Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 223 of 345
Found at i:64781605 original size:53 final size:53
Alignment explanation
Indices: 64781536--64781731 Score: 169
Period size: 53 Copynumber: 3.6 Consensus size: 53
64781526 TTCCTTTTTA
* * *
64781536 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTTGTATCCTTGCCTTATG
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATTGTATCCTTGCCTTATG
* * * * * *
64781589 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTAGCG
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATTGTATCCTTGCCTTA-TG
** * * * * * * * *
64781643 TAGTTTATCAATGCTATGTCTTGACATGGTCTTACATTATTTCCTTGCCTTGTAA
1 -AACTTACCATTGCCATGCCTTGACATGGTCTTACATTGTATCCTTGCCTTAT-G
*
64781698 AACTTACCAATT-CCATGCCTTGGCATGGTCTTAC
1 AACTTACC-ATTGCCATGCCTTGACATGGTCTTAC
64781732 TTGGTGTCCT
Statistics
Matches: 107, Mismatches: 32, Indels: 7
0.73 0.22 0.05
Matches are distributed among these distances:
53 43 0.40
54 25 0.23
55 39 0.36
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.38
Consensus pattern (53 bp):
AACTTACCATTGCCATGCCTTGACATGGTCTTACATTGTATCCTTGCCTTATG
Found at i:64783699 original size:28 final size:28
Alignment explanation
Indices: 64783667--64783727 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
64783657 CACGGGTGAG
64783667 CACGGACGTGTCTAGACCGTGTAAATGA
1 CACGGACGTGTCTAGACCGTGTAAATGA
64783695 CACGGACGTGTCTAGACCGTGTAAATGA
1 CACGGACGTGTCTAGACCGTGTAAATGA
64783723 CACGG
1 CACGG
64783728 GCTAGGGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.20
Consensus pattern (28 bp):
CACGGACGTGTCTAGACCGTGTAAATGA
Found at i:64790215 original size:40 final size:40
Alignment explanation
Indices: 64790171--64790280 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
64790161 TTCACAATTT
* *
64790171 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
64790211 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
64790251 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
64790281 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:64798271 original size:40 final size:40
Alignment explanation
Indices: 64798227--64798336 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
64798217 TTCACAATTT
* *
64798227 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
64798267 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
64798307 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
64798337 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:64804586 original size:11 final size:11
Alignment explanation
Indices: 64804570--64804611 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
64804560 TAAATAATCA
64804570 TATGATTAATG
1 TATGATTAATG
64804581 TATGATTAATG
1 TATGATTAATG
*
64804592 T-TGCTT-AT-
1 TATGATTAATG
64804600 TATGATTAATG
1 TATGATTAATG
64804611 T
1 T
64804612 TGCTTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
8 1 0.04
9 6 0.23
10 6 0.23
11 13 0.50
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (11 bp):
TATGATTAATG
Found at i:64804605 original size:19 final size:19
Alignment explanation
Indices: 64804581--64804621 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
64804571 ATGATTAATG
64804581 TATGATTAATGTTGCTTAT
1 TATGATTAATGTTGCTTAT
64804600 TATGATTAATGTTGCTTAT
1 TATGATTAATGTTGCTTAT
64804619 TAT
1 TAT
64804622 TTGCATGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.54
Consensus pattern (19 bp):
TATGATTAATGTTGCTTAT
Found at i:64809404 original size:40 final size:40
Alignment explanation
Indices: 64809355--64809527 Score: 188
Period size: 40 Copynumber: 4.3 Consensus size: 40
64809345 GACCAGCTCG
* * * *
64809355 ATTGTCTTCGGGACATAGCCCGGTTATAGTAATTCGCACA
1 ATTGCCTTCGGGACATAACCCGGTTTTAGTAACTCGCACA
* * *
64809395 ATTGCCTTCGGGA-ATTAGCCCAGATTTAGTAACTCGCACA
1 ATTGCCTTCGGGACA-TAACCCGGTTTTAGTAACTCGCACA
* * *
64809435 AATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACA
1 ATTGCCTTCGGGACATAACCCGGTTTTAGTAACTCGCACA
* * * *
64809475 AATGCCTTCGGGACTTAACCCGGTTTTGGTAACACGCACAA
1 ATTGCCTTCGGGACATAACCCGGTTTTAGTAACTCGCAC-A
64809516 ATT-CCTTCGGGA
1 ATTGCCTTCGGGA
64809528 ATTGACCCAG
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 113 0.97
41 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (40 bp):
ATTGCCTTCGGGACATAACCCGGTTTTAGTAACTCGCACA
Found at i:64809459 original size:80 final size:80
Alignment explanation
Indices: 64809360--64809527 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 80
64809350 GCTCGATTGT
* * * *
64809360 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCAGATTTAGT
1 CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCAGATTTAGT
*
64809425 AACTCGCACAAATGC
66 AACACGCACAAATGC
* * * * * * *
64809440 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCAGATTTAGT
*
64809505 AACACGCACAAATTC
66 AACACGCACAAATGC
64809520 CTTCGGGA
1 CTTCGGGA
64809528 ATTGACCCAG
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCAGATTTAGT
AACACGCACAAATGC
Found at i:64809578 original size:81 final size:80
Alignment explanation
Indices: 64809398--64809579 Score: 211
Period size: 80 Copynumber: 2.3 Consensus size: 80
64809388 TCGCACAATT
* * * * * * *
64809398 GCCTTCGGGAATTAGCCCAGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTG
1 GCCTTCGGGACTTAGCCCGGATTTAGTAACACGCACAAATGCCTTCGGGAATTAACCCAGATTTA
* * *
64809463 GTAACTCGCACAAAT
66 ATAACTAGCACAAAA
* * * * *
64809478 GCCTTCGGGACTTAACCCGGTTTTGGTAACACGCACAAATTCCTTCGGGAATTGACCCAGATTTA
1 GCCTTCGGGACTTAGCCCGGATTTAGTAACACGCACAAATGCCTTCGGGAATTAACCCAGATTTA
*
64809543 ATCACTTAGCACAAAA
66 ATAAC-TAGCACAAAA
64809559 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
64809580 CATCATTCGA
Statistics
Matches: 83, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
80 56 0.67
81 27 0.33
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACACGCACAAATGCCTTCGGGAATTAACCCAGATTTA
ATAACTAGCACAAAA
Found at i:64821178 original size:3 final size:3
Alignment explanation
Indices: 64821166--64821239 Score: 51
Period size: 3 Copynumber: 24.3 Consensus size: 3
64821156 TTATTTTTGC
* * * *
64821166 TAT T-T TAT TAT TAA AAT TAAT TAAT TAC TAT TAT TAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT T-AT TAT TAT TAT TAT TAT TAT TAT
* ** *
64821212 TAT TAT CAT TAT CGT TAT AAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
64821240 CTTAAAACTA
Statistics
Matches: 53, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
2 2 0.04
3 44 0.83
4 7 0.13
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:64821328 original size:20 final size:21
Alignment explanation
Indices: 64821296--64821346 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
64821286 TAGATTCTAT
64821296 TATTTTATTTCTTTCTTTATA
1 TATTTTATTTCTTTCTTTATA
*
64821317 TATTTT-TTTCTTTTTTTATA
1 TATTTTATTTCTTTCTTTATA
*
64821337 TTATTATATT
1 -TATTTTATT
64821347 GTTATTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 13 0.50
21 11 0.42
22 2 0.08
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.75
Consensus pattern (21 bp):
TATTTTATTTCTTTCTTTATA
Found at i:64821738 original size:13 final size:13
Alignment explanation
Indices: 64821716--64821752 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
64821706 TTATTATTCC
64821716 TTTA-TTATTTTA
1 TTTATTTATTTTA
*
64821728 TTTATTTATTTCA
1 TTTATTTATTTTA
64821741 TTTATTTATTTT
1 TTTATTTATTTT
64821753 GTTTTTGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:64824436 original size:93 final size:93
Alignment explanation
Indices: 64824324--64824494 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
64824314 GCCCATAAGT
* *
64824324 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64824389 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
64824417 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64824482 CGAGTTCGGATGC
66 CGAGTTCGGATGC
64824495 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:64824510 original size:46 final size:46
Alignment explanation
Indices: 64824316--64824496 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
64824306 TGTAACCCGC
* * *
64824316 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
64824362 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
64824412 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
64824455 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
64824497 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:64826914 original size:30 final size:30
Alignment explanation
Indices: 64826870--64826958 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
64826860 CAAAGATAAC
*
64826870 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
64826899 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
64826929 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
64826959 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:64826918 original size:15 final size:14
Alignment explanation
Indices: 64826870--64826952 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
64826860 CAAAGATAAC
*
64826870 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
64826884 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
