACATAATTTTCAA
* * * * *
12783291 GAAAAATTAAATATTTAAATTGTTATTCTCGAGTTTAAAGTGTTTTATGACTTACAATTTTTAAT
128 G-AAAATTAAACATTTAAATTGTTATTCTCGAATTTAAAGTGTTTTACGACTGACAAATTTTAAT
* * * * *
12783356 ATATGCATGAATAATAATAAGAATAAAAATAATTACGCCGAAAAATAATAGTAAAAAAATCTTGA
192 ATATGCATGAATAATAATAAGAATAAAAAGAATTACGACGAAAAATAATAATAAAAAAATCATAA
* * * *
12783421 CGTAAAGC-GATAAAAATTAACATAAAATATTATAAGAGTTG-AACAAACATGACT-AAAATATT
257 AGTAAAACTG-TAAAAATTAACATAAAACATTATAA-AGGTGAAACAAACAT-ACTAAAAATATT
* * * *
12783483 GATGTAAATGTGTGATATTTAACATAACAAATAAATTATGT-TAAATAAACATAATTTTTGAAAA
319 GACGTAAATGTGTAAGATTTAACATAACAAATAAATTATATCT-AATAAACATAATTTTTGAAAA
* * *
12783547 AATTAAATATTTTAATTGTTATTCTTGAGTTTAAAGTAT-TTTACGGCTTACAAATTTTAATATA
383 AATTAAATATTTAAATTGTTATTCTCGAGTTT-AA-TATCTTTACGACTTACAAATTTTAATATA
* * * *
12783611 TGC-ATGAATAATAGTAAGGATAAAAAGATTATAGTGAAAATTAGTAGTTTATAAAT
446 TGCGA-GAATAATAGTAAGGATAAAAAAATTATAGTAAAAATTAATAGTTTAAAAAT
*
12783667 CTTAACATAAAACCGTAAGAATTAACGTAAAAAATTATAAAAGT
1 ATTAACATAAAACCGTAAGAATTAAC-TAAAAAATTATAAAAGT
12783711 AGAATAAGTG
Statistics
Matches: 452, Mismatches: 77, Indels: 37
0.80 0.14 0.07
Matches are distributed among these distances:
502 2 0.00
503 64 0.14
504 371 0.82
505 12 0.03
506 3 0.01
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (501 bp):
ATTAACATAAAACCGTAAGAATTAACTAAAAAATTATAAAAGTGAAACAAGCATTTTAAAAATAT
TGGTATAAATGTGCGAGATTTAACATAACAAGTCAATTATACCAAACAAACATAATTTTCAAGAA
AATTAAACATTTAAATTGTTATTCTCGAATTTAAAGTGTTTTACGACTGACAAATTTTAATATAT
GCATGAATAATAATAAGAATAAAAAGAATTACGACGAAAAATAATAATAAAAAAATCATAAAGTA
AAACTGTAAAAATTAACATAAAACATTATAAAGGTGAAACAAACATACTAAAAATATTGACGTAA
ATGTGTAAGATTTAACATAACAAATAAATTATATCTAATAAACATAATTTTTGAAAAAATTAAAT
ATTTAAATTGTTATTCTCGAGTTTAATATCTTTACGACTTACAAATTTTAATATATGCGAGAATA
ATAGTAAGGATAAAAAAATTATAGTAAAAATTAATAGTTTAAAAAT
Found at i:12784110 original size:140 final size:141
Alignment explanation
Indices: 12783960--12784240 Score: 539
Period size: 140 Copynumber: 2.0 Consensus size: 141
12783950 TCTCAATATT
12783960 TAATCTTTTTTACTTGAAAACATAATTATAAATGATTAATTTTCATAAAAATTCTGTTATTCTCT
1 TAATCTTTTTTACTTGAAAACATAATTATAAATGATTAATTTTCATAAAAATTCTGTTATTCTCT
12784025 TAGTTTTTTCACTTTAATTAATATTTCTTGGTTAATTATTTCCTTTTAAAT-TCATTTTTA-TTT
66 TAGTTTTTTCACTTTAATTAATATTTCTTGGTTAATTATTTCCTTTTAAATATCATTTTTATTTT
12784088 TATTTATTTTG
131 TATTTATTTTG
12784099 NTAATCTTTTTTACTTGAAAACATAATTATAAATGATTAATTTTCATAAAAATTCTGTTATTCTC
1 -TAATCTTTTTTACTTGAAAACATAATTATAAATGATTAATTTTCATAAAAATTCTGTTATTCTC
12784164 TTAGTTTTTTCACTTTAATTAATATTTCTTGGTTAATTATTTCCTTTTAAATATCATTTTTATTT
65 TTAGTTTTTTCACTTTAATTAATATTTCTTGGTTAATTATTTCCTTTTAAATATCATTTTTATTT
12784229 TTATTTATTTTG
130 TTATTTATTTTG
12784241 GGTTATTTAG
Statistics
Matches: 139, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
140 116 0.83
141 9 0.06
142 14 0.10
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (141 bp):
TAATCTTTTTTACTTGAAAACATAATTATAAATGATTAATTTTCATAAAAATTCTGTTATTCTCT
TAGTTTTTTCACTTTAATTAATATTTCTTGGTTAATTATTTCCTTTTAAATATCATTTTTATTTT
TATTTATTTTG
Found at i:12785991 original size:2 final size:2
Alignment explanation
Indices: 12785986--12786016 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
12785976 ATATATATAT
*
12785986 AG AG AG AG AG AG AG AG AG AG AG CG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
12786017 CCAATTTCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12788384 original size:26 final size:29
Alignment explanation
Indices: 12788355--12788414 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
12788345 TTTAAAAAAA
12788355 TTAA-AAAAATTAT-TA-TTTTATTATAT
1 TTAATAAAAATTATATATTTTTATTATAT
* * *
12788381 TTAATTAAATTTATATATTTTTATTTTAT
1 TTAATAAAAATTATATATTTTTATTATAT
12788410 TTAAT
1 TTAAT
12788415 TAAGTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.14
27 7 0.25
28 2 0.07
29 15 0.54
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
TTAATAAAAATTATATATTTTTATTATAT
Found at i:12791469 original size:23 final size:22
Alignment explanation
Indices: 12791439--12791481 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
12791429 CATCATCGAA
12791439 CTTAGCCAGAAA-ACGAAAAAAAC
1 CTTAGCCA-AAATAC-AAAAAAAC
12791462 CTTAGCCAAAATACAAAAAA
1 CTTAGCCAAAATACAAAAAA
12791482 GAAAATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.58, C:0.21, G:0.09, T:0.12
Consensus pattern (22 bp):
CTTAGCCAAAATACAAAAAAAC
Found at i:12810317 original size:19 final size:19
Alignment explanation
Indices: 12810269--12810309 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
12810259 ATTTATTGAC
12810269 TTATTCATATA-T-TTATCA
1 TTATT-ATATATTATTATCA
*
12810287 TTATTATTTATTATTATCA
1 TTATTATATATTATTATCA
12810306 TTAT
1 TTAT
12810310 ATAATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 6 0.30
19 10 0.50
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTATATATTATTATCA
Found at i:12811665 original size:18 final size:18
Alignment explanation
Indices: 12811644--12811691 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
