Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 105 of 226
Found at i:36247252 original size:228 final size:228
Alignment explanation
Indices: 36246855--36247363 Score: 964
Period size: 228 Copynumber: 2.2 Consensus size: 228
36246845 TTTATTAGTA
*
36246855 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTTTA
1 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATA
36246920 TACATTTTTAATATAAATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
66 TACATTTTTAATATAAATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
*
36246985 TAAATTTATCAATCATATCATAACTTATATATAAACTTACCTAATACATGCATATCTTAAATAAC
131 TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
*
36247050 ATACAATACATAAACATGCATATAAACTTGCAT
196 ATACAATACATAAACATACATATAAACTTGCAT
36247083 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATA
1 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATA
*
36247148 TACATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
66 TACATTTTTAATATAAATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
36247213 TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
131 TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
*
36247278 ATACAATACATAAACTTACATATAAACTTGCAT
196 ATACAATACATAAACATACATATAAACTTGCAT
*
36247311 AACAATTTTTAAATTACATAACAATTTTTAAAGTATATAACTTACATAACTTA
1 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTA
36247364 CATACCTTAC
Statistics
Matches: 275, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
228 275 1.00
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.41
Consensus pattern (228 bp):
AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATA
TACATTTTTAATATAAATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
ATACAATACATAAACATACATATAAACTTGCAT
Found at i:36247350 original size:19 final size:19
Alignment explanation
Indices: 36247308--36247351 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
36247298 TATAAACTTG
*
36247308 CATAACAATTTTTAAATTA
1 CATAACAATTTTTAAAGTA
36247327 CATAACAATTTTTAAAGTA
1 CATAACAATTTTTAAAGTA
*
36247346 TATAAC
1 CATAAC
36247352 TTACATAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (19 bp):
CATAACAATTTTTAAAGTA
Found at i:36247361 original size:9 final size:9
Alignment explanation
Indices: 36247347--36247961 Score: 499
Period size: 9 Copynumber: 67.2 Consensus size: 9
36247337 TTTAAAGTAT
36247347 ATAACTTAC
1 ATAACTTAC
36247356 ATAACTTAC
1 ATAACTTAC
*
36247365 ATACCTTAC
1 ATAACTTAC
* *
36247374 ATAAATTAA
1 ATAACTTAC
*
36247383 ATAATTTAC
1 ATAACTTAC
36247392 ATAACTTAC
1 ATAACTTAC
*
36247401 ATAACTTAA
1 ATAACTTAC
36247410 ATAACTTAC
1 ATAACTTAC
36247419 ATAA--TAC
1 ATAACTTAC
*
36247426 ATAACCTAC
1 ATAACTTAC
*
36247435 ATAACTTAA
1 ATAACTTAC
* *
36247444 ATTATTTAC
1 ATAACTTAC
36247453 ATAA--TAC
1 ATAACTTAC
36247460 ATAACTTAGTAC
1 ATAAC-T--TAC
*
36247472 ATAATTTAC
1 ATAACTTAC
36247481 ATAA--TAC
1 ATAACTTAC
36247488 ATAACTTTAGTAC
1 ATAAC--T--TAC
36247501 ATAACTTTTTAC
1 ATAAC---TTAC
36247513 ATAA--TAC
1 ATAACTTAC
36247520 ATAACTTTAGTAC
1 ATAAC--T--TAC
36247533 ATAACTTAC
1 ATAACTTAC
* **
36247542 ATTA-TTTT
1 ATAACTTAC
* ** *
36247550 TTTTC-TAA
1 ATAACTTAC
**
36247558 ATTGCTTAC
1 ATAACTTAC
* *
36247567 ATAAATTAA
1 ATAACTTAC
36247576 ATAACTTAC
1 ATAACTTAC
36247585 ATAACTTAC
1 ATAACTTAC
* *
36247594 ATAAATTAA
1 ATAACTTAC
36247603 ATAACTTAC
1 ATAACTTAC
36247612 ATAACTTAC
1 ATAACTTAC
36247621 ATAACTTAC
1 ATAACTTAC
*
36247630 ATAACTTAA
1 ATAACTTAC
36247639 ATAACTTAC
1 ATAACTTAC
*
36247648 ATTACTTAC
1 ATAACTTAC
*
36247657 ATAAATTAC
1 ATAACTTAC
36247666 ATAACTTAC
1 ATAACTTAC
36247675 ATAACTTAC
1 ATAACTTAC
36247684 ATAA--TAC
1 ATAACTTAC
*
36247691 ATAACCTAC
1 ATAACTTAC
* *
36247700 CTAACTTAA
1 ATAACTTAC
* *
36247709 ATTATTTAC
1 ATAACTTAC
36247718 ATAA--TAC
1 ATAACTTAC
36247725 ATAACTTAGTAC
1 ATAAC-T--TAC
36247737 ATAACTTAC
1 ATAACTTAC
*
36247746 ATACCATCTTTC
1 ATA--A-CTTAC
36247758 TATTAATTGCTTAC
1 -A-TAA---CTTAC
* *
36247772 ATAAATTAA
1 ATAACTTAC
36247781 ATAACTTAC
1 ATAACTTAC
36247790 ATAACTTAC
1 ATAACTTAC
* *
36247799 ATAAATTAA
1 ATAACTTAC
36247808 ATAACTTAC
1 ATAACTTAC
36247817 ATAACTTAC
1 ATAACTTAC
36247826 ATAACTTAC
1 ATAACTTAC
*
36247835 ATAACTTAA
1 ATAACTTAC
36247844 ATAACTTAC
1 ATAACTTAC
36247853 ATTAACTTAC
1 A-TAACTTAC
36247863 ATAACTTAC
1 ATAACTTAC
*
36247872 ATATCTTAC
1 ATAACTTAC
36247881 ATAACTTAC
1 ATAACTTAC
* *
36247890 ATAAATTAA
1 ATAACTTAC
36247899 ATAACTTAC
1 ATAACTTAC
36247908 ATAACTTAC
1 ATAACTTAC
36247917 ATAACTTAC
1 ATAACTTAC
36247926 ATAACTTAC
1 ATAACTTAC
36247935 ATAA--TAC
1 ATAACTTAC
36247942 ATAACCTT-C
1 ATAA-CTTAC
*
36247951 CTAACTTAC
1 ATAACTTAC
36247960 AT
1 AT
36247962 TATTGTCTAA
Statistics
Matches: 494, Mismatches: 71, Indels: 82
0.76 0.11 0.13
Matches are distributed among these distances:
7 49 0.10
8 11 0.02
9 363 0.73
10 10 0.02
11 4 0.01
12 30 0.06
13 18 0.04
14 9 0.02
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:36247440 original size:228 final size:228
Alignment explanation
Indices: 36246855--36247489 Score: 730
Period size: 228 Copynumber: 2.8 Consensus size: 228
36246845 TTTATTAGTA
* * **
36246855 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTTTA
1 AACAATTTTTAAATTACATAACAATTTTTAAAGTATATAACTTACATAACTTATAAATACTTACA
* ** * ** * *** * **
36246920 TACATTTTTAATATAAATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
66 TAAATTAATAATATACATACTTAAAATCTAAATAACTTACAAAATACATCAATCATAGCATAACT
*
36246985 TAAATTTATCAATCATATCATAACTTATATATAAACTTACCTAATACATGCATATCTTAAATAAC
131 TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
*
36247050 ATACAATACATAAACATGCATATAAACTTGCAT
196 ATACAATACATAAACATACATATAAACTTGCAT
* * *
36247083 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATA
1 AACAATTTTTAAATTACATAACAATTTTTAAAGTATATAACTTACATAACTTATAAATACTTACA
* ** * ** * *** * **
36247148 TACATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
66 TAAATTAATAATATACATACTTAAAATCTAAATAACTTACAAAATACATCAATCATAGCATAACT
36247213 TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
131 TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
*
36247278 ATACAATACATAAACTTACATATAAACTTGCAT
196 ATACAATACATAAACATACATATAAACTTGCAT
*
36247311 AACAATTTTTAAATTACATAACAATTTTTAAAGTATATAACTTACATAAC-T-TACATACCTTAC
1 AACAATTTTTAAATTACATAACAATTTTTAAAGTATATAACTTACATAACTTATAAATA-CTTAC
* * *
36247374 ATAAATTAAATAATTTACATAACTTACATAA-CTTAAATAACTTACATAATACAT-AA-CCTA-C
65 ATAAATT-AATAATATACAT-ACTTA-A-AATC-TAAATAACTTACAAAATACATCAATCATAGC
** * *
36247435 ATAACTTAAA-TTATTTA-CATAATACATAACTTAGTACAT-AATTTACATAATACAT
125 ATAACTTAAATTTATCAATCAT-AT-CATAACTTA-TATATAAACTTACATAATACAT
36247490 AACTTTAGTA
Statistics
Matches: 369, Mismatches: 29, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
226 8 0.02
227 17 0.05
228 315 0.85
229 10 0.03
230 4 0.01
231 15 0.04
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (228 bp):
AACAATTTTTAAATTACATAACAATTTTTAAAGTATATAACTTACATAACTTATAAATACTTACA
TAAATTAATAATATACATACTTAAAATCTAAATAACTTACAAAATACATCAATCATAGCATAACT
TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
ATACAATACATAAACATACATATAAACTTGCAT
Found at i:36247489 original size:53 final size:58
Alignment explanation
Indices: 36247416--36247543 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 58
36247406 TTAAATAACT
36247416 TACATAA-TACATAACCTACATAAC-TTA-A-AT-TATTTACATAATACATAAC-TTAG
1 TACATAATTACATAA-CTACATAACTTTAGACATATATTTACATAATACATAACTTTAG
*
36247469 TACATAATTTACATAA-TACATAACTTTAGTACATAACTTTTTACATAATACATAACTTTAG
1 TACATAA-TTACATAACTACATAACTTTAG-ACAT-A-TATTTACATAATACATAACTTTAG
36247530 TACATAACTTACAT
1 TACATAA-TTACAT
36247544 TATTTTTTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
53 15 0.24
54 3 0.05
55 7 0.11
56 1 0.02
57 2 0.03
60 18 0.29
61 17 0.27
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (58 bp):
TACATAATTACATAACTACATAACTTTAGACATATATTTACATAATACATAACTTTAG
Found at i:36247503 original size:13 final size:13
Alignment explanation
Indices: 36247457--36247539 Score: 56
Period size: 13 Copynumber: 6.8 Consensus size: 13
36247447 ATTTACATAA
36247457 TACATAAC-TTAG
1 TACATAACTTTAG
* *
36247469 TACATAATTTACATAA
1 TACATAACTT---TAG
36247485 TACATAACTTTAG
1 TACATAACTTTAG
*
36247498 TACATAACTTT-T
1 TACATAACTTTAG
36247510 TACAT-A----A-
1 TACATAACTTTAG
36247517 TACATAACTTTAG
1 TACATAACTTTAG
36247530 TACATAACTT
1 TACATAACTT
36247540 ACATTATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 21
0.68 0.06 0.26
Matches are distributed among these distances:
7 5 0.09
8 1 0.02
11 1 0.02
12 13 0.24
13 24 0.44
16 11 0.20
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.39
Consensus pattern (13 bp):
TACATAACTTTAG
Found at i:36247503 original size:20 final size:19
Alignment explanation
Indices: 36247498--36247536 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
36247488 ATAACTTTAG
*
36247498 TACATAACTTTTTACATAA
1 TACATAACTTTGTACATAA
36247517 TACATAACTTTAGTACATAA
1 TACATAACTTT-GTACATAA
36247537 CTTACATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (19 bp):
TACATAACTTTGTACATAA
Found at i:36247517 original size:32 final size:32
Alignment explanation
Indices: 36247448--36247539 Score: 156
Period size: 32 Copynumber: 3.0 Consensus size: 32
36247438 ACTTAAATTA
36247448 TTTACATAATACATAAC-TTAGTACATAA---
1 TTTACATAATACATAACTTTAGTACATAACTT
36247476 TTTACATAATACATAACTTTAGTACATAACTT
1 TTTACATAATACATAACTTTAGTACATAACTT
36247508 TTTACATAATACATAACTTTAGTACATAACTT
1 TTTACATAATACATAACTTTAGTACATAACTT
36247540 ACATTATTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
28 17 0.28
29 11 0.18
32 32 0.53
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (32 bp):
TTTACATAATACATAACTTTAGTACATAACTT
Found at i:36253974 original size:42 final size:42
Alignment explanation
Indices: 36253922--36254213 Score: 355
Period size: 42 Copynumber: 6.9 Consensus size: 42
36253912 TTTGTGAAAC
**
36253922 AAGCGCCGCTAAAGAACACT-ACTTTTAGCGGCGTTTTTGAAC-
1 AAGCGCCGCTAAAGAACA-TGACTTTTAGCGGCGTTTTT-TCCT
* * * * * *
36253964 AAGCGTCGCTATAGAACATTACTTTTAGAGGCGTTTTCTGCCA
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTT-TTCCT
*
36254007 AAGCGCCGCTAAAAAACATGA-TCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTCCT
* *
36254049 AAGCGCCACTAAAGAACATGATCTTTT-GCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGA-CTTTTAGCGGCGTTTTTTCCT
36254091 AAGCGCCGCTAAAGAACATGATCTTTT-GCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGA-CTTTTAGCGGCGTTTTTTCCT
*
36254133 AAGCGCCGCTAAAAAACATGA-TCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTCCT
36254175 AAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTT
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTT
36254214 TTCTGTAAGC
Statistics
Matches: 223, Mismatches: 19, Indels: 16
0.86 0.07 0.06
Matches are distributed among these distances:
40 1 0.00
41 4 0.02
42 183 0.82
43 34 0.15
44 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTCCT
Found at i:36254189 original size:126 final size:127
Alignment explanation
Indices: 36253922--36254228 Score: 426
Period size: 126 Copynumber: 2.4 Consensus size: 127
36253912 TTTGTGAAAC
** * * *
36253922 AAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAAC-AAGCGTCGCTATAGAACATT
1 AAGCGCCGCTAAAGAACA-TGATCTTTT-GCGGCGTTTTT-TTCTAAGCGCCGCTAAAGAACATG
36253984 ACTTTTAGAGGCGTTTTCTGCCAAAGCGCCGCTAAAAAACATGATCTTTAGCGGCGTTTTTTCCT
63 ACTTTTAGAGGCGTTTTCTGCCAAAGCGCCGCTAAAAAACATGATCTTTAGCGGCGTTTTTTCCT
*
36254049 AAGCGCCACTAAAGAACATGATCTTTTGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGA-C
* * *
36254114 TTTT-GCGGCGTTTT-TTCCTAAGCGCCGCTAAAAAACATGATCTTTAGCGGCGTTTTTTCCT
65 TTTTAGAGGCGTTTTCTGCCAAAGCGCCGCTAAAAAACATGATCTTTAGCGGCGTTTTTTCCT
*
36254175 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCTGTAAGCGCCGC
1 AAGCGCCGCTAAAGAACATGATCTTTTGCGGCG-TTTTTTTC--TAAGCGCCGC
36254229 AAACGTTAGC
Statistics
Matches: 162, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
126 78 0.48
127 64 0.40
128 10 0.06
129 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (127 bp):
AAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGACT
TTTAGAGGCGTTTTCTGCCAAAGCGCCGCTAAAAAACATGATCTTTAGCGGCGTTTTTTCCT
Found at i:36254516 original size:11 final size:11
Alignment explanation
Indices: 36254487--36254516 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
36254477 GATACTCTAG
*
36254487 TAATTAAGTTC
1 TAATTAATTTC
36254498 TAATTAATTTC
1 TAATTAATTTC
36254509 TAATTAAT
1 TAATTAAT
36254517 GATGGGCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (11 bp):
TAATTAATTTC
Found at i:36255068 original size:4 final size:4
Alignment explanation
Indices: 36255054--36255082 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
36255044 AAAGATGAAG
36255054 ATTT A-TT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
36255083 AATCAATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:36263551 original size:22 final size:23
Alignment explanation
Indices: 36263523--36263575 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
36263513 ACAATATTAG
* * *
36263523 TTTTTTATATAATTTATTTT-AT
1 TTTTTTAGATAATATATTTTAAA
*
36263545 TTTTTTAGATTATATATTTTAAA
1 TTTTTTAGATAATATATTTTAAA
36263568 TTTTTTAG
1 TTTTTTAG
36263576 TTGATGATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (23 bp):
TTTTTTAGATAATATATTTTAAA
Found at i:36264261 original size:140 final size:140
Alignment explanation
Indices: 36264008--36264311 Score: 493
Period size: 140 Copynumber: 2.2 Consensus size: 140
36263998 CACTAGACTC
*
36264008 AAAAGTGTCAGCCCAAAAGTGTTGGCATAGTACTGAACAAAGCCGAATCTTATTTAACCGTTGCC
1 AAAAGTGTCAGCCCAAAAGTGTCGGCATAGTACTGAACAAAGCCGAATCTTATTTAACCGTTGCC
* *
36264073 TTAGGCATGCATATCTCAACCTTTATACAAAGAGTTGGGCAAAGCGTGTGTTGGCAAGTCTATCC
66 TTAGGCATGCATATCTCAACCCTTATACAAAGAGTTGGACAAAGCGTGTGTTGGCAAGTCTATCC
*
36264138 CAACATTTAG
131 CAACACTTAG
* ** *
36264148 GAAAGTGTC-GACCCAAAAGTGTCGGCATAGTACTGGGCAAAGCCGACTCTTATTTAACCGTTGC
1 AAAAGTGTCAG-CCCAAAAGTGTCGGCATAGTACTGAACAAAGCCGAATCTTATTTAACCGTTGC
36264212 CTTAGGCATGCATATCTCAACCCTTATACAAAGAGTTGGACAAAGCGTGTGTTGGCAAGTCTATC
65 CTTAGGCATGCATATCTCAACCCTTATACAAAGAGTTGGACAAAGCGTGTGTTGGCAAGTCTATC
36264277 CCAACACTTAG
130 CCAACACTTAG
** *
36264288 AAAAGTGTTTGCCCAAAAATGTCG
1 AAAAGTGTCAGCCCAAAAGTGTCG
36264312 TCTTAGGACT
Statistics
Matches: 151, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
139 1 0.01
140 149 0.99
141 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (140 bp):
AAAAGTGTCAGCCCAAAAGTGTCGGCATAGTACTGAACAAAGCCGAATCTTATTTAACCGTTGCC
TTAGGCATGCATATCTCAACCCTTATACAAAGAGTTGGACAAAGCGTGTGTTGGCAAGTCTATCC
CAACACTTAG
Found at i:36264596 original size:24 final size:23
Alignment explanation
Indices: 36264577--36264620 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
36264567 AATAAATTTT
36264577 TTTATT-TT-TATATTTTTAAAA
1 TTTATTATTATATATTTTTAAAA
36264598 TTTATTATTATATATTTTTAAAA
1 TTTATTATTATATATTTTTAAAA
36264621 ATATTTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 2 0.10
23 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTATTATTATATATTTTTAAAA
Found at i:36264621 original size:24 final size:21
Alignment explanation
Indices: 36264577--36264637 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 21
36264567 AATAAATTTT
36264577 TTTATTTTTATATTTTTAAAA
1 TTTATTTTTATATTTTTAAAA
36264598 TTTATTATTATATATTTTTAAAA
1 TTTATT-TT-TATATTTTTAAAA
* * *
36264621 -ATATTTATGTATTTTTA
1 TTTATTTTTATATTTTTA
36264638 TATATTTCGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 9 0.26
21 7 0.20
22 6 0.17
23 13 0.37
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTATTTTTATATTTTTAAAA
Found at i:36271234 original size:23 final size:23
Alignment explanation
Indices: 36271191--36271261 Score: 56
Period size: 23 Copynumber: 3.0 Consensus size: 23
36271181 AAAATTTGTC
*
36271191 AAATTCAAAACTTGAATTAAAAG
1 AAATTCAAAACTTCAATTAAAAG
*
36271214 AAATTCACAAC-TCAATATAAAA-
1 AAATTCAAAACTTCAAT-TAAAAG
*
36271236 ACAATTCCCAAAACTTAAATTTAAAA
1 A-AATT--CAAAACTTCAA-TTAAAA
36271262 AAAAAAAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
22 5 0.13
23 19 0.50
25 5 0.13
26 8 0.21
27 1 0.03
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.25
Consensus pattern (23 bp):
AAATTCAAAACTTCAATTAAAAG
Found at i:36272703 original size:35 final size:35
Alignment explanation
Indices: 36272632--36272705 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
36272622 ATGTTTTTAG
*
36272632 AAAAAATAAGTTACTTGATCTTTCAACTTTACAAA
1 AAAAAATAAGTTACTTGACCTTTCAACTTTACAAA
** * * * *
36272667 AAAAAATATTTTATTTGACCTTTTAATTTTATAAA
1 AAAAAATAAGTTACTTGACCTTTCAACTTTACAAA
36272702 AAAA
1 AAAA
36272706 TGCATATAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.39
Consensus pattern (35 bp):
AAAAAATAAGTTACTTGACCTTTCAACTTTACAAA
Found at i:36272924 original size:19 final size:19
Alignment explanation
Indices: 36272900--36272952 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
36272890 GTAAATAATT
36272900 AATTTTTTAAAATTAAAAA
1 AATTTTTTAAAATTAAAAA
* *
36272919 AATTTTTAAAAATAAAAAA
1 AATTTTTTAAAATTAAAAA
* *
36272938 AAATTATTAAAATTA
1 AATTTTTTAAAATTA
36272953 TTATCAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTTTTTAAAATTAAAAA
Found at i:36273983 original size:21 final size:20
Alignment explanation
Indices: 36273937--36273984 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
36273927 CCTTTACTCC
*
36273937 CAAATAAAAAATCAAAATAT
1 CAAATAAAAAATCAAAACAT
36273957 CCAAATAAAAAATCACTAAACAT
1 -CAAATAAAAAATCA--AAACAT
36273980 -AAATA
1 CAAATA
36273985 GTAATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 19 0.79
23 5 0.21
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.19
Consensus pattern (20 bp):
CAAATAAAAAATCAAAACAT
Found at i:36283369 original size:20 final size:19
Alignment explanation
Indices: 36283344--36283395 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
36283334 GTAACTTAAT
36283344 TTTATTTTATTTATTTTCC
1 TTTATTTTATTTATTTTCC
* * *
36283363 ATTTATTTGAGTAATTTTCC
1 -TTTATTTTATTTATTTTCC
36283383 TTTATTTTTATTT
1 TTTA-TTTTATTT
36283396 TTATTGTTAG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTATTTTATTTATTTTCC
Found at i:36286986 original size:46 final size:46
Alignment explanation
Indices: 36286934--36287024 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
36286924 CAAAGAAAAG
36286934 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
*
36286980 ACCTCGACCCACTATCAAGGATGATAGGAACCTTGGTATATGATG
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATG
36287025 GACGCCACAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
Found at i:36289075 original size:22 final size:21
Alignment explanation
Indices: 36289043--36289106 Score: 92
Period size: 22 Copynumber: 3.0 Consensus size: 21
36289033 TTGGTATTTA
36289043 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
36289064 GGAAGTTGGTACGAAATGGTAT
1 GGAA-TTGGTACGAAATGGTAT
* *
36289086 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
36289107 ATGGTTCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
21 4 0.10
22 34 0.87
23 1 0.03
ACGTcount: A:0.30, C:0.05, G:0.34, T:0.31
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:36290383 original size:30 final size:30
Alignment explanation
Indices: 36290347--36290417 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
36290337 AATTGAGCTC
* *
36290347 AAATGAGCTGAAAT-GAGTTC-ATGAAGCTGG
1 AAATGAGCT-AAATGGAGCTCAATGAA-ATGG
*
36290377 AAATGAGCTAATTGGAGCTCAATGAAATGG
1 AAATGAGCTAAATGGAGCTCAATGAAATGG
36290407 AAATGAGCTAA
1 AAATGAGCTAA
36290418 TTCAGCTCGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 28 0.78
31 5 0.14
ACGTcount: A:0.41, C:0.10, G:0.27, T:0.23
Consensus pattern (30 bp):
AAATGAGCTAAATGGAGCTCAATGAAATGG
Found at i:36293077 original size:2 final size:2
Alignment explanation
Indices: 36293070--36293114 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
36293060 ATTGCATGTT
36293070 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
36293112 TG T
1 TG T
36293115 AATATATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:36293121 original size:2 final size:2
Alignment explanation
Indices: 36293116--36293143 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36293106 TGTGTGTGTA
36293116 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
36293144 GAGTTGAATT
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:36294748 original size:33 final size:33