64826899 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
64826914 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
64826929 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
64826944 AAGAAACCC
1 AAGAAACCC
64826953 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:64826958 original size:15 final size:15
Alignment explanation
Indices: 64826881--64826958 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
64826871 AGAAAACCGA
64826881 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
64826896 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
64826910 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
64826925 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
64826941 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
64826956 ATA
1 ATA
64826959 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:64830510 original size:39 final size:39
Alignment explanation
Indices: 64830451--64830571 Score: 179
Period size: 39 Copynumber: 3.1 Consensus size: 39
64830441 GCTCTGATGA
* *
64830451 GCTTCAGTTCGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
* * *
64830490 GCTTCAATTAGCCTTTGGGCTTCCATTTAGCACTTACGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
* *
64830529 GCTTTAGTTAACCTTCGGGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
64830568 GCTT
1 GCTT
64830572 TGGCTAGATT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
Found at i:64830590 original size:39 final size:39
Alignment explanation
Indices: 64830464--64830590 Score: 141
Period size: 39 Copynumber: 3.3 Consensus size: 39
64830454 TCAGTTCGCC
* * * *
64830464 TTCGGGCTTCCGTTTAGCACTTATGTGCTTCAATTAGCCT
1 TTCGGGCTTCCATTTAGCACTTATGTGCTTTAGTTAG-AT
* *
64830504 TT-GGGCTTCCATTTAGCACTTACGTGCTTTAGTTA-ACC
1 TTCGGGCTTCCATTTAGCACTTATGTGCTTTAGTTAGA-T
* *
64830542 TTCGGGCTTCCATTTAGCACTTATGTGCTTTGGCTAGAT
1 TTCGGGCTTCCATTTAGCACTTATGTGCTTTAGTTAGAT
*
64830581 TTCGCGCTTC
1 TTCGGGCTTC
64830591 AGATCACGAT
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.03
39 68 0.93
40 3 0.04
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.40
Consensus pattern (39 bp):
TTCGGGCTTCCATTTAGCACTTATGTGCTTTAGTTAGAT
Found at i:64832947 original size:27 final size:27
Alignment explanation
Indices: 64832917--64832973 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
64832907 AACATAGGTA
*
64832917 AGTCCACT-GGGACATTAAAAACGGGGT
1 AGTCC-CTCGGGACATTAAAAACAGGGT
* *
64832944 AGTCCGTCGGGACATTAAAAATAGGGT
1 AGTCCCTCGGGACATTAAAAACAGGGT
64832971 AGT
1 AGT
64832974 TCGCCAGGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (27 bp):
AGTCCCTCGGGACATTAAAAACAGGGT
Found at i:64832983 original size:27 final size:27
Alignment explanation
Indices: 64832926--64832983 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
64832916 AAGTCCACTG
* * *
64832926 GGACATTAAAAACGGGGTAGTCCGTCG
1 GGACATTAAAAACAGGGTAGTCCGCCA
* *
64832953 GGACATTAAAAATAGGGTAGTTCGCCA
1 GGACATTAAAAACAGGGTAGTCCGCCA
64832980 GGAC
1 GGAC
64832984 GTGAAACATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (27 bp):
GGACATTAAAAACAGGGTAGTCCGCCA
Found at i:64836644 original size:2 final size:2
Alignment explanation
Indices: 64836637--64836666 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
64836627 TTAAAATTAG
64836637 AT AT 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 AT AT
64836667 TTGGTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64842727 original size:90 final size:90
Alignment explanation
Indices: 64842623--64842935 Score: 268
Period size: 90 Copynumber: 3.6 Consensus size: 90
64842613 TTTGTATCTG
64842623 TAAATTTAATTTAGT-TCGTATTATATGTAGTTTGAATTTAAAATTTTTGCGTATTAATTTTACC
1 TAAATTTAATTTAGTCT-GTATTATATGTAGTTTGAATTTAAAATTTTTGCGTATTAATTTTACC
64842687 CATCTGTTTGTAGTTTGTTGGGTGTT
65 CATCTGTTTGTAGTTTGTTGGGTGTT
* * ** *
64842713 TAAATTTAATTTAGTCTGTATTATATATAGTTTGAATTTAAAA--TTTACCCATCT-GTTTGT--
1 TAAATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTTGCGTAT-TAATTT-TAC
* ** *
64842773 --A---GTTTGTTGGGTGTT---T-A-
64 CCATCTGTTTGTAGTTTGTTGGGTGTT
* * * * * **
64842790 --AATTTAATTTAGTCCGTAATATATGCAATTTGAATTTAAAATTTTCGTATATTAATTTTACCC
1 TAAATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTTGCGTATTAATTTTACCC
64842853 ATCTGTTTGTAGTTTGTTGGGTGTT
66 ATCTGTTTGTAGTTTGTTGGGTGTT
* *** *
64842878 TAAATTTAATTTAGTCTGTATTATTTGTTA-TTTGAATTTTTTATTTTTGTGTATTAAT
1 TAAATTTAATTTAGTCTGTATTATATG-TAGTTTGAATTTAAAATTTTTGCGTATTAAT
64842936 ATTCTAGAAT
Statistics
Matches: 169, Mismatches: 33, Indels: 42
0.69 0.14 0.17
Matches are distributed among these distances:
75 36 0.21
76 2 0.01
77 7 0.04
79 1 0.01
80 1 0.01
82 11 0.07
83 11 0.07
85 1 0.01
86 1 0.01
88 9 0.05
89 2 0.01
90 85 0.50
91 2 0.01
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (90 bp):
TAAATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTTGCGTATTAATTTTACCC
ATCTGTTTGTAGTTTGTTGGGTGTT
Found at i:64842770 original size:75 final size:75
Alignment explanation
Indices: 64842681--64842833 Score: 261
Period size: 75 Copynumber: 2.0 Consensus size: 75
64842671 GCGTATTAAT
* * * *
64842681 TTTACCCATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTGTATTATATATAGTTT
1 TTTACCCATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCCGTAATATATACAATTT
64842746 GAATTTAAAA
66 GAATTTAAAA
*
64842756 TTTACCCATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCCGTAATATATGCAATTT
1 TTTACCCATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCCGTAATATATACAATTT
64842821 GAATTTAAAA
66 GAATTTAAAA
64842831 TTT
1 TTT
64842834 TCGTATATTA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.50
Consensus pattern (75 bp):
TTTACCCATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCCGTAATATATACAATTT
GAATTTAAAA
Found at i:64845762 original size:23 final size:24
Alignment explanation
Indices: 64845728--64845774 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
64845718 CATTCCATAA
64845728 TCATTACAAAATT-CATTTGCATTT
1 TCATTACAAAATTACATTT-CATTT
64845752 TCATTAC-AAATTACATTTCATTT
1 TCATTACAAAATTACATTTCATTT
64845775 CATATTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.47
Consensus pattern (24 bp):
TCATTACAAAATTACATTTCATTT
Found at i:64845796 original size:28 final size:29
Alignment explanation
Indices: 64845739--64845801 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
64845729 CATTACAAAA
*
64845739 TTCATTTGCATTTTCATTACAAATTACAT
1 TTCATTTGCATATTCATTACAAATTACAT
* *
64845768 TTCATTT-CATATTCATTTA-ACATTTCAT
1 TTCATTTGCATATTCA-TTACAAATTACAT
64845796 TTCATT
1 TTCATT
64845802 AATTTTTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 20 0.67
29 10 0.33
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.52
Consensus pattern (29 bp):
TTCATTTGCATATTCATTACAAATTACAT
Found at i:64845874 original size:58 final size:57
Alignment explanation
Indices: 64845812--64845941 Score: 135
Period size: 56 Copynumber: 2.3 Consensus size: 57
64845802 AATTTTTTTC
* *
64845812 CATTTAAATTTAATTTTTTTAGTATTCATTT-T-TTTTTCA-TATTAATCACAAGTAGTCT
1 CATTTACATTT-ATTTTTTCA-T-TTCATTTATATTTTT-ATTATTAATCACAAGTAGTCT
*
64845870 CATTT-CATTT-TTTTTTCATTTCATTTCATATTTTTATTATTAATTACAAGTAGTCT
1 CATTTACATTTATTTTTTCATTTCATTT-ATATTTTTATTATTAATCACAAGTAGTCT
*
64845926 CAATTACATTTTATTT
1 CATTTACA-TTTATTT
64845942 AAATTTTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
53 7 0.11
54 1 0.02
55 9 0.15
56 27 0.44
57 6 0.10
58 8 0.13
59 3 0.05
ACGTcount: A:0.28, C:0.12, G:0.04, T:0.57
Consensus pattern (57 bp):
CATTTACATTTATTTTTTCATTTCATTTATATTTTTATTATTAATCACAAGTAGTCT
Found at i:64845913 original size:56 final size:55
Alignment explanation
Indices: 64845851--64845966 Score: 146
Period size: 56 Copynumber: 2.1 Consensus size: 55
64845841 TTTTTTTTCA
* * **
64845851 TATTAATCACAAGTAGTCTC-ATTTCATTTTTTTTTCATTTCATTTCATATTTTTAT
1 TATTAATCACAAGTAGTCTCAATTACATTTTATTTAAATTT-ATTTCATA-TTTTAT
* *
64845907 TATTAATTACAAGTAGTCTCAATTACATTTTATTTAAATTTTTTTCATATTTTAT
1 TATTAATCACAAGTAGTCTCAATTACATTTTATTTAAATTTATTTCATATTTTAT
64845962 T-TTAA
1 TATTAA
64845967 ATTTTTCTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
54 4 0.08
55 7 0.13
56 26 0.49
57 16 0.30
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.56
Consensus pattern (55 bp):
TATTAATCACAAGTAGTCTCAATTACATTTTATTTAAATTTATTTCATATTTTAT
Found at i:64845961 original size:22 final size:22
Alignment explanation
Indices: 64845933--64845980 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
64845923 TCTCAATTAC
*
64845933 ATTTTA-TTTAAATTTTTTTCA
1 ATTTTATTTTAAATTTTTCTCA
64845954 TATTTTATTTTAAATTTTTCTCA
1 -ATTTTATTTTAAATTTTTCTCA
64845977 ATTT
1 ATTT
64845981 AAATATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTTATTTTAAATTTTTCTCA
Found at i:64846215 original size:7 final size:6
Alignment explanation
Indices: 64846193--64846267 Score: 52
Period size: 5 Copynumber: 12.5 Consensus size: 6
64846183 ATTTTTCTTC
* *
64846193 TTTC-A TTTCAA TTTCAA TATTCAA TTTTC-A TTTCTAA ATTC-A TTTCAT
1 TTTCAA TTTCAA TTTCAA T-TTCAA -TTTCAA TTTC-AA TTTCAA TTTCAA
64846241 TTTC-A TTTCTAA TTTC-A TTTCATA TTT
