Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 86 of 444
Found at i:20423279 original size:24 final size:25
Alignment explanation
Indices: 20423247--20423296 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
20423237 TAATAATAGA
*
20423247 ATATAAATAAAAATAATTAT-TAAT
1 ATATAAATAAAAATAAATATATAAT
*
20423271 ATATAAATAAAGATAAATATATAAT
1 ATATAAATAAAAATAAATATATAAT
20423296 A
1 A
20423297 CAAGTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (25 bp):
ATATAAATAAAAATAAATATATAAT
Found at i:20423349 original size:3 final size:3
Alignment explanation
Indices: 20423341--20423538 Score: 87
Period size: 3 Copynumber: 64.7 Consensus size: 3
20423331 ATAAAAATGT
* *
20423341 ATA ATA AT- ATA AAA ATA ACTTA ATA ATA TATA A-A ATA ATT ATA ATA
1 ATA ATA ATA ATA ATA ATA A--TA ATA ATA -ATA ATA ATA ATA ATA ATA
* *
20423387 TATA AT- ATA A-A ATC AT- ATA TATA AAA ATA ATA TATA ATA TATA ATA
1 -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA -ATA ATA
* *
20423433 A-A CAT- ATA AT- ATA ATA ATA ATA TATAA ATA ATG AT- GTA A-A ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA
* * *
20423476 ATA ATA AGTT GTGA AAA ATA ATA TATA ATAA ATA ATA AT- ATAA ATA
1 ATA ATA A-TA AT-A ATA ATA ATA -ATA AT-A ATA ATA ATA AT-A ATA
20423522 ATA TATA ATA A-A ATA AT
1 ATA -ATA ATA ATA ATA AT
20423539 TTTATAATAT
Statistics
Matches: 151, Mismatches: 16, Indels: 56
0.68 0.07 0.25
Matches are distributed among these distances:
2 22 0.15
3 94 0.62
4 31 0.21
5 4 0.03
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:20423364 original size:19 final size:19
Alignment explanation
Indices: 20423342--20423529 Score: 94
Period size: 19 Copynumber: 9.7 Consensus size: 19
20423332 TAAAAATGTA
20423342 TAATAATATA-AAAATAACT
1 TAATAATATATAAAATAA-T
20423361 TAATAATATATAAAATAAT
1 TAATAATATATAAAATAAT
*
20423380 T-ATAATATATAATATAA-
1 TAATAATATATAAAATAAT
20423397 -AATCATATATATAAAAATAA-
1 TAAT-A-ATATAT-AAAATAAT
20423417 TATATAATATATAATAA-ACA-
1 TA-ATAATATATAA-AATA-AT
20423437 T-ATAATATAATAATAATATAT
1 TAATAATAT-ATAA-AATA-AT
* *
20423458 AAATAATGATGTAAAATAA-
1 TAATAAT-ATATAAAATAAT
*
20423477 TAATAAGT-TGTGAAAAATAA-
1 TAATAA-TATAT--AAAATAAT
*
20423497 TATATAATAAATAATAAT-AT
1 TA-ATAATATATAA-AATAAT
*
20423517 AAATAATATATAA
1 TAATAATATATAA
20423530 TAAAATAATT
Statistics
Matches: 138, Mismatches: 10, Indels: 42
0.73 0.05 0.22
Matches are distributed among these distances:
17 2 0.01
18 26 0.19
19 46 0.33
20 41 0.30
21 11 0.08
22 10 0.07
23 2 0.01
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (19 bp):
TAATAATATATAAAATAAT
Found at i:20423368 original size:11 final size:11
Alignment explanation
Indices: 20423319--20423563 Score: 109
Period size: 11 Copynumber: 21.7 Consensus size: 11
20423309 CTTTAATGAA
20423319 AATAAT-ATAT
1 AATAATAATAT
* *
20423329 AGATAAAAATGT
1 A-ATAATAATAT
20423341 -ATAATAATAT
1 AATAATAATAT
*
20423351 AAAAATAACT-T
1 AATAATAA-TAT
20423362 AATAAT-ATAT
1 AATAATAATAT
20423372 AA-AATAATTAT
1 AATAATAA-TAT
20423383 AATATATAATAT
1 AATA-ATAATAT
*
20423395 AA-AATCATAT
1 AATAATAATAT
*
20423405 ATATAAAAATAAT
1 A-ATAATAAT-AT
20423418 ATATAAT-ATAT
1 A-ATAATAATAT
20423429 AATAA-ACATAT
1 AATAATA-ATAT
20423440 AAT-ATAATAAT
1 AATAATAAT-AT
20423451 AATATATAA-AT
1 AATA-ATAATAT
* *
20423462 AATGATGTAAAAT
1 AAT-A-ATAATAT
*
20423475 AATAATAAGTTGT
1 AATAATAA--TAT
*
20423488 GAAAAATAATAT
1 -AATAATAATAT
20423500 -ATAATAA-AT
1 AATAATAATAT
*
20423509 AATAATATAAAT
1 AATAATA-ATAT
*
20423521 AATATATAATAA
1 AATA-ATAATAT
**
20423533 AATAATTTTAT
1 AATAATAATAT
*
20423544 AATATTAAATAT
1 AATAAT-AATAT
*
20423556 AAAAATAA
1 AATAATAA
20423564 GGTTAAAAAT
Statistics
Matches: 180, Mismatches: 27, Indels: 55
0.69 0.10 0.21
Matches are distributed among these distances:
9 6 0.03
10 40 0.22
11 59 0.33
12 43 0.24
13 25 0.14
14 7 0.04
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (11 bp):
AATAATAATAT
Found at i:20423386 original size:18 final size:18
Alignment explanation
Indices: 20423320--20423459 Score: 90
Period size: 18 Copynumber: 7.2 Consensus size: 18
20423310 TTTAATGAAA
*
20423320 ATAATATATAGATAAAAATGT
1 ATAATATATA-A-AATAAT-T
20423341 ATAATAATATAAAAATAACTT
1 ATAAT-ATAT-AAAATAA-TT
20423362 AATAATATATAAAATAATT
1 -ATAATATATAAAATAATT
* *
20423381 ATAATATATAATATAA-A
1 ATAATATATAAAATAATT
20423398 ATCATATATATAAAAATAATAT
1 AT-A-ATATAT-AAAATAAT-T
20423420 ATAATATATAATAA-ACA-T
1 ATAATATATAA-AATA-ATT
*
20423438 ATAATATA-ATAATAATAT
1 ATAATATATAAAATAAT-T
20423456 ATAA
1 ATAA
20423460 ATAATGATGT
Statistics
Matches: 99, Mismatches: 6, Indels: 31
0.73 0.04 0.23
Matches are distributed among these distances:
16 3 0.03
17 4 0.04
18 30 0.30
19 11 0.11
20 22 0.22
21 15 0.15
22 13 0.13
23 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.35
Consensus pattern (18 bp):
ATAATATATAAAATAATT
Found at i:20423390 original size:39 final size:40
Alignment explanation
Indices: 20423319--20423559 Score: 139
Period size: 41 Copynumber: 6.0 Consensus size: 40
20423309 CTTTAATGAA
* * **
20423319 AATAATATATAGATAAAAATGTATAATAATATAAAAATAACTT
1 AATAATATATA-A-AATAATATATAAT-ATATAAAAATAAAAT
*
20423362 AATAATATATAAAATAAT-TATAATATAT-AATATAAAAT
1 AATAATATATAAAATAATATATAATATATAAAAATAAAAT
*
20423400 CAT-ATATATAAAAATAATATATAATATAT---AATAAACAT
1 AATAATATAT-AAAATAATATATAATATATAAAAATAAA-AT
* *
20423438 -ATAATATA-ATAATAATATATAAATAATGATGTAAAAT--AAT
1 AATAATATATAAAATAATATAT-AAT-AT-AT-AAAAATAAAAT
* * *
20423478 AATAAGT-TGTGAAAAATAATATATAATAAATAATAATATAAAT
1 AATAA-TATAT--AAAATAATATATAATATATAAAAATA-AAAT
* *
20423521 AAT-ATATAATAAAATAATTTTATAATAT-TAAATATAAAA
1 AATAATAT-ATAAAATAA-TATATAATATATAAAAATAAAA
20423560 ATAAGGTTAA
Statistics
Matches: 159, Mismatches: 17, Indels: 47
0.71 0.08 0.21
Matches are distributed among these distances:
36 11 0.07
37 16 0.10
38 26 0.16
39 16 0.10
40 15 0.09
41 27 0.17
42 13 0.08
43 24 0.15
44 11 0.07
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (40 bp):
AATAATATATAAAATAATATATAATATATAAAAATAAAAT
Found at i:20423419 original size:50 final size:47
Alignment explanation
Indices: 20423362--20423529 Score: 134
Period size: 47 Copynumber: 3.5 Consensus size: 47
20423352 AAAATAACTT
*
20423362 AATAATATATAAAATAATTATAATATATAATATAA-AATCATATATATAAA
1 AATAATATATAAAATAATTATAACATATAATATAATAAT-A-ATATAT--A
20423412 AATAATATATAATATATAA-TA-AACATATAATATAATAATAATATATA
1 AATAATATATAA-A-ATAATTATAACATATAATATAATAATAATATATA
* * ** *
20423459 AATAATGATGTAAAATAATAATAAGTTGTGAA-A-AATAAT-ATATAATA
1 AATAAT-ATATAAAATAATTATAACATAT-AATATAATAATAATAT-ATA
20423506 AATAATA-ATATAAATAATATATAA
1 AATAATATATA-AAATAAT-TATAA
20423530 TAAAATAATT
Statistics
Matches: 100, Mismatches: 8, Indels: 23
0.76 0.06 0.18
Matches are distributed among these distances:
45 2 0.02
46 16 0.16
47 28 0.28
48 10 0.10
49 8 0.08
50 26 0.26
51 6 0.06
52 4 0.04
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (47 bp):
AATAATATATAAAATAATTATAACATATAATATAATAATAATATATA
Found at i:20423547 original size:26 final size:26
Alignment explanation
Indices: 20423362--20423482 Score: 84
Period size: 25 Copynumber: 4.9 Consensus size: 26
20423352 AAAATAACTT
20423362 AATAAT-ATATAAAATAAT-TATAATA
1 AATAATAATAT-AAATAATATATAATA
* *
20423387 TATAAT-ATA-AAATCATATAT-ATA
1 AATAATAATATAAATAATATATAATA
20423410 AA-AATAATAT--ATAATATATAATA
1 AATAATAATATAAATAATATATAATA
*
20423433 AACATATAATAT-AATAATA-ATATATA
1 AATA-ATAATATAAATAATATATA-ATA
* *
20423459 AATAATGATGTAAAATAATA-ATAA
1 AATAATAATAT-AAATAATATATAA
20423483 GTTGTGAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
22 11 0.14
23 18 0.23
24 4 0.05
25 23 0.29
26 13 0.16
27 10 0.13
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (26 bp):
AATAATAATATAAATAATATATAATA
Found at i:20429552 original size:23 final size:24
Alignment explanation
Indices: 20429514--20429558 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
20429504 TTTGCTCTTC
*
20429514 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
20429538 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
20429559 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:20429816 original size:54 final size:52
Alignment explanation
Indices: 20429627--20429880 Score: 248
Period size: 54 Copynumber: 4.8 Consensus size: 52
20429617 ACACGGGTAC
* * * * *
20429627 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTTTTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATG-AA
* * *
20429676 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATGAA
* * *
20429729 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATG-AA
* * * *
20429783 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATG-AA
*
20429836 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
20429881 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 24, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 34 0.20
52 2 0.01
53 48 0.28
54 55 0.32
55 31 0.18