Alignment explanation
Indices: 36294718--36294822 Score: 106
Period size: 33 Copynumber: 3.2 Consensus size: 33
36294708 ATGTAAGACT
36294718 ATAACTGGACTATGGCATCATGATGATAAGATC
1 ATAACTGGACTATGGCATCATGATGATAAGATC
* * * *
36294751 ATAGCTGGATTATGGCATCTTGATGATAAGAGC
1 ATAACTGGACTATGGCATCATGATGATAAGATC
* * * *
36294784 ATAGCT-GAGCTATGACATTC-TAATGATAAGACC
1 ATAACTGGA-CTATGGCA-TCATGATGATAAGATC
36294817 ATAACT
1 ATAACT
36294823 AGGTTATGGC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
32 2 0.03
33 57 0.93
34 2 0.03
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (33 bp):
ATAACTGGACTATGGCATCATGATGATAAGATC
Found at i:36298152 original size:59 final size:60
Alignment explanation
Indices: 36298081--36298197 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 60
36298071 ATCACTTTAA
* * ** * *
36298081 TATTAAATTAATATAATATTTATC-AAGATAAATGTTAGATTAGATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCTAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
36298140 TATTAAAATAATAGAATGTTTATCTATAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTATC--TAAGATAAACATTAAATTAAATTTAATATTAA
36298198 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.44
62 27 0.56
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (60 bp):
TATTAAAATAATAGAATATTTATCTAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:36299914 original size:16 final size:16
Alignment explanation
Indices: 36299893--36299923 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
36299883 CTATGCATGC
36299893 AAAATATAAAAGACAG
1 AAAATATAAAAGACAG
36299909 AAAATATAAAAGACA
1 AAAATATAAAAGACA
36299924 TAGTAGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.10, T:0.13
Consensus pattern (16 bp):
AAAATATAAAAGACAG
Found at i:36304184 original size:23 final size:23
Alignment explanation
Indices: 36304150--36304193 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
36304140 ACCATGTTGA
*
36304150 GACGTCATATGTCGCGTCGTCGG
1 GACGTCAGATGTCGCGTCGTCGG
36304173 GACGTCAGATGTCGCGTCGTC
1 GACGTCAGATGTCGCGTCGTC
36304194 AGACGTCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.14, C:0.27, G:0.34, T:0.25
Consensus pattern (23 bp):
GACGTCAGATGTCGCGTCGTCGG
Found at i:36316329 original size:23 final size:23
Alignment explanation
Indices: 36316303--36316424 Score: 174
Period size: 23 Copynumber: 5.3 Consensus size: 23
36316293 ATAAGTGCCA
*
36316303 CACTGATATGTAGCCGCAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
36316326 CACTGATATGTAGGCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
36316349 CACTAAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
36316372 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
36316395 CACTGA-ATTGTAGCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
36316418 CACTGAT
1 CACTGAT
36316425 CAATAACACT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
22 1 0.01
23 86 0.99
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:36316377 original size:46 final size:46
Alignment explanation
Indices: 36316310--36316424 Score: 194
Period size: 46 Copynumber: 2.5 Consensus size: 46
36316300 CCACACTGAT
* *
36316310 ATGTAGCCGCAGCTACCACTGATATGTAGGCGTAGCTACCACTAAA
1 ATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTAAA
*
36316356 ATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTAAA
*
36316402 TTGTAGCCGAAGCTACCACTGAT
1 ATGTAGCCGAAGCTACCACTGAT
36316425 CAATAACACT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.23
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTAAA
Found at i:36316676 original size:18 final size:17
Alignment explanation
Indices: 36316650--36316688 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
36316640 ATTTTCCTTC
36316650 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
36316667 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
36316685 CACA
1 CACA
36316689 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:36328281 original size:13 final size:13
Alignment explanation
Indices: 36328265--36328295 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
36328255 AAAATATTAA
36328265 TTAAAAATCAAAT
1 TTAAAAATCAAAT
36328278 TTAAAAATCAAAT
1 TTAAAAATCAAAT
*
36328291 GTAAA
1 TTAAA
36328296 CTATTTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.29
Consensus pattern (13 bp):
TTAAAAATCAAAT
Found at i:36338615 original size:22 final size:22
Alignment explanation
Indices: 36338585--36338628 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
36338575 ACACCAAAAC
*
36338585 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
*
36338607 AGGCCTTTAGCGGCGTTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
36338629 GCGTCGCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.45
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:36338777 original size:43 final size:43
Alignment explanation
Indices: 36338699--36338949 Score: 306
Period size: 43 Copynumber: 5.8 Consensus size: 43
36338689 ACGTCGCTAA
** **
36338699 CTTTAGCGGCGCTTGTTTCTTA-AAACGCCGCTAAAGGTCATGAC
1 CTTTAGCGGCGC-T-TTTCCCACAAACGCCGCTAAAGACCATGAC
*
36338743 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * * *
36338786 CTTTAGCGGCGCTTATCCCACAATCACCGCTAAAGACCATGAT
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* *
36338829 TTTTAGCGGCGCTTTTCCCACGAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * *
36338872 CTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAAACCTTGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * ** *
36338915 CTTTAGCGTCGCATTTCTAAAAAACGCCGCTAAAG
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG
36338950 TAAAACGCCG
Statistics
Matches: 178, Mismatches: 28, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
42 4 0.02
43 162 0.91
44 12 0.07
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
Found at i:36338956 original size:16 final size:16
Alignment explanation
Indices: 36338935--36338965 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36338925 GCATTTCTAA
36338935 AAAACGCCGCTAAAGT
1 AAAACGCCGCTAAAGT
*
36338951 AAAACGCCGTTAAAG
1 AAAACGCCGCTAAAG
36338966 GCCACAACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (16 bp):
AAAACGCCGCTAAAGT
Found at i:36343892 original size:109 final size:109
Alignment explanation
Indices: 36343720--36343934 Score: 430
Period size: 109 Copynumber: 2.0 Consensus size: 109
36343710 TACAATCTTT
36343720 TATTTGGGGGGCGCACGGAGATGAGAAGAAGAGGAGTAATGAGCGGGTAACCAAAATAATTTTTT
1 TATTTGGGGGGCGCACGGAGATGAGAAGAAGAGGAGTAATGAGCGGGTAACCAAAATAATTTTTT
36343785 CGGAATTGAGCGGGATTTTAATTAGTTTTTGCGGCGTTTTTATG
66 CGGAATTGAGCGGGATTTTAATTAGTTTTTGCGGCGTTTTTATG
36343829 TATTTGGGGGGCGCACGGAGATGAGAAGAAGAGGAGTAATGAGCGGGTAACCAAAATAATTTTTT
1 TATTTGGGGGGCGCACGGAGATGAGAAGAAGAGGAGTAATGAGCGGGTAACCAAAATAATTTTTT
36343894 CGGAATTGAGCGGGATTTTAATTAGTTTTTGCGGCGTTTTT
66 CGGAATTGAGCGGGATTTTAATTAGTTTTTGCGGCGTTTTT
36343935 CATAAAAACG
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 106 1.00
ACGTcount: A:0.27, C:0.09, G:0.32, T:0.31
Consensus pattern (109 bp):
TATTTGGGGGGCGCACGGAGATGAGAAGAAGAGGAGTAATGAGCGGGTAACCAAAATAATTTTTT
CGGAATTGAGCGGGATTTTAATTAGTTTTTGCGGCGTTTTTATG
Found at i:36344880 original size:56 final size:54
Alignment explanation
Indices: 36344809--36344927 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 54
36344799 AACCTCTAAC
* * * *
36344809 ATCTAACCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAATACTAATTA
1 ATCTAAACCTTAACCCATAAACCTTATTT-A-ATATAAATTAAAAAACACTAATTA
* * *
36344865 ATTTAAACCTTAACCCATAAACCTTATTTAATATAAATTAAAACACATTAATTA
1 ATCTAAACCTTAACCCATAAACCTTATTTAATATAAATTAAAAAACACTAATTA
36344919 ATCTAAACC
1 ATCTAAACC
36344928 CTACATCCTA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 29 0.53
55 1 0.02
56 25 0.45
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (54 bp):
ATCTAAACCTTAACCCATAAACCTTATTTAATATAAATTAAAAAACACTAATTA
Found at i:36345042 original size:14 final size:15
Alignment explanation
Indices: 36345025--36345053 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36345015 TTAAACAGAG
36345025 TCCCTAA-TCCATAA
1 TCCCTAATTCCATAA
36345039 TCCCTAATTCCATAA
1 TCCCTAATTCCATAA
36345054 CCTATAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (15 bp):
TCCCTAATTCCATAA
Found at i:36345696 original size:113 final size:112
Alignment explanation
Indices: 36345450--36345812 Score: 397
Period size: 113 Copynumber: 3.3 Consensus size: 112
36345440 AGATAAAATA
* * ** * *
36345450 TTTTTGTGGCGCTTTTTC-AAAAACGCCGCTAAATC-CCAAGCATTAGCGGCTCTTTTCCAAAAA
1 TTTTTGCGGCGC-TTTTCAAAAAACGCCGCTAAAGCTCTGAGCATTAGCGGCACTTTTTCAAAAA
* * *
36345513 CGCCGCTAAAACCCTGAAAGGTC--AAA--A---CGTTGGTCTTTGGT
65 CGCCGCTAAAACCCAGAAAGGTCGAAAACGATGTCGTTGGGCTTAGGT
*
36345554 TTTTTGCGGCGCTTTTCCAAAAAACGCCGCTAACGCTCTGAGCATTAGCGGCACTTTTTCAAAAA
1 TTTTTGCGGCGCTTTT-CAAAAAACGCCGCTAAAGCTCTGAGCATTAGCGGCACTTTTTCAAAAA
* * * * *
36345619 CGCCGCTAAAGCCCCGAAGGGTCGAAAACGATGTCGTTGGGCTTCGTT
65 CGCCGCTAAAACCCAGAAAGGTCGAAAACGATGTCGTTGGGCTTAGGT
* * *
36345667 TTTTTGCGGCGCTTTTCAAAAAAATGCCGCTAAAGGTCTGAGCATTAGCGGCGCTTTGTT-AAAA
1 TTTTTGCGGCGCTTTTC-AAAAAACGCCGCTAAAGCTCTGAGCATTAGCGGCACTTT-TTCAAAA
* * * *
36345731 ACGCCGCTAAATCCCTAAAAAGG-CGAAAACGATGTAGTTGGGCGTAGGT
64 ACGCCGCTAAAACCC-AGAAAGGTCGAAAACGATGTCGTTGGGCTTAGGT
*
36345780 TTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAA
1 TTTTTGCGGCGCTTTTCAAAAAACGCCGCTAAA
36345813 TCCCTGAAAG
Statistics
Matches: 219, Mismatches: 27, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
103 4 0.02
104 12 0.05
105 15 0.07
106 44 0.20
108 3 0.01
110 1 0.00
112 15 0.07
113 119 0.54
114 6 0.03
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (112 bp):
TTTTTGCGGCGCTTTTCAAAAAACGCCGCTAAAGCTCTGAGCATTAGCGGCACTTTTTCAAAAAC
GCCGCTAAAACCCAGAAAGGTCGAAAACGATGTCGTTGGGCTTAGGT
Found at i:36345997 original size:41 final size:40
Alignment explanation
Indices: 36345861--36346001 Score: 144
Period size: 40 Copynumber: 3.5 Consensus size: 40
36345851 TTTGCGGCAC
* * * *
36345861 TTTTCCAAAAAACGCCGCTAATACTTGTTTTTAGCGGCGT
1 TTTTCTAAAAAGCGCCGCTAATGCTTGATTTTAGCGGCGT
* ** *
36345901 TTTGC-AAAAAGCGCCGCTAATGCACGATCTTTAACGGCGT
1 TTTTCTAAAAAGCGCCGCTAATGCTTGAT-TTTAGCGGCGT
36345941 TTTT-TAAAAAGCGCCGCTAATGCTTGATTTTCAGCGGCGTT