1 TTTCAA TTTC-AA TTTCAA TTTCA-A TTT
64846268 TATTTAATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
5 21 0.38
6 13 0.23
7 21 0.38
8 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.00, T:0.57
Consensus pattern (6 bp):
TTTCAA
Found at i:64846236 original size:12 final size:12
Alignment explanation
Indices: 64846193--64846261 Score: 72
Period size: 12 Copynumber: 5.8 Consensus size: 12
64846183 ATTTTTCTTC
64846193 TTTCATTTC-AA
1 TTTCATTTCTAA
64846204 TTTCAATATTC-AA
1 TTTC-AT-TTCTAA
64846217 TTTTCATTTCTAA
1 -TTTCATTTCTAA
* *
64846230 ATTCATTTC-AT
1 TTTCATTTCTAA
64846241 TTTCATTTCTAA
1 TTTCATTTCTAA
64846253 TTTCATTTC
1 TTTCATTTC
64846262 ATATTTTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
11 13 0.27
12 23 0.47
13 9 0.18
14 4 0.08
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTCATTTCTAA
Found at i:64846246 original size:23 final size:23
Alignment explanation
Indices: 64846193--64846272 Score: 99
Period size: 23 Copynumber: 3.3 Consensus size: 23
64846183 ATTTTTCTTC
64846193 TTTCATTTC-AATTTCAATATTCAAT
1 TTTCATTTCTAATTTC-AT-TTC-AT
*
64846218 TTTCATTTCTAAATTCATTTCAT
1 TTTCATTTCTAATTTCATTTCAT
64846241 TTTCATTTCTAATTTCATTTCAT
1 TTTCATTTCTAATTTCATTTCAT
*
64846264 ATTTTATTT
1 -TTTCATTT
64846273 AATTAAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
23 24 0.48
24 10 0.20
25 11 0.22
26 5 0.10
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTCATTTCTAATTTCATTTCAT
Found at i:64846267 original size:12 final size:12
Alignment explanation
Indices: 64846193--64846272 Score: 62
Period size: 12 Copynumber: 6.7 Consensus size: 12
64846183 ATTTTTCTTC
64846193 TTTCATTTCA-A
1 TTTCATTTCATA
64846204 TTTCAATATTCA-A
1 TTTC-AT-TTCATA
64846217 TTTTCATTTC-TAA
1 -TTTCATTTCAT-A
*
64846230 ATTCATTTCAT-
1 TTTCATTTCATA
64846241 TTTCATTTC-TAA
1 TTTCATTTCAT-A
64846253 TTTCATTTCATA
1 TTTCATTTCATA
*
64846265 TTTTATTT
1 TTTCATTT
64846273 AATTAAATTT
Statistics
Matches: 57, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
10 1 0.02
11 12 0.21
12 30 0.53
13 10 0.18
14 4 0.07
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTCATTTCATA
Found at i:64846319 original size:23 final size:22
Alignment explanation
Indices: 64846216--64846319 Score: 81
Period size: 23 Copynumber: 4.5 Consensus size: 22
64846206 TCAATATTCA
*
64846216 ATTTTCATTTCTAAATTCATTTC
1 ATTTTCATTT-TAAATTTATTTC
64846239 ATTTTCATTTCT-AATTTCATTTC
1 ATTTTCATTT-TAAATTT-ATTTC
* *
64846262 ATATTTTATTTAATTAAATTTGTTT-
1 AT-TTTCA-TT--TTAAATTTATTTC
64846287 -TTTTCA-TTTAAATTTATTTC
1 ATTTTCATTTTAAATTTATTTC
64846307 ATTTTCCATTTTA
1 ATTTT-CATTTTA
64846320 TTTTAAGTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
19 11 0.17
21 5 0.08
22 6 0.09
23 27 0.41
24 5 0.08
25 2 0.03
26 4 0.06
27 6 0.09
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.62
Consensus pattern (22 bp):
ATTTTCATTTTAAATTTATTTC
Found at i:64846421 original size:13 final size:12
Alignment explanation
Indices: 64846386--64846412 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
64846376 TATACTTTAT
64846386 TTTCATTTCATA
1 TTTCATTTCATA
64846398 TTTCATTTCATA
1 TTTCATTTCATA
64846410 TTT
1 TTT
64846413 TAGTTTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTCATTTCATA
Found at i:64846438 original size:29 final size:30
Alignment explanation
Indices: 64846381--64846448 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 30
64846371 TAATTTATAC
* *
64846381 TTTATTTTCATTTCATATTTCATTTCATAT
1 TTTATTTTCATTTCATAATTCACTTCATAT
*
64846411 TTTAGTTTCATTTCA-AATTCACTTCATAT
1 TTTATTTTCATTTCATAATTCACTTCATAT
64846440 TTTATTTTC
1 TTTATTTTC
64846449 GTTTAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 20 0.59
30 14 0.41
ACGTcount: A:0.24, C:0.15, G:0.01, T:0.60
Consensus pattern (30 bp):
TTTATTTTCATTTCATAATTCACTTCATAT
Found at i:64848167 original size:25 final size:24
Alignment explanation
Indices: 64848133--64848238 Score: 74
Period size: 25 Copynumber: 4.4 Consensus size: 24
64848123 AAATGAATTA
* *
64848133 AAATAATATAAAAATATTTAAAAGT
1 AAATGATATAAAAAGATTTAAAA-T
* *
64848158 AAATGATATAACAAGGTTTAAAAT
1 AAATGATATAAAAAGATTTAAAAT
** *
64848182 AAATGATAAATAAAACCATTTAAAGT
1 AAATGAT--ATAAAAAGATTTAAAAT
* *
64848208 AAA--AAACAAAAAG-TTTAAAAT
1 AAATGATATAAAAAGATTTAAAAT
*
64848229 AAATAATATA
1 AAATGATATA
64848239 TGAAATGGTT
Statistics
Matches: 61, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
21 10 0.16
22 5 0.08
23 3 0.05
24 9 0.15
25 19 0.31
26 15 0.25
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (24 bp):
AAATGATATAAAAAGATTTAAAAT
Found at i:64848345 original size:26 final size:26
Alignment explanation
Indices: 64848274--64848438 Score: 98
Period size: 26 Copynumber: 6.5 Consensus size: 26
64848264 ATAACTTTTA
* *
64848274 AAATAA-AGTATAAATTAATTTGAAAT
1 AAATAATA-TATAAAATAATTTAAAAT
* * * ** *
64848300 AAATAGTTTATAGAGCAATTTAAAGT
1 AAATAATATATAAAATAATTTAAAAT
64848326 AAATAATATATAAAATAATTTAAAA-
1 AAATAATATATAAAATAATTTAAAAT
*
64848351 ATAATAATACA-AAACA-AA-TTAAAAT
1 A-AATAATATATAAA-ATAATTTAAAAT
* *
64848376 -AAT-ATGATA-AAACT-ATTTAAAAC
1 AAATAAT-ATATAAAATAATTTAAAAT
* *
64848399 AAATACTATATAAAAAAATATTAAAAT
1 AAATAATATATAAAATAAT-TTAAAAT
64848426 AAATAATA-ATAAA
1 AAATAATATATAAA
64848439 TCTGTTCAAA
Statistics
Matches: 105, Mismatches: 22, Indels: 24
0.70 0.15 0.16
Matches are distributed among these distances:
22 3 0.03
23 14 0.13
24 12 0.11
25 10 0.10
26 53 0.50
27 13 0.12
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (26 bp):
AAATAATATATAAAATAATTTAAAAT
Found at i:64848351 original size:11 final size:12
Alignment explanation
Indices: 64848326--64848427 Score: 61
Period size: 11 Copynumber: 8.5 Consensus size: 12
64848316 AATTTAAAGT
64848326 AAATAATATATA
1 AAATAATATATA
*
64848338 AAATAATTTA-A
1 AAATAATATATA
*
64848349 AAATAATAATACA
1 AAATAAT-ATATA
*
64848362 AAACAA-AT-TA
1 AAATAATATATA
64848372 AAATAATATGATA
1 AAATAATAT-ATA
* *
64848385 AAACT-ATTTAAAA
1 AAA-TAATAT-ATA
*
64848398 CAAATACTATATA
1 -AAATAATATATA
*
64848411 AAAAAATAT-TA
1 AAATAATATATA
64848422 AAATAA
1 AAATAA
64848428 ATAATAATAA
Statistics
Matches: 68, Mismatches: 14, Indels: 17
0.69 0.14 0.17
Matches are distributed among these distances:
10 6 0.09
11 19 0.28
12 18 0.26
13 19 0.28
14 6 0.09
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.28
Consensus pattern (12 bp):
AAATAATATATA
Found at i:64848356 original size:23 final size:23
Alignment explanation
Indices: 64848326--64848424 Score: 76
Period size: 23 Copynumber: 4.1 Consensus size: 23
64848316 AATTTAAAGT
64848326 AAATAATATATAAAATAATTTAA
1 AAATAATATATAAAATAATTTAA
* * *
64848349 AAATAATAATACAAAACAAATT-A
1 AAATAAT-ATATAAAATAATTTAA
64848372 AAATAATATGATAAAACT-ATTTAAAA
1 AAATAATAT-ATAAAA-TAATTT--AA
* *
64848398 CAAATACTATATAAAAAAATATTAA
1 -AAATAATATATAAAATAAT-TTAA
64848423 AA
1 AA
64848425 TAAATAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
22 2 0.03
23 23 0.39
24 13 0.22
25 2 0.03
26 9 0.15
27 10 0.17
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.28
Consensus pattern (23 bp):
AAATAATATATAAAATAATTTAA
Found at i:64848402 original size:27 final size:27
Alignment explanation
Indices: 64848372--64848438 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
64848362 AAACAAATTA
**
64848372 AAATAATATGATAAAACTAT-TTAAAAC
1 AAATAATAT-ATAAAAAAATATTAAAAC
* *
64848399 AAATACTATATAAAAAAATATTAAAAT
1 AAATAATATATAAAAAAATATTAAAAC
64848426 AAATAATA-ATAAA
1 AAATAATATATAAA
64848439 TCTGTTCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 13 0.38
27 21 0.62
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (27 bp):
AAATAATATATAAAAAAATATTAAAAC
Found at i:64848511 original size:50 final size:48
Alignment explanation
Indices: 64848456--64848599 Score: 157
Period size: 50 Copynumber: 3.0 Consensus size: 48
64848446 AAAATATATA
* *
64848456 CTATGAAAGATTTATAACAAATAAAATAAATAAGTTTAATAATAAATCAC
1 CTATGAAAGATTTATAA-AAATAAAATAAACAAGTTTAAT-ATAAATAAC
* *
64848506 CTATGAAAAGATCTA-AAATAATAAAATAAACAAGTTTAATATAAATAAT
1 CTATG-AAAGATTTATAAA-AATAAAATAAACAAGTTTAATATAAATAAC
* * * * *
64848555 ATATGAGATATTT-TAAAAATAAAATAAACAGGCTTAATATAAATA
1 CTATGAAAGATTTATAAAAATAAAATAAACAAGTTTAATATAAATA
64848600 GTATCTGAGA
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
47 26 0.32
48 8 0.10
49 12 0.15
50 27 0.33
51 8 0.10
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (48 bp):
CTATGAAAGATTTATAAAAATAAAATAAACAAGTTTAATATAAATAAC
Found at i:64848579 original size:47 final size:47
Alignment explanation
Indices: 64848447--64848628 Score: 168
Period size: 47 Copynumber: 3.7 Consensus size: 47
64848437 AATCTGTTCA
*
64848447 AAATATATACTATGAAAGATTTATAACAAATAAAATAAATAAGTTTAATAAT
1 AAATA-ATA-TATGAAAGATTTA-AA-AAATAAAATAAACAAGTTTAAT-AT
* ** *
64848499 AAATCACCTATGAAAAGATCTAAAATAATAAAATAAACAAGTTTAATAT
1 AAATAATATATG-AAAGATTTAAAA-AATAAAATAAACAAGTTTAATAT
* * * * *
64848548 AAATAATATATGAGATATTTTAAAAATAAAATAAACAGGCTTAATAT
1 AAATAATATATGAAAGATTTAAAAAATAAAATAAACAAGTTTAATAT
* * * *
64848595 AAATAGTATCTGAGATATTTAAAAAAT-AAATAAA
1 AAATAATATATGAAAGATTTAAAAAATAAAATAAA
64848629 ATAAATGATA