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.36
Consensus pattern (52 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATGAA
Found at i:20429816 original size:107 final size:109
Alignment explanation
Indices: 20429674--20429873 Score: 316
Period size: 107 Copynumber: 1.9 Consensus size: 109
20429664 ATCCTTTTGA
* *
20429674 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
20429737 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGT
* * * *
20429781 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
20429846 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
20429874 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
106 1 0.01
107 48 0.57
108 7 0.08
109 28 0.33
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGT
Found at i:20435862 original size:23 final size:24
Alignment explanation
Indices: 20435824--20435868 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
20435814 TTTGCTCTTC
*
20435824 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
20435848 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
20435869 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:20436127 original size:55 final size:53
Alignment explanation
Indices: 20435937--20436191 Score: 227
Period size: 55 Copynumber: 4.8 Consensus size: 53
20435927 ACATGGGTAC
* * * *
20435937 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * *
20435986 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
20436039 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATGGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* * ***
20436094 CTTATCAATGCCATTTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * * *
20436147 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
20436192 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 48 0.28
54 10 0.06
55 69 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:20436128 original size:108 final size:110
Alignment explanation
Indices: 20435984--20436184 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
20435974 ATCCTTTTGA
* *
20435984 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
20436047 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
* * * * *
20436092 AACTTATCAATGCCATTTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
20436157 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
20436185 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 7 0.09
110 27 0.33
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
Found at i:20438283 original size:27 final size:27
Alignment explanation
Indices: 20438173--20438272 Score: 78
Period size: 27 Copynumber: 3.7 Consensus size: 27
20438163 TATCACATAG
* *
20438173 GGGCAAAACAATCAATTTACC-ATATAA
1 GGGCAAAACAGTCATTTTACCTA-ATAA
**** *
20438200 GGGCGTTTCAGTTATTTTACC-ACATAA
1 GGGCAAAACAGTCATTTTACCTA-ATAA
* * *
20438227 GGGCAAAATAGTCTTTTTACCTAATGA
1 GGGCAAAACAGTCATTTTACCTAATAA
20438254 GGGCAAAACAGTCATTTTA
1 GGGCAAAACAGTCATTTTA
20438273 TCAATTAAGG
Statistics
Matches: 54, Mismatches: 18, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCTAATAA
Found at i:20447223 original size:26 final size:26
Alignment explanation
Indices: 20447194--20447301 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
20447184 TGGTACAAGT
20447194 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
20447220 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
20447246 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
20447272 TGATAATGGTTTAGGTAAATGTTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
20447298 TGAT
1 TGAT
20447302 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:20449023 original size:27 final size:27
Alignment explanation
Indices: 20448921--20449028 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
20448911 GAGGAAGCGT
* *
20448921 TCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTTTGCCAC-ATTATCTGTA
*
20448948 TCTGGCGGCTTTGCCACATATATCTGT-
1 TCTGGTGGCTTTGCCACAT-TATCTGTA
*
20448975 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTTTGCCAC-ATTATCTGTA
* *
20449003 TCTGGTGACTTTGTCACATTATCTGT
1 TCTGGTGGCTTTGCCACATTATCTGT
20449029 TCGGCAGCCA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.01
27 52 0.75
28 16 0.23
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTTTGCCACATTATCTGTA
Found at i:20449026 original size:54 final size:54
Alignment explanation
Indices: 20448919--20449030 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
20448909 TGGAGGAAGC
*
20448919 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGCGGCTTTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGCGACTTTGCCACATATATCT
* * * * *
20448973 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTTTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGCGACTTTGCCACATATATCT
20449027 GTTC
1 GTTC
20449031 GGCAGCCATG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGCGACTTTGCCACATATATCT
Found at i:20454373 original size:25 final size:26
Alignment explanation
Indices: 20454303--20454403 Score: 168
Period size: 26 Copynumber: 3.9 Consensus size: 26
20454293 TGGTACAAAT
*
20454303 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
20454329 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
20454355 TGATAATGG-TTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
20454380 TGATAATGGTTTAGGTAAATGTTC
1 TGATAATGGATTAGGTAAATGTTC
20454404 TGATGGGCAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 24 0.34
26 47 0.66
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:20456075 original size:27 final size:26
Alignment explanation
Indices: 20455971--20456085 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
20455961 TGGAAGAAGC
* *
20455971 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
20455998 GATCTGGTGGCTTTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
20456025 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
20456052 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
20456079 GTTCTGG
1 GTTCTGG
20456086 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 17 0.22
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:20456078 original size:54 final size:54
Alignment explanation
Indices: 20455971--20456085 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
20455961 TGGAAGAAGC
* *
20455971 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTTTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
20456025 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
20456079 GTTCTGG
1 GTTCTGG
20456086 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:20457795 original size:26 final size:27
Alignment explanation
Indices: 20457766--20457817 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
20457756 AACAGTTTGC
20457766 GTAAAGCATTTATGGC-AAGTTATCTA
1 GTAAAGCATTTATGGCGAAGTTATCTA
* * *
20457792 GTAAAGCCTTTGTGGCGAGGTTATCT
1 GTAAAGCATTTATGGCGAAGTTATCT
20457818 GGGAAGCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (27 bp):
GTAAAGCATTTATGGCGAAGTTATCTA
Found at i:20457899 original size:25 final size:25
Alignment explanation
Indices: 20457778--20457900 Score: 72
Period size: 26 Copynumber: 4.8 Consensus size: 25
20457768 AAAGCATTTA
* * *
20457778 TGGCAAGTTATCTAGTAAAGCCTTTG
1 TGGCGAGTTATCT-GGAAAGCCCTTG
*
20457804 TGGCGAGGTTATCTGGGAAGCCCTTG
1 TGGCGA-GTTATCTGGAAAGCCCTTG
* * * * *
20457830 TAGTGAATTATCT-GAAAGGCTTATG
1 TGGCGAGTTATCTGGAAAGCCCT-TG
* * *
20457855 TGGTGTAATGT-T-TGGGAAGCCCTTG
1 TGGCG-AGT-TATCTGGAAAGCCCTTG
20457880 TGGCGAGTTATCTGGAAAGCC
1 TGGCGAGTTATCTGGAAAGCC
20457901 TGTAAGGTAA
Statistics
Matches: 73, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
23 1 0.01
24 9 0.12
25 27 0.37
26 28 0.38
27 8 0.11
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.32
Consensus pattern (25 bp):
TGGCGAGTTATCTGGAAAGCCCTTG
Found at i:20461431 original size:2 final size:2
Alignment explanation
Indices: 20461424--20461490 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
20461414 AGTATTTCTA
*
20461424 AC AC AC AC AC AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
20461466 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
20461491 TATATATATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.48, G:0.00, T:0.01
Consensus pattern (2 bp):
AC
Found at i:20463473 original size:2 final size:2
Alignment explanation
Indices: 20463466--20463508 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
20463456 GTTGACATTG
20463466 TA TA TA TA 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 TA TA TA TA
20463508 T
1 T
20463509 GAAAACATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20465724 original size:12 final size:12
Alignment explanation
Indices: 20465692--20465724 Score: 52
Period size: 10 Copynumber: 2.9 Consensus size: 12
20465682 GGCCCGCTCG
20465692 TATTAATTTTTA
1 TATTAATTTTTA
20465704 TATT-A-TTTTA
1 TATTAATTTTTA
20465714 TATTAATTTTT
1 TATTAATTTTT