12811634 TTTTTTTTAA
12811644 TATATT-TTTTAATATTTT
1 TATATTATTTT-ATATTTT
12811662 TATATTATTTTATA-TTT
1 TATATTATTTTATATTTT
12811679 TAGT-TTATTTTAT
1 TA-TATTATTTTAT
12811692 TATAATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 14 0.50
18 10 0.36
19 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TATATTATTTTATATTTT
Found at i:12811666 original size:8 final size:9
Alignment explanation
Indices: 12811644--12811730 Score: 54
Period size: 10 Copynumber: 9.1 Consensus size: 9
12811634 TTTTTTTTAA
12811644 TATATTTTT
1 TATATTTTT
12811653 TA-ATATTTT
1 TATAT-TTTT
12811662 TATATTATTT
1 TATATT-TTT
12811672 TATATTTTAGT
1 TATATTTT--T
12811683 T-TATTTTAT
1 TATATTTT-T
*
12811692 TATA-ATTT
1 TATATTTTT
* *
12811700 AAAATTTTT
1 TATATTTTT
12811709 TATTTATTTTT
1 TA--TATTTTT
12811720 TATTATTTTT
1 TA-TATTTTT
12811730 T
1 T
12811731 TTAGGTGTCT
Statistics
Matches: 62, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
8 5 0.08
9 19 0.31
10 28 0.45
11 10 0.16
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (9 bp):
TATATTTTT
Found at i:12811687 original size:28 final size:27
Alignment explanation
Indices: 12811656--12811728 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 27
12811646 TATTTTTTAA
12811656 TATTTTTATATTATTTTATATTTTAGTT
1 TATTTTTATATTATTTTATATTTTA-TT
* * *
12811684 TA-TTTTATTATAATTTAAAATTTTTTATT
1 TATTTTTA-TATTATTT--TATATTTTATT
12811713 TATTTTT-TATTATTTT
1 TATTTTTATATTATTTT
12811729 TTTTAGGTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
27 5 0.14
28 16 0.44
29 4 0.11
30 11 0.31
ACGTcount: A:0.27, C:0.00, G:0.01, T:0.71
Consensus pattern (27 bp):
TATTTTTATATTATTTTATATTTTATT
Found at i:12816642 original size:21 final size:21
Alignment explanation
Indices: 12816617--12816657 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
12816607 AATTCCATCC
12816617 TATGATTTAATAAAGTTATGA
1 TATGATTTAATAAAGTTATGA
12816638 TATGATTTAATAAAGTTATG
1 TATGATTTAATAAAGTTATG
12816658 GTTGTAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (21 bp):
TATGATTTAATAAAGTTATGA
Found at i:12819453 original size:27 final size:27
Alignment explanation
Indices: 12819373--12819461 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
12819363 GTTGAGCTCA
* * *
12819373 TGAAAGTTTAATCGTTACATGCAATGT
1 TGAAAATTTAATTGTTACATGCCATGT
* * * * *
12819400 TAAAAAATGTAGTTGTTAAATGTCATGT
1 T-GAAAATTTAATTGTTACATGCCATGT
*
12819428 TGAAAATTTAATTATTACATGCCATGT
1 TGAAAATTTAATTGTTACATGCCATGT
12819455 TGAAAAT
1 TGAAAAT
12819462 GTAGTTAGTA
Statistics
Matches: 47, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
27 28 0.60
28 19 0.40
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (27 bp):
TGAAAATTTAATTGTTACATGCCATGT
Found at i:12819476 original size:27 final size:27
Alignment explanation
Indices: 12819403--12819476 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
12819393 GCAATGTTAA
*
12819403 AAAATGTAGTT-GTTAAATGTCATGTTG
1 AAAATGTAGTTAG-TAAATGCCATGTTG
* * * *
12819430 AAAATTTAATTATTACATGCCATGTTG
1 AAAATGTAGTTAGTAAATGCCATGTTG
*
12819457 AAAATGTAGTTAGTATATGC
1 AAAATGTAGTTAGTAAATGC
12819477 TCTAGTTTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (27 bp):
AAAATGTAGTTAGTAAATGCCATGTTG
Found at i:12820401 original size:7 final size:7
Alignment explanation
Indices: 12820389--12820434 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
12820379 TATTTGAATC
12820389 ATTTTTT
1 ATTTTTT
12820396 A-TTTTT
1 ATTTTTT
12820402 A-TTTTT
1 ATTTTTT
12820408 ATTTTTT
1 ATTTTTT
*
12820415 AGTCTTTT
1 A-TTTTTT
*
12820423 AATTTTT
1 ATTTTTT
12820430 ATTTT
1 ATTTT
12820435 CATTAAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 12 0.36
7 15 0.45
8 6 0.18
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (7 bp):
ATTTTTT
Found at i:12820406 original size:5 final size:6
Alignment explanation
Indices: 12820391--12820434 Score: 52
Period size: 6 Copynumber: 6.7 Consensus size: 6
12820381 TTTGAATCAT
12820391 TTTTTA TTTTTA TTTTTA TTTTTTA GTCTTTTAA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA -TTTTTA -T-TTTT-A TTTTTA TTTT
12820435 CATTAAACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
6 17 0.50
7 11 0.32
8 5 0.15
9 1 0.03
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:12825319 original size:19 final size:19
Alignment explanation
Indices: 12825291--12825328 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12825281 CCATTTAACT
* *
12825291 TATTGGAGTATGATTTGAG
1 TATTGAAGTATAATTTGAG
12825310 TATTGAAGTATAATTTGAG
1 TATTGAAGTATAATTTGAG
12825329 GGTTTGGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
TATTGAAGTATAATTTGAG
Found at i:12827992 original size:15 final size:15
Alignment explanation
Indices: 12827948--12827993 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
12827938 AGATTAGAGA
12827948 TTTT-GATTTTAAAG
1 TTTTGGATTTTAAAG
*
12827962 CTTTGGATTTTAAAG
1 TTTTGGATTTTAAAG
12827977 TTTTCGG-TTTTAAAG
1 TTTT-GGATTTTAAAG
12827992 TT
1 TT