1 TTTTCTAAAAAGCGCCGCTAATGCTTGATTTT-AGCGGCG-T
**
36345982 TTTTCTTCAAA-CGCCGCTAA
1 TTTTCTAAAAAGCGCCGCTAA
36346002 AAGTGCCGCT
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
39 21 0.25
40 44 0.53
41 14 0.17
42 4 0.05
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (40 bp):
TTTTCTAAAAAGCGCCGCTAATGCTTGATTTTAGCGGCGT
Found at i:36348876 original size:28 final size:27
Alignment explanation
Indices: 36348831--36348899 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
36348821 AAAATAATTT
*
36348831 TTTAAAAAAAATA-AAAATAATT-AAAA
1 TTTAAAAAATATATAAAAT-ATTAAAAA
36348857 TTTATAAAAATATATAAAATATTCAAAAA
1 TTTA-AAAAATATATAAAATATT-AAAAA
*
36348886 TTTAAATAATATAT
1 TTTAAAAAATATAT
36348900 TTTTAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 4 0.11
27 11 0.30
28 14 0.38
29 8 0.22
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (27 bp):
TTTAAAAAATATATAAAATATTAAAAA
Found at i:36348985 original size:20 final size:20
Alignment explanation
Indices: 36348960--36348998 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
36348950 TCTTGAAGAA
36348960 CTTTAACAATCTAGATGTAC
1 CTTTAACAATCTAGATGTAC
*
36348980 CTTTAACAATCTGGATGTA
1 CTTTAACAATCTAGATGTA
36348999 GATGCATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (20 bp):
CTTTAACAATCTAGATGTAC
Found at i:36349370 original size:9 final size:9
Alignment explanation
Indices: 36349356--36349387 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
36349346 GAAGAAAAAT
*
36349356 AGGAGGAGG
1 AGGAGGAAG
36349365 AGGAGGAAG
1 AGGAGGAAG
36349374 AGGAGGAAG
1 AGGAGGAAG
36349383 AGGAG
1 AGGAG
36349388 AACAATAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (9 bp):
AGGAGGAAG
Found at i:36350407 original size:21 final size:21
Alignment explanation
Indices: 36350368--36350407 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36350358 TTTATCTTGA
* *
36350368 GGTAACTTCTTGTTGAGTTAG
1 GGTAACTTCTTGATAAGTTAG
36350389 GGTAACTTCTTGATAAGTT
1 GGTAACTTCTTGATAAGTT
36350408 GGGGAGCCGC
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:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (21 bp):
GGTAACTTCTTGATAAGTTAG
Found at i:36353576 original size:35 final size:35
Alignment explanation
Indices: 36353530--36353603 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
36353520 CATGGCAGAC
*
36353530 AATAACTAAAGAAACCCAAACCTGCCATACACTTT
1 AATAACCAAAGAAACCCAAACCTGCCATACACTTT
* * *
36353565 AATAACCAAAGAAATCCAAACTTGTCATACACTTT
1 AATAACCAAAGAAACCCAAACCTGCCATACACTTT
36353600 AATA
1 AATA
36353604 CAAACAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.23
Consensus pattern (35 bp):
AATAACCAAAGAAACCCAAACCTGCCATACACTTT
Found at i:36354823 original size:22 final size:22
Alignment explanation
Indices: 36354798--36354861 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
36354788 ATATTTAAGT
36354798 ATATTTTATTTATAATTTTTGA
1 ATATTTTATTTATAATTTTTGA
* * *
36354820 ATATTTTATTAATGATTTTTATGC
1 ATATTTTATTTAT-AATTTT-TGA
36354844 AT-TTTTATTT-TAATTTTT
1 ATATTTTATTTATAATTTTT
36354862 TTAAAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 1 0.03
21 5 0.14
22 13 0.37
23 12 0.34
24 4 0.11
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (22 bp):
ATATTTTATTTATAATTTTTGA
Found at i:36356317 original size:18 final size:18
Alignment explanation
Indices: 36356294--36356330 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36356284 AATATTTTCT
*
36356294 AGTAAATCATTTTACAGA
1 AGTAAAACATTTTACAGA
*
36356312 AGTAAAACATTTTCCAGA
1 AGTAAAACATTTTACAGA
36356330 A
1 A
36356331 ATCATTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (18 bp):
AGTAAAACATTTTACAGA
Found at i:36356338 original size:14 final size:14
Alignment explanation
Indices: 36356315--36356354 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
36356305 TTACAGAAGT
*
36356315 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
36356329 AAATCATTTTACGG
1 AAAACATTTTACAG
36356343 AAAACATTTTAC
1 AAAACATTTTAC
36356355 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:36366357 original size:3 final size:3
Alignment explanation
Indices: 36366346--36366380 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
36366336 AAAAAACCAG
* *
36366346 AGA ATA AGA AGA AGA AGA AGA AAA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
36366381 TAAAGGAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:36368566 original size:9 final size:9
Alignment explanation
Indices: 36368550--36368582 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
36368540 TGGGTTAAGA
36368550 AATTAATTT
1 AATTAATTT
*
36368559 AGTTAATTT
1 AATTAATTT
36368568 AATTAATTT
1 AATTAATTT
36368577 AATTAA
1 AATTAA
36368583 ATTGTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (9 bp):
AATTAATTT
Found at i:36375996 original size:2 final size:2
Alignment explanation
Indices: 36375989--36376022 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
36375979 GAAATGAAAG
36375989 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36376023 AGAGTACTAN
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36376305 original size:15 final size:16
Alignment explanation
Indices: 36376282--36376314 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
36376272 GAACTTAAAA
36376282 TAAAATCAAATT-ATT
1 TAAAATCAAATTAATT
*
36376297 TAAACTCAAATTAATT
1 TAAAATCAAATTAATT
36376313 TA
1 TA
36376315 TTTCATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAATCAAATTAATT
Found at i:36379603 original size:29 final size:29
Alignment explanation
Indices: 36379562--36379622 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
36379552 TTGTCACTGC
*
36379562 CACACGGCCGTGTGCTAGGCCGTGTGTGA
1 CACACGGCCGTGTGATAGGCCGTGTGTGA
*
36379591 CACACGGTCGTGTGATAGGCCGTGTGTGA
1 CACACGGCCGTGTGATAGGCCGTGTGTGA
36379620 CAC
1 CAC
36379623 TGTATTGAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.16, C:0.26, G:0.36, T:0.21
Consensus pattern (29 bp):
CACACGGCCGTGTGATAGGCCGTGTGTGA
Found at i:36382980 original size:23 final size:23
Alignment explanation
Indices: 36382949--36382999 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
36382939 ACCTACTTTC
* *
36382949 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
36382972 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
36382995 TTACA
1 TTACA
36383000 CGTACGATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:36384775 original size:43 final size:43
Alignment explanation
Indices: 36384722--36384880 Score: 248
Period size: 43 Copynumber: 3.7 Consensus size: 43
36384712 TTTTAGAAAA
*
36384722 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTTTCCAC
* * *
36384765 AAACGCCGCTAAAGACTAGGACCTTTAACGACACTTTTTCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTTTCCAC
*
36384808 AAACGCAGCTAAAGACCAGGACCTTTAGCGACGC-TTTTCTCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTTTC-CAC
*
36384851 AAACGCCGCTAAAGACCGGGACCTTTAGCG
1 AAACGCCGCTAAAGACCAGGACCTTTAGCG
36384881 GCACTTCTAT
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
42 5 0.05
43 100 0.95
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTTTCCAC
Found at i:36384898 original size:43 final size:42
Alignment explanation
Indices: 36384722--36384947 Score: 233
Period size: 43 Copynumber: 5.3 Consensus size: 42
36384712 TTTTAGAAAA
* *
36384722 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGACACTTTTT-CAC
* *
36384765 AAACGCCGCTAAAGACTAGGACCTTTAACGACACTTTTTCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGACACTTTTT-CAC
* *
36384808 AAACGCAGCTAAAGACCAGGACCTTTAGCGACGCTTTTCTCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGACACTTTT-TCAC
* * *
36384851 AAACGCCGCTAAAGACCGGGACCTTTAGCGGCACTTCTATT-AA
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGACACTT-T-TTCAC
* * * * * *
36384894 AAACGCCGCTATA-A-CATTGACTTTTAGCGTCGCTTCTTCAC
1 AAACGCCGCTAAAGACCA-GGACCTTTAGCGACACTTTTTCAC
*
36384935 AAACGCCACTAAA
1 AAACGCCGCTAAA
36384948 AGCATAACTT
Statistics
Matches: 155, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
40 2 0.01
41 13 0.08
42 15 0.10
43 121 0.78
44 3 0.02
45 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTAAAGACCAGGACCTTTAGCGACACTTTTTCAC
Found at i:36384898 original size:86 final size:84
Alignment explanation
Indices: 36384720--36384947 Score: 264
Period size: 86 Copynumber: 2.7 Consensus size: 84
36384710 GATTTTAGAA
* *
36384720 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACTAGG
1 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTTT-CACAAACGCCGCTAAAGACCAGG
36384785 ACCTTTAACGACACTTTTTCC
65 ACCTTTAACGACACTTTTT-C
* * *
36384806 ACAAACGCAGCTAAAGACCAGGACCTTTAGCGACGCTTTTCTCACAAACGCCGCTAAAGACCGGG
1 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTT-TCACAAACGCCGCTAAAGACCAGG
* *
36384871 ACCTTTAGCGGCACTTCTATT-
65 ACCTTTAACGACACTT-T-TTC
* * * * * *
36384892 AAAAACGCCGCTATA-A-CATTGACTTTTAGCGTCGCTTCTTCACAAACGCCACTAAA
1 AAAAACGCCGCTAAAGACCA-GGACCTTTAGCGACGCTTTTTCACAAACGCCGCTAAA
36384948 AGCATAACTT
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
84 18 0.15
85 17 0.14
86 84 0.68
87 2 0.02
88 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (84 bp):
AAAAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTTTCACAAACGCCGCTAAAGACCAGGA
CCTTTAACGACACTTTTTC
Found at i:36385009 original size:5 final size:5
Alignment explanation
Indices: 36384999--36385024 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
36384989 CTATAATAAA
36384999 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
36385025 TGAAATTTAA
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:36386785 original size:5 final size:5
Alignment explanation
Indices: 36386741--36386767 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
36386731 ATTCTTGTTT
36386741 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
36386768 GGTAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:36389256 original size:14 final size:14
Alignment explanation
Indices: 36389223--36389249 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36389213 TTGTTGAAAT
36389223 ATCTTTCCCCCCTC
1 ATCTTTCCCCCCTC
36389237 ATCTTTCCCCCCT
1 ATCTTTCCCCCCT
36389250 TTTCTTTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.56, G:0.00, T:0.37