20465725 TAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.47
11 2 0.11
12 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TATTAATTTTTA
Found at i:20469415 original size:17 final size:16
Alignment explanation
Indices: 20469389--20469422 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
20469379 ATGTTTTATG
*
20469389 TATAATTAATTAGAATA
1 TATAAATAATTA-AATA
20469406 TATAAATAATTAAATA
1 TATAAATAATTAAATA
20469422 T
1 T
20469423 GTTTAATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TATAAATAATTAAATA
Found at i:20469713 original size:6 final size:6
Alignment explanation
Indices: 20469696--20469726 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
20469686 TTTCATTATT
20469696 TTTTATA TTTTAA TTTTAA TTTTAA TTTTAA
1 TTTTA-A TTTTAA TTTTAA TTTTAA TTTTAA
20469727 CCCCCTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:20478229 original size:5 final size:5
Alignment explanation
Indices: 20478219--20478250 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
20478209 CAATTTGTGA
20478219 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
20478251 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:20478244 original size:9 final size:9
Alignment explanation
Indices: 20478220--20478250 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
20478210 AATTTGTGAA
20478220 AAATAAAAT
1 AAATAAAAT
20478229 AAAATAAAAT
1 -AAATAAAAT
20478239 AAATAAAAT
1 AAATAAAAT
20478248 AAA
1 AAA
20478251 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:20486912 original size:18 final size:18
Alignment explanation
Indices: 20486891--20486926 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20486881 AATTAAATTG
*
20486891 TATGAATGTGATGGTATA
1 TATGAATGTGATGATATA
*
20486909 TATGTATGTGATGATATA
1 TATGAATGTGATGATATA
20486927 AAAATCATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (18 bp):
TATGAATGTGATGATATA
Found at i:20489589 original size:21 final size:22
Alignment explanation
Indices: 20489533--20489590 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
20489523 ATATTGTTAT
20489533 ACATGATATGGC-ATG-GTATGC
1 ACATGATAT-GCTATGAGTATGC
*
20489554 ACATGATATGTTATGAG-ATGC
1 ACATGATATGCTATGAGTATGC
20489575 ACATGATATGCTATGA
1 ACATGATATGCTATGA
20489591 TATACTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (22 bp):
ACATGATATGCTATGAGTATGC
Found at i:20492982 original size:44 final size:44
Alignment explanation
Indices: 20492843--20492957 Score: 176
Period size: 44 Copynumber: 2.6 Consensus size: 44
20492833 ACTCAGGAAC
* * * *
20492843 GCCAGATCTGTTATCTTCGTTCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAAAT
*
20492887 ACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAAAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAAAT
*
20492931 GCCAAATCTTCTATCTTCGATCTGCTC
1 GCCAAATCTGCTATCTTCGATCTGCTC
20492958 CTTGTAAACG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAAAT
Found at i:20493319 original size:94 final size:94
Alignment explanation
Indices: 20493206--20493387 Score: 285
Period size: 94 Copynumber: 1.9 Consensus size: 94
20493196 CCAAATCATC
* * * *
20493206 TTGGATCTACTTCGATGTGAAAACAT-CTAAAGGTTAGATCTACTATGTCTTCGATCTGCTCTCC
1 TTGGATCTACTTCGATGTGAAAACATAC-AAAGGTCAGACCTACTATGTCTCCGATCTACTCTCC
20493270 ATCGAATATGGAGATGCCAAATCTATTATG
65 ATCGAATATGGAGATGCCAAATCTATTATG
* * *
20493300 TTGGATCTGCTTCGATGTGAAAACATACGAAGGTCAGACCTGCTATGTCTCCGATCTACTCTCCA
1 TTGGATCTACTTCGATGTGAAAACATACAAAGGTCAGACCTACTATGTCTCCGATCTACTCTCCA
20493365 TCGAATATGGAGATGCCAAATCT
66 TCGAATATGGAGATGCCAAATCT
20493388 GTTTCTTTGA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 79 0.99
95 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (94 bp):
TTGGATCTACTTCGATGTGAAAACATACAAAGGTCAGACCTACTATGTCTCCGATCTACTCTCCA
TCGAATATGGAGATGCCAAATCTATTATG
Found at i:20503704 original size:15 final size:15
Alignment explanation
Indices: 20503684--20503713 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20503674 CACTATCTCC
*
20503684 TTTCTCTAACTAGGT
1 TTTCTCTAACCAGGT
20503699 TTTCTCTAACCAGGT
1 TTTCTCTAACCAGGT
20503714 ACAGGCAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.43
Consensus pattern (15 bp):
TTTCTCTAACCAGGT
Found at i:20505537 original size:26 final size:26
Alignment explanation
Indices: 20505502--20505551 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
20505492 AAAATTTTAT
* *
20505502 ATAATAATAA-ATATTGAAGTAATATA
1 ATAAAAATAATATAATGAA-TAATATA
20505528 ATAAAAATAATATAATGAATAATA
1 ATAAAAATAATATAATGAATAATA
20505552 ATATATATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (26 bp):
ATAAAAATAATATAATGAATAATATA
Found at i:20505592 original size:14 final size:14
Alignment explanation
Indices: 20505556--20505594 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
20505546 ATAATAATAT
20505556 ATATAGTAAAATGAG
1 ATATA-TAAAATGAG
*
20505571 ATTATATAATATGAG
1 A-TATATAAAATGAG
20505586 ATATATAAA
1 ATATATAAA
20505595 TAAAACATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 7 0.33
15 10 0.48
16 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (14 bp):
ATATATAAAATGAG
Found at i:20505698 original size:31 final size:31
Alignment explanation
Indices: 20505608--20505708 Score: 89
Period size: 33 Copynumber: 3.2 Consensus size: 31
20505598 AACATAGATA
*
20505608 AATAATAAT-AATAATA-ATAAACAGTATTTAT
1 AATAAAAATAAATAATATATAAA-A-TATTTAT
* * * *
20505639 AATATAAATCATTTATATATACATAATATTTAT
1 AATAAAAATAAATAATATATA-A-AATATTTAT
* *
20505672 AGTAAAAATAAATAATATATAAAATATTTAA
1 AATAAAAATAAATAATATATAAAATATTTAT
20505703 AATAAA
1 AATAAA
20505709 TTATATATAT
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
31 20 0.36
32 6 0.11
33 26 0.47
34 2 0.04
35 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (31 bp):
AATAAAAATAAATAATATATAAAATATTTAT
Found at i:20514596 original size:21 final size:21
Alignment explanation
Indices: 20514540--20514602 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
20514530 ATATTGTTAT
20514540 ACATGATATGGC-ATG-GTATGC
1 ACATGATAT-GCTATGAG-ATGC
*
20514561 ACATGATATGTTATGAGATGC
1 ACATGATATGCTATGAGATGC
*
20514582 ACATGATATGCTATGATATGC
1 ACATGATATGCTATGAGATGC
20514603 TCATTTTATC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 1 0.03
21 35 0.95
22 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (21 bp):
ACATGATATGCTATGAGATGC
Found at i:20517419 original size:26 final size:26
Alignment explanation
Indices: 20517379--20517452 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
20517369 TAATAAAAAT
* *
20517379 AATACATAATTTATAATAAAATGCAAAG
1 AATATATAATATATAATAAAAT--AAAG
* * *
20517407 AATA-AT-ATATATAGTAAAATATAT
1 AATATATAATATATAATAAAATAAAG
20517431 AATATATAATATATAATAAAAT
1 AATATATAATATATAATAAAAT
20517453 TTATAAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 6 0.15
25 2 0.05
26 25 0.64
27 2 0.05
28 4 0.10
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (26 bp):
AATATATAATATATAATAAAATAAAG
Found at i:20517430 original size:12 final size:12
Alignment explanation
Indices: 20517407--20517502 Score: 77
Period size: 12 Copynumber: 7.6 Consensus size: 12
20517397 AAATGCAAAG
*
20517407 AATAATATATAT
1 AATAAAATATAT
*
20517419 AGTAAAATATAT
1 AATAAAATATAT
20517431 AATATATAATATAT
1 AATA-A-AATATAT
*
20517445 AATAAAATTTAT
1 AATAAAATATAT
*
20517457 AAATAAAATGTAT
1 -AATAAAATATAT
*
20517470 AATAATAT-TAT
1 AATAAAATATAT
*
20517481 AATGGATAATATAT
1 AAT--AAAATATAT
20517495 GAATAAAA
1 -AATAAAA
20517503 ATAATATATA
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
11 6 0.09
12 26 0.38
13 19 0.28
14 14 0.21
15 3 0.04
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (12 bp):
AATAAAATATAT
Found at i:20517436 original size:7 final size:7
Alignment explanation
Indices: 20517408--20517499 Score: 63
Period size: 7 Copynumber: 13.9 Consensus size: 7
20517398 AATGCAAAGA
20517408 ATAATAT
1 ATAATAT
20517415 AT-ATAGT
1 ATAATA-T
*
20517422 AAAATAT
1 ATAATAT
20517429 ATAATAT
1 ATAATAT
20517436 ATAATAT
1 ATAATAT
20517443 ATAATA-
1 ATAATAT
*
20517449 A-AATTT
1 ATAATAT
20517455 ATAA-AT
1 ATAATAT
* *
20517461 AAAATGT
1 ATAATAT
20517468 ATAATA-
1 ATAATAT
20517474 AT-AT-T
1 ATAATAT
**
20517479 ATAATGG
1 ATAATAT
20517486 ATAATAT
1 ATAATAT
20517493 ATGAATA
1 AT-AATA
20517500 AAAATAATAT
Statistics
Matches: 65, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
5 7 0.11
6 13 0.20
7 38 0.58
8 7 0.11
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:20519350 original size:44 final size:44
Alignment explanation
Indices: 20519247--20519829 Score: 758
Period size: 44 Copynumber: 13.2 Consensus size: 44
20519237 CAAATGTCAG
* ** * *
20519247 ATCTGCTATCTTCGATCTGCTCCCCATCTATCACAGAGACGCAAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAAT-ACAGAGACGCCAA
* * * * *
20519292 ATCTGTTATTTTCAATCTGCTCTTTGTCAATACTA-AGACACCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATAC-AGAGACGCCAA
*
20519336 ATCTGCTATCTTCAATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