12827994 GTTTTAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 3 0.11
15 23 0.82
16 2 0.07
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.54
Consensus pattern (15 bp):
TTTTGGATTTTAAAG
Found at i:12829088 original size:17 final size:17
Alignment explanation
Indices: 12829061--12829105 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
12829051 ATTAATATAA
12829061 ATTTTTA-TTTTAATTT
1 ATTTTTATTTTTAATTT
* **
12829077 CTTTTTATTTTTTCTTT
1 ATTTTTATTTTTAATTT
12829094 ATTTTTATTTTT
1 ATTTTTATTTTT
12829106 CCTTTTTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (17 bp):
ATTTTTATTTTTAATTT
Found at i:12829121 original size:18 final size:17
Alignment explanation
Indices: 12829078--12829140 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
12829068 TTTTAATTTC
12829078 TTTTT-ATTTTTTCTTT
1 TTTTTCATTTTTTCTTT
*
12829094 ATTTTT-ATTTTTCCTTT
1 -TTTTTCATTTTTTCTTT
12829111 TTTTCTCATTTTCTTCTTT
1 TTTT-TCATTTT-TTCTTT
*
12829130 TCTTTCATTTT
1 TTTTTCATTTT
12829141 CTCATATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
16 4 0.10
17 16 0.40
18 12 0.30
19 8 0.20
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTCATTTTTTCTTT
Found at i:12835258 original size:47 final size:46
Alignment explanation
Indices: 12835152--12835265 Score: 131
Period size: 47 Copynumber: 2.4 Consensus size: 46
12835142 TATGAAAATA
* *
12835152 TTATTAAAATATAGTCAATGATAATTTTAATTTTTGGTATAAATATG
1 TTATT-AATTATAGTCAAGGATAATTTTAATTTTTGGTATAAATATG
* * *
12835199 TGATTAAGTTATAGTCAAGGGTAA-TTTAATGTTTTGGTATAAATATT
1 TTATTAA-TTATAGTCAAGGATAATTTTAAT-TTTTGGTATAAATATG
*
12835246 TTATTATATTATAGTTAAGG
1 TTATTA-ATTATAGTCAAGG
12835266 TATTTTGTCT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
46 8 0.14
47 48 0.84
48 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (46 bp):
TTATTAATTATAGTCAAGGATAATTTTAATTTTTGGTATAAATATG
Found at i:12851462 original size:22 final size:23
Alignment explanation
Indices: 12851434--12851479 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
12851424 CAATTTAAAA
12851434 TTTTTTTCAATTTATATT-TATTT
1 TTTTTTTC-ATTTATATTCTATTT
*
12851457 TTTTTTTCATTTCTATTCTATTT
1 TTTTTTTCATTTATATTCTATTT
12851480 GTTCATATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTTTCATTTATATTCTATTT
Found at i:12865178 original size:16 final size:15
Alignment explanation
Indices: 12865157--12865187 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
12865147 CATCCAATGT
12865157 GAAAATTAATTGTTTC
1 GAAAATTAATT-TTTC
12865173 GAAAATTAATTTTTC
1 GAAAATTAATTTTTC
12865188 CTTTATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (15 bp):
GAAAATTAATTTTTC
Found at i:12870419 original size:24 final size:24
Alignment explanation
Indices: 12870367--12870420 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
12870357 CTTAAACAAA
* * *
12870367 AGGACAAGTCATATGGCGCTTTCC
1 AGGATAAGTCAAATGGCACTTTCC
* *
12870391 CGGATAAGTCAAATGGCACTTTTC
1 AGGATAAGTCAAATGGCACTTTCC
12870415 AGGATA
1 AGGATA
12870421 CTCAAATAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (24 bp):
AGGATAAGTCAAATGGCACTTTCC
Found at i:12873435 original size:6 final size:6
Alignment explanation
Indices: 12873416--12873489 Score: 51
Period size: 6 Copynumber: 11.8 Consensus size: 6
12873406 CCTCCTCTTC
* ** * *
12873416 CTTTTT CCTTTT CTTTTT CTTTCTT CACTTT CTTCATT C-TCTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTT-TT CTTTTT CTT-TTT CTTTTT CTTTTT
*
12873465 TTTTTT CTTTTT CTTCTTCT CTTTT
1 CTTTTT CTTTTT CTT-TT-T CTTTT
12873490 ATGTTTAATA
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
5 3 0.06
6 34 0.65
7 11 0.21
8 4 0.08
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (6 bp):
CTTTTT
Found at i:12879958 original size:14 final size:14
Alignment explanation
Indices: 12879941--12879970 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12879931 TATTAATACT
12879941 TTAATATTATTTTA
1 TTAATATTATTTTA
12879955 TTAATATTATTTTA
1 TTAATATTATTTTA
12879969 TT
1 TT
12879971 CTAAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTAATATTATTTTA
Found at i:12886418 original size:20 final size:20
Alignment explanation
Indices: 12886401--12886438 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
12886391 CTATTTGACT
12886401 TATTGGAGTATGATTTGAAG
1 TATTGGAGTATGATTTGAAG
12886421 TATTGGAGTATGATTTGA
1 TATTGGAGTATGATTTGA
12886439 GGTTAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (20 bp):
TATTGGAGTATGATTTGAAG
Found at i:12893615 original size:2 final size:2
Alignment explanation
Indices: 12893608--12893633 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12893598 ATGATATGCA
12893608 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
12893634 GCTATGCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12893716 original size:22 final size:20
Alignment explanation
Indices: 12893682--12893739 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
12893672 TATTATTTTA
12893682 TTTTATTTTTTTATTATCATAT
1 TTTTA-TTTTTTATTATC-TAT
*
12893704 TTTCTATTTTTTATTCTTCTAT