Consensus pattern (14 bp):
ATCTTTCCCCCCTC
Found at i:36389556 original size:39 final size:40
Alignment explanation
Indices: 36389475--36389557 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
36389465 TCAATACATA
* * * *
36389475 TTTGCGGCGTTTTTTGTCCAAACGCCGCTATTGTTTACCT
1 TTTGCGGCGTTTTTTCTCCAAACACCGCTAATGATTACCT
* *
36389515 TTTGCGGCG-TTTTTCTCATAAACACCGCTAATGATTACTT
1 TTTGCGGCGTTTTTTCTC-CAAACACCGCTAATGATTACCT
36389555 TTT
1 TTT
36389558 TTCACAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
39 7 0.19
40 29 0.81
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (40 bp):
TTTGCGGCGTTTTTTCTCCAAACACCGCTAATGATTACCT
Found at i:36390218 original size:21 final size:22
Alignment explanation
Indices: 36390187--36390233 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
36390177 CTAAACCCCT
* *
36390187 AACCCCTAACCCTTACACCTTA
1 AACCCCTAACCCTTAAACCATA
36390209 AACCCC-AACCCTTAAACCATA
1 AACCCCTAACCCTTAAACCATA
36390230 AACC
1 AACC
36390234 TTAATTCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (22 bp):
AACCCCTAACCCTTAAACCATA
Found at i:36391050 original size:41 final size:41
Alignment explanation
Indices: 36391005--36391206 Score: 305
Period size: 41 Copynumber: 4.9 Consensus size: 41
36390995 AGGATTGTAA
**
36391005 TGATCATTTTCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
1 TGATCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
* * *
36391046 TGATCATTAGCGGCGCTTTTCCAAAAATGCCGCTAAAGCCT
1 TGATCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
36391087 TGATCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
1 TGATCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
*
36391128 TGATCATTAGCGGCACTTTCCCAAAAACGCCGCTAAAGCCC
1 TGATCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
* ** *
36391169 TGAGCATTAGTTGCGCTTTCCCAAAAAATGCCGCTAAA
1 TGATCATTAGCGGCGCTTTCCC-AAAAACGCCGCTAAA
36391207 ACCCCGAAAG
Statistics
Matches: 146, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
41 132 0.90
42 14 0.10
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (41 bp):
TGATCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
Found at i:36391312 original size:39 final size:41
Alignment explanation
Indices: 36391266--36391357 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 41
36391256 GCTTTTTGGA
* *
36391266 AAACGCCGCTAATGCT-TATATTTAGCGGCGTTTTCCATA-
1 AAACGCCGCTAATGCTCGATATTTAGCGGCATTTTCCATAC
* * **
36391305 AAGCGCCGCTAATGCTCGATCTTTAGCGGCATTTTTTATAC
1 AAACGCCGCTAATGCTCGATATTTAGCGGCATTTTCCATAC
36391346 AAACGCCGCTAA
1 AAACGCCGCTAA
36391358 AAGTGCCGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 15 0.34
40 18 0.41
41 11 0.25
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (41 bp):
AAACGCCGCTAATGCTCGATATTTAGCGGCATTTTCCATAC
Found at i:36391677 original size:162 final size:161
Alignment explanation
Indices: 36391409--36391737 Score: 649
Period size: 162 Copynumber: 2.0 Consensus size: 161
36391399 AAATTGAGAG
36391409 TATTTAACTTATTTTATTTTTTTCTAAATGTTAATTTTGGTAATCAAAATTATCTCAAATTTAAA
1 TATTTAACTTATTTTATTTTTTTCTAAATGTTAATTTTGGTAATCAAAATTATCTCAAATTTAAA
36391474 AATACATTGTTTAAAGTAGGCTTAGCTCATACGGGCTGGGCCTACTTGCTTTCAACATGTCTATT
66 AATACATTGTTTAAAGTAGGCTTAGCTCATACGGGCTGGGCCTACTTGCTTTCAACATGTCTATT
36391539 TTATATAAATATTTTGGAAACCCCTTATCAA
131 TTATATAAATATTTTGGAAACCCCTTATCAA
36391570 TAATTTAACTTATTTTATTTTTTTCTAAATGTTAATTTTGGTAATCAAAATTATCTCAAATTTAA
1 T-ATTTAACTTATTTTATTTTTTTCTAAATGTTAATTTTGGTAATCAAAATTATCTCAAATTTAA
36391635 AAATACATTGTTTAAAGTAGGCTTAGCTCATACGGGCTGGGCCTACTTGCTTTCAACATGTCTAT
65 AAATACATTGTTTAAAGTAGGCTTAGCTCATACGGGCTGGGCCTACTTGCTTTCAACATGTCTAT
36391700 TTTATATAAATATTTTGGAAACCCCTTATCAA
130 TTTATATAAATATTTTGGAAACCCCTTATCAA
36391732 TATTTA
1 TATTTA
36391738 TGTCTTCGCC
Statistics
Matches: 167, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
161 6 0.04
162 161 0.96
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (161 bp):
TATTTAACTTATTTTATTTTTTTCTAAATGTTAATTTTGGTAATCAAAATTATCTCAAATTTAAA
AATACATTGTTTAAAGTAGGCTTAGCTCATACGGGCTGGGCCTACTTGCTTTCAACATGTCTATT
TTATATAAATATTTTGGAAACCCCTTATCAA
Found at i:36394241 original size:20 final size:19
Alignment explanation
Indices: 36394218--36394270 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
36394208 TAATAGTATT
36394218 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
36394237 GTTATT-ATATTAATATTAAA
1 -TTATTAAT-TTAATATTAAA
36394257 -T-TTAATTTAATATT
1 TTATTAATTTAATATT
36394271 TATCTTGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.32
18 3 0.10
19 2 0.06
20 16 0.52
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:36394250 original size:68 final size:67
Alignment explanation
Indices: 36394178--36394374 Score: 178
Period size: 68 Copynumber: 3.0 Consensus size: 67
36394168 TTTAATAGAT
*
36394178 TTAATATCATATTAAATTTAATATTTATCTTAAT-AGTATTTTATTAATTTAATATTAAAGTTAT
1 TTAATAT-ATATT-AATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTTAT
36394242 TATA
64 TATA
* * * *
36394246 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAATTATTCTATTAATTTAATA--AGA-T
1 TTAATA-TATA-TTAATTTAATATTTATC-T-TA-ATAAGTATTATATTAATTTAATATTAAAGT
*
36394308 T-TAATA
61 TATTATA
* * * *
36394314 TT-A-A-AT-TTAATCTAACATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGATTA
1 TTAATATATATTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTTATTA
36394375 ATTTTTATCA
Statistics
Matches: 105, Mismatches: 14, Indels: 25
0.73 0.10 0.17
Matches are distributed among these distances:
59 21 0.20
60 1 0.01
61 3 0.03
62 16 0.15
63 2 0.02
64 1 0.01
66 1 0.01
67 1 0.01
68 29 0.28
69 6 0.06
70 4 0.04
71 2 0.02
72 18 0.17
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.51
Consensus pattern (67 bp):
TTAATATATATTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTTATTA
TA
Found at i:36394321 original size:62 final size:59
Alignment explanation
Indices: 36394246--36394362 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
36394236 AGTTATTATA
* * * *
36394246 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAATTATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTTAATCTAACATTTATC-T-T-GATAAGTATTATATTAATTTAATAAGAT
36394308 TTAATATTAAATTTAATCTAACATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAACATTTATCTTGATAAGTATTATATTAATTTAATA
36394363 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.43
60 1 0.02
61 1 0.02
62 27 0.53
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAACATTTATCTTGATAAGTATTATATTAATTTAATAAGAT
Found at i:36398428 original size:9 final size:9
Alignment explanation
Indices: 36398404--36398437 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
36398394 CTTATATATC
36398404 TATTTATAA
1 TATTTATAA
36398413 TATTTTATAA
1 TA-TTTATAA
*
36398423 TATTTATAT
1 TATTTATAA
36398432 TATTTA
1 TATTTA
36398438 ATGTTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TATTTATAA
Found at i:36402949 original size:17 final size:18
Alignment explanation
Indices: 36402929--36402963 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
36402919 TTTTAATATA
*
36402929 TTTAATATTTAA-TTAAT
1 TTTAATACTTAACTTAAT
36402946 TTTAATACTTAACTTAAT
1 TTTAATACTTAACTTAAT
36402964 AGTATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTAATACTTAACTTAAT
Found at i:36407126 original size:10 final size:10
Alignment explanation
Indices: 36407109--36407138 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
36407099 AAGAAATATT
36407109 AAAAAGAAAA
1 AAAAAGAAAA
*
36407119 AGAAAGAAAA
1 AAAAAGAAAA
36407129 AAAAAGAAAA
1 AAAAAGAAAA
36407139 CAAACCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:36407314 original size:2 final size:2
Alignment explanation
Indices: 36407307--36407331 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36407297 ATTTATTTTA
36407307 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
36407332 GTTATTGAAG
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36408171 original size:93 final size:87
Alignment explanation
Indices: 36408054--36408260 Score: 261
Period size: 93 Copynumber: 2.3 Consensus size: 87
36408044 AGGCTCTACT
* * * ** * *
36408054 CTTTTTTTTGTACTCAATTAGGTACTTAAACTTTCAAAATGTATCAAAAAGGCCCTCAAACTTTT
1 CTTTCTTTTGCACTCAATTGGGTACTTAAACTGCCAAAATGCATCAAAAAGACCCTCAAACTTTT
36408119 TCAAAAAAAGCAATTAAGCCCCTG
66 TC--AAAAAGCAATTAAGCCCCTG
* *
36408143 CTTTTTATTTTTGGCACTCAATTGGGTACTTGAACTGCCAAAATGCATCAAAAAGACCCTCAAAC
1 C--TTT-CTTTT-GCACTCAATTGGGTACTTAAACTGCCAAAATGCATCAAAAAGACCCTCAAAC
* *
36408208 TTTTTCAAAAAGTAATTAAGTCCCTG
62 TTTTTCAAAAAGCAATTAAGCCCCTG
36408234 CTTTCTTTTGCACTCAATTGGGTACTT
1 CTTTCTTTTGCACTCAATTGGGTACTT
36408261 TAACAGTTGA
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
87 18 0.17
88 4 0.04
89 4 0.04
91 22 0.21
92 5 0.05
93 51 0.49
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (87 bp):
CTTTCTTTTGCACTCAATTGGGTACTTAAACTGCCAAAATGCATCAAAAAGACCCTCAAACTTTT
TCAAAAAGCAATTAAGCCCCTG
Found at i:36408365 original size:60 final size:61
Alignment explanation
Indices: 36408262--36408382 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 61
36408252 TGGGTACTTT
* * * *
36408262 AACAGTTGATTGTTAAAGTTAATTGCCCTAATTTTTTTCAGTTAAAGCCA-CACGTGTCAC
1 AACAATTGACTGTTAAAGTTAAATGCCCTAATTTTTTTCAGTTAAAGCCATCACATGTCAC
36408322 AACAATTGACTGTTAAAGTTAAATGCTCCTAA-TTTTTTCAGTTAAAGCCATCACATGTCAC
1 AACAATTGACTGTTAAAGTTAAATGC-CCTAATTTTTTTCAGTTAAAGCCATCACATGTCAC
36408383 GACCACAGCG
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
60 41 0.75
61 14 0.25
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (61 bp):
AACAATTGACTGTTAAAGTTAAATGCCCTAATTTTTTTCAGTTAAAGCCATCACATGTCAC
Found at i:36408520 original size:19 final size:19
Alignment explanation
Indices: 36408460--36408510 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
36408450 AAATTTTAAT
*
36408460 AAAAATATTAAAAATTAG-AA
1 AAAAATA-TAAAAA-TCGTAA
36408480 AAAAATATAAAAATCGTAA
1 AAAAATATAAAAATCGTAA
36408499 AAAAATATAAAA
1 AAAAATATAAAA
36408511 GAGTGTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 2 0.07
19 20 0.69
20 7 0.24
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (19 bp):
AAAAATATAAAAATCGTAA
Found at i:36408548 original size:29 final size:28
Alignment explanation