20519380 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * * *
20519424 ATCTGCTATCTTCGATATGCTCTCCGTCAATACAAAGACACAAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
20519468 ATCTGTTATCTTCGATCTGCTCTCCGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * * *
20519512 ATCTACTATCTTCGATCTGCTCTTTGTCAGTGCAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
20519556 ATCTGCTATCTTCGATCTGTTCTCCGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
20519600 ATCTGCTATCTTTGATCTGCTCTCTGTCAACACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
20519644 ATCTG-TCATCTTCGATCTACTCTCTGTCAACACAGAGACGCCAA
1 ATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
** *
20519688 ATCTATTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
20519732 ATCTG-TCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * * *
20519776 ATCCGCTATCTTCGATTTGCTCTCTGACAATATAGAGACTCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
*
20519820 ATCAGCTATC
1 ATCTGCTATC
20519830 GGTGATCTAC
Statistics
Matches: 473, Mismatches: 59, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
43 3 0.01
44 444 0.94
45 26 0.05
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
Found at i:20532045 original size:12 final size:12
Alignment explanation
Indices: 20532022--20532104 Score: 69
Period size: 12 Copynumber: 6.6 Consensus size: 12
20532012 AAATGCAAAG
*
20532022 AATAATATATAT
1 AATAAAATATAT
*
20532034 AGTAAAATATAT
1 AATAAAATATAT
20532046 AATATATAATATAT
1 AATA-A-AATATAT
*
20532060 AATAAAATGTAT
1 AATAAAATATAT
*
20532072 AATAATAT-TAT
1 AATAAAATATAT
*
20532083 AATGGATAATATAT
1 AAT--AAAATATAT
20532097 GAATAAAA
1 -AATAAAA
20532105 ATAATAAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
11 6 0.11
12 26 0.46
13 8 0.14
14 14 0.25
15 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (12 bp):
AATAAAATATAT
Found at i:20532051 original size:7 final size:7
Alignment explanation
Indices: 20532023--20532101 Score: 62
Period size: 7 Copynumber: 11.9 Consensus size: 7
20532013 AATGCAAAGA
20532023 ATAATAT
1 ATAATAT
20532030 AT-ATAGT
1 ATAATA-T
*
20532037 AAAATAT
1 ATAATAT
20532044 ATAATAT
1 ATAATAT
20532051 ATAATAT
1 ATAATAT
20532058 ATAATA-
1 ATAATAT
*
20532064 A-AATGT
1 ATAATAT
20532070 ATAATA-
1 ATAATAT
20532076 AT-AT-T
1 ATAATAT
**
20532081 ATAATGG
1 ATAATAT
20532088 ATAATAT
1 ATAATAT
20532095 ATGAATA
1 AT-AATA
20532102 AAAATAATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
5 7 0.12
6 9 0.16
7 34 0.60
8 7 0.12
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:20532072 original size:26 final size:25
Alignment explanation
Indices: 20531999--20532083 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 25
20531989 AAAATAATTC
* * *
20531999 ATAATTTATAATAAAATGCA-AAGA
1 ATAATATATAATAAAATGTATAATA
*
20532023 ATAATATATATAGTAAAATATATAATA
1 ATAATATATA-A-TAAAATGTATAATA
20532050 TATAATATATAATAAAATGTATAATA
1 -ATAATATATAATAAAATGTATAATA
*
20532076 ATATTATA
1 ATAATATA
20532084 ATGGATAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
24 9 0.18
25 8 0.16
26 20 0.39
27 4 0.08
28 10 0.20
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (25 bp):
ATAATATATAATAAAATGTATAATA
Found at i:20532102 original size:18 final size:17
Alignment explanation
Indices: 20532039--20532102 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 17
20532029 TATATAGTAA
20532039 AATATATAAT-AT--AT
1 AATATATAATAATGGAT
*
20532053 AATATATAATAAAATGTAT
1 AATATATAAT--AATGGAT
*
20532072 AATAATATTATAATGGAT
1 AAT-ATATAATAATGGAT
20532090 AATATATGAATAA
1 AATATAT-AATAA
20532103 AAATAATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.25
17 6 0.15
18 13 0.32
19 5 0.12
20 6 0.15
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AATATATAATAATGGAT
Found at i:20533507 original size:4 final size:4
Alignment explanation
Indices: 20533498--20533526 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
20533488 TTTTGTTTTG
20533498 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
20533527 GGGCTGGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:20535418 original size:15 final size:15
Alignment explanation
Indices: 20535398--20535427 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20535388 AAATCAAATC
20535398 TCAATAAAAAGGGAG
1 TCAATAAAAAGGGAG
20535413 TCAATAAAAAGGGAG
1 TCAATAAAAAGGGAG
20535428 AAATTCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.27, T:0.13
Consensus pattern (15 bp):
TCAATAAAAAGGGAG
Found at i:20536341 original size:6 final size:6
Alignment explanation
Indices: 20536319--20536364 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
20536309 TTAAATTATG
* * * *
20536319 AAAAAT GAAAGT AAAAAT AAAAAT AAAAAT AAAGAT AAAAAC AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
20536365 GGAAAAGCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:20538220 original size:19 final size:20
Alignment explanation
Indices: 20538171--20538221 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
20538161 TGGTCAGAGG
*
20538171 GAAAGGAGAAAATGGGAAGA
1 GAAAGGAGAAAATGGAAAGA
*
20538191 -AGAGGGCAGAAAA-GGAAAGA
1 GA-AAGG-AGAAAATGGAAAGA
20538211 GAAAGGAGAAA
1 GAAAGGAGAAA
20538222 GGGGGAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 7
0.71 0.09 0.20
Matches are distributed among these distances:
19 6 0.24
20 12 0.48
21 7 0.28
ACGTcount: A:0.57, C:0.02, G:0.39, T:0.02
Consensus pattern (20 bp):
GAAAGGAGAAAATGGAAAGA
Found at i:20543153 original size:13 final size:13
Alignment explanation
Indices: 20543135--20543165 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
20543125 CTCATCTTCT
20543135 TTCTTATGGCAGC
1 TTCTTATGGCAGC
20543148 TTCTTATGGCAGC
1 TTCTTATGGCAGC
20543161 TTCTT
1 TTCTT
20543166 TTCAGATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (13 bp):
TTCTTATGGCAGC
Found at i:20552256 original size:20 final size:20
Alignment explanation
Indices: 20552231--20552317 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
20552221 ATTTTGATAT
20552231 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
*
20552251 ACATGATATGCATGATATGC
1 ACATGATATGTATGATATGC
* *
20552271 ACATGATATGTACGGTATGC
1 ACATGATATGTATGATATGC
20552291 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
20552311 ACATGAT
1 ACATGAT
20552318 GTATTCATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:20552258 original size:11 final size:11
Alignment explanation
Indices: 20552242--20552317 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
20552232 CATGATTGAT
20552242 ATGATATGCAC
1 ATGATATGCAC
20552253 ATGATATG--C
1 ATGATATGCAC
20552262 ATGATATGCAC
1 ATGATATGCAC
*
20552273 ATGATATGTAC
1 ATGATATGCAC
*
20552284 --GGTATGCAC
1 ATGATATGCAC
*
20552293 ATGATATG--T
1 ATGATATGCAC
20552302 ATGATATGCAC
1 ATGATATGCAC
20552313 ATGAT
1 ATGAT
20552318 GTATTCATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:20552396 original size:26 final size:26
Alignment explanation
Indices: 20552367--20552436 Score: 131
Period size: 26 Copynumber: 2.7 Consensus size: 26
20552357 GAGGAAGTAC
20552367 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
20552393 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
20552419 AAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCA
20552437 ATTATTAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:20552703 original size:31 final size:31
Alignment explanation
Indices: 20552665--20552724 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
20552655 TACAGTAAAC
20552665 GCTTCGGCCCAGTAATATGAAATATGAAAAG
1 GCTTCGGCCCAGTAATATGAAATATGAAAAG
**
20552696 GCTTCGGCCCAGTGTTATGAAATATGAAA
1 GCTTCGGCCCAGTAATATGAAATATGAAA
20552725 TATGAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (31 bp):
GCTTCGGCCCAGTAATATGAAATATGAAAAG
Found at i:20560778 original size:18 final size:19
Alignment explanation
Indices: 20560747--20560784 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
20560737 AGAACTAAGG
20560747 AAAATTTTGGAAAAACATAA
1 AAAATTTT-GAAAAACATAA
*
20560767 AAAATTTT-AAAAATATAA
1 AAAATTTTGAAAAACATAA
20560785 GGGACACACG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAATTTTGAAAAACATAA
Found at i:20563102 original size:47 final size:47
Alignment explanation
Indices: 20563032--20563168 Score: 141
Period size: 47 Copynumber: 2.9 Consensus size: 47
20563022 CAAAGCCTAC
* ** * * * * *
20563032 CAGAGTACACCACAAAGATAACATATAGAAA-ACGCCCCAAATGTTAT
1 CAGAGTACGCCACAAAGGCAACATACA-AAATACACCACAAAGGATAT
* *
20563079 CAGAGTATGCCACAAAGGCAACATGCAAAATACACCACAAAGGATAT
1 CAGAGTACGCCACAAAGGCAACATACAAAATACACCACAAAGGATAT
* **
20563126 CAGAGTACGCCACAAATGCAACATACAGGATACACCACAAAGG
1 CAGAGTACGCCACAAAGGCAACATACAAAATACACCACAAAGG
20563169 CCATATAAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
46 3 0.04
47 71 0.96
ACGTcount: A:0.46, C:0.25, G:0.16, T:0.13
Consensus pattern (47 bp):
CAGAGTACGCCACAAAGGCAACATACAAAATACACCACAAAGGATAT
Found at i:20563141 original size:22 final size:23