1 TTT-TATTTTTTATT-ATCTAT
12893726 ATTTTATTTTTTAT
1 -TTTTATTTTTTAT
12893740 ATTCTAAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 25 0.78
23 7 0.22
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTATTTTTTATTATCTAT
Found at i:12893723 original size:15 final size:14
Alignment explanation
Indices: 12893701--12893742 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
12893691 TTTATTATCA
*
12893701 TATTTTCTATTTTT
1 TATTTTCTATATTT
12893715 TATTCTTCTATATTT
1 TATT-TTCTATATTT
*
12893730 TATTTTTTATATT
1 TATTTTCTATATT
12893743 CTAAGTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTCTATATTT
Found at i:12893742 original size:24 final size:22
Alignment explanation
Indices: 12893680--12893744 Score: 78
Period size: 24 Copynumber: 2.9 Consensus size: 22
12893670 ATTATTATTT
*
12893680 TATTTTATTTTTTTATT-ATCA
1 TATTTTATTTTTTTATTCTTCA
*
12893701 TATTTTCTATTTTTTATTCTTCTA
1 TATTTTAT-TTTTTTATTCTTC-A
12893725 TATTTTATTTTTTATATTCT
1 TATTTTATTTTTT-TATTCT
12893745 AAGTTTCTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 7 0.19
22 9 0.24
23 7 0.19
24 14 0.38
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (22 bp):
TATTTTATTTTTTTATTCTTCA
Found at i:12893967 original size:3 final size:3
Alignment explanation
Indices: 12893959--12894016 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
12893949 ATTTTGAATC
12893959 ATT ATT ATT ATT ATT ATTT ATT ATTT ATT -TT -TT ATCT ATT ATAT ATT
1 ATT ATT ATT ATT ATT A-TT ATT A-TT ATT ATT ATT AT-T ATT AT-T ATT
*
12894006 -TT TTT ATT ATT
1 ATT ATT ATT ATT
12894017 TTTTGAATGA
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
2 6 0.12
3 30 0.62
4 12 0.25
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
ATT
Found at i:12893998 original size:18 final size:18
Alignment explanation
Indices: 12893959--12894009 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
12893949 ATTTTGAATC
*
12893959 ATTA-TTATTATTATTATTT
1 ATTATTTATT-TT-TTATCT
12893978 ATTATTTATTTTTTATCT
1 ATTATTTATTTTTTATCT
*
12893996 ATTATATATTTTTT
1 ATTATTTATTTTTT
12894010 TATTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 18 0.62
19 6 0.21
20 5 0.17
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTATTTATTTTTTATCT
Found at i:12894016 original size:18 final size:17
Alignment explanation
Indices: 12893960--12894016 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 17
12893950 TTTTGAATCA
*
12893960 TTATTATTATTA-TTAT
1 TTATTATTATTATTTTT
12893976 TTATTA-T-TTA-TTTT
1 TTATTATTATTATTTTT
12893990 TTATCTATTATATATTTTT
1 TTAT-TATTAT-TATTTTT
12894009 TTATTATT
1 TTATTATT
12894017 TTTTGAATGA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
14 10 0.29
15 3 0.09
16 7 0.20
17 1 0.03
18 6 0.17
19 8 0.23
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTATTATTATTTTT
Found at i:12895834 original size:17 final size:17
Alignment explanation
Indices: 12895814--12895852 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
12895804 TTTTTTTATT
*
12895814 TTTTTCGTTTTGTTTTG
1 TTTTTCATTTTGTTTTG
* *
12895831 TTTTTTATTTTTTTTTG
1 TTTTTCATTTTGTTTTG
12895848 TTTTT
1 TTTTT
12895853 TTTTTCGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.85
Consensus pattern (17 bp):
TTTTTCATTTTGTTTTG
Found at i:12895969 original size:21 final size:21
Alignment explanation
Indices: 12895939--12896020 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
12895929 TTGAGAGAAC
* *
12895939 AATGTGCCCGAAGGTTTTGAA
1 AATGTACCCGGAGGTTTTGAA
* *
12895960 AATGTACCCGGAGACTTTAT-AG
1 AATGTACCCGGAG-GTTT-TGAA
*
12895982 AATGTACCTGGAGGTTTTGAA
1 AATGTACCCGGAGGTTTTGAA
* *
12896003 AATATACCTGGAGGTTTT
1 AATGTACCCGGAGGTTTT
12896021 AAGAGAAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.02
21 32 0.64
22 16 0.32
23 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (21 bp):
AATGTACCCGGAGGTTTTGAA
Found at i:12896158 original size:22 final size:21
Alignment explanation
Indices: 12896095--12896174 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 21
12896085 ACCCGGAGGN
*
12896095 ACCCGAAGGCTTTGAA-AATGT
1 ACCCGAAGG-TTTTAAGAATGT
* *
12896116 ACCCGAAGGTCTTCAGAATGT
1 ACCCGAAGGTTTTAAGAATGT
12896137 ACCCGAAGGTTTTATAGAATGT
1 ACCCGAAGGTTTTA-AGAATGT
* *
12896159 ACCCGGAGGTTGTAAG
1 ACCCGAAGGTTTTAAG
12896175 TGAATAATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 3 0.06
21 28 0.56
22 19 0.38
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (21 bp):
ACCCGAAGGTTTTAAGAATGT
Found at i:12896392 original size:142 final size:142
Alignment explanation
Indices: 12896159--12896562 Score: 580
Period size: 142 Copynumber: 2.9 Consensus size: 142
12896149 TATAGAATGT
* ** * *
12896159 ACCCGGAGG-TTGTAAGTGAATAATGTGCTAGAAGATCTTCAGAATGTACCCAGAAGATTTAGGA
1 ACCCGGAGGATT-TAAGAGAATAATGTGCCCGAAGGTCTTCAGAATGTACCCAGAGGATTTAGGA
* * * * *
12896223 AATGTGACTCCTCAAAAACTGAGGCAACATAACTTTAAAAAATCTTGATACTAATTACCCAGAGG
65 AATGTGGCTCCTCGAAAACTGAGGCAACGTAACTTTAAAAAATCTTGACACTAATTACCCAGAGA
*
12896288 TTTTAGAAGATGC
130 TTTTAGAAGATAC
*