Indices: 36408516--36408609 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
36408506 TAAAAGAGTG
*
36408516 TAAAATTTTATATAAATAGTAATAAATTA
1 TAAAATTTTATA-AAATAGTAAAAAATTA
* * *
36408545 TAAAATATATAGAAATATAGAAAAAAAATTA
1 TAAAAT-TTTATAAA-ATAG-TAAAAAATTA
* *
36408576 TAAAATTTTATAAAGTCGTAAGAAAATTA
1 TAAAATTTTATAAAATAGTAA-AAAATTA
36408605 TAAAA
1 TAAAA
36408610 ATGTAAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
28 2 0.04
29 22 0.42
30 14 0.27
31 14 0.27
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (28 bp):
TAAAATTTTATAAAATAGTAAAAAATTA
Found at i:36408637 original size:21 final size:20
Alignment explanation
Indices: 36408460--36408652 Score: 84
Period size: 20 Copynumber: 9.8 Consensus size: 20
36408450 AAATTTTAAT
36408460 AAAAATAT-TAAAAAT-TAGA
1 AAAAATATATAAAAATGTA-A
36408479 AAAAA-ATATAAAAATCGTAA
1 AAAAATATATAAAAAT-GTAA
*
36408499 AAAAATATA-AAAGAGTGTAA
1 AAAAATATATAAA-AATGTAA
*** *
36408519 AATTTTATATAAATA-GT-A
1 AAAAATATATAAAAATGTAA
* * *
36408537 ATAAAT-TATAAAATATATAG
1 AAAAATATATAAAA-ATGTAA
* * * *
36408557 AAATATAGAAAAAAAAT-TAT
1 AAAAATA-TATAAAAATGTAA
* * *
36408577 AAAATTTTAT-AAAGTCGTAA
1 AAAAATATATAAAAAT-GTAA
*
36408597 GAAAAT-TATAAAAATGTAA
1 AAAAATATATAAAAATGTAA
*
36408616 AAAAATATATAAAATTTGTAA
1 AAAAATATATAAAA-ATGTAA
36408637 AAAAA-ATTATAAAAAT
1 AAAAATA-TATAAAAAT
36408653 TATCGTACCA
Statistics
Matches: 126, Mismatches: 31, Indels: 33
0.66 0.16 0.17
Matches are distributed among these distances:
17 6 0.05
18 10 0.08
19 28 0.22
20 48 0.38
21 29 0.23
22 5 0.04
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (20 bp):
AAAAATATATAAAAATGTAA
Found at i:36408852 original size:10 final size:9
Alignment explanation
Indices: 36408825--36408863 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
36408815 TTAAAGGGAA
36408825 ATGTTTTTT
1 ATGTTTTTT
*
36408834 ATGTATTTT
1 ATGTTTTTT
36408843 ATAGTTTTTT
1 AT-GTTTTTT
*
36408853 ATGATTTTT
1 ATGTTTTTT
36408862 AT
1 AT
36408864 AAAATTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (9 bp):
ATGTTTTTT
Found at i:36408907 original size:20 final size:19
Alignment explanation
Indices: 36408839--36408910 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
36408829 TTTTTATGTA
* *
36408839 TTTTATAGTTTTTTATGAT
1 TTTTATAATTTTTTACGAT
** *
36408858 TTTTATAAAATTTTACAAT
1 TTTTATAATTTTTTACGAT
36408877 TTTT-TATATTTTGTTACGAT
1 TTTTATA-ATTTT-TTACGAT
36408897 TTTTATAATTTTTT
1 TTTTATAATTTTTT
36408911 TCTAATTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
18 2 0.05
19 23 0.55
20 15 0.36
21 2 0.05
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAT
Found at i:36408968 original size:29 final size:30
Alignment explanation
Indices: 36408838--36408980 Score: 102
Period size: 29 Copynumber: 4.9 Consensus size: 30
36408828 TTTTTTATGT
* *
36408838 ATTTTATAGTTTTTTATGATTTTTA-TAAA
1 ATTTTATAATTTTTTATAATTTTTATTAAA
* * *
36408867 ATTTTACAATTTTTTAT-A-TTTTGTTACGA
1 ATTTTATAATTTTTTATAATTTTTATTA-AA
* * **
36408896 TTTTTATAATTTTTTTCTAATTTTTAAGAAA
1 ATTTTATAA-TTTTTTATAATTTTTATTAAA
*
36408927 A-TTTA-AATATTTTTAT-ATTTGTATTAAA
1 ATTTTATAAT-TTTTTATAATTTTTATTAAA
* *
36408955 ATTTAATAA-TTTTTATAACTTTTATT
1 ATTTTATAATTTTTTATAATTTTTATT
36408981 TATTTTTTAT
Statistics
Matches: 86, Mismatches: 19, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
27 4 0.05
28 21 0.24
29 41 0.48
30 13 0.15
31 2 0.02
32 5 0.06
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (30 bp):
ATTTTATAATTTTTTATAATTTTTATTAAA
Found at i:36408990 original size:11 final size:11
Alignment explanation
Indices: 36408974--36408999 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36408964 TTTTTATAAC
36408974 TTTTATTTATT
1 TTTTATTTATT
36408985 TTTTATTTATT
1 TTTTATTTATT
36408996 TTTT
1 TTTT
36409000 TCACCATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:36409545 original size:45 final size:45
Alignment explanation
Indices: 36409484--36409576 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
36409474 ATTTCCTTTT
36409484 TTTGTTGTAAGTTTCTTTCAGTTTTGAATCAAGATGGTTGAATTG
1 TTTGTTGTAAGTTTCTTTCAGTTTTGAATCAAGATGGTTGAATTG
* *
36409529 TTTGTTGTAAGTTTCTTTCGGTTTTGAATCAAGGTGGTTGAATTG
1 TTTGTTGTAAGTTTCTTTCAGTTTTGAATCAAGATGGTTGAATTG
36409574 TTT
1 TTT
36409577 TCGAAGTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.19, C:0.06, G:0.24, T:0.51
Consensus pattern (45 bp):
TTTGTTGTAAGTTTCTTTCAGTTTTGAATCAAGATGGTTGAATTG
Found at i:36413780 original size:29 final size:30
Alignment explanation
Indices: 36413701--36413780 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 30
36413691 TTAGACCATG
* *
36413701 GACCTTGG-CCCTAGAT-CTTGAAACCCTA
1 GACCATGGACCCTCGATCCTTGAAACCCTA
* * *
36413729 GACCATGGACTCTGGATCC-TGAAACCTTA
1 GACCATGGACCCTCGATCCTTGAAACCCTA
36413758 GACCATGGACCCTCGA-CCTTGAA
1 GACCATGGACCCTCGATCCTTGAA
36413781 CTAGGGTCTA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
28 9 0.21
29 33 0.77
30 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (30 bp):
GACCATGGACCCTCGATCCTTGAAACCCTA
Found at i:36413840 original size:28 final size:27
Alignment explanation
Indices: 36413792--36413852 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
36413782 TAGGGTCTAG
* * *
36413792 GGTTCAAGTTTAGGGTTTAGGATCCAC
1 GGTTCAAGTTCAGGGTCTAGGATCCAA
*
36413819 GGTTCAAGATTCAGGGTCTAGGGTCCAA
1 GGTTCAAG-TTCAGGGTCTAGGATCCAA
36413847 GGTTCA
1 GGTTCA
36413853 GGGTCGAGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (27 bp):
GGTTCAAGTTCAGGGTCTAGGATCCAA
Found at i:36427040 original size:43 final size:42
Alignment explanation
Indices: 36426981--36427132 Score: 198
Period size: 43 Copynumber: 3.5 Consensus size: 42
36426971 TGGCAGCGTT
* *
36426981 TTTTTCACATACACGCCGCTAAAGAACATGACCATTAGCGATGC
1 TTTTTCACA-A-ACGCCGCTAAAGAACATGACCTTTAGCGACGC
*
36427025 TTTTATCACAAACGCCGCTAAAGATCATGACCTTTAGC-AGCGCC
1 TTTT-TCACAAACGCCGCTAAAGAACATGACCTTTAGCGA-CG-C
*
36427069 TTTTTCACAAACGCCGCTAAAGAACATGACCTTTAGCGACGTT
1 TTTTTCACAAACGCCGCTAAAGAACATGACCTTTAGCGACG-C
*
36427112 TTTTTCACAAACACCGCTAAA
1 TTTTTCACAAACGCCGCTAAA
36427133 AGTACCGTTC
Statistics
Matches: 97, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
42 1 0.01
43 80 0.82
44 11 0.11
45 5 0.05
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (42 bp):
TTTTTCACAAACGCCGCTAAAGAACATGACCTTTAGCGACGC
Found at i:36431227 original size:12 final size:12
Alignment explanation
Indices: 36431212--36431237 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36431202 ATCATCCTCT
36431212 TCATCAGATTCA
1 TCATCAGATTCA
36431224 TCATCAGATTCA
1 TCATCAGATTCA
36431236 TC
1 TC
36431238 CATCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:36432969 original size:9 final size:9
Alignment explanation
Indices: 36432955--36433135 Score: 156
Period size: 9 Copynumber: 20.1 Consensus size: 9
36432945 TAAGTATAAA
36432955 TAAGTTATG
1 TAAGTTATG
36432964 TAAGTTATG
1 TAAGTTATG
* * *
36432973 ATATGATATA
1 -TAAGTTATG
*
36432983 T-ATTTATG
1 TAAGTTATG
36432991 T-A-TTATG
1 TAAGTTATG
36432998 TAAGTTATG
1 TAAGTTATG
36433007 TAAGTTATG
1 TAAGTTATG
*
36433016 TGAGTTATG
1 TAAGTTATG
*
36433025 TGAGTTATG
1 TAAGTTATG
36433034 TAAGTTATG
1 TAAGTTATG
* *
36433043 ATATGATATATA
1 -TAAG-T-TATG
36433055 TAAGTTAT-
1 TAAGTTATG
*
36433063 TGAGTTATG
1 TAAGTTATG
36433072 TAAGTTATG
1 TAAGTTATG
*
36433081 TGAGTTATG
1 TAAGTTATG
*
36433090 AAAGTTATG
1 TAAGTTATG
* * *
36433099 ATATGATATA
1 -TAAGTTATG
36433109 T-AGTTATG
1 TAAGTTATG
36433117 TAAGTTATG
1 TAAGTTATG
36433126 TAAGTTATG
1 TAAGTTATG
36433135 T
1 T
36433136 GAGTAATGAA
Statistics
Matches: 139, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
7 6 0.04
8 18 0.13
9 93 0.67
10 15 0.11
11 4 0.03
12 3 0.02
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:36433078 original size:65 final size:68
Alignment explanation
Indices: 36432956--36433135 Score: 218
Period size: 65 Copynumber: 2.7 Consensus size: 68
36432946 AAGTATAAAT
*
36432956 AAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGTGAGT
1 AAGTTATGTAAGTTATGATATGATATATA-TTAAG-ATTATGTAAGTTATGTAAGTTATGTGAGT
*
36433021 TATGT
64 TATGA
* *
36433026 GAGTTATGTAAGTTATGATATGATATATA-TAAG-TTAT-TGAGTTATGTAAGTTATGTGAGTTA
1 AAGTTATGTAAGTTATGATATGATATATATTAAGATTATGTAAGTTATGTAAGTTATGTGAGTTA
36433088 TGA
66 TGA
36433091 AAGTTATG--A--TATGATAT-ATAGT-TATGTAAG-TTATGTAAGTTATGT
1 AAGTTATGTAAGTTATGATATGATA-TATAT-TAAGATTATGTAAGTTATGT
36433136 GAGTAATGAA
Statistics
Matches: 100, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
60 5 0.05
61 9 0.09
62 8 0.08
63 10 0.10
65 33 0.33
66 4 0.04
68 3 0.03
70 28 0.28
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (68 bp):
AAGTTATGTAAGTTATGATATGATATATATTAAGATTATGTAAGTTATGTAAGTTATGTGAGTTA
TGA
Found at i:36433080 original size:56 final size:55
Alignment explanation
Indices: 36432998--36433145 Score: 228
Period size: 56 Copynumber: 2.7 Consensus size: 55
36432988 ATGTATTATG
* *
36432998 TAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATGTAAGTTATGATATGATATATA
1 TAAGTTATGTAAGTTATGTAAGTTATGTGAGTTATGAAAGTTATGATATG--ATATA
*
36433055 TAAGTTAT-TGAGTTATGTAAGTTATGTGAGTTATGAAAGTTATGATATGATATA
1 TAAGTTATGTAAGTTATGTAAGTTATGTGAGTTATGAAAGTTATGATATGATATA
*
36433109 T-AGTTATGTAAGTTATGTAAGTTATGTGAGTAATGAA
1 TAAGTTATGTAAGTTATGTAAGTTATGTGAGTTATGAA
36433146 TTTGAAATAT
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
53 6 0.07
54 33 0.39
56 38 0.45
57 8 0.09
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (55 bp):
TAAGTTATGTAAGTTATGTAAGTTATGTGAGTTATGAAAGTTATGATATGATATA
Found at i:36433199 original size:20 final size:21
Alignment explanation
Indices: 36433174--36433220 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
36433164 TATCCATACT
36433174 AATATAGGTTAT-ATATTAAA
1 AATATAGGTTATAATATTAAA
* *
36433194 AATATAGGTTTTAATATTTAA
1 AATATAGGTTATAATATTAAA
36433215 AATATA
1 AATATA
36433221 ATATTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
AATATAGGTTATAATATTAAA
Found at i:36433287 original size:120 final size:120
Alignment explanation
Indices: 36433127--36433725 Score: 1000
Period size: 120 Copynumber: 5.0 Consensus size: 120
36433117 TAAGTTATGT
*
36433127 AAGTTATGTGAGTAATGAATTTGAAATATAGGTTACATATCCATACTAATATAGGTTATATATTA