Statistics
Matches: 111, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
46 7 0.06
47 45 0.41
48 8 0.07
49 12 0.11
50 26 0.23
51 9 0.08
52 4 0.04
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (47 bp):
AAATAATATATGAAAGATTTAAAAAATAAAATAAACAAGTTTAATAT
Found at i:64850646 original size:40 final size:40
Alignment explanation
Indices: 64850597--64850844 Score: 137
Period size: 40 Copynumber: 6.2 Consensus size: 40
64850587 CAGAATTTAA
* * *
64850597 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACA-TAGC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGA-ATTAGC
* * *
64850637 CCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
* ** * * * *
64850677 CCGGATTTAGTAACTCGCACAAATACCTTCGGGACTTAAC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
* * * * ** * * *
64850717 CCAGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
* * *
64850757 CC-GATTTTG-GTAACTCGCACAAATGCCTTCGGGAATT-GAC
1 CCGGATATAGCG--ACTCGCACAATTGCCTTCGGGAATTAG-C
* * ** *
64850797 CCGGATTTAGTC-ACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAG-CGAC-TCGCACAATTGCCTTCGGGAATTAGC
64850838 CCGGATA
1 CCGGATA
64850845 CCATTCGAAT
Statistics
Matches: 171, Mismatches: 28, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
39 6 0.04
40 131 0.77
41 33 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
Found at i:64850735 original size:80 final size:81
Alignment explanation
Indices: 64850650--64850843 Score: 248
Period size: 80 Copynumber: 2.4 Consensus size: 81
64850640 GTTATAGTGA
* * *
64850650 TTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATACCTTCGGGACTTA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATACCTTCGGGAATTA
* *
64850715 ACCCAGTTTTGGTAAC
66 ACCCAGATTTAGTAAC
* * *
64850731 -TCGCACAAATGCCTTCGGGACTTAACCC-GATTTTGGTAACTCGCACAAATGCCTTCGGGAATT
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGA-TTTAGTAACTCGCACAAATACCTTCGGGAATT
* * *
64850794 GACCCGGATTTAGTCAC
65 AACCCAGATTTAGTAAC
* *
64850811 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
64850844 ACCATTCGAA
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 2 0.02
80 66 0.69
81 26 0.27
82 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (81 bp):
TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATACCTTCGGGAATTA
ACCCAGATTTAGTAAC
Found at i:64854879 original size:2 final size:2
Alignment explanation
Indices: 64854874--64854898 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
64854864 AAAAATAAAA
64854874 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
64854899 TTCGTAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:64856213 original size:11 final size:13
Alignment explanation
Indices: 64856185--64856211 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64856175 TTTTTGTAGT
64856185 TATTTATTTAATA
1 TATTTATTTAATA
64856198 TATTTATTTAATA
1 TATTTATTTAATA
64856211 T
1 T
64856212 TTTTGTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTATTTAATA
Found at i:64860471 original size:11 final size:11
Alignment explanation
Indices: 64860457--64860481 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
64860447 TTAAATAACA
64860457 TTTAAGTTATT
1 TTTAAGTTATT
64860468 TTTAAGTTATT
1 TTTAAGTTATT
64860479 TTT
1 TTT
64860482 TTTTTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTAAGTTATT
Found at i:64865480 original size:25 final size:25
Alignment explanation
Indices: 64865452--64865499 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
64865442 TATGTAATTT
64865452 ATAATACATACAAATTA-AATATATA
1 ATAATACATA-AAATTATAATATATA
* *
64865477 ATAATATATAATATTATAATATA
1 ATAATACATAAAATTATAATATA
64865500 AACATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (25 bp):
ATAATACATAAAATTATAATATATA
Found at i:64868118 original size:18 final size:19
Alignment explanation
Indices: 64868092--64868131 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
64868082 CAATCAGGGC
* *
64868092 ATTATGGACTTGA-ATTTG
1 ATTAGGGACTTCAGATTTG
64868110 ATTAGGGACTTCAGATTTG
1 ATTAGGGACTTCAGATTTG
64868129 ATT
1 ATT
64868132 GCCAGTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (19 bp):
ATTAGGGACTTCAGATTTG
Found at i:64874749 original size:48 final size:48
Alignment explanation
Indices: 64874674--64874782 Score: 137
Period size: 48 Copynumber: 2.3 Consensus size: 48
64874664 CCGTAATGGT
* * * * * *
64874674 AACAGTCTCAGTCATGGTACACAAAGTACTTTATCGGATCGAATCCGG
1 AACAGTCACAGTCACGGTACACAAAGTACCTCATCGGAACGAATCCGA
* * *
64874722 AACAGTCCCAGTCACGGTACACTAAGTACCTCATTGGAACGAATCCGA
1 AACAGTCACAGTCACGGTACACAAAGTACCTCATCGGAACGAATCCGA
64874770 AACAGTCACAGTC
1 AACAGTCACAGTC
64874783 TGGCGACACT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (48 bp):
AACAGTCACAGTCACGGTACACAAAGTACCTCATCGGAACGAATCCGA
Found at i:64875079 original size:3 final size:3
Alignment explanation
Indices: 64875071--64875112 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
64875061 ATTCAATACC
64875071 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
64875113 CTTACCATTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:64875907 original size:3 final size:3
Alignment explanation
Indices: 64875835--64875893 Score: 100
Period size: 3 Copynumber: 19.0 Consensus size: 3
64875825 GTTTTGTTTT
64875835 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
64875883 ACTTA ATA ATA
1 A--TA ATA ATA
64875894 TACTTATATA
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
3 51 0.94
5 3 0.06
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:64880403 original size:55 final size:55
Alignment explanation
Indices: 64880344--64880451 Score: 121
Period size: 55 Copynumber: 2.0 Consensus size: 55
64880334 GCGGCTTGGG
*
64880344 ACACGCCCGTGTCCTAAACCCGTGTGC-AACACTGACTTTTAA-ACACGGCCATGAC
1 ACACGCCCGTGTCCTAAACCCGTGTACTAA-ACTGAC-TTTAAGACACGGCCATGAC
** ** **
64880399 ACACGTTCGTGTGGTCTACCCGTGTACTAAACTGACTTTAAGACACGGCCATG
1 ACACGCCCGTGTCCTAAACCCGTGTACTAAACTGACTTTAAGACACGGCCATG
64880452 GCAACCAGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
54 5 0.11
55 37 0.84
56 2 0.05
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (55 bp):
ACACGCCCGTGTCCTAAACCCGTGTACTAAACTGACTTTAAGACACGGCCATGAC
Found at i:64883636 original size:30 final size:30
Alignment explanation
Indices: 64883602--64883662 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
64883592 TCCTTAACTC
64883602 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
64883632 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
64883662 A
1 A
64883663 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:64884616 original size:48 final size:48
Alignment explanation
Indices: 64884564--64884672 Score: 155
Period size: 48 Copynumber: 2.3 Consensus size: 48
64884554 TCGTAACGGT
** * ** *
64884564 AACAGTCACAGTCATGGTACACAAAGTACCTCATCGGAATGAATTTGG
1 AACAGTCACAGTCACAGTACACAAAGTACCTCATCGGAACGAATCCGA
*
64884612 AACAGTCATAGTCACAGTACACAAAGTACCTCATCGGAACGAATCCGA
1 AACAGTCACAGTCACAGTACACAAAGTACCTCATCGGAACGAATCCGA
64884660 AACAGTCACAGTC
1 AACAGTCACAGTC
64884673 TGGCGACACT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (48 bp):
AACAGTCACAGTCACAGTACACAAAGTACCTCATCGGAACGAATCCGA
Found at i:64894189 original size:25 final size:26
Alignment explanation
Indices: 64894154--64894211 Score: 109
Period size: 25 Copynumber: 2.3 Consensus size: 26
64894144 GACACATGAC
64894154 TATGTGACTAACTCATTGATTGAGTG
1 TATGTGACTAACTCATTGATTGAGTG
64894180 TATGT-ACTAACTCATTGATTGAGTG
1 TATGTGACTAACTCATTGATTGAGTG
64894205 TATGTGA
1 TATGTGA
64894212 TAGGAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 25 0.81
26 6 0.19
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (26 bp):
TATGTGACTAACTCATTGATTGAGTG
Found at i:64899419 original size:40 final size:40
Alignment explanation
Indices: 64899356--64899496 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
64899346 TGAATGATAC
* * *
64899356 CCGGGCTAAG-CCCTGAAGACAATTATGCTGGAAATTATAT
1 CCGGGCTAAGACCC-GAAGGCAATTGTGCTGGTAATTATAT
* * *** *
64899396 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATTATAT
* *
64899436 CCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATTATAT
64899476 CCGGGCTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
64899497 TTCGTGCACG
Statistics
Matches: 81, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
39 3 0.04
40 75 0.93
41 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATTATAT
Found at i:64899517 original size:40 final size:40
Alignment explanation
Indices: 64899390--64899519 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
64899380 ATGCTGGAAA
* *
64899390 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
64899430 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
64899470 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
64899510 TTATATCCGG
1 TTATATCCGG
64899520 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:64904241 original size:2 final size:2
Alignment explanation
Indices: 64904234--64904261 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
64904224 GGCTCTACCC
64904234 AT 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 AT