12896301 ACCCGGAGGATTTAAGAGAATAATGTGCCCGAAGGTCTTCAGAATGTACCCAGAGGATTTAAGAA
1 ACCCGGAGGATTTAAGAGAATAATGTGCCCGAAGGTCTTCAGAATGTACCCAGAGGATTTAGGAA
* *
12896366 ATGTGGCTCCTCGAAAACTGAGGCAACGTAATTTTAAAAAATCTTGACACTAATTACCTAGAGAT
66 ATGTGGCTCCTCGAAAACTGAGGCAACGTAACTTTAAAAAATCTTGACACTAATTACCCAGAGAT
12896431 TTTAGAAGATAC
131 TTTAGAAGATAC
** * *
12896443 ACCCAAAGGATTTAAGAGAATAATGTGCCCGGAGGTCTTCAGAATGTATCC-GAAGGATTTAGGA
1 ACCCGGAGGATTTAAGAGAATAATGTGCCCGAAGGTCTTCAGAATGTACCCAG-AGGATTTAGGA
** *
12896507 AATGTGGCTTTTCGAAAACTGAGGCAACGTAACTTT-AAAAATCTTGACATTAATTA
65 AATGTGGCTCCTCGAAAACTGAGGCAACGTAACTTTAAAAAATCTTGACACTAATTA
12896563 TCTGAAATGT
Statistics
Matches: 237, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
141 20 0.08
142 215 0.91
143 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (142 bp):
ACCCGGAGGATTTAAGAGAATAATGTGCCCGAAGGTCTTCAGAATGTACCCAGAGGATTTAGGAA
ATGTGGCTCCTCGAAAACTGAGGCAACGTAACTTTAAAAAATCTTGACACTAATTACCCAGAGAT
TTTAGAAGATAC
Found at i:12897849 original size:83 final size:83
Alignment explanation
Indices: 12897710--12897868 Score: 239
Period size: 83 Copynumber: 1.9 Consensus size: 83
12897700 ATAAATTCCC
* *
12897710 ATCTTCGTTCTAAACTACCCTTTTGGGTTTTCACCCTAGAGCTTCATCTTTTTCACTCACTTTTT
1 ATCTTCGTTCTAAACTACCCTTTCGGGTTTTCACCCTAGAGCTTCATCTTTCTCACTCACTTTTT
12897775 TCTTTTTTTTTCGTCTTT
66 TCTTTTTTTTTCGTCTTT
* * ***
12897793 ATCTTCGCTT-TAGACTGCCCTTTCGGGTTTTCACCCTAGAGCTTCATCTTTCTCACTTGTTTTT
1 ATCTTCG-TTCTAAACTACCCTTTCGGGTTTTCACCCTAGAGCTTCATCTTTCTCACTCACTTTT
12897857 TTCTTTTTTTTT
65 TTCTTTTTTTTT
12897869 TGATTGATTG
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
83 66 0.97
84 2 0.03
ACGTcount: A:0.12, C:0.25, G:0.10, T:0.53
Consensus pattern (83 bp):
ATCTTCGTTCTAAACTACCCTTTCGGGTTTTCACCCTAGAGCTTCATCTTTCTCACTCACTTTTT
TCTTTTTTTTTCGTCTTT
Found at i:12898259 original size:19 final size:19
Alignment explanation
Indices: 12898232--12898295 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 19
12898222 TTTTTTCTTC
12898232 TTTTC-TTTTTTTTTTCAA
1 TTTTCATTTTTTTTTTCAA
12898250 TTTTCATTTTCATTTTTTC--
1 TTTTCATTTT--TTTTTTCAA
**
12898269 TTCTTCATTCATTTTTTCAA
1 TT-TTCATTTTTTTTTTCAA
*
12898289 TCTTCAT
1 TTTTCAT
12898296 GTTGATGGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
18 12 0.32
19 11 0.30
20 7 0.19
21 7 0.19
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTCATTTTTTTTTTCAA
Found at i:12906234 original size:9 final size:9
Alignment explanation
Indices: 12906194--12906224 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
12906184 TTATTGGTCT
12906194 ATTTTTAAA
1 ATTTTTAAA
12906203 ATTTTTAAA
1 ATTTTTAAA
12906212 ATTTTTAAA
1 ATTTTTAAA
12906221 ATTT
1 ATTT
12906225 AAACATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:12906424 original size:19 final size:19
Alignment explanation
Indices: 12906400--12906437 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12906390 ACTTCTGAAC
12906400 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
12906419 CTCAAATCATACTTCAATA
1 CTCAAATCATACTCCAATA
12906438 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:12914356 original size:19 final size:19
Alignment explanation
Indices: 12914332--12914369 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12914322 ACTTTTAGAC
12914332 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
12914351 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
12914370 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:12915836 original size:16 final size:16
Alignment explanation
Indices: 12915813--12915851 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
12915803 TGCAATTAAC
*
12915813 TATT-TTTAGTATTAT
1 TATTATTTAATATTAT
12915828 TATTATTTAATATTAT
1 TATTATTTAATATTAT
12915844 T-TTATTTA
1 TATTATTTA
12915852 TTTTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TATTATTTAATATTAT
Found at i:12915852 original size:22 final size:23
Alignment explanation
Indices: 12915827--12915879 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
12915817 TTTAGTATTA
*
12915827 TTATTATTTAATATTAT-TTTAT
1 TTATTATTTAATATCATATTTAT
* *
12915849 TTATTTTTTATTATCATATTTAT
1 TTATTATTTAATATCATATTTAT
*
12915872 TTCTTATT
1 TTATTATT
12915880 CCTATATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATTATTTAATATCATATTTAT
Found at i:12915860 original size:19 final size:19
Alignment explanation
Indices: 12915815--12915898 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 19
12915805 CAATTAACTA
*
12915815 TTTTTAGTATTAT-TATTAT
1 TTTTTATTATTATAT-TTAT
** *
12915834 TTAATATTATTTTATTTAT
1 TTTTTATTATTATATTTAT
*
12915853 TTTTTATTATCATATTTAT
1 TTTTTATTATTATATTTAT
* **
12915872 TTCTTATTCCTATATTTTAT
1 TTTTTATTATTATA-TTTAT
12915892 TTTTTAT
1 TTTTTAT
12915899 ATTCTAAGCT
Statistics
Matches: 50, Mismatches: 13, Indels: 3
0.76 0.20 0.05
Matches are distributed among these distances:
19 38 0.76
20 12 0.24
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.69
Consensus pattern (19 bp):
TTTTTATTATTATATTTAT
