Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 60 of 318
Found at i:21381117 original size:15 final size:15
Alignment explanation
Indices: 21381097--21381154 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
21381087 ATTCAATAGT
21381097 AATATTTTAATAATA
1 AATATTTTAATAATA
*
21381112 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
21381131 AATATATTAATAATA
1 AATATTTTAATAATA
*
21381146 AATTTTTTA
1 AATATTTTA
21381155 TAGTATAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:21381151 original size:47 final size:47
Alignment explanation
Indices: 21381045--21381151 Score: 109
Period size: 48 Copynumber: 2.3 Consensus size: 47
21381035 AAATTTTGAA
21381045 AATAAT-AATTTTAAATAATATTATTCACATATTATTGAAAATATTC
1 AATAATAAATTTTAAATAATATTATTCACATATTATTGAAAATATTC
*
21381091 AATAGTAATATTTTAATAATAAATATTTATT-ACA-ATTA-T-AAATATATT-
1 AATAATAA-ATTTT-A-AAT-AATA-TTATTCACATATTATTGAAA-ATATTC
21381139 AATAATAAATTTT
1 AATAATAAATTTT
21381152 TTATAGTATA
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
46 5 0.10
47 6 0.12
48 15 0.29
49 7 0.13
50 7 0.13
51 7 0.13
52 5 0.10
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (47 bp):
AATAATAAATTTTAAATAATATTATTCACATATTATTGAAAATATTC
Found at i:21388598 original size:12 final size:12
Alignment explanation
Indices: 21388574--21388606 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
21388564 AATGGAGACC
21388574 TATTGTATTTTTT
1 TATT-TATTTTTT
21388587 T-TTTATTTTTT
1 TATTTATTTTTT
21388598 TATTTATTT
1 TATTTATTT
21388607 CACCATCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.47
12 9 0.47
13 1 0.05
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (12 bp):
TATTTATTTTTT
Found at i:21398420 original size:29 final size:30
Alignment explanation
Indices: 21398355--21398432 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 30
21398345 TAAAAAAATG
* * *
21398355 AAAATTT-GTGGCAAAAATTAATAAAATTT
1 AAAATTTAGTGGTAAAATTTAATAAAATTA
* *
21398384 AAAGTTTAGTGGTAAAATTTAATAACA-TA
1 AAAATTTAGTGGTAAAATTTAATAAAATTA
*
21398413 AAAATTTAGT-GTCAAATTTA
1 AAAATTTAGTGGTAAAATTTA
21398433 CTTATTAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 9 0.22
29 16 0.39
30 16 0.39
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.36
Consensus pattern (30 bp):
AAAATTTAGTGGTAAAATTTAATAAAATTA
Found at i:21399186 original size:22 final size:22
Alignment explanation
Indices: 21399167--21399210 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
21399157 GTCCAATTTG
21399167 ATACCAAATTAAAAAAAATTAA
1 ATACCAAATTAAAAAAAATTAA
* *
21399189 ATATCAAATT-TAAAAAATTAA
1 ATACCAAATTAAAAAAAATTAA
21399210 A
1 A
21399211 GTCAAATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (22 bp):
ATACCAAATTAAAAAAAATTAA
Found at i:21400658 original size:24 final size:22
Alignment explanation
Indices: 21400631--21400675 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
21400621 TTTATTTACT
*
21400631 ATAACGTCTTTTAAGTTCAATAAA
1 ATAACATCTTTTAA-TT-AATAAA
*
21400655 ATAACATTTTTTAATTAATAA
1 ATAACATCTTTTAATTAATAA
21400676 TTAAAAGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 2 0.11
24 12 0.63
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (22 bp):
ATAACATCTTTTAATTAATAAA
Found at i:21419498 original size:39 final size:39
Alignment explanation
Indices: 21419455--21419534 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
21419445 ATTATCATTC
21419455 TTATATATATACATGAAAAACTAAAAACTACAATTTAAT
1 TTATATATATACATGAAAAACTAAAAACTACAATTTAAT
21419494 TTATATATATACATGAAAAACTAAAAACTACAATTTAAT
1 TTATATATATACATGAAAAACTAAAAACTACAATTTAAT
21419533 TT
1 TT
21419535 TTTAAGTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.35
Consensus pattern (39 bp):
TTATATATATACATGAAAAACTAAAAACTACAATTTAAT
Found at i:21419973 original size:20 final size:20
Alignment explanation
Indices: 21419916--21419974 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
21419906 TTTAATCATA
*
21419916 TAATAAATTA-TTAATATAAT
1 TAATAAATTATTTAATAT-TT
*
21419936 TAAT--ATTAATTTATTATTT
1 TAATAAATT-ATTTAATATTT
21419955 TAATAAATTATTTAATATTT
1 TAATAAATTATTTAATATTT
21419975 CAATTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 3 0.09
19 6 0.19
20 20 0.62
21 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAATAAATTATTTAATATTT
Found at i:21420039 original size:14 final size:14
Alignment explanation
Indices: 21419984--21420039 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
21419974 TCAATTTTAT
21419984 TTTAATAATAAAT-
1 TTTAATAATAAATA
21419997 TTT-A-AAT-AATA
1 TTTAATAATAAATA
* *
21420008 TTCAAT-ATTAATA
1 TTTAATAATAAATA
21420021 TTTTAATAATAAATA
1 -TTTAATAATAAATA
21420036 TTTA
1 TTTA
21420040 TTACAATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
10 3 0.09
11 5 0.15
12 4 0.12
13 7 0.21
14 9 0.26
15 6 0.18
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTAATAATAAATA
Found at i:21438925 original size:30 final size:30
Alignment explanation
Indices: 21438821--21438925 Score: 90
Period size: 30 Copynumber: 3.4 Consensus size: 30
21438811 ATAAAAAATG
*
21438821 ATTTAGAACC-TAATGTGAGAAAAATTATCAA
1 ATTTA-AACCTTAAT-TGAAAAAAATTATCAA
* ** *
21438852 ATTCAAATCCCAATATTG-AAATAATTATCAA
1 ATTTAAA-CCTTA-ATTGAAAAAAATTATCAA
*
21438883 GTTTAAGA-CTTAATTGAAAAAAATTATCAA
1 ATTTAA-ACCTTAATTGAAAAAAATTATCAA
21438913 ATTTAAACCTTAA
1 ATTTAAACCTTAA
21438926 ATAGTAATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
29 5 0.09
30 26 0.45
31 21 0.36
32 4 0.07
33 2 0.03
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (30 bp):
ATTTAAACCTTAATTGAAAAAAATTATCAA
Found at i:21439619 original size:6 final size:6
Alignment explanation
Indices: 21439608--21439654 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
21439598 TTTTAAAGTG
*
21439608 AAGGGC AAGGGC AAGGGC AAGGGC AAGGGC AAGGAC AAGGGC AAGGG
1 AAGGGC AAGGGC AAGGGC AAGGGC AAGGGC AAGGGC AAGGGC AAGGG
21439655 GTATAAGCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.36, C:0.15, G:0.49, T:0.00
Consensus pattern (6 bp):
AAGGGC
Found at i:21452373 original size:43 final size:43
Alignment explanation
Indices: 21452326--21452431 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
21452316 TTATTCAATG
* * *
21452326 ATGCACTATGCGTGTCAATATAATTGCTCTGGTTTGTCCAACA
1 ATGCACTATGTGTGTCAATATAATTGCTCTGGCTTGCCCAACA
* * *
21452369 ATGCACCT-TGTGTGTCAATATAATTGCTTTGGCTTGCCCGATA
1 ATGCA-CTATGTGTGTCAATATAATTGCTCTGGCTTGCCCAACA
*
21452412 ATGCACTATGTGTGCCAATA
1 ATGCACTATGTGTGTCAATA
21452432 ACTTTTGTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 2 0.04
43 50 0.93
44 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (43 bp):
ATGCACTATGTGTGTCAATATAATTGCTCTGGCTTGCCCAACA
Found at i:21452383 original size:86 final size:86
Alignment explanation
Indices: 21452218--21452393 Score: 203
Period size: 86 Copynumber: 2.0 Consensus size: 86
21452208 CAAAGCAACC
* * * **
21452218 AATTGCTTCGGTTTATCCAATGATGCACTATGCGTACTAATATAATTGTTTCAATTTGTCCAATG
1 AATTACTTCGATTTATCCAATGATGCACTATGCGTACTAATATAATTGTCTCAATTTGTCCAACA
**
21452283 ATATTCCTTATGTGTCAATAT
66 ATACACCTTATGTGTCAATAT
* * **
21452304 AATTACTTCGATTTATTCAATGATGCACTATGCGT-GTCAATATAATTG-CTCTGGTTTGTCCAA
1 AATTACTTCGATTTATCCAATGATGCACTATGCGTACT-AATATAATTGTCTC-AATTTGTCCAA
* *
21452367 CAATGCACCTTGTGTGTCAATAT
64 CAATACACCTTATGTGTCAATAT
21452390 AATT
1 AATT
21452394 GCTTTGGCTT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
85 3 0.04
86 72 0.96
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (86 bp):
AATTACTTCGATTTATCCAATGATGCACTATGCGTACTAATATAATTGTCTCAATTTGTCCAACA
ATACACCTTATGTGTCAATAT
Found at i:21453317 original size:37 final size:37
Alignment explanation
Indices: 21453253--21453398 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
21453243 TACGTATGAT
* *
21453253 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
21453288 CACCTATCACTTTGTTTCTTGGTCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
21453325 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
21453362 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
21453399 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:21453415 original size:46 final size:46
Alignment explanation
Indices: 21453362--21453630 Score: 322
Period size: 46 Copynumber: 5.6 Consensus size: 46
21453352 TAAGTGTAGC
* *
21453362 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* * *
21453408 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* *
21453454 CACTTATCACTTTTCACTTGCCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
*
21453506 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* * *
21453552 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
*
21453604 CAGTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
21453631 AGTACTCAAA
Statistics