Alignment explanation
Indices: 20563076--20563141 Score: 62
Period size: 25 Copynumber: 2.8 Consensus size: 23
20563066 CCCCAAATGT
*
20563076 TATCAGAGTATGCCACAAAGGCAA
1 TATCAGAGTACGCCACAAAGG-AA
* * * *
20563100 CATGCAAAATACACCACAAAGG-A
1 TAT-CAGAGTACGCCACAAAGGAA
20563123 TATCAGAGTACGCCACAAA
1 TATCAGAGTACGCCACAAA
20563142 TGCAACATAC
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
22 13 0.41
23 3 0.09
24 2 0.06
25 14 0.44
ACGTcount: A:0.45, C:0.24, G:0.17, T:0.14
Consensus pattern (23 bp):
TATCAGAGTACGCCACAAAGGAA
Found at i:20563578 original size:15 final size:15
Alignment explanation
Indices: 20563558--20563594 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
20563548 TTTCACACAC
*
20563558 ATCACATGATCATGT
1 ATCACATAATCATGT
*
20563573 ATCACACAATCATGT
1 ATCACATAATCATGT
20563588 ATCACAT
1 ATCACAT
20563595 TATACATCGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (15 bp):
ATCACATAATCATGT
Found at i:20569456 original size:2 final size:2
Alignment explanation
Indices: 20569449--20569475 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20569439 CTTGGACCAC
20569449 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
20569476 CTAATTACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20570492 original size:12 final size:12
Alignment explanation
Indices: 20570472--20570519 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
20570462 GTCATTAACC
20570472 TATAAAACCAAA
1 TATAAAACCAAA
*
20570484 TATAGAACCTTAACA
1 TATAAAACC--AA-A
20570499 TATAAAACCAAA
1 TATAAAACCAAA
*
20570511 TATAGAACC
1 TATAAAACC
20570520 TTACTCCCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 17 0.57
13 2 0.07
14 2 0.07
15 9 0.30
ACGTcount: A:0.56, C:0.19, G:0.04, T:0.21
Consensus pattern (12 bp):
TATAAAACCAAA
Found at i:20570504 original size:27 final size:27
Alignment explanation
Indices: 20570466--20570522 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
20570456 CAGTATGTCA
*
20570466 TTAACCTATAAAACCAAATATAGAACC
1 TTAACATATAAAACCAAATATAGAACC
20570493 TTAACATATAAAACCAAATATAGAACC
1 TTAACATATAAAACCAAATATAGAACC
20570520 TTA
1 TTA
20570523 CTCCCACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.53, C:0.19, G:0.04, T:0.25
Consensus pattern (27 bp):
TTAACATATAAAACCAAATATAGAACC
Found at i:20573700 original size:2 final size:2
Alignment explanation
Indices: 20573693--20573724 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20573683 ATAGTGTCAA
20573693 AT 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 AT
20573725 CTTACCAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20574951 original size:26 final size:26
Alignment explanation
Indices: 20574914--20574997 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
20574904 TGATACAAAT
* *
20574914 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
20574940 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
20574966 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
20574992 TGATAA
1 TGATAA
20574998 GAATATCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:20580732 original size:26 final size:26
Alignment explanation
Indices: 20580695--20580778 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
20580685 TGATACAAAT
* *
20580695 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
20580721 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
20580747 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
20580773 TGATAA
1 TGATAA
20580779 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:20583551 original size:11 final size:11
Alignment explanation
Indices: 20583531--20583561 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
20583521 CGATATTAAG
*
20583531 GACTCTCCTGA
1 GACTCACCTGA
20583542 GACTCACCTGA
1 GACTCACCTGA
20583553 GACTCACCT
1 GACTCACCT
20583562 ACTACAGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.39, G:0.16, T:0.23
Consensus pattern (11 bp):
GACTCACCTGA
Found at i:20597613 original size:37 final size:37
Alignment explanation
Indices: 20597562--20597649 Score: 133
Period size: 37 Copynumber: 2.4 Consensus size: 37
20597552 GTGTCGAGGG
* *
20597562 GTGTTATCGATTGGATTAGCTCTTATGAGCATTTGGC
1 GTGTTATCGGTTGGATTAGCTCTCATGAGCATTTGGC
* *
20597599 GTGTTATTGGTTGGATTAGCTCTCATGATCATTTGGC
1 GTGTTATCGGTTGGATTAGCTCTCATGAGCATTTGGC
20597636 GTGTT-TCGGTTGGA
1 GTGTTATCGGTTGGA
20597650 CTACTTGTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 8 0.17
37 38 0.83
ACGTcount: A:0.16, C:0.12, G:0.30, T:0.42
Consensus pattern (37 bp):
GTGTTATCGGTTGGATTAGCTCTCATGAGCATTTGGC
Found at i:20598713 original size:13 final size:13
Alignment explanation
Indices: 20598689--20598723 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
20598679 CTAGGGCGTT
*
20598689 CCACACGGCTTGG
1 CCACACGACTTGG
*
20598702 CCGCACGACTTGG
1 CCACACGACTTGG
20598715 CCACACGAC
1 CCACACGAC
20598724 CTTGTGTCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.20, C:0.43, G:0.26, T:0.11
Consensus pattern (13 bp):
CCACACGACTTGG
Found at i:20602122 original size:26 final size:26
Alignment explanation
Indices: 20602086--20602137 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
20602076 TTATGATATG
20602086 TTTGAAAGACTGCTATACATGCACAC
1 TTTGAAAGACTGCTATACATGCACAC
20602112 TTTGAAAGACTGCTATACATGCACAC
1 TTTGAAAGACTGCTATACATGCACAC
20602138 AAAGAAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (26 bp):
TTTGAAAGACTGCTATACATGCACAC
Found at i:20602144 original size:26 final size:26
Alignment explanation
Indices: 20602089--20602144 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
20602079 TGATATGTTT
***
20602089 GAAAGACTGCTATACATGCACACTTT
1 GAAAGACTGCTATACATGCACACAAA
20602115 GAAAGACTGCTATACATGCACACAAA
1 GAAAGACTGCTATACATGCACACAAA
20602141 GAAA
1 GAAA
20602145 AGTTATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (26 bp):
GAAAGACTGCTATACATGCACACAAA
Found at i:20604528 original size:5 final size:5
Alignment explanation
Indices: 20604518--20604569 Score: 68
Period size: 5 Copynumber: 10.0 Consensus size: 5
20604508 AGGTGATCAT
* *
20604518 GGGCC GGGCC GGGCC GGGTTC GGGCC GGGCC GGGCC GGGTTC GGGCC GGGCC
1 GGGCC GGGCC GGGCC GGG-CC GGGCC GGGCC GGGCC GGG-CC GGGCC GGGCC
20604570 CAAGTAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
5 33 0.80
6 8 0.20
ACGTcount: A:0.00, C:0.35, G:0.58, T:0.08
Consensus pattern (5 bp):
GGGCC
Found at i:20604544 original size:21 final size:21
Alignment explanation
Indices: 20604518--20604569 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
20604508 AGGTGATCAT
20604518 GGGCCGGGCCGGGCCGGGTTC
1 GGGCCGGGCCGGGCCGGGTTC
20604539 GGGCCGGGCCGGGCCGGGTTC
1 GGGCCGGGCCGGGCCGGGTTC
20604560 GGGCCGGGCC
1 GGGCCGGGCC
20604570 CAAGTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.58, T:0.08
Consensus pattern (21 bp):
GGGCCGGGCCGGGCCGGGTTC
Found at i:20604761 original size:26 final size:24
Alignment explanation
Indices: 20604721--20604780 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
20604711 TTATTTTATT
* * *
20604721 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
20604745 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
20604771 AAATAAATAT
1 AAATAAATAT
20604781 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:20604792 original size:22 final size:22
Alignment explanation
Indices: 20604751--20604809 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
20604741 ATAATAAATC
* *
20604751 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
20604771 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
20604793 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
20604810 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:20607312 original size:16 final size:16
Alignment explanation
Indices: 20607287--20607317 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20607277 TATTGATTTC
20607287 ATATTATTCTATGTAA
1 ATATTATTCTATGTAA
*
20607303 ATATTTTTCTATGTA
1 ATATTATTCTATGTA
20607318 TGTATATATA
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:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
ATATTATTCTATGTAA
Found at i:20607451 original size:17 final size:17
Alignment explanation
Indices: 20607422--20607454 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20607412 TTTCATATAT
*
20607422 TATTATCTTTATGTATG
1 TATTATCTATATGTATG
20607439 TATTATCTATATGTAT
1 TATTATCTATATGTAT
20607455 CATTAATCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (17 bp):
TATTATCTATATGTATG
Found at i:20610986 original size:21 final size:21
Alignment explanation
Indices: 20610933--20610987 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
20610923 AATAATTTAC
*
20610933 ATATATAAATATAGTAAAATAA
1 ATATAT-AATAAAGTAAAATAA
**
20610955 ATA-ATATATAAAGTAAAATGT
1 ATATATA-ATAAAGTAAAATAA
20610976 ATATATAATAAA
1 ATATATAATAAA
20610988 AATTTATAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.04
21 21 0.75