Found at i:12916129 original size:3 final size:3
Alignment explanation
Indices: 12916123--12916179 Score: 55
Period size: 3 Copynumber: 18.0 Consensus size: 3
12916113 AATCATCATC
12916123 ATT ATT ATT ATT ATT ATT ATT ATTT ATT -TT -TT ATCT ATT ATTT ATTT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT AT-T ATT A-TT A-TT
12916170 ATTT ATT ATT
1 A-TT ATT ATT
12916180 TTTTGAATGA
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.08
3 29 0.58
4 17 0.34
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:12916146 original size:18 final size:19
Alignment explanation
Indices: 12916123--12916179 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 19
12916113 AATCATCATC
12916123 ATTA-TTATTATTATTATT
1 ATTATTTATTATTATTATT
12916141 ATTATTTATT-TT-TTATCT
1 ATTATTTATTATTATTAT-T
12916159 ATTATTTATTTATTTATTATT
1 ATTATTTA-TTA-TTATTATT
12916180 TTTTGAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.12
18 15 0.45
19 7 0.21
21 3 0.09
22 4 0.12
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTATTTATTATTATTATT
Found at i:12916161 original size:11 final size:11
Alignment explanation
Indices: 12916142--12916180 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
12916132 ATTATTATTA
12916142 TTATTTATTTT
1 TTATTTATTTT
* *
12916153 TTATCTATTAT
1 TTATTTATTTT
*
12916164 TTATTTATTTA
1 TTATTTATTTT
12916175 TTATTT
1 TTATTT
12916181 TTTGAATGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTTATTTT
Found at i:12917499 original size:24 final size:24
Alignment explanation
Indices: 12917453--12917499 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
12917443 TCCGATTGAC
*
12917453 TTTTTTTGTATTTCTTTTGGTGTA
1 TTTTTTTGTATTTCTTTTAGTGTA
*
12917477 TTTTTTT-TATTTTTTTCTAGTGT
1 TTTTTTTGTATTTCTTT-TAGTGT
12917500 TGTGGCTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.09, C:0.04, G:0.13, T:0.74
Consensus pattern (24 bp):
TTTTTTTGTATTTCTTTTAGTGTA
Found at i:12922931 original size:28 final size:28
Alignment explanation
Indices: 12922899--12922952 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
12922889 GATTGTAACT
* *
12922899 TTATTTATGTTTGATGTAATTTATTTAC
1 TTATTTATATTTGATATAATTTATTTAC
12922927 TTATTTATATTTGATATAATTTATTT
1 TTATTTATATTTGATATAATTTATTT
12922953 GTTGGTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (28 bp):
TTATTTATATTTGATATAATTTATTTAC
Found at i:12931726 original size:23 final size:22
Alignment explanation
Indices: 12931693--12931737 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
12931683 ATAACGTGTT
* *
12931693 ATAAAATTAACTTAAAAGAACAA
1 ATAAAAATAACTGAAAA-AACAA
12931716 ATAAAAATAACTGAAAAAACAA
1 ATAAAAATAACTGAAAAAACAA
12931738 GAAAAGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.69, C:0.09, G:0.04, T:0.18
Consensus pattern (22 bp):
ATAAAAATAACTGAAAAAACAA
Found at i:12932286 original size:6 final size:6
Alignment explanation
Indices: 12932275--12932299 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
12932265 TTGTTTTAAA
12932275 TATAAT TATAAT TATAAT TATAAT T
1 TATAAT TATAAT TATAAT TATAAT T
12932300 GTATCTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TATAAT
Found at i:12932738 original size:13 final size:13
Alignment explanation
Indices: 12932716--12932745 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12932706 TATGAAATTC
12932716 AAAA-AATTATTT
1 AAAATAATTATTT
12932728 AAAATAATTATTT
1 AAAATAATTATTT
12932741 AAAAT
1 AAAAT
12932746 TATTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAATTATTT
Found at i:12947165 original size:21 final size:21
Alignment explanation
Indices: 12947127--12947166 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12947117 GATATTTTGA
*
12947127 TTAATTATAATTAATTATTAG
1 TTAATTATAATAAATTATTAG
12947148 TTAATTATAA-AAACTTATT
1 TTAATTATAATAAA-TTATT
12947167 TTACTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (21 bp):
TTAATTATAATAAATTATTAG
Found at i:12949719 original size:15 final size:15
Alignment explanation
Indices: 12949699--12949737 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
12949689 CTTAGTATAA
12949699 TTTAATTATTAATAT
1 TTTAATTATTAATAT
*
12949714 TTTAATTAATAATAT
1 TTTAATTATTAATAT
*
12949729 TTTATTTAT
1 TTTAATTAT
12949738 AATTTAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAATTATTAATAT
Found at i:12949751 original size:22 final size:23
Alignment explanation
Indices: 12949694--12949752 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
12949684 TATCACTTAG
12949694 TATAATTT-A-ATTATTAATATT
1 TATAATTTAATATTATTAATATT
* *
12949715 T-TAA-TTAATAATATT-TTATT
1 TATAATTTAATATTATTAATATT
12949735 TATAATTTAATATTATTA
1 TATAATTTAATATTATTA
12949753 TGATTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
19 2 0.07
20 9 0.30
21 9 0.30
22 10 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATAATTTAATATTATTAATATT
Found at i:12949852 original size:8 final size:8
Alignment explanation
Indices: 12949839--12949916 Score: 50
Period size: 8 Copynumber: 9.4 Consensus size: 8
12949829 CCCTAAAATA