Matches: 196, Mismatches: 15, Indels: 24
0.83 0.06 0.10
Matches are distributed among these distances:
46 110 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 82 0.42
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
Found at i:21453485 original size:52 final size:52
Alignment explanation
Indices: 21453405--21453624 Score: 272
Period size: 52 Copynumber: 4.3 Consensus size: 52
21453395 TAGCTAAAGC
* * *
21453405 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACT
* * *
21453458 TATCACTTTTCACTTGCCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACT
*
21453510 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACT
* * * * *
21453556 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAGT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACT
21453608 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
21453625 ATCAGAAGTA
Statistics
Matches: 145, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
46 41 0.28
49 1 0.01
52 85 0.59
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACT
Found at i:21453527 original size:98 final size:98
Alignment explanation
Indices: 21453379--21453630 Score: 423
Period size: 98 Copynumber: 2.6 Consensus size: 98
21453369 CACTTTGTCT
*
21453379 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
21453444 CCGAAGCTATCACTTATCACTTTTCACTTGCCA
66 CCAAAGCTATCACTTATCACTTTCCACTTGCCA
**
21453477 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
21453542 CCAAAGCTATTACTTATCACTTTCCACTTGTCA
66 CCAAAGCTATCACTTATCACTTTCCACTTGCCA
* *
21453575 CTTGATCAGATAAGTGTAGCTAAAGCTACCAGTTATCACTTTGTCACTTGATCAGA
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
21453631 AGTACTCAAA
Statistics
Matches: 143, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 143 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (98 bp):
CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
CCAAAGCTATCACTTATCACTTTCCACTTGCCA
Found at i:21455925 original size:5 final size:5
Alignment explanation
Indices: 21455915--21455958 Score: 65
Period size: 5 Copynumber: 9.0 Consensus size: 5
21455905 AATAATTAAG
21455915 TATAT TATA- T-TAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
21455959 ATAAAAGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 27 0.75
6 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:21455930 original size:8 final size:8
Alignment explanation
Indices: 21455917--21455953 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
21455907 TAATTAAGTA
21455917 TATTATAT
1 TATTATAT
21455925 TATTATAT
1 TATTATAT
21455933 TA-TAT-T
1 TATTATAT
21455939 ATATTATAT
1 -TATTATAT
21455948 TATTAT
1 TATTAT
21455954 TATATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
6 1 0.04
7 5 0.19
8 19 0.73
9 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:21455933 original size:13 final size:13
Alignment explanation
Indices: 21455915--21455960 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
21455905 AATAATTAAG
21455915 TATATTATATTAT
1 TATATTATATTAT
21455928 TATATTATATTATAT
1 TATATTATA-T-TAT
21455943 TATATTATTATTA-
1 TATATTA-TATTAT
21455956 TATAT
1 TATAT
21455961 AAAAGAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 14 0.47
14 3 0.10
15 11 0.37
16 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATATTATATTAT
Found at i:21455960 original size:18 final size:17
Alignment explanation
Indices: 21455915--21455953 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
21455905 AATAATTAAG
21455915 TATATTATATTATTATAT
1 TATATTATATTA-TATAT
21455933 TATATTATATTATATTAT
1 TATATTATATTATA-TAT
21455951 TAT
1 TAT
21455954 TATATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTATATTATATAT
Found at i:21457173 original size:6 final size:6
Alignment explanation
Indices: 21457162--21457192 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
21457152 ATAAATCCGA
*
21457162 AACAGT AACAGT AACAGT AACGGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
21457193 TTCGACACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:21458325 original size:5 final size:5
Alignment explanation
Indices: 21458315--21458411 Score: 128
Period size: 5 Copynumber: 19.6 Consensus size: 5
21458305 TTTATATATA
21458315 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * *
21458365 ATAAG A-ATAT AGGAAT AT-A- AGAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATA-AT A-TAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
21458412 CTTAATTATT
Statistics
Matches: 82, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
3 1 0.01
4 3 0.04
5 74 0.90
6 3 0.04
7 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (5 bp):
ATAAT
Found at i:21459355 original size:40 final size:40
Alignment explanation
Indices: 21459293--21459373 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
21459283 AATTATGGGA
* * *
21459293 TACTGAATATTGTTTTGAATACTGAATTGAACCGTGAAAT
1 TACTGAATAATGTTATGAATACTGAATTGAACCGTAAAAT
* * *
21459333 TACTGAATAATGTTATGTATACTGCATTGAACTGTAAAAT
1 TACTGAATAATGTTATGAATACTGAATTGAACCGTAAAAT
21459373 T
1 T
21459374 TCTAATGAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (40 bp):
TACTGAATAATGTTATGAATACTGAATTGAACCGTAAAAT
Found at i:21459657 original size:45 final size:45
Alignment explanation
Indices: 21459578--21459671 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
21459568 CTATTACCCG
* *
21459578 TACTGTTACCGATTCGACACTTTCTGTGTCGAATACTGTTACTGT
1 TACTATTACAGATTCGACACTTTCTGTGTCGAATACTGTTACTGT
* * *
21459623 TACTATTACAGATTC-AGCACTTTGTGTGTTGAATATTGTTACTGT
1 TACTATTACAGATTCGA-CACTTTCTGTGTCGAATACTGTTACTGT
21459668 TACT
1 TACT
21459672 GCTACTGCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (45 bp):
TACTATTACAGATTCGACACTTTCTGTGTCGAATACTGTTACTGT
Found at i:21466525 original size:41 final size:41
Alignment explanation
Indices: 21466424--21466673 Score: 306
Period size: 41 Copynumber: 6.1 Consensus size: 41
21466414 CAAAAATTGT
* * *
21466424 AAAACATAGAGCAATAGCGGTGC-TTTAGTAAAAAACGCCGCTA
1 AAAAC-TAGAGCATTAGCGGCGCTTTTGGT--AAAACGCCGCTA
* * *
21466467 AAAAATAGAGCAATAGCGGCGCTTTTGGTAAAACACCGCTA
1 AAAACTAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
* * *
21466508 AAAACCAGACCATTAGCGGCGCTTTTGGTAAAAC-CCACTA
1 AAAACTAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
* * **
21466548 AAAACCAGAGCATTAGCTGCGCTTTTGAAAAAACGCCGCTA
1 AAAACTAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
*
21466589 AAAACTAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTA
1 AAAACTAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
* * *
21466630 TAAACTAGAACATTAGCGGCGCTTTTGGAAAAACGCCGCTA
1 AAAACTAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
21466671 AAA
1 AAA
21466674 GTCATATAAC
Statistics
Matches: 183, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
40 35 0.19
41 123 0.67
42 16 0.09
43 9 0.05
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (41 bp):
AAAACTAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
Found at i:21466570 original size:81 final size:82
Alignment explanation
Indices: 21466455--21466673 Score: 314
Period size: 81 Copynumber: 2.7 Consensus size: 82
21466445 GCTTTAGTAA
* * * *
21466455 AAAACGCCGCTAAAAAATAGAGCAATAGCGGCGCTTTTGGTAAAACACCGCTAAAAACCAGACCA
1 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAAACCAGACCA
*
21466520 TTAGCGGCGCTTTTGGT
66 TTAGCGGCGCTTTTGAT
* * * * * *
21466537 AAAAC-CCACTAAAAACCAGAGCATTAGCTGCGCTTTTGAAAAAACGCCGCTAAAAACTAGAGCA
1 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAAACCAGACCA
21466601 TTAGCGGCGCTTTTGAT
66 TTAGCGGCGCTTTTGAT
* *
21466618 AAAACGCCGCTATAAACTAGAACATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAA
1 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAA
21466674 GTCATATAAC
Statistics
Matches: 119, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
81 70 0.59
82 49 0.41
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (82 bp):
AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAAACCAGACCA
TTAGCGGCGCTTTTGAT
Found at i:21466644 original size:122 final size:123
Alignment explanation
Indices: 21466453--21466673 Score: 354
Period size: 122 Copynumber: 1.8 Consensus size: 123
21466443 GTGCTTTAGT
* *
21466453 AAAAAACGCCGCTAAAAAATAGAGCAATAGCGGCGCTTTTGGTAAAACACCGCTAAAAACCAGAC
1 AAAAAACGCCGCTAAAAAATAGAGCAATAGCGGCGCTTTTGATAAAACACCGCTAAAAACCAGAA
*
21466518 CATTAGCGGCGCTTTTGGTAAAAC-CCACTAAAAACCAGAGCATTAGCTGCGCTTTTG
66 CATTAGCGGCGCTTTTGGAAAAACGCCACTAAAAACCAGAGCATTAGCTGCGCTTTTG
* * * * *
21466575 AAAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTATAAACTAGAA
1 AAAAAACGCCGCTAAAAAATAGAGCAATAGCGGCGCTTTTGATAAAACACCGCTAAAAACCAGAA
*
21466640 CATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAA
66 CATTAGCGGCGCTTTTGGAAAAACGCCACTAAAA