64904262 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64905065 original size:40 final size:40
Alignment explanation
Indices: 64904971--64905115 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
64904961 TACTCGAATG
* *
64904971 ATATCCGAGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
64905012 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
64905052 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
64905092 ATATCTGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
64905116 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:64909598 original size:3 final size:3
Alignment explanation
Indices: 64909590--64909634 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
64909580 ATTCAATACC
64909590 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
64909635 CTTACCATTC
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:64910364 original size:3 final size:3
Alignment explanation
Indices: 64910356--64910383 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
64910346 TTTGTTTTAT
64910356 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
64910384 GTAAATATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:64911863 original size:25 final size:25
Alignment explanation
Indices: 64911835--64911928 Score: 88
Period size: 25 Copynumber: 3.8 Consensus size: 25
64911825 GTTACCGATT
64911835 TCAGCTCGTGA-GAGCTTACTAATT-C
1 TCAGCTCGT-ATGAGCTTACT-ATTAC
* *
64911860 TCAGCTCGTATTAGCTTACTGTTAC
1 TCAGCTCGTATGAGCTTACTATTAC
*
64911885 TCAGCTCGTATGAGCTTATCGATTA-
1 TCAGCTCGTATGAGCTTA-CTATTAC
* *
64911910 -CAGCTCGTAAGAGCATACT
1 TCAGCTCGTATGAGCTTACT
64911929 GATTTAGAGC
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.02
24 18 0.31
25 35 0.60
26 4 0.07
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (25 bp):
TCAGCTCGTATGAGCTTACTATTAC
Found at i:64917717 original size:20 final size:19
Alignment explanation
Indices: 64917681--64917730 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
64917671 TATAGCAACT
*
64917681 CACATTTTCAATTATTTCA
1 CACATTTACAATTATTTCA
*
64917700 CACATTTACAACTTATTTTA
1 CACATTTACAA-TTATTTCA
64917720 CA-ACTTTACAA
1 CACA-TTTACAA
64917731 AATAGCCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (19 bp):
CACATTTACAATTATTTCA
Found at i:64919235 original size:64 final size:63
Alignment explanation
Indices: 64919101--64919264 Score: 181
Period size: 64 Copynumber: 2.6 Consensus size: 63
64919091 TGACATCTAC
* * * *
64919101 AGAGA-AAGTAAACACAGAATAGATAATCTACTGGGATAGTAACACAAAACAAAGAAAGTCCAT
1 AGAGACAA-TAAACACAGAATAGATAGTCTATTGGGACAATAACACAAAACAAAGAAAGTCCAT
* * * *
64919164 TGAGACAATAAACACATAATAGATAGTCCATTGGGACAATAAACACAGAACAAAGAAAGTTCGC-
1 AGAGACAATAAACACAGAATAGATAGTCTATTGGGACAAT-AACACAAAACAAAGAAAG-TC-CA
64919228 T
63 T
* *
64919229 AG-GACAATAAACATAGAATAGATAGTCTGTTGGGAC
1 AGAGACAATAAACACAGAATAGATAGTCTATTGGGAC
64919265 GGTAAATACA
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
63 30 0.36
64 49 0.58
65 4 0.05
66 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (63 bp):
AGAGACAATAAACACAGAATAGATAGTCTATTGGGACAATAACACAAAACAAAGAAAGTCCAT
Found at i:64919394 original size:28 final size:28
Alignment explanation
Indices: 64919362--64919416 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
64919352 CCACTAGGAT
*
64919362 AGTAAACACGAGGTAAGTCTGTTGGGAC
1 AGTAAACACGAGGTAAGTCTGATGGGAC
*
64919390 AGTAAACACGAGGTAAGTTTGATGGGA
1 AGTAAACACGAGGTAAGTCTGATGGGA
64919417 TGCAAAGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.11, G:0.33, T:0.22
Consensus pattern (28 bp):
AGTAAACACGAGGTAAGTCTGATGGGAC
Found at i:64920202 original size:21 final size:21
Alignment explanation
Indices: 64920177--64920245 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
64920167 TATAATGATT
64920177 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
64920198 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
64920218 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
64920238 ATTATTAT
1 ATTATTAT
64920246 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:64920258 original size:15 final size:14
Alignment explanation
Indices: 64920232--64920262 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
64920222 TATGGTTTTA
64920232 TATTAGATTATTAT
1 TATTAGATTATTAT
64920246 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
64920261 TA
1 TA
64920263 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:64921652 original size:21 final size:23
Alignment explanation
Indices: 64921611--64921652 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
64921601 AATATTCCGG
*
64921611 GTGTGTTTAGGTTGGATATTCTA
1 GTGTGTTTAGGATGGATATTCTA
64921634 GTGTGTTT-GGATGGA-ATTC
1 GTGTGTTTAGGATGGATATTC
64921653 GCGTATATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 6 0.33
23 8 0.44
ACGTcount: A:0.17, C:0.05, G:0.33, T:0.45
Consensus pattern (23 bp):
GTGTGTTTAGGATGGATATTCTA
Found at i:64937851 original size:15 final size:16
Alignment explanation
Indices: 64937827--64937861 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
64937817 TTTTTGATGT
*
64937827 ATTATATATATTTAAAA
1 ATTATATA-ATATAAAA
64937844 ATTATATAATATAAAA
1 ATTATATAATATAAAA
64937860 AT
1 AT
64937862 AAATACGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTATATAATATAAAA
Found at i:64945756 original size:15 final size:14
Alignment explanation
Indices: 64945715--64945757 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
64945705 AAGAGTAAGT
* *
64945715 CATTTTCAAAAAAT
1 CATTTTTAAAAAAC
*
64945729 CATTTTTTAAAAAC
1 CATTTTTAAAAAAC
64945743 CATTTTTAATAAAAC
1 CATTTTTAA-AAAAC
64945758 AAACGGAGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (14 bp):
CATTTTTAAAAAAC
Found at i:64946291 original size:14 final size:14
Alignment explanation
Indices: 64946255--64946283 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
64946245 ATATTATATA
64946255 TATAATTTTTTAAC
1 TATAATTTTTTAAC
64946269 TATAATTTTTTAAC
1 TATAATTTTTTAAC
64946283 T
1 T
64946284 TTAGTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
TATAATTTTTTAAC
Found at i:64949188 original size:2 final size:2
Alignment explanation
Indices: 64949181--64949210 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
64949171 AAAGAGACTG
64949181 AT AT 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 AT AT
64949211 GCCTGTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64953694 original size:1 final size:1
Alignment explanation
Indices: 64953690--64953715 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
64953680 TTTTAGAAGG
64953690 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
64953716 ATCTTTCAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:64955949 original size:33 final size:33
Alignment explanation
Indices: 64955907--64955972 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
64955897 CAACGCTATC
*
64955907 TCTGTAAAAGCTAATATTATGAATAAGAATAAT
1 TCTGTAAAAGCTAATATTATGAATAAAAATAAT
*
64955940 TCTGTAAAAGGTAATATTATGAATAAAAATAAT
1 TCTGTAAAAGCTAATATTATGAATAAAAATAAT
64955973 GCTTCTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (33 bp):
TCTGTAAAAGCTAATATTATGAATAAAAATAAT
Found at i:64963660 original size:41 final size:41
Alignment explanation
Indices: 64963600--64963679 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
64963590 GGCCAGGCCA
*
64963600 TGTAACTCACTGTGACCGTGTAGCTTAGGGTCACACAGCCG
1 TGTAACTCACTGTGACCGTGTAGCTTAAGGTCACACAGCCG
* * *
64963641 TGTAACTCTCTGT-ACCCGTGTGGTTTAAGGTCACACAGC
1 TGTAACTCACTGTGA-CCGTGTAGCTTAAGGTCACACAGC
64963680 AATGTCGCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 1 0.03
41 33 0.97
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (41 bp):
TGTAACTCACTGTGACCGTGTAGCTTAAGGTCACACAGCCG
Found at i:64984347 original size:46 final size:46
Alignment explanation
Indices: 64984216--64984355 Score: 169
Period size: 46 Copynumber: 3.0 Consensus size: 46
64984206 ATGCCATTTA
*
64984216 CCAGACATGGTTTTACACTGGCTATCATCACCGAGGCCGATGCCATGTC
1 CCAGACATGGTTTTACACTGGCTA-CATC-TCGAGGCCGATG-CATGTC
* *
64984265 CCAGACATGGTTTTACACTGAC-ACATCTTGTA-GCCGATGCATGTC
1 CCAGACATGGTTTTACACTGGCTACATCTCG-AGGCCGATGCATGTC
* *
64984310 CCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTC
1 CCAGACATGGTTTTACACTGGC-TACATCTCGAGGCCGATGCATGTC
64984356 TGGAAACACA
Statistics
Matches: 80, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
44 11 0.14
45 15 0.19
46 27 0.34
47 5 0.06
48 1 0.01
49 21 0.26
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (46 bp):
CCAGACATGGTTTTACACTGGCTACATCTCGAGGCCGATGCATGTC
Found at i:64999203 original size:17 final size:17
Alignment explanation
Indices: 64999165--64999205 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
64999155 ATTTTTATCA
64999165 TTTATCATTTATCGGAC
1 TTTATCATTTATCGGAC
* * *
64999182 ATTATCATTTATTGGGC
1 TTTATCATTTATCGGAC
64999199 TTTATCA
1 TTTATCA
64999206 GATATGTCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (17 bp):
TTTATCATTTATCGGAC
Found at i:65001839 original size:40 final size:41
Alignment explanation
Indices: 65001753--65001858 Score: 160