12949839 TTAATATT
1 TTAATATT
12949847 TTAATATT
1 TTAATATT
*
12949855 TTAATCATA
1 TTAAT-ATT
12949864 TTAATATT
1 TTAATATT
* *
12949872 AATAATGTT
1 -TTAATATT
*
12949881 TAAATTATAT
1 TTAA-TAT-T
* * *
12949891 ATAAAATA
1 TTAATATT
12949899 TTAATATT
1 TTAATATT
12949907 TTAA-ATT
1 TTAATATT
12949914 TTA
1 TTA
12949917 CAAATAATTT
Statistics
Matches: 52, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
7 6 0.12
8 26 0.50
9 17 0.33
10 3 0.06
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (8 bp):
TTAATATT
Found at i:12950231 original size:138 final size:138
Alignment explanation
Indices: 12950017--12950297 Score: 404
Period size: 138 Copynumber: 2.0 Consensus size: 138
12950007 CATGTGGTCG
* * * * * *
12950017 GATCTGGCCACTACGACGCCAAATCGGCGCTTCCCCACGGTTAGATCTGGCCGTGGAGTGCTAGA
1 GATCTGGCCACTACGACGCCAAATCAGCACTTCCCCACGGTTAGATCTGGCCATGGAATGCCAAA
* * *
12950082 TCCAACTGTGGGATCTGGTCGGGAAGCACCAGATCC-GATGCTTCCCGCGGCCAAATCTGGCCGT
66 TCCAACCGTGGGATCTGGTCAGGAAGCACCAGATCCAG-TGCTTCCCGCGACCAAATCTGGCCGT
12950146 TGAGTGCCA
130 TGAGTGCCA
* * * *
12950155 GATCTGGCCACTACGGA-GCCAGATCAGCATTTCCCCATGGTTGGATCTGGCCATGGAATGCCAA
1 GATCTGGCCACTAC-GACGCCAAATCAGCACTTCCCCACGGTTAGATCTGGCCATGGAATGCCAA
*
12950219 ATCCAACCGTGGGATCTGGTCAGGAAGCACCAGATCCAGTGCTTCCCGCGACCAGATCTGGCCGT
65 ATCCAACCGTGGGATCTGGTCAGGAAGCACCAGATCCAGTGCTTCCCGCGACCAAATCTGGCCGT
12950284 TGAGTGCCA
130 TGAGTGCCA
12950293 GATCT
1 GATCT
12950298 AGTTGGATCT
Statistics
Matches: 127, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
138 124 0.98
139 3 0.02
ACGTcount: A:0.21, C:0.30, G:0.28, T:0.21
Consensus pattern (138 bp):
GATCTGGCCACTACGACGCCAAATCAGCACTTCCCCACGGTTAGATCTGGCCATGGAATGCCAAA
TCCAACCGTGGGATCTGGTCAGGAAGCACCAGATCCAGTGCTTCCCGCGACCAAATCTGGCCGTT
GAGTGCCA
Found at i:12952084 original size:19 final size:19
Alignment explanation
Indices: 12952046--12952084 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12952036 TATGATATCA
*
12952046 TTTAAATAAATTAATTATG
1 TTTAAATAAATTAATCATG
* *
12952065 TTTAAATGAATTTATCATG
1 TTTAAATAAATTAATCATG
12952084 T
1 T
12952085 CATAATCATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (19 bp):
TTTAAATAAATTAATCATG
Found at i:12967522 original size:15 final size:14
Alignment explanation
Indices: 12967501--12967535 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
12967491 GTATGGTCCA
12967501 TTCTTTTTC-TTTT
1 TTCTTTTTCTTTTT
12967514 TTCTCTTTTCTTTTT
1 TTCT-TTTTCTTTTT
12967529 TTCTTTT
1 TTCTTTT
12967536 CGCTCCAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 8 0.40
15 8 0.40
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTCTTTTTCTTTTT
Found at i:12967527 original size:13 final size:14
Alignment explanation
Indices: 12967501--12967536 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
12967491 GTATGGTCCA
12967501 TTCT-TTTTCTTTT
1 TTCTCTTTTCTTTT
12967514 TTCTCTTTTCTTTT
1 TTCTCTTTTCTTTT
12967528 TT-TCTTTTC
1 TTCTCTTTTC
12967537 GCTCCAGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTCTCTTTTCTTTT
Found at i:12984862 original size:10 final size:10
Alignment explanation
Indices: 12984842--12984870 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
12984832 CGTTCCTTTC
12984842 AAAAG-AAAA
1 AAAAGAAAAA
12984851 AAAAGAAAAA
1 AAAAGAAAAA
12984861 AAAAGAAAAA
1 AAAAGAAAAA
12984871 CCTATCTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:12985748 original size:22 final size:19
Alignment explanation
Indices: 12985714--12985755 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
12985704 TTCTACTTTA
12985714 AAAAAAATTATAAATTATTT
1 AAAAAAATTATAAATT-TTT
12985734 AAAAAAATTAAATAAATTTTT
1 AAAAAAATT--ATAAATTTTT
12985755 A
1 A
12985756 TTCTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.45
21 4 0.20
22 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAAAATTATAAATTTTT
Found at i:12996854 original size:32 final size:32
Alignment explanation
Indices: 12996817--12996881 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
12996807 CAATCATCAG
12996817 GGATGGGGAAAAAATACTGGGTCCCCCAGTAT
1 GGATGGGGAAAAAATACTGGGTCCCCCAGTAT
12996849 GGATGGGGAAAAAATACTGGGTCCCCCAGTAT
1 GGATGGGGAAAAAATACTGGGTCCCCCAGTAT
12996881 G
1 G
12996882 AAGTGCTTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.32, T:0.18
Consensus pattern (32 bp):
GGATGGGGAAAAAATACTGGGTCCCCCAGTAT
Found at i:13005715 original size:28 final size:29
Alignment explanation
Indices: 13005669--13005732 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
13005659 GTCTATGGGC
** *
13005669 AATTTTTCAATTT-TTGGGGTAAAAATGT
1 AATTTTTCAATTTACGGGGGCAAAAATGT
* *
13005697 AATTTTTCACTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTACGGGGGCAAAAATGT
13005726 AATTTTT
1 AATTTTT
13005733 AAAAATTTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.44
Consensus pattern (29 bp):
AATTTTTCAATTTACGGGGGCAAAAATGT
Found at i:13011838 original size:2 final size:2
Alignment explanation
Indices: 13011833--13011882 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