21466674 GTCATATAAC
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
122 81 0.91
123 8 0.09
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (123 bp):
AAAAAACGCCGCTAAAAAATAGAGCAATAGCGGCGCTTTTGATAAAACACCGCTAAAAACCAGAA
CATTAGCGGCGCTTTTGGAAAAACGCCACTAAAAACCAGAGCATTAGCTGCGCTTTTG
Found at i:21466701 original size:122 final size:122
Alignment explanation
Indices: 21466453--21466701 Score: 257
Period size: 122 Copynumber: 2.0 Consensus size: 122
21466443 GTGCTTTAGT
* *
21466453 AAAAAACGCCGCTAAAAAATAGAGCAATAGCGGCGCTTTTGGTAAAACACCGCTAAAAACCAGAC
1 AAAAAACGCCGCTAAAAAATAGAGCAATAGCGGCGCTTTTGATAAAACACCGCTAAAAACCAGAA
* ** * *** *****
21466518 CATTAGCGGCGCTTTTGGTAAAACCCACTAAAAACCAGAGCATTAGCTGCGCTTTTG
66 CATTAGCGGCGCTTTTGGAAAAACCCACTAAAAACCAGAGCAACACCTAAACCCCAA
* * * * *
21466575 AAAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTATAAACTAGAA
1 AAAAAACGCCGCTAAAAAATAGAGCAATAGCGGCGCTTTTGATAAAACACCGCTAAAAACCAGAA
* ** * * *
21466640 CATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAAGTCATA-TAACCCCTAAACCCCAA
66 CATTAGCGGCGCTTTTGGAAAAAC-CCACTAAAAACCAGAGCAACACCTAAACCCCAA
21466697 AAAAA
1 AAAAA
21466702 TCATAAACAC
Statistics
Matches: 101, Mismatches: 25, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
122 90 0.89
123 11 0.11
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (122 bp):
AAAAAACGCCGCTAAAAAATAGAGCAATAGCGGCGCTTTTGATAAAACACCGCTAAAAACCAGAA
CATTAGCGGCGCTTTTGGAAAAACCCACTAAAAACCAGAGCAACACCTAAACCCCAA
Found at i:21466877 original size:31 final size:32
Alignment explanation
Indices: 21466836--21466896 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
21466826 TATCATTATA
*
21466836 GTTTAAGGTTTATG-GTTTAAGATGGTTTAGG
1 GTTTAAGGTTTATGAGTTAAAGATGGTTTAGG
* *
21466867 GTTTAGGGTTTATGAGTTAAATATGGTTTA
1 GTTTAAGGTTTATGAGTTAAAGATGGTTTA
21466897 ATATATATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (32 bp):
GTTTAAGGTTTATGAGTTAAAGATGGTTTAGG
Found at i:21466990 original size:7 final size:7
Alignment explanation
Indices: 21466961--21467085 Score: 60
Period size: 7 Copynumber: 17.6 Consensus size: 7
21466951 GATGAATTAT
21466961 GGGTTTA
1 GGGTTTA
*
21466968 GGGATTA
1 GGGTTTA
* *
21466975 TGATTTA
1 GGGTTTA
21466982 GGGTTTA
1 GGGTTTA
*
21466989 GGGGTTA
1 GGGTTTA
21466996 GGG-TT-
1 GGGTTTA
21467001 GGAGTTTA
1 GG-GTTTA
* *
21467009 AGGTGTAA
1 GGGT-TTA
21467017 GGGTTT-
1 GGGTTTA
*
21467023 GGTGTTAA
1 GG-GTTTA
*
21467031 GGGTTAA
1 GGGTTTA
21467038 GGGTTTA
1 GGGTTTA
*
21467045 GTGTTTA
1 GGGTTTA
*
21467052 GTGTTTA
1 GGGTTTA
*
21467059 TGGG-ATA
1 -GGGTTTA
*
21467066 GGGGTTAA
1 -GGGTTTA
21467074 GAGGTTTA
1 G-GGTTTA
21467082 GGGT
1 GGGT
21467086 GTTTATGAAT
Statistics
Matches: 89, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
5 2 0.02
6 5 0.06
7 65 0.73
8 17 0.19
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (7 bp):
GGGTTTA
Found at i:21467911 original size:6 final size:6
Alignment explanation
Indices: 21467902--21467934 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
21467892 TCTCTTTTTT
21467902 TTTTCA TTTTCA TTTTCA TTTTCA TTTATCA TT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTT-TCA TT
21467935 GAAAGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTCA
Found at i:21474122 original size:33 final size:32
Alignment explanation
Indices: 21474081--21474147 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 32
21474071 ATTTTTTTAG
* *
21474081 TTTTTTTTTACAGATT-TTAGAATATTTTCAAT
1 TTTTTTTTTACAGATTCTTA-AAAATTTTAAAT
*
21474113 TTTTATTTTTATAGATTCTTAAAAATTTTAAAT
1 TTTT-TTTTTACAGATTCTTAAAAATTTTAAAT
21474146 TT
1 TT
21474148 CATAGTTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 4 0.13
33 23 0.77
34 3 0.10
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (32 bp):
TTTTTTTTTACAGATTCTTAAAAATTTTAAAT
Found at i:21474722 original size:10 final size:9
Alignment explanation
Indices: 21474707--21474810 Score: 78
Period size: 9 Copynumber: 11.9 Consensus size: 9
21474697 AACCAGAAAG
21474707 TTATAAAAA
1 TTATAAAAA
21474716 TT-TATAAAA
1 TTATA-AAAA
*
21474725 TTAT-TAAA
1 TTATAAAAA
21474733 -TATAAAAA
1 TTATAAAAA
*
21474741 TATATGAAAA
1 T-TATAAAAA
21474751 TTGATATAAAA
1 TT-ATA-AAAA
*
21474762 TTATAAATA
1 TTATAAAAA
21474771 TTATAAAAA
1 TTATAAAAA
21474780 -TAT-AAAA
1 TTATAAAAA
* *
21474787 TTCTAATAA
1 TTATAAAAA
21474796 TTAT--AAA
1 TTATAAAAA
21474803 TTATAAAA
1 TTATAAAA
21474811 TTAATAATAC
Statistics
Matches: 74, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
7 13 0.18
8 13 0.18
9 28 0.38
10 14 0.19
11 6 0.08
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.38
Consensus pattern (9 bp):
TTATAAAAA
Found at i:21474733 original size:17 final size:17
Alignment explanation
Indices: 21474713--21474813 Score: 68
Period size: 17 Copynumber: 5.9 Consensus size: 17
21474703 AAAGTTATAA
21474713 AAATTTATAAAATTATT
1 AAATTTATAAAATTATT
* *
21474730 AAATATA-AAAATATATGA
1 AAATTTATAAAAT-TAT-T
21474748 AAATTGATATAAAATTA-T
1 AAATT--TATAAAATTATT
* *
21474766 AAATATTATAAAAATATA
1 AAAT-TTATAAAATTATT
*
21474784 AAATTCTA-ATAATTA-T
1 AAATT-TATAAAATTATT
21474800 AAA-TTATAAAATTA
1 AAATTTATAAAATTA
21474814 ATAATACATA
Statistics
Matches: 65, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
14 2 0.03
15 7 0.11
16 8 0.12
17 24 0.37
18 14 0.22
19 1 0.02
20 4 0.06
21 5 0.08
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (17 bp):
AAATTTATAAAATTATT
Found at i:21474786 original size:7 final size:8
Alignment explanation
Indices: 21474707--21474813 Score: 83
Period size: 8 Copynumber: 12.4 Consensus size: 8
21474697 AACCAGAAAG
21474707 TTATAAAAA
1 TTAT-AAAA
21474716 TTTATAAAA
1 -TTATAAAA
*
21474725 TTATTAAA
1 TTATAAAA
21474733 -TATAAAAA
1 TTAT-AAAA
21474741 TATATGAAAA
1 T-TAT-AAAA
21474751 TTGATATAAAA
1 -T--TATAAAA
21474762 TTATAAATA
1 TTATAAA-A
21474771 TTATAAAA
1 TTATAAAA
*
21474779 ATATAAAA
1 TTATAAAA
*
21474787 TTCTAATAA
1 TTATAA-AA
21474796 TTAT-AAA
1 TTATAAAA
21474803 TTATAAAA
1 TTATAAAA
21474811 TTA
1 TTA
21474814 ATAATACATA
Statistics
Matches: 82, Mismatches: 7, Indels: 18
0.77 0.07 0.17
Matches are distributed among these distances:
7 9 0.11
8 35 0.43
9 17 0.21
10 12 0.15
11 5 0.06
12 4 0.05
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (8 bp):
TTATAAAA
Found at i:21474788 original size:25 final size:24
Alignment explanation
Indices: 21474754--21474833 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
21474744 ATGAAAATTG
21474754 ATATAAAATTATAA-ATATTATAAAA
1 ATATAAAATTATAATA-ATTAT-AAA
*
21474779 ATATAAAATTCTAATAATTATAAA
1 ATATAAAATTATAATAATTATAAA
* *
21474803 TTATAAAATTAATAATACATATTTAAA
1 ATATAAAATT-ATAATA-AT-TATAAA
21474830 ATAT
1 ATAT
21474834 TTAAACTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
24 12 0.26
25 23 0.50
26 3 0.07
27 8 0.17
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATAAAATTATAATAATTATAAA
Found at i:21474859 original size:21 final size:22
Alignment explanation
Indices: 21474827--21474876 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
21474817 ATACATATTT
*
21474827 AAAAT-AT-TTAAACTTTTGTA
1 AAAATCATATTAAACTTCTGTA
21474847 AAAA-CATATTAAACTTCTGTA
1 AAAATCATATTAAACTTCTGTA
21474868 AAAATCATA
1 AAAATCATA
21474877 AATATTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 6 0.23
21 16 0.62
22 4 0.15
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (22 bp):
AAAATCATATTAAACTTCTGTA
Found at i:21475367 original size:9 final size:9
Alignment explanation
Indices: 21475355--21475605 Score: 75
Period size: 9 Copynumber: 27.8 Consensus size: 9
21475345 TTTATGATTT
21475355 TTTTTATAA
1 TTTTTATAA
*
21475364 TTTTAATAA
1 TTTTTATAA
*
21475373 GTTTATATCAA
1 -TTTTTAT-AA
*
21475384 TTTTAAT-A
1 TTTTTATAA
*
21475392 TTTTTACAA
1 TTTTTATAA
*
21475401 TTTTTATTA
1 TTTTTATAA
21475410 TTTTT-TAGGA
1 TTTTTATA--A
* * *
21475420 TTCTAATAC
1 TTTTTATAA
21475429 TTTTT-TAAA
1 TTTTTAT-AA
*
21475438 ATTTTA-AA
1 TTTTTATAA
*
21475446 TATTTAAATAA
1 T-TTT-TATAA
*
21475457 GTTTTATTAA
1 TTTTTA-TAA
21475467 -TTTTATAA
1 TTTTTATAA
21475475 TTTTTTATAA
1 -TTTTTATAA
*
21475485 TTTATTA-GA
1 TTT-TTATAA
*
21475494 TTTTT-T-G
1 TTTTTATAA
*
21475501 TTTTTATGAT
1 TTTTTAT-AA
21475511 TTTTTATAA
1 TTTTTATAA
*
21475520 TTTTAATAA
1 TTTTTATAA
*
21475529 GTTTATATCAA
1 -TTTTTAT-AA
21475540 --TTTA-AA
1 TTTTTATAA
21475546 TATTTTAT-A
1 T-TTTTATAA
21475555 TTTTTAT-A
1 TTTTTATAA
*
21475563 TTTTTCTAAA
1 TTTTTAT-AA
21475573 TTTTTAT--
1 TTTTTATAA
21475580 TTTTTA-AGA
1 TTTTTATA-A
*
21475589 TTTTTTATGA
1 -TTTTTATAA
21475599 TTTTTAT
1 TTTTTAT
21475606 GGGAAAAATA
Statistics
Matches: 178, Mismatches: 32, Indels: 64
0.65 0.12 0.23
Matches are distributed among these distances:
6 2 0.01
7 11 0.06
8 32 0.18
9 67 0.38
10 58 0.33
11 8 0.04