22 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
ATATATAATAAAGTAAAATAA
Found at i:20612867 original size:26 final size:27
Alignment explanation
Indices: 20612822--20612905 Score: 161
Period size: 27 Copynumber: 3.1 Consensus size: 27
20612812 TAAAAATATG
20612822 TATAAATCTTTTTTATTTTTTAGTTTT
1 TATAAATCTTTTTTATTTTTTAGTTTT
20612849 TATAAATCTTTTTTATTTTTTAGTTTT
1 TATAAATCTTTTTTATTTTTTAGTTTT
20612876 TATAAATC-TTTTTATTTTTTAGTTTT
1 TATAAATCTTTTTTATTTTTTAGTTTT
20612902 TATA
1 TATA
20612906 GACTCTGGAT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 22 0.39
27 35 0.61
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.69
Consensus pattern (27 bp):
TATAAATCTTTTTTATTTTTTAGTTTT
Found at i:20612957 original size:20 final size:20
Alignment explanation
Indices: 20612934--20612974 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20612924 TTTTAAAATT
20612934 TTTATAAAATTGTAAAAAAA
1 TTTATAAAATTGTAAAAAAA
* * *
20612954 TTTATTAAATTTTATAAAAA
1 TTTATAAAATTGTAAAAAAA
20612974 T
1 T
20612975 ATCAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTATAAAATTGTAAAAAAA
Found at i:20612995 original size:31 final size:30
Alignment explanation
Indices: 20612928--20612995 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
20612918 ATAATTTTTT
* * *
20612928 AAAATTTTTATAAAATTGTAAAAAAATTTA
1 AAAAATTTTATAAAAATATAAAAAAATTTA
**
20612958 TTAAATTTTATAAAAATATCAAAAAAATTTA
1 AAAAATTTTATAAAAATAT-AAAAAAATTTA
20612989 AAAAATT
1 AAAAATT
20612996 AAAAATTAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
30 14 0.47
31 16 0.53
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (30 bp):
AAAAATTTTATAAAAATATAAAAAAATTTA
Found at i:20613016 original size:16 final size:16
Alignment explanation
Indices: 20612979--20613016 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20612969 AAAAATATCA
20612979 AAAAAATTTAAAAAAT
1 AAAAAATTTAAAAAAT
*
20612995 TAAAAA-TTAATAAAAT
1 AAAAAATTTAA-AAAAT
20613011 AAAAAA
1 AAAAAA
20613017 CATTTACAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAATTTAAAAAAT
Found at i:20614833 original size:14 final size:14
Alignment explanation
Indices: 20614814--20614862 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
20614804 TTCAAAAATT
20614814 TTAAATAAATTAAA
1 TTAAATAAATTAAA
20614828 TTAAATAAATT--A
1 TTAAATAAATTAAA
20614840 TTAAATAAATATAAA
1 TTAAATAAAT-TAAA
20614855 -TAAATAAA
1 TTAAATAAA
20614863 AACGTTTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 11 0.34
13 1 0.03
14 19 0.59
15 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAAATAAATTAAA
Found at i:20614848 original size:26 final size:25
Alignment explanation
Indices: 20614809--20614862 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 25
20614799 TATTTTTCAA
20614809 AAATTTTAAATAAAT-TAAATTAAAT
1 AAATTTTAAATAAATATAAA-TAAAT
20614834 AAATTATTAAATAAATATAAATAAAT
1 AAATT-TTAAATAAATATAAATAAAT
20614860 AAA
1 AAA
20614863 AACGTTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 5 0.19
26 18 0.67
27 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AAATTTTAAATAAATATAAATAAAT
Found at i:20620816 original size:25 final size:25
Alignment explanation
Indices: 20620788--20620838 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
20620778 AAAAGATTAA
20620788 CAGCGTGTTTGGTTGGTAAGAATAG
1 CAGCGTGTTTGGTTGGTAAGAATAG
20620813 CAGCGTGTTTGGTTGGTAAGAATAG
1 CAGCGTGTTTGGTTGGTAAGAATAG
20620838 C
1 C
20620839 CAACTCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.10, G:0.35, T:0.31
Consensus pattern (25 bp):
CAGCGTGTTTGGTTGGTAAGAATAG
Found at i:20621614 original size:22 final size:22
Alignment explanation
Indices: 20621567--20621615 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
20621557 GAGTTTAGGT
* **
20621567 AGAGAGATAAGATGAATTTTGT
1 AGAGAGATAAGATGAAATTTAC
20621589 AGAGAGATAAGA-GATAATTTAC
1 AGAGAGATAAGATGA-AATTTAC
20621611 AGAGA
1 AGAGA
20621616 CTGCCACACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.47, C:0.02, G:0.27, T:0.24
Consensus pattern (22 bp):
AGAGAGATAAGATGAAATTTAC
Found at i:20627744 original size:27 final size:27
Alignment explanation
Indices: 20627708--20627761 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
20627698 TTTGGCTATT
20627708 TTTAGCAGCCTTCTGAACCCATAAATA
1 TTTAGCAGCCTTCTGAACCCATAAATA
20627735 TTTAGCAGCCTTCTGAACCCATAAATA
1 TTTAGCAGCCTTCTGAACCCATAAATA
20627762 CCCTGCTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (27 bp):
TTTAGCAGCCTTCTGAACCCATAAATA
Found at i:20629799 original size:25 final size:25
Alignment explanation
Indices: 20629767--20629825 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
20629757 AACCTACAGC
*
20629767 AGACCCAAACCCGATAAACC-TTACA
1 AGACCCAAACCC-AAAAACCTTTACA
20629792 AGACCCAAACCCAAAAACCTTTACA
1 AGACCCAAACCCAAAAACCTTTACA
20629817 AGACCCAAA
1 AGACCCAAA
20629826 ACTCATGAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.47, C:0.36, G:0.07, T:0.10
Consensus pattern (25 bp):
AGACCCAAACCCAAAAACCTTTACA
Found at i:20631000 original size:30 final size:29
Alignment explanation
Indices: 20630961--20631026 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
20630951 CCTTATTACT
*
20630961 TTTAATTTTACTAAGATACT-TTATATATTA
1 TTTATTTTTA-TAA-ATACTATTATATATTA
*
20630991 TTTATTTTTATAAATATTAGTTATATATTA
1 TTTATTTTTATAAATACTA-TTATATATTA
*
20631021 TATATT
1 TTTATT
20631027 ATATATTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 4 0.13
29 3 0.10
30 24 0.77
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (29 bp):
TTTATTTTTATAAATACTATTATATATTA
Found at i:20631030 original size:14 final size:14
Alignment explanation
Indices: 20631011--20631037 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20631001 TAAATATTAG
20631011 TTATATATTATATA
1 TTATATATTATATA
20631025 TTATATATTATAT
1 TTATATATTATAT
20631038 TATTTTTATC
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATATATTATATA
Found at i:20631129 original size:10 final size:10
Alignment explanation
Indices: 20630981--20631130 Score: 50
Period size: 10 Copynumber: 15.0 Consensus size: 10
20630971 CTAAGATACT
20630981 TTATATATTA
1 TTATATATTA
20630991 TT-TAT-TT-
1 TTATATATTA
20630998 TTATAAATATTA
1 TTAT--ATATTA
20631010 GTTATATATTA
1 -TTATATATTA
20631021 -TATATTATATA
1 TTATA-TAT-TA
20631032 TTATATTATT-
1 TTATA-TATTA
* *
20631042 TT-TATCTCA
1 TTATATATTA
20631051 TCTATA-A--A
1 T-TATATATTA
*
20631059 TTATATTTTA
1 TTATATATTA
* *
20631069 TTATATTTTG
1 TTATATATTA
*
20631079 TTATATATTTCC
1 TTATATA-TT-A
*
20631091 TTATATTATTT
1 TTATA-TATTA
* *
20631102 TTTTATA-AA
1 TTATATATTA
20631111 TTATATATTA
1 TTATATATTA
*
20631121 TTATTTATTA
1 TTATATATTA
20631131 AATTTGTAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 38
0.67 0.09 0.24
Matches are distributed among these distances:
7 6 0.06
8 7 0.07
9 16 0.15
10 38 0.36
11 19 0.18
12 15 0.14
13 6 0.06
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (10 bp):
TTATATATTA
Found at i:20631132 original size:22 final size:22
Alignment explanation
Indices: 20631092--20631134 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20631082 TATATTTCCT
*
20631092 TATATTATTTTTTTATAAATTA
1 TATATTATTTTTATATAAATTA
20631114 TATATTATTATTTAT-TAAATT
1 TATATTATT-TTTATATAAATT
20631135 TGTAAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TATATTATTTTTATATAAATTA
Found at i:20631398 original size:17 final size:19
Alignment explanation
Indices: 20631355--20631397 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
20631345 CATGTTCAAA
20631355 ATTTTTATTATATGATATAT
1 ATTTTTATTATAT-ATATAT
*
20631375 ATTTTTATTATAT-TATTT
1 ATTTTTATTATATATATAT
20631393 ATTTT
1 ATTTT
20631398 ACTATATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
20 13 0.59
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTATTATATATATAT
Found at i:20631590 original size:7 final size:7
Alignment explanation
Indices: 20631528--20631596 Score: 56
Period size: 7 Copynumber: 10.3 Consensus size: 7
20631518 ATCTTTCTTA
20631528 TATATAT
1 TATATAT
20631535 TAT-TAT
1 TATATAT
20631541 TATATAT
1 TATATAT
*
20631548 TTTAT-T
1 TATATAT
20631554 TATATAT
1 TATATAT
20631561 CTAT-T-T
1 -TATATAT
* *
20631567 TATTTTT
1 TATATAT
**
20631574 TATACGT
1 TATATAT
20631581 TATATAT
1 TATATAT
20631588 TATATAT
1 TATATAT
20631595 TA
1 TA
20631597 ATTATTTTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
5 3 0.06
6 13 0.26
7 31 0.62
8 3 0.06
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (7 bp):
TATATAT
Found at i:20643944 original size:206 final size:206
Alignment explanation
Indices: 20643582--20644434 Score: 1316
Period size: 206 Copynumber: 4.1 Consensus size: 206
20643572 GCGGATCTGG
*
20643582 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* * *
20643647 GATTTGGCTTTCACGTGCTTACGATGAAGCCAATCTAAGATGATTTGCCATCTCTGTATTGTTAG
65 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * ** *
20643712 AGAACAAATCAAAGTTTGGCGTCTCCATATTTGACGGAGAGCAGATACATAGCAGATCTGGCTTT