Period size: 40 Copynumber: 2.6 Consensus size: 41
65001743 ATAGCTACGA
*
65001753 CTAATTAATTGGCACTAAGTGTACGATACAATTATAGCCTCGG
1 CTAATTAATTGGCACTAAGTGT--GATACAATTATAGCCTCAG
*
65001796 CTAA-TAATTGGCACTAAGTGTGATACAATTATAGCTTCAG
1 CTAATTAATTGGCACTAAGTGTGATACAATTATAGCCTCAG
*
65001836 CTAATTAATTAGCACTAAGTGTG
1 CTAATTAATTGGCACTAAGTGTG
65001859 CGAGTTTGTT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
40 21 0.36
41 17 0.29
42 17 0.29
43 4 0.07
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (41 bp):
CTAATTAATTGGCACTAAGTGTGATACAATTATAGCCTCAG
Found at i:65003774 original size:28 final size:28
Alignment explanation
Indices: 65003734--65003788 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
65003724 GGTGTTACAA
65003734 TTATAATTGATTTATTGTAACAGCCCAG
1 TTATAATTGATTTATTGTAACAGCCCAG
*
65003762 TTATAATTGATTTATTGTAATAGCCCA
1 TTATAATTGATTTATTGTAACAGCCCA
65003789 TTTTTCAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (28 bp):
TTATAATTGATTTATTGTAACAGCCCAG
Found at i:65015636 original size:79 final size:80
Alignment explanation
Indices: 65015502--65015652 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
65015492 AATGATGTCC
* * *
65015502 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTTCGTA
1 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGTA
65015567 CGAGTTAATAAATTT
66 CGAGTTAATAAATTT
* * **
65015582 GGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTCG
1 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTCG
*
65015644 TGCGAGTTA
64 TACGAGTTA
65015653 CTATAACCGA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 45 0.74
80 15 0.25
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGTA
CGAGTTAATAAATTT
Found at i:65015653 original size:40 final size:40
Alignment explanation
Indices: 65015499--65015681 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 40
65015489 TTGAATGATG
* * * *
65015499 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
65015539 TCCGGACTAAGAT-CCGAAGGCGTTCGTACGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
** *
65015579 TTTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
65015618 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AA
* **
65015659 -CCGAGCTTTGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
65015682 TGAGCAAGTC
Statistics
Matches: 115, Mismatches: 23, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
39 30 0.26
40 77 0.67
41 8 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:65020695 original size:107 final size:108
Alignment explanation
Indices: 65020508--65020717 Score: 413
Period size: 107 Copynumber: 2.0 Consensus size: 108
65020498 AAAAAGTTAC
65020508 ACAGAGTTGATTTGGTCTGAGAGACCGAGGAAAAAGTGAAAGTAATTCGAGACAGTTTGAAAGCA
1 ACAGAGTTGATTTGGTCTGAGAGACCGAGGAAAAAGTGAAAGTAATTCGAGACAGTTTGAAAGCA
65020573 GCCTCTGATCGTTAAAAGTCCTATGATGATCTAAAACATTTTT
66 GCCTCTGATCGTTAAAAGTCCTATGATGATCTAAAACATTTTT
65020616 ACAGAGTTGATTTGGTCTGAGAGACCGAGG-AAAAGTGAAAGTAATTCGAGACAGTTTGAAAGCA
1 ACAGAGTTGATTTGGTCTGAGAGACCGAGGAAAAAGTGAAAGTAATTCGAGACAGTTTGAAAGCA
65020680 GCCTCTGATCGTTAAAAGTCCTATGATGATCTAAAACA
66 GCCTCTGATCGTTAAAAGTCCTATGATGATCTAAAACA
65020718 AAAAGAAATA
Statistics
Matches: 102, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 72 0.71
108 30 0.29
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (108 bp):
ACAGAGTTGATTTGGTCTGAGAGACCGAGGAAAAAGTGAAAGTAATTCGAGACAGTTTGAAAGCA
GCCTCTGATCGTTAAAAGTCCTATGATGATCTAAAACATTTTT
Found at i:65024581 original size:40 final size:40
Alignment explanation
Indices: 65024464--65024574 Score: 186
Period size: 40 Copynumber: 2.8 Consensus size: 40
65024454 GTGCAGGTTT
* *
65024464 CACACGGCTAAGACACACGCCCGTGTTTTAGGCCGTGTAG
1 CACACGGCTGAGACACACGCCCGTGTTCTAGGCCGTGTAG
65024504 CACACGGCTGAGACACACGCCCGTGTTCTAGGCCGTGTAG
1 CACACGGCTGAGACACACGCCCGTGTTCTAGGCCGTGTAG
*
65024544 CACACGGCTGAGACACATGCCCGTGTCTCTA
1 CACACGGCTGAGACACACGCCCGTGT-TCTA
65024575 CCCGTGTGCT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
40 63 0.94
41 4 0.06
ACGTcount: A:0.22, C:0.32, G:0.27, T:0.19
Consensus pattern (40 bp):
CACACGGCTGAGACACACGCCCGTGTTCTAGGCCGTGTAG
Found at i:65030241 original size:29 final size:29
Alignment explanation
Indices: 65030174--65030327 Score: 229
Period size: 29 Copynumber: 5.3 Consensus size: 29
65030164 AAGTCTACAT
* * *
65030174 ACATGCATATGACCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
65030202 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
65030231 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
65030260 ACATTCATATGGCCCATTAGGCTCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
65030289 ACATTCATTTGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
65030318 ACATTCATAT
1 ACATTCATAT
65030328 TCATGCTTTC
Statistics
Matches: 113, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
28 20 0.18
29 93 0.82
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:65033394 original size:47 final size:47
Alignment explanation
Indices: 65033343--65034065 Score: 1173
Period size: 47 Copynumber: 15.4 Consensus size: 47
65033333 ATTGATGTAC
*
65033343 AAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
* * *
65033390 AAAGTGTATATATGTGATACGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
65033437 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
* * *
65033484 AAAGTGTATATATGTGATAAGGCCGAATGGCCCATGTGATGAATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
*
65033531 AAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
65033578 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
*
65033625 AAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
* * *
65033672 GAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT-AATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
*
65033718 AAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
* *
65033765 AAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
*
65033812 AAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
*
65033859 AAA--GTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
* *
65033904 AAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
* * *
65033951 AAAGTGTGTATATGTGATAAGACCTAATGGCCGATGTGATGGATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
* * * *
65033998 AAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
* *
65034045 AAAGTGTATAAATGTGATAAG
1 AAAGTGTGTATATGTGATAAG
65034066 TCCGAAGGGC
Statistics
Matches: 629, Mismatches: 44, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
45 45 0.07
46 42 0.07
47 542 0.86
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
AAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
Found at i:65033851 original size:22 final size:22
Alignment explanation
Indices: 65033823--65033896 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
65033813 AAGTGTGTAT
65033823 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* * ***
65033845 ATGTGATGAATG--TGAAAGTGTAT
1 ATGTGAT-AAGGCCT-AATG-GCCG
65033868 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
65033890 ATGTGAT
1 ATGTGAT
65033897 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 21 0.57
23 14 0.38
24 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:65043830 original size:21 final size:22
Alignment explanation
Indices: 65043806--65043848 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
65043796 ATAATTAGAA
65043806 CAAAAATACCCCCA-AAAAAAC
1 CAAAAATACCCCCACAAAAAAC
* *
65043827 CAAATATATCCCCACAAAAAAC
1 CAAAAATACCCCCACAAAAAAC
65043849 TTAGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.58, C:0.33, G:0.00, T:0.09
Consensus pattern (22 bp):
CAAAAATACCCCCACAAAAAAC
Found at i:65047836 original size:40 final size:40
Alignment explanation
Indices: 65047777--65047963 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
65047767 CATTGGAATG
* * * *
65047777 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
65047817 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
65047857 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * * *
65047897 AAATTCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
65047937 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
65047964 CGAGCGAGTC
Statistics
Matches: 120, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.03
40 113 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:65047879 original size:80 final size:80
Alignment explanation
Indices: 65047777--65047930 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
65047767 CATTGGAATG
* * ** *
65047777 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
65047842 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * * *
65047857 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATTCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
65047922 ATCGTGCGA
66 ATCGTGCGA
65047931 ATCACTATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:65047945 original size:80 final size:80
Alignment explanation
Indices: 65047781--65047963 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
65047771 GGAATGATAT
* ** * *