13011823 AAAAATATTG
*
13011833 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13011874 AT AT A- AT AT
1 AT AT AT AT AT
13011883 TGTTCATCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13014735 original size:5 final size:5
Alignment explanation
Indices: 13014725--13014750 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13014715 ATCATCAACA
13014725 TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT T
13014751 ATCAATTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:13017422 original size:31 final size:31
Alignment explanation
Indices: 13017384--13017453 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
13017374 TATATTTTTT
* *
13017384 ATTTAATCT-TTTAATATTTTAATTTTATTCA
1 ATTTAATCTATATAATA-TATAATTTTATTCA
* *
13017415 ATTTAATCTATATAGTATATATTTTTATTCA
1 ATTTAATCTATATAATATATAATTTTATTCA
13017446 ATTTAATC
1 ATTTAATC
13017454 CTTATGACAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 29 0.85
32 5 0.15
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (31 bp):
ATTTAATCTATATAATATATAATTTTATTCA
Found at i:13019967 original size:24 final size:27
Alignment explanation
Indices: 13019903--13019969 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 27
13019893 AAAAAATATT
*
13019903 AAAATAAAATATATAATATAAGANAATA
1 AAAATAAAATATAT-ATATAAGAAAATA
* *
13019931 TAAA-AAATTATAT-TA-AAG-AAATA
1 AAAATAAAATATATATATAAGAAAATA
13019954 AAAATAAAATATATAT
1 AAAATAAAATATATAT
13019970 TAAATTATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
23 7 0.22
24 11 0.34
25 3 0.09
27 8 0.25
28 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.28
Consensus pattern (27 bp):
AAAATAAAATATATATATAAGAAAATA
Found at i:13019993 original size:35 final size:39
Alignment explanation
Indices: 13019935--13020011 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 39
13019925 ANAATATAAA
*
13019935 AAATTATATTAAAGAAATAAAAAT-AAA-ATAT-ATATT
1 AAATTATAATAAAGAAATAAAAATAAAACATATGATATT
*
13019971 AAATTATAAT-AAGAAATGAAAATAAAACATATGATATT
1 AAATTATAATAAAGAAATAAAAATAAAACATATGATATT
13020009 AAA
1 AAA
13020012 AATATATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
35 12 0.33
36 12 0.33
37 4 0.11
38 8 0.22
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (39 bp):
AAATTATAATAAAGAAATAAAAATAAAACATATGATATT
Found at i:13020404 original size:35 final size:35
Alignment explanation
Indices: 13020359--13020430 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
13020349 GGAAAATGAA
*
13020359 ATAAATCTTATTAATATTTATAATCA-ACAAAAATT
1 ATAAACCTTATTAATATTTATAATCAGA-AAAAATT
13020394 ATAAACCTTATTAATATTTATAATCAGAAAAAATT
1 ATAAACCTTATTAATATTTATAATCAGAAAAAATT
13020429 AT
1 AT
13020431 TTCAAGTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.39
Consensus pattern (35 bp):
ATAAACCTTATTAATATTTATAATCAGAAAAAATT
Found at i:13037666 original size:87 final size:86
Alignment explanation
Indices: 13037529--13037701 Score: 337
Period size: 87 Copynumber: 2.0 Consensus size: 86
13037519 ATATTCGAGT
13037529 TATTTTTTTTTTATAATCAGGATTAATAAAAAAATGATACGTTGATAAAATTTTAAATAATAATG
1 TATTTTTTTTTTATAATCAGGATTAATAAAAAAATGATACGTTGATAAAATTTTAAATAATAATG
13037594 TAATATTACAACTTATATTTG
66 TAATATTACAACTTATATTTG
13037615 NTATTTTTTTTTTATAATCAGGATTAATAAAAAAATGATACGTTGATAAAATTTTAAATAATAAT
1 -TATTTTTTTTTTATAATCAGGATTAATAAAAAAATGATACGTTGATAAAATTTTAAATAATAAT
13037680 GTAATATTACAACTTATATTTG
65 GTAATATTACAACTTATATTTG
13037702 AGAATTATAT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (86 bp):
TATTTTTTTTTTATAATCAGGATTAATAAAAAAATGATACGTTGATAAAATTTTAAATAATAATG
TAATATTACAACTTATATTTG
Found at i:13037935 original size:18 final size:17
Alignment explanation
Indices: 13037900--13037945 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
13037890 ACATATGAAC
13037900 AAATAAAAAATAAATAT
1 AAATAAAAAATAAATAT
13037917 AAATAATAATAAT-AATAT
1 AAATAA-AA-AATAAATAT
13037935 AAATTAAAAAA
1 AAA-TAAAAAA
13037946 ATTTAAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.31
18 12 0.46
19 6 0.23
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAAAAAATAAATAT
Found at i:13039538 original size:14 final size:15
Alignment explanation
Indices: 13039506--13039555 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 15
13039496 ATATGTTAAT
13039506 TTTATATAGTATATA
1 TTTATATAGTATATA
13039521 TTTATAT-GTAT-TA
1 TTTATATAGTATATA
13039534 CTTTAT-TA-TATATA
1 -TTTATATAGTATATA
13039548 TTTATATA
1 TTTATATA
13039556 TGAAATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
13 11 0.35
14 13 0.42
15 7 0.23
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (15 bp):
TTTATATAGTATATA
Found at i:13040014 original size:16 final size:16
Alignment explanation
Indices: 13039995--13040028 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13039985 TTATTATATT
*
13039995 TTAAGTATATTATTAA
1 TTAAGTATATTATCAA
*
13040011 TTAAGTTTATTATCAA
1 TTAAGTATATTATCAA
13040027 TT
1 TT
13040029 CTTCTTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
TTAAGTATATTATCAA
Done.