130 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTT
* *
20643777 CAGATGTTTATA
195 CAGATGATTAGA
*
20643789 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGGCATAGCTG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
* *
20643854 ATTTGGTTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGGATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
** * ** *
20643919 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACAAAGAGCAGATACATAGCAGATCTGGCATTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTC
*
20643984 AGATG-TTATA
196 AGATGATTAGA
*
20643994 CTGAAGCAGATCCAAGATGATTTGGCATCCTTATGTTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
*
20644059 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
20644124 GAACAAATCGAAGTTTGGCATCTCCATATTCGATGGAGGGCAGACACATAGCAGATCTAACCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTC
20644189 AGATGATTAGA
196 AGATGATTAGA
*
20644200 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGCT
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGA-CATAGCT
* * * * *
20644264 GATTTAGCTTTCACGTGCTTACGATAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTTTTAG
65 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * *
20644329 AGAACAAATTGAAGTTTGGCGTTTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTT
130 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTT
20644394 CAGATGATTAGA
195 CAGATGATTAGA
* *
20644406 CCGAAGCA-AGTCTAAGATGATTTGGCATC
1 CTGAAGCAGA-TCCAAGATGATTTGGCATC
20644435 TCTGTACTGT
Statistics
Matches: 601, Mismatches: 42, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
205 193 0.32
206 401 0.67
207 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTC
AGATGATTAGA
Found at i:20644358 original size:411 final size:412
Alignment explanation
Indices: 20643582--20644434 Score: 1323
Period size: 411 Copynumber: 2.1 Consensus size: 412
20643572 GCGGATCTGG
*
20643582 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTATGCTTACAAGGAACAAATCGAAGACATAGCT
* * *
20643647 GATTTGGCTTTCACGTGCTTACGATGAAGCCAATCTAAGATGATTTGCCATCTCTGTATTGTTAG
65 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATAATTTGCCATCTCTGTATTGTCAG
* * * ** *
20643712 AGAACAAATCAAAGTTTGGCGTCTCCATATTTGACGGAGAGCAGATACATAGCAGATCTGGCTTT
130 AGAACAAATCAAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTT
* *
20643777 CAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCG
195 CAGATGATTAGACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCG
* * * * *
20643842 AAGGCATAGCTGATTTGGTTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGGATCTC
260 AAAGCATAGCTGATTTAGCTTTCACGTGCTTACGATAAAGCAAATCTAAGATGATTTGGCATCTC
*
20643907 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACAAAGAGCAGATACATAGCA
325 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACAAAGAGCAGACACATAGCA
** *
20643972 GATCTGGCATTCAGATG-TTATA
390 GATCTAACATTCAGATGATTAGA
*
20643994 CTGAAGCAGATCCAAGATGATTTGGCATCCTTATGTTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTATGCTTACAAGGAACAAATCGAAGACATAGCTG
*
20644059 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATAATTTGCCATCTCTGTATTGTCAGA
* * *
20644124 GAACAAATCGAAGTTTGGCATCTCCATATTCGATGGAGGGCAGACACATAGCAGATCTAACCTTC
131 GAACAAATCAAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTC
*
20644189 AGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGA
196 AGATGATTAGACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGA
* *
20644254 AATCATAGCTGATTTAGCTTTCACGTGCTTACGATAAAGCAAGTCTAAGATGATTTGGCATCTCT
261 AAGCATAGCTGATTTAGCTTTCACGTGCTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCT
* * * * ** *
20644319 GTATTTTTAGAGAACAAATTGAAGTTTGGCGTTTCCATATTCGACGGAGGGCAGACACATAGCAG
326 GTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACAAAGAGCAGACACATAGCAG
*
20644384 ATCTAACCTTCAGATGATTAGA
391 ATCTAACATTCAGATGATTAGA
* *
20644406 CCGAAGCA-AGTCTAAGATGATTTGGCATC
1 CTGAAGCAGA-TCCAAGATGATTTGGCATC
20644435 TCTGTACTGT
Statistics
Matches: 400, Mismatches: 39, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
411 364 0.91
412 36 0.09
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (412 bp):
CTGAAGCAGATCCAAGATGATTTGGCATCCTTATGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATAATTTGCCATCTCTGTATTGTCAGA
GAACAAATCAAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTC
AGATGATTAGACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGA
AAGCATAGCTGATTTAGCTTTCACGTGCTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCT
GTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACAAAGAGCAGACACATAGCAG
ATCTAACATTCAGATGATTAGA
Found at i:20644468 original size:119 final size:119
Alignment explanation
Indices: 20644290--20644532 Score: 414
Period size: 119 Copynumber: 2.0 Consensus size: 119
20644280 GCTTACGATA
* * * ** *
20644290 AAGCAAGTCTAAGATGATTTGGCATCTCTGTATTTTTAGAGAACAAATTGAAGTTTGGCGTTTCC
1 AAGCAAGTCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCAAAGTTTGGCGTCTCC
20644355 ATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACCG
66 ATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACCG
*
20644409 AAGCAAGTCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAATAAATCAAAGTTTGGCGTCTCC
1 AAGCAAGTCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCAAAGTTTGGCGTCTCC
*
20644474 ATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTG
66 ATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACCG
20644528 AAGCA
1 AAGCA
20644533 GATCCAAAAT
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 116 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (119 bp):
AAGCAAGTCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCAAAGTTTGGCGTCTCC
ATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACCG
Found at i:20644640 original size:325 final size:325
Alignment explanation
Indices: 20644083--20644667 Score: 956
Period size: 325 Copynumber: 1.8 Consensus size: 325
20644073 TGCTTACGAT
* *
20644083 GAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTC
1 GAAGCAAATCTAAGATAATTTGGCATCTCTGTACTGTCAGAGAACAAATCAAAGTTTGGCATCTC
*
20644148 CATATTCGATGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCC
66 CATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCC
* * *
20644213 AAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCTGATTTAGCTTTCAC
131 AAAATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAAACATAGCTGATTTAGCTTTCAC
* * * * *
20644278 GTGCTTACGATAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTTTTAGAGAACAAATTGAAG
196 ATGCTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
20644343 TTTGGCGTTTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACC
261 TTTGGCGTTTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACC
* * * *
20644408 GAAGCAAGTCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAATAAATCAAAGTTTGGCGTCTC
1 GAAGCAAATCTAAGATAATTTGGCATCTCTGTACTGTCAGAGAACAAATCAAAGTTTGGCATCTC
20644473 CATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCC
66 CATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCC
* * * * *
20644538 AAAATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATC-AAAGACATAGCTGATTTGGTTTTCG
131 AAAATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAA-ACATAGCTGATTTAGCTTTCA
* *
20644602 CATGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAA
195 CATGCTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAA
20644667 G
260 G
20644668 AAGCAGATTT
Statistics
Matches: 237, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
324 3 0.01
325 234 0.99
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (325 bp):
GAAGCAAATCTAAGATAATTTGGCATCTCTGTACTGTCAGAGAACAAATCAAAGTTTGGCATCTC
CATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCC
AAAATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAAACATAGCTGATTTAGCTTTCAC
ATGCTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
TTTGGCGTTTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACC
Found at i:20645082 original size:25 final size:25
Alignment explanation
Indices: 20645050--20645108 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
20645040 AACCTACAGT
*
20645050 AGACCCAAACCCGATAAA-CCTTACA
1 AGACCCAAACCC-AAAAACCCTTACA
20645075 AGACCCAAACCCAAAAACCCTTACA
1 AGACCCAAACCCAAAAACCCTTACA
20645100 AGACCCAAA
1 AGACCCAAA
20645109 ACTCATGAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 4 0.12
25 28 0.88
ACGTcount: A:0.47, C:0.37, G:0.07, T:0.08
Consensus pattern (25 bp):
AGACCCAAACCCAAAAACCCTTACA
Found at i:20646282 original size:30 final size:29
Alignment explanation
Indices: 20646243--20646308 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
20646233 CCTTATTACT
*
20646243 TTTAATTTTACTAAGATACT-TTATATATTA
1 TTTATTTTTA-TAA-ATACTATTATATATTA
*
20646273 TTTATTTTTATAAATATTAGTTATATATTA
1 TTTATTTTTATAAATACTA-TTATATATTA
*
20646303 TATATT
1 TTTATT
20646309 ATATATTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 4 0.13
29 3 0.10
30 24 0.77