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:21475397 original size:20 final size:19
Alignment explanation
Indices: 21475353--21475473 Score: 61
Period size: 19 Copynumber: 6.4 Consensus size: 19
21475343 ATTTTATGAT
*
21475353 TTTTTTTATAATTTTAATA
1 TTTTTATATAATTTTAATA
**
21475372 AGTTTATATCAATTTTAATA
1 TTTTTATAT-AATTTTAATA
* * *
21475392 TTTTTACA-ATTTTTATTA
1 TTTTTATATAATTTTAATA
** *
21475410 TTTTT-TAGGATTCTAATA
1 TTTTTATATAATTTTAATA
*
21475428 CTTTTT-TAAAATTTTAA-A
1 -TTTTTATATAATTTTAATA
* * *
21475446 TATTTAAATAAGTTTTATTA
1 TTTTTATATAA-TTTTAATA
*
21475466 ATTTTATA
1 TTTTTATA
21475474 ATTTTTTATA
Statistics
Matches: 73, Mismatches: 23, Indels: 11
0.68 0.21 0.10
Matches are distributed among these distances:
17 5 0.07
18 23 0.32
19 24 0.33
20 21 0.29
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTTATATAATTTTAATA
Found at i:21475523 original size:25 final size:25
Alignment explanation
Indices: 21475476--21475523 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
21475466 ATTTTATAAT
*
21475476 TTTTTATAATTTATTAGATTTTTTG
1 TTTTTATAATTTATTAGAATTTTTG
* * *
21475501 TTTTTATGATTTTTTATAATTTT
1 TTTTTATAATTTATTAGAATTTT
21475524 AATAAGTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (25 bp):
TTTTTATAATTTATTAGAATTTTTG
Found at i:21475580 original size:16 final size:16
Alignment explanation
Indices: 21475556--21475593 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
21475546 TATTTTATAT
21475556 TTTTATATTTTTCTAA-A
1 TTTT-TATTTTT-TAAGA
21475573 TTTTTATTTTTTAAGA
1 TTTTTATTTTTTAAGA
21475589 TTTTT
1 TTTTT
21475594 TATGATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.15
16 13 0.65
17 4 0.20
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTATTTTTTAAGA
Found at i:21475584 original size:26 final size:27
Alignment explanation
Indices: 21475542--21475593 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
21475532 TATATCAATT
* *
21475542 TAAATATTTTATATTTTTATATTTTTC
1 TAAATATTTTATATTTTAAGATTTTTC
*
21475569 TAAAT-TTTTATTTTTTAAGATTTTT
1 TAAATATTTTATATTTTAAGATTTTT
21475594 TATGATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (27 bp):
TAAATATTTTATATTTTAAGATTTTTC
Found at i:21480026 original size:38 final size:38
Alignment explanation
Indices: 21479984--21480079 Score: 101
Period size: 38 Copynumber: 2.6 Consensus size: 38
21479974 TAAAGAATAT
*
21479984 ATATATATAAGTATGTATATG-ATGTA-AAATATGCATAA
1 ATATATATAAGTATGTATAAGAAT-TAGAAATATGCA-AA
* *
21480022 ATATATGTAAGTA--TATAAGAATTATGAAATATGGAAA
1 ATATATATAAGTATGTATAAGAATTA-GAAATATGCAAA
*
21480059 ATATATTTAAGTATGTATAAG
1 ATATATATAAGTATGTATAAG
21480080 TATGTATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
36 7 0.14
37 16 0.33
38 20 0.41
39 6 0.12
ACGTcount: A:0.48, C:0.01, G:0.15, T:0.36
Consensus pattern (38 bp):
ATATATATAAGTATGTATAAGAATTAGAAATATGCAAA
Found at i:21484894 original size:29 final size:28
Alignment explanation
Indices: 21484859--21484939 Score: 87
Period size: 27 Copynumber: 2.9 Consensus size: 28
21484849 CACACCCGGA
*
21484859 ATAATATAAATCCTCCATAACACACTAGT
1 ATAATAT-AATCCTCCATAACACACCAGT
*
21484888 ATAATAT-AGCCTCCCA-AACACACCAGT
1 ATAATATAATCCT-CCATAACACACCAGT
* *
21484915 ATATTAT-ATCCTCCCTAACACACCA
1 ATAATATAATCCTCCATAACACACCA
21484940 ATAAGGCATT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.04
27 33 0.73
28 3 0.07
29 7 0.16
ACGTcount: A:0.41, C:0.31, G:0.04, T:0.25
Consensus pattern (28 bp):
ATAATATAATCCTCCATAACACACCAGT
Found at i:21484907 original size:27 final size:27
Alignment explanation
Indices: 21484877--21484939 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
21484867 AATCCTCCAT
*
21484877 AACACACTAGTATAATATAGCCTCCCA
1 AACACACCAGTATAATATAGCCTCCCA
* * *
21484904 AACACACCAGTATATTATATCCTCCCT
1 AACACACCAGTATAATATAGCCTCCCA
21484931 AACACACCA
1 AACACACCA
21484940 ATAAGGCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.33, G:0.05, T:0.22
Consensus pattern (27 bp):
AACACACCAGTATAATATAGCCTCCCA
Found at i:21485462 original size:17 final size:17
Alignment explanation
Indices: 21485440--21485472 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21485430 AATTTTTATT
*
21485440 CAATTTATTCCTAATTC
1 CAATTTAATCCTAATTC
21485457 CAATTTAATCCTAATT
1 CAATTTAATCCTAATT
21485473 AACTATTTTA
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:0.33, C:0.21, G:0.00, T:0.45
Consensus pattern (17 bp):
CAATTTAATCCTAATTC
Found at i:21485911 original size:17 final size:17
Alignment explanation
Indices: 21485889--21485921 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21485879 GTTTTCGTTT
21485889 TGTTCTT-TGTTCTTTTC
1 TGTTCTTCT-TTCTTTTC
21485906 TGTTCTTCTTTCTTTT
1 TGTTCTTCTTTCTTTT
21485922 ATTTTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.00, C:0.18, G:0.09, T:0.73
Consensus pattern (17 bp):
TGTTCTTCTTTCTTTTC
Found at i:21485936 original size:22 final size:23
Alignment explanation
Indices: 21485920--21485962 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
21485910 CTTCTTTCTT
21485920 TTATTTTCTTTTATTCTATTTTC
1 TTATTTTCTTTTATTCTATTTTC
*
21485943 TTA-TTTCTTTTAGT-TATTTT
1 TTATTTTCTTTTATTCTATTTT
21485963 ATATTACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 10 0.53
23 3 0.16
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.74
Consensus pattern (23 bp):
TTATTTTCTTTTATTCTATTTTC
Found at i:21486083 original size:14 final size:14
Alignment explanation
Indices: 21486064--21486096 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
21486054 AAAAAAAATC
21486064 TTATAATTTAATTA
1 TTATAATTTAATTA
*
21486078 TTATAATTTACTTA
1 TTATAATTTAATTA
21486092 TTATA
1 TTATA
21486097 TAAGAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATAATTTAATTA
Found at i:21495481 original size:7 final size:7
Alignment explanation
Indices: 21495445--21495494 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
21495435 ATTTGATTTT
*
21495445 TTAAAAA
1 TTAAATA
21495452 TTAAATTA
1 TTAAA-TA
* *
21495460 ATAAAAA
1 TTAAATA
21495467 TATAAATA
1 T-TAAATA
21495475 TTAAATA
1 TTAAATA
21495482 TTAAATA
1 TTAAATA
21495489 TTAAAT
1 TTAAAT
21495495 TTATCACGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 25 0.69
8 11 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
TTAAATA
Found at i:21495494 original size:14 final size:14
Alignment explanation
Indices: 21495445--21495493 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 14
21495435 ATTTGATTTT
21495445 TTAAAAATTAAATTA
1 TTAAAAATTAAA-TA
*
21495460 ATAAAAATATAAATA
1 TTAAAAAT-TAAATA
*
21495475 TTAAATATTAAATA
1 TTAAAAATTAAATA
21495489 TTAAA
1 TTAAA
21495494 TTTATCACGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 11 0.37
15 15 0.50
16 4 0.13
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTAAAAATTAAATA
Found at i:21513265 original size:26 final size:26
Alignment explanation
Indices: 21513229--21513280 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
21513219 AGCAGGTAGA
*
21513229 TACACTCTTGTTTATTCCCCTTTTTT
1 TACACTCTTGTTGATTCCCCTTTTTT
21513255 TACACTCTTGTTGATTCCCCTTTTTT
1 TACACTCTTGTTGATTCCCCTTTTTT
21513281 GTATTTCGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.12, C:0.27, G:0.06, T:0.56
Consensus pattern (26 bp):
TACACTCTTGTTGATTCCCCTTTTTT
Found at i:21518777 original size:38 final size:38
Alignment explanation
Indices: 21518735--21518924 Score: 335
Period size: 38 Copynumber: 5.0 Consensus size: 38
21518725 CACTCGATAT
*
21518735 ATATATCCGGGTTAAGTCTCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
21518773 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
21518811 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
*
21518849 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
* *
21518887 ATTTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTGGT
1 ATATATCCGGGTT-AAGTCCCGCAGGCTTCGTGCTGGT
21518925 GACTGAATTC
Statistics
Matches: 146, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 124 0.85
39 22 0.15
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.31
Consensus pattern (38 bp):
ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
Found at i:21535715 original size:26 final size:27
Alignment explanation
Indices: 21535678--21535730 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
21535668 TATATATGAT
* *
21535678 TAATCCAAAAAA-TATAAAAAAACCAA
1 TAATCCAAAAAAGGAAAAAAAAACCAA
*
21535704 TAATCCATAAAAGGAAAAAAAAACCAA
1 TAATCCAAAAAAGGAAAAAAAAACCAA
21535731 AGCAATGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.68, C:0.15, G:0.04, T:0.13
Consensus pattern (27 bp):
TAATCCAAAAAAGGAAAAAAAAACCAA
Found at i:21537769 original size:26 final size:26
Alignment explanation
Indices: 21537739--21537799 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