1 AAGTTAT-T-AGTAATGAATTTGAAATATAGGTTATATATCCATACTAATATAGGTTATATATTA
* * *
36433192 AAAATATAGGTTTTAATATTTAAAATATAATATTTATAATTATGTATAAAATTGAAA
64 AAAATATAGGTTTTAATATTTAAAATATAATATATATAATTATGTTTAAAATTTAAA
* * *
36433249 AATTTATTAGTAATGAATTTAAAATATAGGTAATATATCCATACTAATATAGGTTATATATTAAA
1 AAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAA
* *
36433314 AATATAGGTTTTAATATTTAAAATATAAAATAAATAATTATGTTTAAAATTTAAA
66 AATATAGGTTTTAATATTTAAAATATAATATATATAATTATGTTTAAAATTTAAA
*
36433369 AAGTTATTAGTAATGAATTTGAAATATAAGTTATATATCCATACTAATATAGGTTATATATTAAA
1 AAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAA
* *
36433434 AATATAGGTTTTAATATTTAAAATATAAAATAAATAATTATGTTTAAAATTTAAA
66 AATATAGGTTTTAATATTTAAAATATAATATATATAATTATGTTTAAAATTTAAA
*
36433489 AAGTTATTAGTAATGAATTTGAAATATAAGTTATATATCCATACTAATATAGGTTATATATTAAA
1 AAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAA
* * * *
36433554 AATATAGGTTTTAATATTTAAAATATAATATTTTTTATTATTTTTAAAATTTAAA
66 AATATAGGTTTTAATATTTAAAATATAATATATATAATTATGTTTAAAATTTAAA
36433609 AAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCATACTTAATATAGGTTATATATTAA
1 AAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCATAC-TAATATAGGTTATATATTAA
* *
36433674 AAATATAGGTTTTAATATTTAAAATATAATATATGTAATTATTTTTAAAATT
65 AAATATAGGTTTTAATATTTAAAATATAATATATATAATTATGTTTAAAATT
36433726 GCATAGGAAT
Statistics
Matches: 453, Mismatches: 23, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
120 377 0.83
121 70 0.15
122 6 0.01
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (120 bp):
AAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAA
AATATAGGTTTTAATATTTAAAATATAATATATATAATTATGTTTAAAATTTAAA
Found at i:36433319 original size:20 final size:21
Alignment explanation
Indices: 36433294--36433340 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
36433284 TATCCATACT
36433294 AATATAGGTTAT-ATATTAAA
1 AATATAGGTTATAATATTAAA
* *
36433314 AATATAGGTTTTAATATTTAA
1 AATATAGGTTATAATATTAAA
36433335 AATATA
1 AATATA
36433341 AAATAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
AATATAGGTTATAATATTAAA
Found at i:36433439 original size:20 final size:21
Alignment explanation
Indices: 36433414--36433460 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
36433404 TATCCATACT
36433414 AATATAGGTTAT-ATATTAAA
1 AATATAGGTTATAATATTAAA
* *
36433434 AATATAGGTTTTAATATTTAA
1 AATATAGGTTATAATATTAAA
36433455 AATATA
1 AATATA
36433461 AAATAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
AATATAGGTTATAATATTAAA
Found at i:36433559 original size:20 final size:21
Alignment explanation
Indices: 36433534--36433580 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
36433524 TATCCATACT
36433534 AATATAGGTTAT-ATATTAAA
1 AATATAGGTTATAATATTAAA
* *
36433554 AATATAGGTTTTAATATTTAA
1 AATATAGGTTATAATATTAAA
36433575 AATATA
1 AATATA
36433581 ATATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
AATATAGGTTATAATATTAAA
Found at i:36433680 original size:20 final size:21
Alignment explanation
Indices: 36433655--36433701 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
36433645 ATCCATACTT
36433655 AATATAGGTTAT-ATATTAAA
1 AATATAGGTTATAATATTAAA
* *
36433675 AATATAGGTTTTAATATTTAA
1 AATATAGGTTATAATATTAAA
36433696 AATATA
1 AATATA
36433702 ATATATGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
AATATAGGTTATAATATTAAA
Found at i:36435333 original size:15 final size:15
Alignment explanation
Indices: 36435310--36435340 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36435300 ATGGGAATGT
*
36435310 TCTTTTCTTTCTTCG
1 TCTTCTCTTTCTTCG
36435325 TCTTCTCTTTCTTCG
1 TCTTCTCTTTCTTCG
36435340 T
1 T
36435341 ATGAATGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.29, G:0.06, T:0.65
Consensus pattern (15 bp):
TCTTCTCTTTCTTCG
Found at i:36436211 original size:7 final size:7
Alignment explanation
Indices: 36436201--36436290 Score: 92
Period size: 7 Copynumber: 12.6 Consensus size: 7
36436191 TAAAACCATA
36436201 AAACCCT
1 AAACCCT
36436208 AAACCCT
1 AAACCCT
*
36436215 AAATCCT
1 AAACCCT
36436222 AAACCCAT
1 AAACCC-T
36436230 AAACCCT
1 AAACCCT
*
36436237 AAACCAT
1 AAACCCT
*
36436244 AAACACT
1 AAACCCT
* *
36436251 ATACCTT
1 AAACCCT
*
36436258 AAACCAT
1 AAACCCT
36436265 AAACACC-
1 AAAC-CCT
36436272 AAACCCT
1 AAACCCT
36436279 AAAACCCT
1 -AAACCCT
36436287 AAAC
1 AAAC
36436291 TTCTAGGTCT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
6 2 0.03
7 51 0.75
8 15 0.22
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:36436232 original size:22 final size:21
Alignment explanation
Indices: 36436184--36436290 Score: 101
Period size: 22 Copynumber: 4.9 Consensus size: 21
36436174 CAAAAGTAAT
*
36436184 TAAATCCTAAAACCATAAAACCC
1 TAAACCCT-AAACCAT-AAACCC
36436207 TAAACCCTAAATCC-TAAACCC
1 TAAACCCTAAA-CCATAAACCC
*
36436228 ATAAACCCTAAACCATAAACAC
1 -TAAACCCTAAACCATAAACCC
* *
36436250 TATACCTTAAACCATAAACACC
1 TAAACCCTAAACCATAAAC-CC
*
36436272 -AAACCCTAAAACCCTAAAC
1 TAAACCCT-AAACCATAAAC
36436291 TTCTAGGTCT
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
21 30 0.42
22 32 0.45
23 9 0.13
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACCC
Found at i:36436348 original size:7 final size:7
Alignment explanation
Indices: 36436338--36436390 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
36436328 CACTAAATCA
36436338 TAAACCC
1 TAAACCC
**
36436345 TAAACTT
1 TAAACCC
36436352 TAAACCC
1 TAAACCC
36436359 TAAACCC
1 TAAACCC
*
36436366 TAAA-CT
1 TAAACCC
*
36436372 TATACCC
1 TAAACCC
36436379 TAAACCC
1 TAAACCC
36436386 TAAAC
1 TAAAC
36436391 TCAAAACTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
6 4 0.11
7 33 0.89
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:36436380 original size:20 final size:20
Alignment explanation
Indices: 36436338--36436391 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
36436328 CACTAAATCA
36436338 TAAACCCTAAACTTTAAACCC
1 TAAACCCTAAAC-TTAAACCC
*
36436359 TAAACCCTAAACTTATACCC
1 TAAACCCTAAACTTAAACCC
36436379 TAAACCCTAAACT
1 TAAACCCTAAACT
36436392 CAAAACTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAACCCTAAACTTAAACCC
Found at i:36436731 original size:116 final size:114
Alignment explanation
Indices: 36436523--36436737 Score: 301
Period size: 115 Copynumber: 1.9 Consensus size: 114
36436513 TATCAAAAAC
* *
36436523 GCCGTTAATGCCACTAAAGCTCAACAACAAACGACATCATTTTCTCAAATTTTTTGCGATGTTTC
1 GCCGCTAATGCCACTAAAGCTCAACAAAAAACGACATCATTTTCTCAAATTTTTTGCGATGTTTC
* *
36436588 TAAAAACGTGCCGCTAATGCTTGATCTATTGCGGAGTTTGTTGAAAAAGT
66 AAAAAACG-GCCGCTAATGCTTGATCTATAGCGGAGTTTGTTGAAAAAGT
*
36436638 GCCGCTAATGCCACTAAAGCTCAACAAAAAACGA-AGTCGTTTTGCTCAAATTTTTTGCGGCAT-
1 GCCGCTAATGCCACTAAAGCTCAACAAAAAACGACA-TCATTTT-CTCAAATTTTTTGC-G-ATG
*
36436701 TTTACAAAAAAC-GCCGCTAATTCTTGATCTATAGCGG
62 TTT-CAAAAAACGGCCGCTAATGCTTGATCTATAGCGG
36436738 CGCTTCTCAG
Statistics
Matches: 89, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
114 1 0.01
115 38 0.43
116 37 0.42
117 4 0.04
118 9 0.10
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (114 bp):
GCCGCTAATGCCACTAAAGCTCAACAAAAAACGACATCATTTTCTCAAATTTTTTGCGATGTTTC
AAAAAACGGCCGCTAATGCTTGATCTATAGCGGAGTTTGTTGAAAAAGT
Found at i:36436758 original size:115 final size:114
Alignment explanation
Indices: 36436515--36436760 Score: 277
Period size: 115 Copynumber: 2.1 Consensus size: 114
36436505 GGCATTTTTA
* * *
36436515 TCAAAAA-CGCCGTTAATGCCACTAAAGCTCAACAACAAACGACATCATTTTCTCAAATTTTTTG
1 TCAAAAAGCACCGCTAATGCCACTAAAGCTCAACAAAAAACGACATCATTTTCTCAAATTTTTTG
* * * *
36436579 CGATGTTTCTAAAAACGTGCCGCTAATGCTTGATCTATTGCGGAGTTTGT
66 CGATGTTTCAAAAAACG-GCCGCTAATGCTTGATCTATAGCGGAGCTTGC
* ** *
36436629 TGAAAAAGTGCCGCTAATGCCACTAAAGCTCAACAAAAAACGA-AGTCGTTTTGCTCAAATTTTT
1 TCAAAAAGCACCGCTAATGCCACTAAAGCTCAACAAAAAACGACA-TCATTTT-CTCAAATTTTT
* *
36436693 TGCGGCAT-TTTACAAAAAAC-GCCGCTAATTCTTGATCTATAGCGGCGCTT-C
64 TGC-G-ATGTTT-CAAAAAACGGCCGCTAATGCTTGATCTATAGCGGAGCTTGC
*
36436744 TCAGAAAGCACCGCTAA
1 TCAAAAAGCACCGCTAA
36436761 AACTCGATCT
Statistics
Matches: 111, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
114 7 0.06
115 51 0.46
116 40 0.36
117 4 0.04
118 9 0.08
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (114 bp):
TCAAAAAGCACCGCTAATGCCACTAAAGCTCAACAAAAAACGACATCATTTTCTCAAATTTTTTG
CGATGTTTCAAAAAACGGCCGCTAATGCTTGATCTATAGCGGAGCTTGC
Found at i:36436913 original size:155 final size:155
Alignment explanation
Indices: 36436748--36437086 Score: 491
Period size: 155 Copynumber: 2.2 Consensus size: 155
36436738 CGCTTCTCAG
* ** * * * * *
36436748 AAAGCACCGCTAAAACTCGATCTATTGCGGCGTTTCTTA-ATTAGCGCCGCTAATGCTCAATCTA
1 AAAGCGCCGCTAATTCTTGATCTATTGCGGCGTTTCTCAGA-AAGAGCCGCTAAAGCTCAATCTA
* * * *
36436812 TTATGGCGTTCTTTAAAAGGCGCCACTAAAGCCAATAAAGCTTAACAAAAAACAAAGTCGTTTTG
65 TTACGGCGTTCTTTAAAAAGCGCCACTAAAGCCAATAAAGCTCAACAAAAAACAAAGTCATTTTG
36436877 CTCAACTTTTTTGCGGCGTTTTACAT
130 CTCAACTTTTTTGCGGCGTTTTACAT
* *
36436903 AAAGCGCCGCTAATTCTTGATCTATAGCGGCGTTTCTCAGAAAGAGCCGCTAAAGCTCGATCTAT
1 AAAGCGCCGCTAATTCTTGATCTATTGCGGCGTTTCTCAGAAAGAGCCGCTAAAGCTCAATCTAT
* * **
36436968 TGCGGCGTTTTTTAAAAAGCGCCACTAAAGCCAATAAAGCTCAACAAAAAATGAAGTCATTTTGC
66 TACGGCGTTCTTTAAAAAGCGCCACTAAAGCCAATAAAGCTCAACAAAAAACAAAGTCATTTTGC
*
36437033 TCAACTTTTTTGCGGTGTTTTACAT
131 TCAACTTTTTTGCGGCGTTTTACAT
36437058 AAAGCGCCGCTAATTCTTGATCTATTGCG
1 AAAGCGCCGCTAATTCTTGATCTATTGCG
36437087 ATGCTTGTCG
Statistics
Matches: 163, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
155 162 0.99
156 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (155 bp):
AAAGCGCCGCTAATTCTTGATCTATTGCGGCGTTTCTCAGAAAGAGCCGCTAAAGCTCAATCTAT
TACGGCGTTCTTTAAAAAGCGCCACTAAAGCCAATAAAGCTCAACAAAAAACAAAGTCATTTTGC
TCAACTTTTTTGCGGCGTTTTACAT
Found at i:36436996 original size:40 final size:40
Alignment explanation
Indices: 36436887--36436998 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
36436877 CTCAACTTTT
* * ** *
36436887 TTGCGGCGTTTTACATAAAGCGCCGCTAATTCTTGATCTA
1 TTGCGGCGTTTTTCAAAAAGCGCCGCTAAAGCTCGATCTA
* * * *
36436927 TAGCGGCGTTTCTCAGAAAGAGCCGCTAAAGCTCGATCTA
1 TTGCGGCGTTTTTCAAAAAGCGCCGCTAAAGCTCGATCTA
* *
36436967 TTGCGGCGTTTTTTAAAAAGCGCCACTAAAGC
1 TTGCGGCGTTTTTCAAAAAGCGCCGCTAAAGC
36436999 CAATAAAGCT