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (29 bp):
TTTATTTTTATAAATACTATTATATATTA
Found at i:20646312 original size:14 final size:14
Alignment explanation
Indices: 20646293--20646319 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20646283 TAAATATTAG
20646293 TTATATATTATATA
1 TTATATATTATATA
20646307 TTATATATTATAT
1 TTATATATTATAT
20646320 TATTTTATCT
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATATATTATATA
Found at i:20646662 original size:19 final size:19
Alignment explanation
Indices: 20646640--20646688 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 19
20646630 TGTTCAAAAT
20646640 TTTTATTATATGATATATA
1 TTTTATTATATGATATATA
*
20646659 TTTTATTATAT--TATTTA
1 TTTTATTATATGATATATA
*
20646676 TTTTACTATATGA
1 TTTTATTATATGA
20646689 AAAATATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 15 0.58
19 11 0.42
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTATTATATGATATATA
Found at i:20646843 original size:15 final size:14
Alignment explanation
Indices: 20646807--20646849 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
20646797 TTTATCTTTC
20646807 TTATATATATATTA
1 TTATATATATATTA
20646821 TTAT-TATATATT-
1 TTATATATATATTA
*
20646833 TTATTTATATATCTA
1 TTATATATATAT-TA
20646848 TT
1 TT
20646850 TTGTTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.15
13 15 0.58
14 5 0.19
15 2 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
TTATATATATATTA
Found at i:20648789 original size:22 final size:21
Alignment explanation
Indices: 20648753--20648794 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
20648743 TCTTTACTAT
*
20648753 TTTATTATTTTATTTAATTTC
1 TTTATTATTTAATTTAATTTC
20648774 TTTATTAATTTAATTTAATTT
1 TTTATT-ATTTAATTTAATTT
20648795 ATTATTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTATTATTTAATTTAATTTC
Found at i:20648799 original size:21 final size:21
Alignment explanation
Indices: 20648754--20648800 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
20648744 CTTTACTATT
* *
20648754 TTATTATTTTATTTAATTTCT
1 TTATTATTTAATTTAATTTCA
20648775 TTATTAATTTAATTTAATTT-A
1 TTATT-ATTTAATTTAATTTCA
20648796 TTATT
1 TTATT
20648801 CTATTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTATTTAATTTAATTTCA
Found at i:20648806 original size:22 final size:22
Alignment explanation
Indices: 20648757--20648807 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
20648747 TACTATTTTA
* *
20648757 TTATTTTATTTAATTTCTTTAT
1 TTATTTAATTTAATTTCATTAT
*
20648779 TAATTTAATTTAATTT-ATTAT
1 TTATTTAATTTAATTTCATTAT
20648800 TCTATTTA
1 T-TATTTA
20648808 TTTTTGTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATTTAATTTAATTTCATTAT
Found at i:20653421 original size:49 final size:49
Alignment explanation
Indices: 20653349--20653448 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
20653339 TATTTATAAT
20653349 TAGTTTAGTGACCATCACAAGTAATATGTAAGAATACTTGTATGTGGTA
1 TAGTTTAGTGACCATCACAAGTAATATGTAAGAATACTTGTATGTGGTA
*
20653398 TAGTTTAGTGACCATCACAAGTAATATGTGAGAATACTTGTATGTGGTA
1 TAGTTTAGTGACCATCACAAGTAATATGTAAGAATACTTGTATGTGGTA
20653447 TA
1 TA
20653449 TGATGTACTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (49 bp):
TAGTTTAGTGACCATCACAAGTAATATGTAAGAATACTTGTATGTGGTA
Found at i:20658192 original size:23 final size:23
Alignment explanation
Indices: 20658158--20658205 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
20658148 CCAAAATATG
*
20658158 ATTGTTGAGCTCATTCTATCAGT
1 ATTGTTGAGCTCATTCTACCAGT
* *
20658181 ATTGTTGGGCTCATTTTACCAGT
1 ATTGTTGAGCTCATTCTACCAGT
20658204 AT
1 AT
20658206 AAGTCCCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.44
Consensus pattern (23 bp):
ATTGTTGAGCTCATTCTACCAGT
Found at i:20660585 original size:11 final size:11
Alignment explanation
Indices: 20660569--20660593 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20660559 CAAGGCATAC
20660569 TATGACAATTT
1 TATGACAATTT
20660580 TATGACAATTT
1 TATGACAATTT
20660591 TAT
1 TAT
20660594 AATATTCATA
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:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (11 bp):
TATGACAATTT
Found at i:20664531 original size:2 final size:2
Alignment explanation
Indices: 20664524--20664564 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
20664514 CTGTTGCATT
20664524 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20664565 TGCCAAGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20665325 original size:24 final size:24
Alignment explanation
Indices: 20665298--20665344 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
20665288 ATGTATGTAC
20665298 TTTATATATTATAAAGAATATGAT
1 TTTATATATTATAAAGAATATGAT
20665322 TTTATATATTATAAAGAATATGA
1 TTTATATATTATAAAGAATATGA
20665345 AAGTGAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (24 bp):
TTTATATATTATAAAGAATATGAT
Found at i:20667054 original size:15 final size:15
Alignment explanation
Indices: 20667036--20667064 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20667026 ATATTTATAA
20667036 AATTATTATTATTAT
1 AATTATTATTATTAT
20667051 AATTATTATTATTA
1 AATTATTATTATTA
20667065 GATAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:20668802 original size:8 final size:8
Alignment explanation
Indices: 20668789--20668818 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
20668779 CTAGATCGGC
20668789 AAAAGCCG
1 AAAAGCCG
20668797 AAAAGCCG
1 AAAAGCCG
20668805 AAAAGCCG
1 AAAAGCCG
20668813 AAAAGC
1 AAAAGC
20668819 TGGCATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.23, G:0.23, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:20669524 original size:60 final size:59
Alignment explanation
Indices: 20669448--20669584 Score: 170
Period size: 60 Copynumber: 2.3 Consensus size: 59
20669438 AACTGTGTCA
* *
20669448 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * *
20669508 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
20669568 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
20669585 GTTAACTTTG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
59 1 0.01
60 52 0.76
61 15 0.22
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:20673382 original size:8 final size:8
Alignment explanation
Indices: 20673369--20673398 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
20673359 CTAGATCGGC
20673369 AAAAGCCG
1 AAAAGCCG
20673377 AAAAGCCG
1 AAAAGCCG
20673385 AAAAGCCG
1 AAAAGCCG
20673393 AAAAGC
1 AAAAGC
20673399 TGGAATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.23, G:0.23, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:20674104 original size:60 final size:59
Alignment explanation
Indices: 20674028--20674164 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
20674018 AACTGTGTCA
* *
20674028 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAAGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AAGGCTACGGCCCAGATTAATACTG
** * *
20674088 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAAGGCTACGGCCCAGATTAATACTG
20674148 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
20674165 GTTAACTTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 1 0.01
60 51 0.76
61 15 0.22
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAAGGCTACGGCCCAGATTAATACTG
Found at i:20702944 original size:32 final size:32
Alignment explanation
Indices: 20702904--20702969 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
20702894 ATGCAGATGT
20702904 AGAAGAAACGGGAAGCCACATGTTAGTCTCTA
1 AGAAGAAACGGGAAGCCACATGTTAGTCTCTA
20702936 AGAAGAAACGGGAAGCCACATGTTAGTCTCTA
1 AGAAGAAACGGGAAGCCACATGTTAGTCTCTA
20702968 AG
1 AG
20702970 GCTAATTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (32 bp):
AGAAGAAACGGGAAGCCACATGTTAGTCTCTA
Found at i:20703501 original size:16 final size:16
Alignment explanation
Indices: 20703480--20703510 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20703470 TAAATCACTA
*
20703480 AAAAATTTTAAAAAAT
1 AAAAATATTAAAAAAT
20703496 AAAAATATTAAAAAA
1 AAAAATATTAAAAAA
20703511 ATAGCTAAAT
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATATTAAAAAAT
Found at i:20703511 original size:17 final size:16
Alignment explanation
Indices: 20703480--20703513 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
20703470 TAAATCACTA
*
20703480 AAAAATTTTAAAAAAT
1 AAAAATTTAAAAAAAT
20703496 AAAAATATTAAAAAAAT
1 AAAAAT-TTAAAAAAAT
20703513 A
1 A
20703514 GCTAAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATTTAAAAAAAT
Found at i:20703751 original size:35 final size:35
Alignment explanation
Indices: 20703701--20703769 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
20703691 TACTTTTTGA
*
20703701 ATTTAAAGATCCACTTTCAAATTATATATAACAAC
1 ATTTAAAAATCCACTTTCAAATTATATATAACAAC
*
20703736 ATTTAAAAATTCACTTTCAAATTATATATAACAA
1 ATTTAAAAATCCACTTTCAAATTATATATAACAA
20703770 TGTAATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.36
Consensus pattern (35 bp):
ATTTAAAAATCCACTTTCAAATTATATATAACAAC
Done.