21537729 AAAATTATTA
21537739 TTTTAGAAA-ATTTTAAATTTTGAAAT
1 TTTTAGAAATATTTTAAATTTT-AAAT
* *
21537765 TTTTATAAATATTTTTAATTTTAAAT
1 TTTTAGAAATATTTTAAATTTTAAAT
*
21537791 ATTT-GAAAT
1 TTTTAGAAAT
21537800 TTATTTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.13
26 15 0.50
27 11 0.37
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (26 bp):
TTTTAGAAATATTTTAAATTTTAAAT
Found at i:21537800 original size:16 final size:16
Alignment explanation
Indices: 21537746--21537801 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
21537736 TTATTTTAGA
21537746 AAATTTTAAAT-TTTG
1 AAATTTTAAATATTTG
*
21537761 AAATTTTTATAAATATTTT
1 AAA--TTT-TAAATATTTG
*
21537780 TAATTTTAAATATTTG
1 AAATTTTAAATATTTG
21537796 AAATTT
1 AAATTT
21537802 ATTTTGTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
15 3 0.09
16 14 0.42
17 6 0.18
18 5 0.15
19 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (16 bp):
AAATTTTAAATATTTG
Found at i:21552484 original size:12 final size:12
Alignment explanation
Indices: 21552469--21552502 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
21552459 TTTCCTTTTG
21552469 ATGCCGATGCTA
1 ATGCCGATGCTA
21552481 ATGCCGATGCTA
1 ATGCCGATGCTA
21552493 ATGCCGATGC
1 ATGCCGATGC
21552503 CTCAGATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (12 bp):
ATGCCGATGCTA
Found at i:21552656 original size:17 final size:19
Alignment explanation
Indices: 21552629--21552667 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 19
21552619 CCTTCATTCC
21552629 TTTCTTTTATTCTTTTA-G
1 TTTCTTTTATTCTTTTATG
21552647 TTTC-TTTATTCTTTTATG
1 TTTCTTTTATTCTTTTATG
21552665 TTT
1 TTT
21552668 ATAATTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTCTTTTATTCTTTTATG
Found at i:21557599 original size:78 final size:78
Alignment explanation
Indices: 21557466--21557628 Score: 238
Period size: 78 Copynumber: 2.1 Consensus size: 78
21557456 CTTTATCATA
* * * *
21557466 ATTAGTCGATTGAATCTTAACTTTATCAATATAAAAAGACGTGAATTCGAGTATACTGAAAGTCT
1 ATTAGTTGATTGAATCTTAACTTTATCAATATAAAAAGACGTAAATTCAAATATACTGAAAGTCT
21557531 TATTCTTCTATTT
66 TATTCTTCTATTT
* *
21557544 ATTAGTTGATTGAGTCTTAA-TTGTATCAATATAAAAGGACGTAAATTCAAATATACTGAAAGTC
1 ATTAGTTGATTGAATCTTAACTT-TATCAATATAAAAAGACGTAAATTCAAATATACTGAAAGTC
*
21557608 TTATTTTTCTATTT
65 TTATTCTTCTATTT
*
21557622 ATGAGTT
1 ATTAGTT
21557629 AGAGAGAGAC
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
77 2 0.03
78 74 0.97
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.41
Consensus pattern (78 bp):
ATTAGTTGATTGAATCTTAACTTTATCAATATAAAAAGACGTAAATTCAAATATACTGAAAGTCT
TATTCTTCTATTT
Found at i:21557657 original size:78 final size:78
Alignment explanation
Indices: 21557490--21557649 Score: 194
Period size: 78 Copynumber: 2.0 Consensus size: 78
21557480 TCTTAACTTT
* * * * **
21557490 ATCAATATAAAAAGACGTGAATTCGAGTATACTGAAAGTCTTATTCTTCTATTTATTAGTTGATT
1 ATCAATATAAAAAGACGTAAATTCAAATATACTGAAAGTCTTATTCTTCTATTTATGAGTTGAGA
* ***
21557555 GAGTCTTAATTGT
66 GAGACTTAATAAA
* *
21557568 ATCAATATAAAAGGACGTAAATTCAAATATACTGAAAGTCTTATTTTTCTATTTATGAGTTAGAG
1 ATCAATATAAAAAGACGTAAATTCAAATATACTGAAAGTCTTATTCTTCTATTTATGAGTT-GAG
21557633 AGAGACTATAATAAA
65 AGAGACT-TAATAAA
21557648 AT
1 AT
21557650 TATTAAAAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 55 0.81
79 7 0.10
80 6 0.09
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (78 bp):
ATCAATATAAAAAGACGTAAATTCAAATATACTGAAAGTCTTATTCTTCTATTTATGAGTTGAGA
GAGACTTAATAAA
Found at i:21567281 original size:17 final size:19
Alignment explanation
Indices: 21567247--21567314 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 19
21567237 TGTCATACTT
21567247 TATAATTATAATTATTATA
1 TATAATTATAATTATTATA
21567266 TATAATT-T-ATT-TT-TA
1 TATAATTATAATTATTATA
*
21567281 T-TAATATATTAATTATTGT-
1 TATAAT-TA-TAATTATTATA
*
21567300 TACAATTATAATTAT
1 TATAATTATAATTAT
21567315 GGTTGGTGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
14 4 0.10
15 4 0.10
16 2 0.05
17 4 0.10
18 11 0.27
19 12 0.29
20 4 0.10
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (19 bp):
TATAATTATAATTATTATA
Found at i:21571928 original size:13 final size:13
Alignment explanation
Indices: 21571910--21571934 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21571900 TTTTGGAAAA
21571910 TTTTTATTTATAT
1 TTTTTATTTATAT
21571923 TTTTTATTTATA
1 TTTTTATTTATA
21571935 AAAATATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTATTTATAT
Found at i:21571959 original size:19 final size:17
Alignment explanation
Indices: 21571937--21571978 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
21571927 TATTTATAAA
21571937 AATATTTTAACATAATTTT
1 AATATTTTAA-AT-ATTTT
21571956 AATATTTTAAATATTTT
1 AATATTTTAAATATTTT
21571973 -ATATTT
1 AATATTT
21571979 AGTTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.26
17 5 0.22
18 2 0.09
19 10 0.43
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
AATATTTTAAATATTTT
Found at i:21571970 original size:9 final size:9
Alignment explanation
Indices: 21571936--21571973 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
21571926 TTATTTATAA
21571936 AAATATTTT
1 AAATATTTT
21571945 AACATAATTTT
1 AA-AT-ATTTT
21571956 -AATATTTT
1 AAATATTTT
21571964 AAATATTTT
1 AAATATTTT
21571973 A
1 A
21571974 TATTTAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 5 0.19
9 13 0.50
10 3 0.12
11 5 0.19
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (9 bp):
AAATATTTT
Found at i:21572774 original size:2 final size:2
Alignment explanation
Indices: 21572767--21572791 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21572757 TAATAATTGA
21572767 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
21572792 AAATATGATA
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:21572908 original size:3 final size:3
Alignment explanation
Indices: 21572900--21572924 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21572890 GTTTCTTTAC
21572900 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
21572925 TACTCTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:21576690 original size:15 final size:15
Alignment explanation
Indices: 21576670--21576698 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21576660 TCACTTCGAT
21576670 TACTGACAAAAGTAC
1 TACTGACAAAAGTAC
21576685 TACTGACAAAAGTA
1 TACTGACAAAAGTA
21576699 ATTGATGGCA
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:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (15 bp):
TACTGACAAAAGTAC
Found at i:21587757 original size:30 final size:30
Alignment explanation
Indices: 21587716--21587776 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
21587706 TCCTCAAAAC
21587716 TAAGATCTGAATAGCTTTTAACTCCCTCTT
1 TAAGATCTGAATAGCTTTTAACTCCCTCTT
*
21587746 TAAGTTCTGAATAGCTTTTAACTCCCTCTT
1 TAAGATCTGAATAGCTTTTAACTCCCTCTT
21587776 T
1 T
21587777 GTGGCTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.43
Consensus pattern (30 bp):
TAAGATCTGAATAGCTTTTAACTCCCTCTT
Found at i:21606007 original size:19 final size:19
Alignment explanation
Indices: 21605959--21606007 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
21605949 AGACATAAGA
*
21605959 TTTTAATATATAGTTGTGT
1 TTTTAATATACAGTTGTGT
21605978 TTATTATATATACATGTTGTG-
1 TT-TTA-ATATACA-GTTGTGT
21605999 TTTTAATAT
1 TTTTAATAT
21606008 GAAAAAGGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 6 0.23
20 6 0.23
21 8 0.31
22 6 0.23
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (19 bp):
TTTTAATATACAGTTGTGT
Found at i:21606988 original size:19 final size:19
Alignment explanation
Indices: 21606953--21607000 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
21606943 GGCAGTTTCT
21606953 CACCACCACC-ACCTCCAC
1 CACCACCACCTACCTCCAC
* *
21606971 CTCCACCACCTTCCTCCAC
1 CACCACCACCTACCTCCAC
21606990 CACCACCACCT
1 CACCACCACCT
21607001 CCTAATCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.23, C:0.65, G:0.00, T:0.12
Consensus pattern (19 bp):
CACCACCACCTACCTCCAC
Found at i:21610416 original size:14 final size:15
Alignment explanation
Indices: 21610397--21610426 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21610387 CTTTTTCCAA
21610397 AAGTAT-CCCTATAT
1 AAGTATCCCCTATAT
21610411 AAGTATCCCCTATAT
1 AAGTATCCCCTATAT
21610426 A
1 A
21610427 TTTATTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (15 bp):
AAGTATCCCCTATAT
Found at i:21614265 original size:46 final size:45
Alignment explanation
Indices: 21614212--21614384 Score: 161
Period size: 46 Copynumber: 3.8 Consensus size: 45
21614202 TTGGGCATCC
*
21614212 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCA
*** * * *
21614258 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCA
* * * *
21614305 GAACTTGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAACGCCA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCA
* *
21614351 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21614385 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 60 0.60
47 30 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.29
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCA
Found at i:21614364 original size:93 final size:93
Alignment explanation
Indices: 21614205--21614377 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
21614195 AGGATATTTG
* * * *
21614205 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCAGAACTCGTTGAG
21614270 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
21614298 GGCATCCGAACTTGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAACGCCAGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCAGAACTCGTTGAG
21614363 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
21614378 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCAGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:21627478 original size:25 final size:25
Alignment explanation
Indices: 21627428--21627478 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
21627418 TTCCTTATAA
**
21627428 ACTTTAAATTAGGAATTCTATGAGG
1 ACTTTAAATTAGGAATTAGATGAGG
*
21627453 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATGAGG
21627478 A
1 A
21627479 TTTTCCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATGAGG
Found at i:21632146 original size:25 final size:25
Alignment explanation
Indices: 21632096--21632146 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
21632086 TTCCTTATAA
**
21632096 ACTTTAAATTAGGAATTCTATGAGG
1 ACTTTAAATTAGGAATTAGATGAGG
*
21632121 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATGAGG
21632146 A
1 A
21632147 TTTTCCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATGAGG
Found at i:21638182 original size:12 final size:12
Alignment explanation
Indices: 21638165--21638191 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21638155 TTAATAGTTG
21638165 ATTGTCAAAATC
1 ATTGTCAAAATC
21638177 ATTGTCAAAATC
1 ATTGTCAAAATC
21638189 ATT
1 ATT
21638192 ACAATCTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (12 bp):
ATTGTCAAAATC
Found at i:21638705 original size:12 final size:12
Alignment explanation
Indices: 21638688--21638712 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21638678 ACACACACAC
21638688 ACACGTATATAT
1 ACACGTATATAT
21638700 ACACGTATATAT
1 ACACGTATATAT
21638712 A
1 A
21638713 TATTACTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ACACGTATATAT
Found at i:21640011 original size:19 final size:18
Alignment explanation
Indices: 21639980--21640019 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
21639970 AGGGCCACCA
21639980 TGCAACAAGCAAAATCCT
1 TGCAACAAGCAAAATCCT
* *
21639998 TGCACACAATCAAAATGCT
1 TGCA-ACAAGCAAAATCCT
21640017 TGC
1 TGC
21640020 CTTCATGCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.20
Consensus pattern (18 bp):
TGCAACAAGCAAAATCCT
Found at i:21652521 original size:66 final size:66
Alignment explanation
Indices: 21652415--21652540 Score: 207
Period size: 66 Copynumber: 1.9 Consensus size: 66
21652405 AGTTGGAAAC
*
21652415 GATGGCATTGTCTTTAAGAGTGGACATTTCATGACCGATAGTCTCTTGAGGCAAGGGAAACCAAA
1 GATGGCATTGTCTTTAAGAGTGGACAATTCATGACCGATAGTCTCTTGAGGCAAGGGAAACCAAA
21652480 G
66 G
* ** *
21652481 GATGGCATTGTTTTTAAGAGTGGACAATTCATGATGGATAGTTTCTTGAGGCAAGGGAAA
1 GATGGCATTGTCTTTAAGAGTGGACAATTCATGACCGATAGTCTCTTGAGGCAAGGGAAA
21652541 GCTTCTGTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.29
Consensus pattern (66 bp):
GATGGCATTGTCTTTAAGAGTGGACAATTCATGACCGATAGTCTCTTGAGGCAAGGGAAACCAAA
G
Found at i:21656789 original size:264 final size:265
Alignment explanation
Indices: 21656318--21656852 Score: 817
Period size: 264 Copynumber: 2.0 Consensus size: 265
21656308 AAAAACATGA
*
21656318 ATATTCATCATAATTTTATTAGATCCAAGATCGATGGAAACATGTGTCTTGCAAATAATGCTACA
1 ATATTCATCATAATTTTATTAGATCCAAGATCGATGGAAACATGTGTCTTGCAAATAATGCAACA
* * * *
21656383 ATACATACTATATTAAAAAATTAAAAATATTTTTCTCATTTGATAATGAGTGATGCTTATATTAA
66 ATACATACTATACTAAAAAATTAAAAATATTCTTCTCATTTGACAAAGAGTGATGCTTATATTAA
*
21656448 TACCATATCAGGTAATTCAAAACTTATTGAAAGCTCCGAAAGAGCTAATATATTATTATCCAAAG
131 TACAATATCAGGTAATTCAAAACTTATTGAAAGCTCCGAAAGAGCTAATATATTATTATCCAAAG
* * * *
21656513 GGACAGAAATTGTCACTGATGATGCTTTATTTTCTACTAAATCT-AAAAGAAATTTATTGAGTTT
196 GGACAAAAATTGTCACTGATGATACTTTATTTTCAACTAAATCTAAAAAAAAATTTATTGAGTTT
21656577 TAAAG
261 TAAAG
* * *
21656582 ATATTCA-CTATAATTTTATTAGATCCAAGATCGATGGAAACATGTGTTTTGCAAATAGTGGAAC
1 ATATTCATC-ATAATTTTATTAGATCCAAGATCGATGGAAACATGTGTCTTGCAAATAATGCAAC
* * * *
21656646 AATACATGCTATACTAAAATAATATATATATATTCTTCTTATTTGACAAAGAGTGATGCTTATAT
65 AATACATACTATACTAAAA-AAT-TAAAAATATTCTTCTCATTTGACAAAGAGTGATGCTTATAT
* * *
21656711 TAATACAATATCAGGTAATTC-AAA-TTATTGAAAGCTCTGAAAGAGCTATTATATTATTATCTA
128 TAATACAATATCAGGTAATTCAAAACTTATTGAAAGCTCCGAAAGAGCTAATATATTATTATCCA
* *
21656774 AAGGGATAAAAATTGTCATTGATGATACTTTATTTTCAACTAAATCTAAAAAAAAATTTATTGAG
193 AAGGGACAAAAATTGTCACTGATGATACTTTATTTTCAACTAAATCTAAAAAAAAATTTATTGAG
21656839 TTTTAAAG
258 TTTTAAAG
21656847 ATATTC
1 ATATTC
21656853 GCCTTAATAG
Statistics
Matches: 245, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
263 1 0.00
264 153 0.62
265 36 0.15
266 55 0.22
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (265 bp):
ATATTCATCATAATTTTATTAGATCCAAGATCGATGGAAACATGTGTCTTGCAAATAATGCAACA
ATACATACTATACTAAAAAATTAAAAATATTCTTCTCATTTGACAAAGAGTGATGCTTATATTAA
TACAATATCAGGTAATTCAAAACTTATTGAAAGCTCCGAAAGAGCTAATATATTATTATCCAAAG
GGACAAAAATTGTCACTGATGATACTTTATTTTCAACTAAATCTAAAAAAAAATTTATTGAGTTT
TAAAG
Found at i:21657335 original size:15 final size:15
Alignment explanation
Indices: 21657312--21657341 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21657302 ATGCTTAGTT
*
21657312 ATTTGTTTTTATTTA
1 ATTTATTTTTATTTA
21657327 ATTTATTTTTATTTA
1 ATTTATTTTTATTTA
21657342 GTTTTTCATA
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:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (15 bp):
ATTTATTTTTATTTA
Found at i:21663300 original size:15 final size:15
Alignment explanation
Indices: 21663277--21663306 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21663267 GAGTCCTAAG
*
21663277 AAAATAGAAATAGAA
1 AAAACAGAAATAGAA
21663292 AAAACAGAAATAGAA
1 AAAACAGAAATAGAA
21663307 TTTTTAGGTT
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:0.73, C:0.03, G:0.13, T:0.10
Consensus pattern (15 bp):
AAAACAGAAATAGAA
Found at i:21664080 original size:18 final size:18
Alignment explanation
Indices: 21664057--21664097 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
21664047 AGCAGATAAA
*
21664057 TCCTAATCAAGGATTTAC
1 TCCTAACCAAGGATTTAC
*
21664075 TCCTAACCAATGATTTAC
1 TCCTAACCAAGGATTTAC
21664093 TCCTA
1 TCCTA
21664098 TATTAACATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (18 bp):
TCCTAACCAAGGATTTAC
Found at i:21687171 original size:16 final size:15
Alignment explanation
Indices: 21687145--21687174 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
21687135 TAGATTTGAG
21687145 ATTAAAAAATAAAAT
1 ATTAAAAAATAAAAT
21687160 ATTAATAAAATAAAA
1 ATTAA-AAAATAAAA
21687175 AATATATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
ATTAAAAAATAAAAT
Found at i:21688805 original size:29 final size:29
Alignment explanation
Indices: 21688773--21688828 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
21688763 AGAGAGAGAT
21688773 AGAATATGGTATTTATTATTCTCTTATAC
1 AGAATATGGTATTTATTATTCTCTTATAC
*
21688802 AGAATATGGTATTTGTTATTCTCTTAT
1 AGAATATGGTATTTATTATTCTCTTAT
21688829 CTGGCCTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (29 bp):
AGAATATGGTATTTATTATTCTCTTATAC
Found at i:21692874 original size:24 final size:24
Alignment explanation
Indices: 21692842--21692889 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
21692832 TCATGGGGAA
21692842 GGAAGTAGGCAGATAATTTGGACT
1 GGAAGTAGGCAGATAATTTGGACT
21692866 GGAAGTAGGCAGATAATTTGGACT
1 GGAAGTAGGCAGATAATTTGGACT
21692890 AAGAAAGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.33, T:0.25
Consensus pattern (24 bp):
GGAAGTAGGCAGATAATTTGGACT
Found at i:21697564 original size:25 final size:25
Alignment explanation
Indices: 21697509--21697566 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
21697499 AAATATGATT
*
21697509 TAAAAATAAAAATAAAAATAACATG
1 TAAAAATAAAAATAAAAATAACATA
21697534 TGAAAAATAAAATATAAAGAA-AACA-A
1 T-AAAAATAAAA-ATAAA-AATAACATA
21697560 TAAAAAT
1 TAAAAAT
21697567 TTGACTTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 7 0.24
26 11 0.38
27 9 0.31
28 2 0.07
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.19
Consensus pattern (25 bp):
TAAAAATAAAAATAAAAATAACATA