65047781 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
65047846 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * * *
65047861 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATTCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
65047926 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
65047941 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
65047964 CGAGCGAGTC
Statistics
Matches: 83, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 83 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:65053511 original size:21 final size:21
Alignment explanation
Indices: 65053487--65053527 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65053477 TTTACCTAGA
*
65053487 TGTGAATTGAATTAAATTGAG
1 TGTGAAATGAATTAAATTGAG
*
65053508 TGTGAAATGGATTAAATTGA
1 TGTGAAATGAATTAAATTGA
65053528 CATTAAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (21 bp):
TGTGAAATGAATTAAATTGAG
Found at i:65055079 original size:135 final size:135
Alignment explanation
Indices: 65054837--65055106 Score: 495
Period size: 135 Copynumber: 2.0 Consensus size: 135
65054827 ATACATTCAC
* *
65054837 TGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAAA
1 TGTGACAGCCCTAAAGTGACCCTAGTCAGAAAGCGGTTTCAGGACCGCTAAACCGAGTCACCAAA
* *
65054902 TTATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAGGCTTC
66 TTATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTAAAAGTTTTAAGCTTC
65054967 GATTT
131 GATTT
*
65054972 TGTGACAGCCCTAAAGTGACCCTAGTCAGAAAGTGGTTTCAGGACCGCTAAACCGAGTCACCAAA
1 TGTGACAGCCCTAAAGTGACCCTAGTCAGAAAGCGGTTTCAGGACCGCTAAACCGAGTCACCAAA
65055037 TTATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTAAAAGTTTTAAGCTTC
66 TTATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTAAAAGTTTTAAGCTTC
65055102 GATTT
131 GATTT
65055107 AGTAAATGGC
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 130 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (135 bp):
TGTGACAGCCCTAAAGTGACCCTAGTCAGAAAGCGGTTTCAGGACCGCTAAACCGAGTCACCAAA
TTATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTAAAAGTTTTAAGCTTC
GATTT
Found at i:65057683 original size:49 final size:49
Alignment explanation
Indices: 65057616--65057963 Score: 559
Period size: 47 Copynumber: 7.3 Consensus size: 49
65057606 TACATGATAG
65057616 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
65057665 TATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
65057714 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
65057763 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
65057810 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
65057857 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * * *
65057904 TATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
65057953 -A-ATGTGATAAG
1 TATATGTGATAAG
65057964 TCCTGAAGGG
Statistics
Matches: 288, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
47 144 0.50
48 1 0.00
49 143 0.50
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:65060524 original size:39 final size:40
Alignment explanation
Indices: 65060427--65060609 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
65060417 GAATGATGTT
* *
65060427 CGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TC
**
65060467 CGAACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTC
* *
65060507 TGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
* * *
65060546 CGGGATAAGTCCCGAAGGCATTTATGCGAGTTACT-ATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TC
*
65060586 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
65060610 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:65060561 original size:79 final size:81
Alignment explanation
Indices: 65060427--65060609 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
65060417 GAATGATGTT
* *
65060427 CGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACTATATCCGAACTAAGATCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGAACTAAGATCCGAAGGCATTTA
*
65060491 TGCGAGTTACTA-ATTC
66 TGCGAGTTACTATA-AC
* * * *
65060507 TGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCC-GAACTAAGAT-CCGAAGGCATT
65060568 TATGCGAGTTACTATAAC
64 TATGCGAGTTACTATAAC
*
65060586 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
65060610 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 33 0.37
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGAACTAAGATCCGAAGGCATTTA
TGCGAGTTACTATAAC
Found at i:65060640 original size:79 final size:79
Alignment explanation
Indices: 65060477--65060642 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
65060467 CGAACTAAGA
* * * **
65060477 TCCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
*
65060542 AATCCGGGATAAGT
66 AATCCGGGATAAAT
* *
65060556 CCCGAAGGCATTTATGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCATTTATGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-
* *
65060619 CTATATCC-GGTTAAAT
63 CTAAATCCGGGATAAAT
65060635 TCCGAAGG
1 TCCGAAGG
65060643 TACGTGATTT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGAAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
AATCCGGGATAAAT
Found at i:65066254 original size:34 final size:34
Alignment explanation
Indices: 65066207--65066271 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
65066197 TGAAATAGTC
*
65066207 TTGGGCCTAAGCCCCT-TTCAGTATCAGTAACGGT
1 TTGGGCCTAAGCCCATCTT-AGTATCAGTAACGGT
*
65066241 TTGGGCCTTAGCCCATCTTAGTATCAGTAAC
1 TTGGGCCTAAGCCCATCTTAGTATCAGTAAC
65066272 AGTCATCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.31
Consensus pattern (34 bp):
TTGGGCCTAAGCCCATCTTAGTATCAGTAACGGT
Found at i:65082103 original size:28 final size:28
Alignment explanation
Indices: 65082069--65082174 Score: 115
Period size: 28 Copynumber: 3.8 Consensus size: 28
65082059 TACATCCATG
*
65082069 CATATGGCCCACTAGGGCTAATCTTATT
1 CATATGGCCCACTAGGCCTAATCTTATT
* * *
65082097 CAAATGGCCCATCTA-GCCTAGTCATATT
1 CATATGGCCCA-CTAGGCCTAATCTTATT
* *
65082125 CTTATGGCCCACTAGGCCCAATTCTTATT
1 CATATGGCCCACTAGGCCTAA-TCTTATT
* *
65082154 CATATAGCCCATTAGGCCTAA
1 CATATGGCCCACTAGGCCTAA
65082175 ATCATATTAT
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
27 3 0.05
28 33 0.53
29 26 0.42
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (28 bp):
CATATGGCCCACTAGGCCTAATCTTATT
Found at i:65082164 original size:57 final size:57
Alignment explanation
Indices: 65082071--65082182 Score: 147
Period size: 57 Copynumber: 2.0 Consensus size: 57
65082061 CATCCATGCA
* * * *
65082071 TATGGCCCACTAGGGCTAATCTTATTCAAATGGCCCATCTA-GCCT-AGTCATATTCT
1 TATGGCCCACTAGGCCCAATCTTATTCAAATAGCCCAT-TAGGCCTAAATCATATTCT
*
65082127 TATGGCCCACTAGGCCCAATTCTTATTCATATAGCCCATTAGGCCTAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCTTATTCAAATAGCCCATTAGGCCTAAATCATATT
65082183 ATATCCATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
56 19 0.40
57 21 0.44
58 8 0.17
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCTTATTCAAATAGCCCATTAGGCCTAAATCATATTCT
Found at i:65082182 original size:29 final size:28
Alignment explanation
Indices: 65082069--65082186 Score: 114
Period size: 28 Copynumber: 4.2 Consensus size: 28
65082059 TACATCCATG
* *
65082069 CATATGGCCCACTAGGGCTAATCTTATT
1 CATATGGCCCACTAGGCCTAATCATATT
* *
65082097 CAAATGGCCCATCTA-GCCTAGTCATATT
1 CATATGGCCCA-CTAGGCCTAATCATATT
* * *
65082125 CTTATGGCCCACTAGGCCCAATTCTTATT
1 CATATGGCCCACTAGGCCTAA-TCATATT
* *
65082154 CATATAGCCCATTAGGCCTAAATCATATT
1 CATATGGCCCACTAGGCCT-AATCATATT
65082183 -ATAT
1 CATAT
65082187 CCATGTTCAC
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
27 3 0.04
28 37 0.51
29 30 0.42
30 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (28 bp):
CATATGGCCCACTAGGCCTAATCATATT
Found at i:65082431 original size:24 final size:24
Alignment explanation
Indices: 65082398--65082449 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
65082388 GTAGCCCAAC
65082398 TTTCGACTTTTCAGCATTTT-GACT
1 TTTCGACTTTTCAGC-TTTTCGACT
* *
65082422 TTTCGGCTTTTCAGCTTTTCGATT
1 TTTCGACTTTTCAGCTTTTCGACT
65082446 TTTC
1 TTTC
65082450 TGCATTTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.12, C:0.21, G:0.13, T:0.54
Consensus pattern (24 bp):
TTTCGACTTTTCAGCTTTTCGACT
Found at i:65083119 original size:26 final size:29
Alignment explanation
Indices: 65083055--65083119 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 29
65083045 CCAAGGAAAA
*
65083055 AGAAAGAA-AATTCAGCAATGAGGTAGAGG
1 AGAAA-AAGAATTCAGCAATAAGGTAGAGG
65083084 A-AAAATAGAATTCAGC-ATAAGG-A-AGG
1 AGAAAA-AGAATTCAGCAATAAGGTAGAGG
65083110 AGAAAAAGAA
1 AGAAAAAGAA
65083120 AAGAAAGGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
26 8 0.25
27 6 0.19
28 9 0.28
29 9 0.28
ACGTcount: A:0.55, C:0.06, G:0.26, T:0.12
Consensus pattern (29 bp):
AGAAAAAGAATTCAGCAATAAGGTAGAGG
Found at i:65083726 original size:9 final size:8
Alignment explanation
Indices: 65083703--65083728 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
65083693 CAAGATTTCG
65083703 GGATTTTT
1 GGATTTTT
65083711 GGATTTTT
1 GGATTTTT
65083719 GGATTTTT
1 GGATTTTT
65083727 GG
1 GG
65083729 GGCATTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.31, T:0.58