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (40 bp):
TTGCGGCGTTTTTCAAAAAGCGCCGCTAAAGCTCGATCTA
Found at i:36437108 original size:155 final size:155
Alignment explanation
Indices: 36436793--36437136 Score: 478
Period size: 155 Copynumber: 2.2 Consensus size: 155
36436783 CTTAATTAGC
* * ** * * *
36436793 GCCGCTAATGCTCAATCTATTATGGCGTTCTTTAAAAGGCGCCACTAAAGCCAATAAAGCTTAAC
1 GCCGCTAAAGCTCGATCTATTGCGGCGTTTTTTAAAAAGCGCCACTAAAGCCAATAAAGCTCAAC
*
36436858 AAAAAACAAAGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTACATAAAGCGCCGCTAATTCTTGA
66 AAAAAACAAAGTCATTTTGCTCAACTTTTTTGCGGCGTTTTACATAAAGCGCCGCTAATTCTTGA
* *
36436923 TCTATAGCGGCGTTTCTCAGAAAGA
131 TCTATAGCGACGCTTCTCAGAAAGA
36436948 GCCGCTAAAGCTCGATCTATTGCGGCGTTTTTTAAAAAGCGCCACTAAAGCCAATAAAGCTCAAC
1 GCCGCTAAAGCTCGATCTATTGCGGCGTTTTTTAAAAAGCGCCACTAAAGCCAATAAAGCTCAAC
** *
36437013 AAAAAATGAAGTCATTTTGCTCAACTTTTTTGCGGTGTTTTACATAAAGCGCCGCTAATTCTTGA
66 AAAAAACAAAGTCATTTTGCTCAACTTTTTTGCGGCGTTTTACATAAAGCGCCGCTAATTCTTGA
* * *
36437078 TCTATTGCGATGCTTGTC-GAAA-A
131 TCTATAGCGACGCTTCTCAGAAAGA
* *
36437101 GCACCGCTAATA-CTTGATCTTTTGCGGCGTTTTTTA
1 G--CCGCTAA-AGCTCGATCTATTGCGGCGTTTTTTA
36437137 TTCAAACACC
Statistics
Matches: 168, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
153 2 0.01
154 4 0.02
155 161 0.96
156 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (155 bp):
GCCGCTAAAGCTCGATCTATTGCGGCGTTTTTTAAAAAGCGCCACTAAAGCCAATAAAGCTCAAC
AAAAAACAAAGTCATTTTGCTCAACTTTTTTGCGGCGTTTTACATAAAGCGCCGCTAATTCTTGA
TCTATAGCGACGCTTCTCAGAAAGA
Found at i:36438010 original size:42 final size:42
Alignment explanation
Indices: 36437940--36438292 Score: 401
Period size: 42 Copynumber: 8.4 Consensus size: 42
36437930 ACGTCGCTAA
* *
36437940 CTTTTGCGGCGCTTACATAAAGAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGA-AAA-AAACGCCGCTAAAGATCATGTT
*
36437984 CTTTAGCAGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
36438026 CTTTAGCGGCGCTTAGAAAAAAACGCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
36438068 CTTTAGCGGCGCTTA-AGAAAAACGCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
36438109 CTTTAGCGGCGCTTAGAAGACAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAA-AAAAACGCCGCTAAAGATCATGTT
* *
36438152 CTTCAGCGGCGCTTA-AAAAAAACGCCACTAAA-ACTCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* * * * * *
36438193 CTTTTGTGGCGCTTTGGAAGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* * **** **
36438236 CTATAGCGGCACTTCTTCAAAAACGCCGCTAAA-AGTGGTGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGA-TCATGTT
36438278 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
36438293 TTTCACAAAC
Statistics
Matches: 269, Mismatches: 35, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.00
41 69 0.26
42 116 0.43
43 69 0.26
44 14 0.05
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:36438260 original size:126 final size:124
Alignment explanation
Indices: 36437962--36438292 Score: 375
Period size: 125 Copynumber: 2.6 Consensus size: 124
36437952 TTACATAAAG
* * * * *
36437962 AAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTC
1 AAACGCCCCTAAAGATAATGTTCTATAGCGGCACTTAG-AAAAAACGCCGCTAAAGATCATGTTC
*
36438027 TTTAGCGGCGCTTAGAAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTAAGAA
65 TTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAAGAA
* * *
36438087 AAACGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAGACAAACGCCGCTAAAGATCATGTT
1 AAACGCCCCTAAAGATAATGTTCTATAGCGGCACTTAGAA-A-AAACGCCGCTAAAGATCATGTT
* * *
36438152 CTTCAGCGGCGCTTA-AAAAAAACGCCACTAAA-ACTCATGTTCTTTTGTGGCGCTTTGGAAG-A
64 CTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGA-TCATGTTCTTTAGCGGCGC-TT--AAGAA
* *** **
36438214 AAACGCCTCTAAA-AGTAATGTTCTATAGCGGCACTTCTTCAAAAACGCCGCTAAA-AGTGGTGT
1 AAACGCCCCTAAAGA-TAATGTTCTATAGCGGCACTT-AGAAAAAACGCCGCTAAAGA-TCATGT
36438277 TCTTTAGCGGCGCTTA
63 TCTTTAGCGGCGCTTA
36438293 TTTCACAAAC
Statistics
Matches: 181, Mismatches: 16, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
124 3 0.02
125 71 0.39
126 71 0.39
127 32 0.18
128 4 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (124 bp):
AAACGCCCCTAAAGATAATGTTCTATAGCGGCACTTAGAAAAAACGCCGCTAAAGATCATGTTCT
TTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAAGAA
Found at i:36438736 original size:21 final size:21
Alignment explanation
Indices: 36438710--36438749 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
36438700 TTCTTTTGAA
*
36438710 CCTCTGTTTCTCTCGCTGCGG
1 CCTCTGCTTCTCTCGCTGCGG
36438731 CCTCTGCTTCTCTCGCTGC
1 CCTCTGCTTCTCTCGCTGC
36438750 TTCTCTCGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.42, G:0.20, T:0.38
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCGG
Found at i:36438751 original size:12 final size:12
Alignment explanation
Indices: 36438734--36438761 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
36438724 GCTGCGGCCT
36438734 CTGCTTCTCTCG
1 CTGCTTCTCTCG
36438746 CTGCTTCTCTCG
1 CTGCTTCTCTCG
36438758 CTGC
1 CTGC
36438762 GGCATCTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.18, T:0.39
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:36438754 original size:33 final size:33
Alignment explanation
Indices: 36438717--36438781 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
36438707 GAACCTCTGT
* *
36438717 TTCTCTCGCTGCGGCCTCTGCTTCTCTCGCTGC
1 TTCTCTCGCTGCGGCATCTACTTCTCTCGCTGC
36438750 TTCTCTCGCTGCGGCATCTACTTCTCTCGCTG
1 TTCTCTCGCTGCGGCATCTACTTCTCTCGCTG
36438782 TAGCCTCTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.03, C:0.40, G:0.20, T:0.37
Consensus pattern (33 bp):
TTCTCTCGCTGCGGCATCTACTTCTCTCGCTGC
Found at i:36438808 original size:21 final size:21
Alignment explanation
Indices: 36438746--36438814 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
36438736 GCTTCTCTCG
* *
36438746 CTGCTTCTCTCGCTGCGGCAT
1 CTGCTTCTCTCGCTGCAGCCT
* *
36438767 CTACTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
36438788 CTGCTTCTCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
36438809 CTGCTT
1 CTGCTT
36438815 TAAGTTGCTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.04, C:0.41, G:0.19, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:36444399 original size:25 final size:25
Alignment explanation
Indices: 36444369--36444416 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
36444359 TTAAACAATA
36444369 ATGTAAGTTA-GGAAGGTTATGTATT
1 ATGTAAGTTATGGAA-GTTATGTATT
*
36444394 ATGTAAGTTATGTAAGTTATGTA
1 ATGTAAGTTATGGAAGTTATGTA
36444417 AGTTTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (25 bp):
ATGTAAGTTATGGAAGTTATGTATT
Found at i:36444404 original size:9 final size:9
Alignment explanation
Indices: 36444369--36444420 Score: 65
Period size: 9 Copynumber: 6.0 Consensus size: 9
36444359 TTAAACAATA
36444369 ATGTAAGTT
1 ATGTAAGTT
*
36444378 A-GGAAGGTT
1 ATGTAA-GTT
36444387 ATGT-A-TT
1 ATGTAAGTT
36444394 ATGTAAGTT
1 ATGTAAGTT
36444403 ATGTAAGTT
1 ATGTAAGTT
36444412 ATGTAAGTT
1 ATGTAAGTT
36444421 TATATAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 6 0.16
8 4 0.11
9 26 0.70
10 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:36444479 original size:32 final size:31
Alignment explanation
Indices: 36444406--36444481 Score: 98
Period size: 33 Copynumber: 2.4 Consensus size: 31
36444396 GTAAGTTATG
36444406 TAAGTTATGTAAGTTTATATAAAAAAATTTA
1 TAAGTTATGTAAGTTTATATAAAAAAATTTA
* **
36444437 TATGTATTATGTAAGTTTATATTAAAAATTTTTA
1 TAAG--TTATGTAAGTTTATA-TAAAAAAATTTA
36444471 TAAGTTATGTA
1 TAAGTTATGTA
36444482 TTATCTTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
31 3 0.08
32 7 0.18
33 15 0.39
34 13 0.34
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (31 bp):
TAAGTTATGTAAGTTTATATAAAAAAATTTA
Found at i:36444565 original size:90 final size:89
Alignment explanation
Indices: 36444513--36444739 Score: 355
Period size: 90 Copynumber: 2.5 Consensus size: 89
36444503 TGTATTATGT
* * *
36444513 AAGTTTACATATATGTAAACTTGCTTAAATTTTAGTAAGTAATAATTTTAAGTAACATACTTAAA
1 AAGTTTACATATAAGTAAACTTACTTAAAATTTAGTAAGTAATAATTTTAAGTAACATACTT-AA
* *
36444578 TTTTACATATAAGTAAACTTACTTA
65 TTTCACATAAAAGTAAACTTACTTA
*
36444603 AATTTTACATATAAGTAAACTTACTTAAAATTTAGTAAGTAATAATTTTAAGTAACATACTTAAA
1 AAGTTTACATATAAGTAAACTTACTTAAAATTTAGTAAGTAATAATTTTAAGTAACATACTT-AA
* *
36444668 TTTTACATATAAGTAAACTTACTTA
65 TTTCACATAAAAGTAAACTTACTTA
*
36444693 AATTTTACATATAAGTAAACTTACTTAAAATTTAGTAAGTAATAATT
1 AAGTTTACATATAAGTAAACTTACTTAAAATTTAGTAAGTAATAATT
36444740 NNNNNNNNNN
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 133 1.00
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (89 bp):
AAGTTTACATATAAGTAAACTTACTTAAAATTTAGTAAGTAATAATTTTAAGTAACATACTTAAT
TTCACATAAAAGTAAACTTACTTA
Found at i:36444603 original size:27 final size:27
Alignment explanation
Indices: 36444561--36444636 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
36444551 GTAATAATTT
*
36444561 TAAGT-AACATACTTAAATTTTACATA
1 TAAGTAAACTTACTTAAATTTTACATA
36444587 TAAGTAAACTTACTTAAATTTTACATA
1 TAAGTAAACTTACTTAAATTTTACATA
*
36444614 TAAGTAAACTTACTTAAAATTTA
1 TAAGTAAACTTACTTAAATTTTA
36444637 GTAAGTAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
26 5 0.11
27 42 0.89
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (27 bp):
TAAGTAAACTTACTTAAATTTTACATA
Found at i:36444693 original size:27 final size:27
Alignment explanation
Indices: 36444651--36444726 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
36444641 GTAATAATTT
*
36444651 TAAGT-AACATACTTAAATTTTACATA
1 TAAGTAAACTTACTTAAATTTTACATA
36444677 TAAGTAAACTTACTTAAATTTTACATA
1 TAAGTAAACTTACTTAAATTTTACATA
*
36444704 TAAGTAAACTTACTTAAAATTTA
1 TAAGTAAACTTACTTAAATTTTA
36444727 GTAAGTAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
26 5 0.11
27 42 0.89
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (27 bp):
TAAGTAAACTTACTTAAATTTTACATA
Found at i:36446636 original size:10 final size:11
Alignment explanation
Indices: 36446621--36446649 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
36446611 TCAACGTTAA
36446621 ATTAAAAA-AT
1 ATTAAAAAGAT
36446631 ATTAAAAAGAT
1 ATTAAAAAGAT
36446642 ATTAAAAA
1 ATTAAAAA
36446650 TTTATTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
ATTAAAAAGAT
Done.