Found at i:21703753 original size:16 final size:16
Alignment explanation
Indices: 21703708--21703753 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
21703698 CAAAAGAGTT
*
21703708 AAATAATTATTTTACAA
1 AAATAATTA-TTTAAAA
21703725 AAAT-ATTGA-TTAAAA
1 AAATAATT-ATTTAAAA
21703740 AAATAATTATTTAA
1 AAATAATTATTTAA
21703754 CTCTATTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 10 0.40
16 10 0.40
17 5 0.20
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
AAATAATTATTTAAAA
Found at i:21703866 original size:8 final size:8
Alignment explanation
Indices: 21703855--21703895 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
21703845 ATTCAAATGA
21703855 TAAAAATT
1 TAAAAATT
21703863 T-AAAATT
1 TAAAAATT
21703870 TAAAAATT
1 TAAAAATT
21703878 ATAAAAA-T
1 -TAAAAATT
21703886 TAATAAATT
1 TAA-AAATT
21703895 T
1 T
21703896 TTTAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 10 0.34
8 11 0.38
9 8 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TAAAAATT
Found at i:21703867 original size:24 final size:24
Alignment explanation
Indices: 21703849--21703895 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
21703839 AAAAATATTC
21703849 AAATGATAAAAATTTAAAATTTAA
1 AAATGATAAAAATTTAAAATTTAA
* *
21703873 AAATTATAAAAATTAATAAATTT
1 AAATGATAAAAATTTA-AAATTT
21703896 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
AAATGATAAAAATTTAAAATTTAA
Found at i:21703891 original size:10 final size:9
Alignment explanation
Indices: 21703819--21703892 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 9
21703809 TGTCGCATCA
21703819 ATAAATAATT
1 ATAAA-AATT
*
21703829 -TAAAATTT
1 ATAAAAATT
21703837 ATAAAAA-T
1 ATAAAAATT
** *
21703845 ATTCAAATG
1 ATAAAAATT
21703854 ATAAAAATT
1 ATAAAAATT
21703863 -T-AAAATT
1 ATAAAAATT
21703870 -TAAAAATT
1 ATAAAAATT
21703878 ATAAAAATT
1 ATAAAAATT
21703887 AATAAA
1 -ATAAA
21703893 TTTTTTAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
7 7 0.14
8 16 0.31
9 23 0.45
10 5 0.10
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:21718328 original size:31 final size:31
Alignment explanation
Indices: 21718290--21718354 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
21718280 TACAAAACAA
* *
21718290 TCATTGAACTATTCAAAATTTTTTATTTAAG
1 TCATTGAACTAGTCAAAAGTTTTTATTTAAG
*
21718321 TCATTGAACTAGTCGAAAGTTTTTATTTAAG
1 TCATTGAACTAGTCAAAAGTTTTTATTTAAG
21718352 TCA
1 TCA
21718355 CTAGACTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (31 bp):
TCATTGAACTAGTCAAAAGTTTTTATTTAAG
Found at i:21725911 original size:25 final size:25
Alignment explanation
Indices: 21725857--21725911 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
21725847 ATCCGAGTAA
* * * *
21725857 AATTATTTTAGTTTTATTTTTTTTAT
1 AATT-TTTTAGGTTTAATATTTTAAT
21725883 -ATTTTTTAGGTTTAATATTTTAAT
1 AATTTTTTAGGTTTAATATTTTAAT
21725907 AATTT
1 AATTT
21725912 AATCGTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.67
Consensus pattern (25 bp):
AATTTTTTAGGTTTAATATTTTAAT
Found at i:21730953 original size:22 final size:22
Alignment explanation
Indices: 21730920--21730963 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
21730910 TGTATGTATG
* *
21730920 TATTTGTATTTAGTCTTTTAAT
1 TATTTGTATTTAATATTTTAAT
21730942 TATTT-TATTTTAATATTTTAAT
1 TATTTGTA-TTTAATATTTTAAT
21730964 GCTATATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (22 bp):
TATTTGTATTTAATATTTTAAT
Found at i:21730996 original size:3 final size:3
Alignment explanation
Indices: 21730988--21731014 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21730978 TATATATCAA
21730988 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
21731015 CATAGTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:21731305 original size:12 final size:12
Alignment explanation
Indices: 21731290--21731359 Score: 62
Period size: 12 Copynumber: 6.1 Consensus size: 12
21731280 TTTAATATTA
21731290 TATTATATATAT
1 TATTATATATAT
21731302 TATTATATATAT
1 TATTATATATAT
21731314 T-TTA-ATATTAT
1 TATTATATA-TAT
21731325 TAGTTATATAT-T
1 TA-TTATATATAT
21731337 T-TT-TATACTAT
1 TATTATATA-TAT
*
21731348 TA-TATGTATAT
1 TATTATATATAT
21731359 T
1 T
21731360 TCTAATATTA
Statistics
Matches: 49, Mismatches: 1, Indels: 17
0.73 0.01 0.25
Matches are distributed among these distances:
9 4 0.08
10 6 0.12
11 14 0.29
12 18 0.37
13 4 0.08
14 3 0.06
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (12 bp):
TATTATATATAT
Found at i:21731316 original size:34 final size:35
Alignment explanation
Indices: 21731278--21731343 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
21731268 TGTAAATAAA
21731278 ATTTTAATATTA-TA-TTATATATATTATTATATAT
1 ATTTTAATATTATTAGTTATATAT-TTATTATATAT
*
21731312 ATTTTAATATTATTAGTTATATATTTTTTATA
1 ATTTTAATATTATTAGTTATATATTTATTATA
21731344 CTATTATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 12 0.41
35 9 0.31
36 8 0.28
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (35 bp):
ATTTTAATATTATTAGTTATATATTTATTATATAT
Found at i:21731339 original size:23 final size:22
Alignment explanation
Indices: 21731298--21731402 Score: 108
Period size: 23 Copynumber: 4.8 Consensus size: 22
21731288 TATATTATAT
21731298 ATATTATTA-TATATATTT-TA
1 ATATTATTATTATATATTTCTA
* *
21731318 ATATTATTAGTTATATATTTTTT
1 ATATTATTA-TTATATATTTCTA
* *
21731341 ATACTATTATATGTATATTTCTA
1 ATATTATTAT-TATATATTTCTA
*
21731364 ATATTA-TATTGTATATTTCTA
1 ATATTATTATTATATATTTCTA
*
21731385 ATACTATTATTTATATAT
1 ATATTATTA-TTATATAT
21731403 ATATGTGTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
20 9 0.13
21 17 0.24
22 15 0.21
23 30 0.42
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (22 bp):
ATATTATTATTATATATTTCTA
Found at i:21731404 original size:46 final size:46
Alignment explanation
Indices: 21731299--21731404 Score: 137
Period size: 46 Copynumber: 2.3 Consensus size: 46
21731289 ATATTATATA
* *
21731299 TATTATTATATATATTTTAATATTATTAGTTATATATTTTTTATAC
1 TATTATTATATATATTTTAATATTATTAGTTATATATTTCTAATAC
* *
21731345 TATTA-TATGTATATTTCTAATATTA-TA-TTGTATATTTCTAATAC
1 TATTATTATATATATTT-TAATATTATTAGTTATATATTTCTAATAC
21731389 TATTATTTATATATAT
1 TATTA-TTATATATAT
21731405 ATGTGTAAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
44 19 0.37
45 12 0.23
46 21 0.40
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (46 bp):
TATTATTATATATATTTTAATATTATTAGTTATATATTTCTAATAC
Found at i:21733711 original size:16 final size:16
Alignment explanation
Indices: 21733645--21733716 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 16
21733635 AAAACATTTA
21733645 TTTATTTTTATATATT
1 TTTATTTTTATATATT
* *
21733661 TTTAAATTGTATATATT
1 TTT-ATTTTTATATATT
* * *
21733678 ATTTATTGCTAACAATATT
1 -TTTATT-TTTA-TATATT
21733697 TTTATTTTTATATATT
1 TTTATTTTTATATATT
21733713 TTTA
1 TTTA
21733717 AAAATATTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
16 12 0.29
17 15 0.36
18 10 0.24
19 5 0.12
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTATTTTTATATATT
Found at i:21733722 original size:28 final size:28
Alignment explanation
Indices: 21733645--21733725 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 28
21733635 AAAACATTTA
*
21733645 TTTATTTTTATATATTTTT--AAAT-TG
1 TTTATTTTTATATATTTTTAAAAATATT
* * * ** *
21733670 TATA-TATTATTTATTGCTAACAATATT
1 TTTATTTTTATATATTTTTAAAAATATT
21733697 TTTATTTTTATATATTTTTAAAAATATT
1 TTTATTTTTATATATTTTTAAAAATATT
21733725 T
1 T
21733726 ATATATTTCT
Statistics
Matches: 39, Mismatches: 13, Indels: 5
0.68 0.23 0.09
Matches are distributed among these distances:
24 10 0.26
25 3 0.08
26 3 0.08
27 4 0.10
28 19 0.49
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTATTTTTATATATTTTTAAAAATATT
Found at i:21736983 original size:16 final size:16
Alignment explanation
Indices: 21736957--21736997 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
21736947 ATATTTTAAA
* *
21736957 TTAATTTTTAATTTTT
1 TTAACTTTTAATTATT
*
21736973 TTTACTTTTAATTATT
1 TTAACTTTTAATTATT
21736989 TTAACTTTT
1 TTAACTTTT
21736998 CTATAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (16 bp):
TTAACTTTTAATTATT
Found at i:21740935 original size:16 final size:16
Alignment explanation
Indices: 21740902--21740935 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21740892 TCTGGTTGTT
* *
21740902 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
21740918 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
21740934 AA
1 AA
21740936 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:21743761 original size:21 final size:21
Alignment explanation
Indices: 21743735--21743775 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21743725 AGACGAGCAA
* *
21743735 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
21743756 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