Consensus pattern (8 bp):
GGATTTTT
Found at i:65086400 original size:23 final size:24
Alignment explanation
Indices: 65086371--65086448 Score: 95
Period size: 23 Copynumber: 3.2 Consensus size: 24
65086361 CCATTACATT
*
65086371 GCTCTTTGTGAGCTTCCTGATA-G
1 GCTCTTTGTGAACTTCCTGATATG
* *
65086394 GCTCTTTGTGACCTTCCTAATATG
1 GCTCTTTGTGAACTTCCTGATATG
* *
65086418 GTTCTTTGTGAACTTCCTGATTATA
1 GCTCTTTGTGAACTTCCTGA-TATG
65086443 GCTCTT
1 GCTCTT
65086449 ATGAGCTTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
23 20 0.43
24 18 0.39
25 8 0.17
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (24 bp):
GCTCTTTGTGAACTTCCTGATATG
Found at i:65088229 original size:68 final size:68
Alignment explanation
Indices: 65088102--65088232 Score: 160
Period size: 68 Copynumber: 1.9 Consensus size: 68
65088092 GAAGTCCACG
* ** * * *
65088102 AGGATGTTAAACATGGGATAAAACTGTGTAAGACCATTGTTTAGCTGTGGCAACTTAGAGGGTCC
1 AGGATGTTAAACATGGGATAAAACTATGTAAGACCATTGGCTAGATGTGACAACATAGAGGGTCC
65088167 TCT
66 TCT
65088170 AGGATGTTAAACATGGTG-TAAAGA-TATGTAAGACCA-TGGCTAGGATGTGACAACATAGAGGG
1 AGGATGTTAAACATGG-GATAAA-ACTATGTAAGACCATTGGCTA-GATGTGACAACATAGAGGG
65088232 T
63 T
65088233 TTGCCATGAC
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
67 4 0.07
68 48 0.89
69 2 0.04
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (68 bp):
AGGATGTTAAACATGGGATAAAACTATGTAAGACCATTGGCTAGATGTGACAACATAGAGGGTCC
TCT
Found at i:65089810 original size:27 final size:27
Alignment explanation
Indices: 65089775--65089845 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
65089765 AAAAGAAAAT
* *
65089775 CTTTGTGGTGATCTATGAAAAGGAAGC
1 CTTTATGGTGATCTATGAAAAGGAACC
*
65089802 TTTTATGGTGATCTATGAAAAGGAACC
1 CTTTATGGTGATCTATGAAAAGGAACC
* *
65089829 CTTTGTGGCGATCTATG
1 CTTTATGGTGATCTATG
65089846 GAGGAAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (27 bp):
CTTTATGGTGATCTATGAAAAGGAACC
Found at i:65091108 original size:26 final size:27
Alignment explanation
Indices: 65091052--65091113 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
65091042 GTTAGATTGT
*
65091052 TAGGGCAATAAACACGAGGTAGTCCGC
1 TAGGGCAATAAACACGAGGTAGTCCAC
*
65091079 -AGGGACAATAAA-ATGAGGTAG-CCAC
1 TAGGG-CAATAAACACGAGGTAGTCCAC
65091104 TAGGGCAATA
1 TAGGGCAATA
65091114 TTCGTGGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 8 0.26
26 16 0.52
27 7 0.23
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.15
Consensus pattern (27 bp):
TAGGGCAATAAACACGAGGTAGTCCAC
Found at i:65091985 original size:15 final size:14
Alignment explanation
Indices: 65091965--65091998 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
65091955 AATAAATGAA
65091965 ATGAAAGTGATGGTT
1 ATGAAAG-GATGGTT
65091980 ATGAAAAGGATGGTT
1 ATG-AAAGGATGGTT
65091995 ATGA
1 ATGA
65091999 GGTATGAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.06
15 13 0.72
16 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.29
Consensus pattern (14 bp):
ATGAAAGGATGGTT
Found at i:65093240 original size:26 final size:26
Alignment explanation
Indices: 65093211--65093260 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
65093201 CCGTTGTTGC
*
65093211 TATCTCTAAAAGGAGGCCTTTGTGGT
1 TATCTATAAAAGGAGGCCTTTGTGGT
* *
65093237 TATCTATGAAAGGATGCCTTTGTG
1 TATCTATAAAAGGAGGCCTTTGTG
65093261 CTATCTTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (26 bp):
TATCTATAAAAGGAGGCCTTTGTGGT
Found at i:65093332 original size:29 final size:29
Alignment explanation
Indices: 65093249--65093369 Score: 101
Period size: 29 Copynumber: 4.2 Consensus size: 29
65093239 TCTATGAAAG
65093249 GATGCCTTTGT-GCTATCT-TAGTTATAAA-
1 GATGCCTTTGTGGCTATCTCTA-TTA-AAAT
* *
65093277 -AAGCCTTTGTGGCTATCTCTGA-CAAAAT
1 GATGCCTTTGTGGCTATCTCT-ATTAAAAT
* *
65093305 GATGCCTTTCTGGCTATCTCTATTAAAAG
1 GATGCCTTTGTGGCTATCTCTATTAAAAT
** *
65093334 GATATCTTTGTGGCTATCTCTGTT-AAAT
1 GATGCCTTTGTGGCTATCTCTATTAAAAT
65093362 GAATGCCT
1 G-ATGCCT
65093370 GGTTGAAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
27 12 0.16
28 13 0.18
29 47 0.64
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (29 bp):
GATGCCTTTGTGGCTATCTCTATTAAAAT
Found at i:65093752 original size:31 final size:31
Alignment explanation
Indices: 65093716--65093848 Score: 230
Period size: 31 Copynumber: 4.3 Consensus size: 31
65093706 TAAGGATAAT
*
65093716 GTAAAGGTAAGGTTTAAGAAAATAGATAAAA
1 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
* *
65093747 CTAAAGCTAAGGTTAAAGAAAATAGATAAAA
1 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
*
65093778 GTAAAGCTAAGGTTTAAGAAAATAGATAAAT
1 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
65093809 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
1 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
65093840 GTAAAGCTA
1 GTAAAGCTA
65093849 TGTTAAGTAT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 95 1.00
ACGTcount: A:0.54, C:0.04, G:0.20, T:0.23
Consensus pattern (31 bp):
GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
Found at i:65100045 original size:29 final size:29
Alignment explanation
Indices: 65100012--65100084 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
65100002 GTGCCATTTC
*
65100012 GTGTGAGCCACACGGTCGTGTGCTAGGTCA
1 GTGTGAGCCACACGGTCGTGTGCCAGGT-A
* **
65100042 -TGTGAGTCACATAGTCGTGTGCCAGGTA
1 GTGTGAGCCACACGGTCGTGTGCCAGGTA
65100070 GTGTCG-GCCACACGG
1 GTGT-GAGCCACACGG
65100085 GTGTGTGAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
28 1 0.03
29 32 0.94
30 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.36, T:0.23
Consensus pattern (29 bp):
GTGTGAGCCACACGGTCGTGTGCCAGGTA
Found at i:65101516 original size:15 final size:16
Alignment explanation
Indices: 65101496--65101529 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
65101486 GTAGAAAAGT
65101496 TTTTAC-TTTAGTTAC
1 TTTTACTTTTAGTTAC
65101511 TTTTACTTTTTAGTTAC
1 TTTTAC-TTTTAGTTAC
65101528 TT
1 TT
65101530 AAGTAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTACTTTTAGTTAC
Found at i:65104834 original size:40 final size:40
Alignment explanation
Indices: 65104670--65104834 Score: 201
Period size: 40 Copynumber: 4.1 Consensus size: 40
65104660 CGGAGTTTAA
** *
65104670 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
65104710 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
65104750 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
65104790 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
65104830 CCGGA
1 CCGGA
65104835 CATCATTCGA
Statistics
Matches: 108, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
39 4 0.04
40 93 0.86
41 11 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:65112801 original size:40 final size:40
Alignment explanation
Indices: 65112764--65112948 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
65112754 GCTACTCGTT
*
65112764 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
65112804 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
65112844 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
65112884 CAAATGCCTTC-GGATCTTAGTCC-GATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
65112924 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65112949 CATCATTCGA
Statistics
Matches: 132, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
39 25 0.19
40 105 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:65127802 original size:5 final size:5
Alignment explanation
Indices: 65127764--65127860 Score: 72
Period size: 5 Copynumber: 18.4 Consensus size: 5
65127754 AATCTTTAAT
65127764 TTTTAA TTTTAA TTTTA -TTTA TTATTA TTATTA TTTTA TTTTTTA TTTTA
1 TTTT-A TTTT-A TTTTA TTTTA TT-TTA TT-TTA TTTTA --TTTTA TTTTA
* * * * *
65127814 TTTAA TTTTA TTTAA TTTTG TTTTA TTTT- TAATTA TTTTA TTATA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TT
65127861 CATAAAATTC
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
4 5 0.07
5 44 0.58
6 22 0.29
7 5 0.07
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:65127844 original size:43 final size:45
Alignment explanation
Indices: 65127771--65127860 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 45
65127761 AATTTTTAAT
*
65127771 TTTAATTTTATTTATTATTATTATTATTTT-ATT-TTTTATTTTA
1 TTTAATTTTATTTATTATTATTATTATTTTAATTATTTTATTATA
*
65127814 TTTAATTTTATTTAATT-TTGTT-TTATTTTTAATTATTTTATTATA
1 TTTAATTTTATTT-ATTATTATTATTA-TTTTAATTATTTTATTATA
65127859 TT
1 TT
65127861 CATAAAATTC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
42 3 0.07
43 21 0.51
44 6 0.15
45 11 0.27
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.73
Consensus pattern (45 bp):
TTTAATTTTATTTATTATTATTATTATTTTAATTATTTTATTATA
Found at i:65131278 original size:10 final size:10
Alignment explanation
Indices: 65131263--65131322 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
65131253 AAATTTTAGG
65131263 ATTTAT-TTT
1 ATTTATCTTT
65131272 CATTTATCTTT
1 -ATTTATCTTT
65131283 ATTTATCTTT
1 ATTTATCTTT
*
65131293 AATTATCTTT
1 ATTTATCTTT
65131303 ATTTAT-TTGT
1 ATTTATCTT-T
65131313 ATTTATCTTT
1 ATTTATCTTT
65131323 TAGAATTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Done.