21743776 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:21745714 original size:16 final size:16
Alignment explanation
Indices: 21745681--21745714 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21745671 GGAGATTGTT
* *
21745681 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
21745697 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
21745713 AA
1 AA
21745715 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:21748811 original size:3 final size:3
Alignment explanation
Indices: 21748803--21748835 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
21748793 TTTACAAAGC
21748803 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21748836 GATATAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21749054 original size:13 final size:13
Alignment explanation
Indices: 21749032--21749062 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21749022 TAATTCATAA
*
21749032 AAAAATAAAATAT
1 AAAAAGAAAATAT
21749045 AAAAAGAAAATAT
1 AAAAAGAAAATAT
21749058 AAAAA
1 AAAAA
21749063 CTTTCAGAAA
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:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (13 bp):
AAAAAGAAAATAT
Found at i:21772023 original size:41 final size:41
Alignment explanation
Indices: 21772007--21772200 Score: 345
Period size: 41 Copynumber: 4.8 Consensus size: 41
21771997 CTTATAGCTT
* *
21772007 GATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCT
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
21772048 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
*
21772089 GATTCAAATCACCGGCACGTAGCCTACTAGG-TTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
*
21772129 GATTCAAATCACCGGCACGTAGTCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
21772170 GATTCAAATCACCGGCACGTAGCCTGCTAGG
1 GATTCAAATCACCGGCACGTAGCCTGCTAGG
21772201 CGCTTAGCCT
Statistics
Matches: 146, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 38 0.26
41 108 0.74
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
Found at i:21772159 original size:81 final size:82
Alignment explanation
Indices: 21772007--21772200 Score: 345
Period size: 81 Copynumber: 2.4 Consensus size: 82
21771997 CTTATAGCTT
* *
21772007 GATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAAATCACCGGCACGTAGCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCCGATTCAAATCACCGGCACGTAGCC
21772072 TGCTAGGTTTATAACCC
66 TGCTAGGTTTATAACCC
* *
21772089 GATTCAAATCACCGGCACGTAGCCTACTAGG-TTATAACCCGATTCAAATCACCGGCACGTAGTC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCCGATTCAAATCACCGGCACGTAGCC
21772153 TGCTAGGTTTATAACCC
66 TGCTAGGTTTATAACCC
21772170 GATTCAAATCACCGGCACGTAGCCTGCTAGG
1 GATTCAAATCACCGGCACGTAGCCTGCTAGG
21772201 CGCTTAGCCT
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 78 0.73
82 29 0.27
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (82 bp):
GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCCGATTCAAATCACCGGCACGTAGCC
TGCTAGGTTTATAACCC
Found at i:21772850 original size:12 final size:12
Alignment explanation
Indices: 21772833--21772858 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21772823 TATTAGCATT
21772833 ATATATATATAC
1 ATATATATATAC
21772845 ATATATATATAC
1 ATATATATATAC
21772857 AT
1 AT
21772859 GCTTATTCGA
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATATATATAC
Found at i:21773788 original size:16 final size:19
Alignment explanation
Indices: 21773753--21773791 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
21773743 TATGTTTTGT
21773753 TTTATTATATTATACATTA
1 TTTATTATATTATACATTA
21773772 TTTATTA-ATT-TAC-TTA
1 TTTATTATATTATACATTA
21773788 TTTA
1 TTTA
21773792 ACCTTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 3 0.15
18 3 0.15
19 7 0.35
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATTATATTATACATTA
Found at i:21779817 original size:41 final size:41
Alignment explanation
Indices: 21779801--21779994 Score: 363
Period size: 41 Copynumber: 4.8 Consensus size: 41
21779791 CTTATAGCTT
* *
21779801 GATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCT
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
21779842 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAA-CC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
21779882 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
21779923 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
21779964 GATTCAAATCACCGGCACGTAGCCTGCTAGG
1 GATTCAAATCACCGGCACGTAGCCTGCTAGG
21779995 CGCTTAGCCT
Statistics
Matches: 150, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
40 39 0.26
41 111 0.74
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
Found at i:21779900 original size:81 final size:82
Alignment explanation
Indices: 21779801--21779994 Score: 363
Period size: 81 Copynumber: 2.4 Consensus size: 82
21779791 CTTATAGCTT
* *
21779801 GATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAAATCACCGGCACGTAGCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCCGATTCAAATCACCGGCACGTAGCC
21779866 TGCTAGGTTTATAA-CC
66 TGCTAGGTTTATAACCC
21779882 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCCGATTCAAATCACCGGCACGTAGCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCCGATTCAAATCACCGGCACGTAGCC
21779947 TGCTAGGTTTATAACCC
66 TGCTAGGTTTATAACCC
21779964 GATTCAAATCACCGGCACGTAGCCTGCTAGG
1 GATTCAAATCACCGGCACGTAGCCTGCTAGG
21779995 CGCTTAGCCT
Statistics
Matches: 110, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
81 77 0.70
82 33 0.30
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (82 bp):
GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCCGATTCAAATCACCGGCACGTAGCC
TGCTAGGTTTATAACCC
Found at i:21780644 original size:12 final size:12
Alignment explanation
Indices: 21780627--21780652 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21780617 TATTAGCATT
21780627 ATATATATATAC
1 ATATATATATAC
21780639 ATATATATATAC
1 ATATATATATAC
21780651 AT
1 AT
21780653 GCTTATTCGA
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATATATATAC
Found at i:21781579 original size:16 final size:19
Alignment explanation
Indices: 21781544--21781582 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
21781534 TATGTTTTGT
21781544 TTTATTATATTATACATTA
1 TTTATTATATTATACATTA
21781563 TTTATTA-ATT-TAC-TTA
1 TTTATTATATTATACATTA
21781579 TTTA
1 TTTA
21781583 ACCTTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 3 0.15
18 3 0.15
19 7 0.35
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATTATATTATACATTA
Found at i:21782584 original size:42 final size:42
Alignment explanation
Indices: 21782535--21782644 Score: 145
Period size: 42 Copynumber: 2.6 Consensus size: 42
21782525 CATAGTTCAA
** *
21782535 CTATGGTCTTACACATCTTCACATAAT-GATGTCATAGCCCAG
1 CTATGGTCTTACACAAATTCACAT-ATCGATGTCATAGACCAG
*
21782577 CTATGGTCTTACACAAATTCATATATCGATGTCATAGACCAG
1 CTATGGTCTTACACAAATTCACATATCGATGTCATAGACCAG
21782619 CTATGGTCTTACACGAAA--CACATATC
1 CTATGGTCTTACAC-AAATTCACATATC
21782645 TCACTGATGC
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 9 0.15
42 49 0.80
43 3 0.05
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
CTATGGTCTTACACAAATTCACATATCGATGTCATAGACCAG
Found at i:21782779 original size:31 final size:31
Alignment explanation
Indices: 21782744--21782892 Score: 201
Period size: 31 Copynumber: 4.8 Consensus size: 31
21782734 CTTGTCACTT
*
21782744 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
21782775 GTAGCC-AGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* *
21782806 GTAGCCGGAGCTACCACTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * *
21782837 GTAGCAGATGCTACCACTTTTCGCTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
21782868 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
21782893 TGTCATTTGT
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
30 1 0.01
31 101 0.99
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:21782974 original size:50 final size:51
Alignment explanation
Indices: 21782868--21782996 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
21782858 CGCTGATTAG
* * *
21782868 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAAATAAGT
*
21782919 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAAATAAGT
21782969 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
21782997 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAAATAAGT
Found at i:21785849 original size:17 final size:18
Alignment explanation
Indices: 21785829--21785869 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
21785819 CAAATTTAAT
21785829 AATTAAAAAAATAA-AAA
1 AATTAAAAAAATAACAAA
* *
21785846 AATTAAATAAATAACTAA
1 AATTAAAAAAATAACAAA
21785864 AATTAA
1 AATTAA
21785870 TTTTTTAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AATTAAAAAAATAACAAA
Done.