Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006591.1 Hibiscus syriacus cultivar Beakdansim tig00016170_pilon, whole genome shotgun sequence
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: 156397
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
File 2 of 2
Found at i:28509 original size:13 final size:14
Alignment explanation
Indices: 28472--28509 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
28462 GGTTTTGTGA
*
28472 TTTAGGGTTTAATG
1 TTTAGGGTTTAAAG
28486 TTTAGGGTTTAAAG
1 TTTAGGGTTTAAAG
28500 TTTA-GGTTTA
1 TTTAGGGTTTA
28510 GGGTTTCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTAAAG
Found at i:28635 original size:2 final size:2
Alignment explanation
Indices: 28593--28624 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
28583 TTATATAGTT
28593 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
28625 ACCTATATAT
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):
TA
Found at i:29012 original size:14 final size:14
Alignment explanation
Indices: 28989--29048 Score: 77
Period size: 14 Copynumber: 4.4 Consensus size: 14
28979 TAGAGTTTGT
*
28989 GATTTA-GGTTTAA
1 GATTTAGGGTTTAG
*
29002 TATTTAGGGTTTAG
1 GATTTAGGGTTTAG
*
29016 GGTTTAGGGTTTAG
1 GATTTAGGGTTTAG
*
29030 GATTTAGGATTTAG
1 GATTTAGGGTTTAG
29044 GATTT
1 GATTT
29049 TTATAAACTA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
13 5 0.12
14 35 0.88
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (14 bp):
GATTTAGGGTTTAG
Found at i:29017 original size:539 final size:525
Alignment explanation
Indices: 28043--29150 Score: 1294
Period size: 539 Copynumber: 2.1 Consensus size: 525
28033 TATATATATA
***
28043 TATATAGGTTATATATATATATATATATATATATATATATATAGTTTATATATACTATACATGGT
1 TATATA-GTT-TATATATATATATATATATATATATATATATAACCTATATATACTATACATGGT
28108 TTATACATACATATTATATAAAATTATTTAATAAAATTAATAAATTATTTAAATGTAACTATATA
64 TTATACATACATATTATATAAAATTATTTAATAAAATTAATAAATTATTTAAATGTAACTATATA
28173 AGCATGATTATTAGGTGTTTAAATAATTTGTATGTCACATTGCATTATATGGTTCATAAATAGTA
129 AGCATGATTATTAGGTGTTTAAATAATTTGTATGTCACATTGCATTATATGGTTCATAAATAGTA
*
28238 CATGTCATATTAATTTCATTTGCATCATTAGTAGTTTAGTTGCATGTTCGTAGGTTAATTCACAT
194 CA-GT-ATATTAATTTCATTTACATCATTAGTAGTTTAGTTGCATGTTC-TAGGTTAATTCACAT
* *
28303 TAACAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACAAAAAAAAGTCCATTTTCAT
256 TAACAGCCCATTTATTTTGTTGTTATGAACAAGTAATAATAAAACAAAAAAAAGTCCATTTGCAT
** *
28368 TAGTGCTAGTCCATTTACATTAGTTTACATAGGCCCAATACATAAGGCTACTCTTTATTACAATA
321 TAGTGCTAGT-CAGGTACA-TA--TTACATAAG-CC-ATAC--AA-GCTACTCTTTATTACAATA
* *
28433 TATATGCATTAGTGCTAGTCCATTTATTAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAA
377 TATATGCATTACTGCTAGTCCATTTATTAGGTTTTGTGATTTAGGGTTTAAGGTTTA-GG-----
*
28498 AGTTTAGG-TTTAGGGTTTCTATAAAATACATAATTTATTAC-TTATATA-TTATGCATAATG-T
436 A-TTTAGGATTTAGGATTTCTATAAAATACATAATTTATTACTTTATATAGTTATGCATAATGTT
28559 CTATAA-CTATATAAGTAATTTACTT
500 CTATAAGCTATATAAGTAATTTACTT
*
28584 TATATAGTTTATATATATATATATATATATATATATATATAACCTATATATACTATACATTGTTT
1 TATATAGTTTATATATATATATATATATATATATATATATAACCTATATATACTATACATGGTTT
28649 ATACACTACATATTATAT-AAATTATTTAATAAAATTAATAAAATTATTTAAATGTAAACTATAT
66 ATACA-TACATATTATATAAAATTATTTAATAAAATTAAT-AAATTATTTAAATGT-AACTATAT
28713 AAAGCATGATTATTAGGTG-TTAAATAATTTGTATGTCACATTGCATATTATAT-GTTCATAATT
128 -AAGCATGATTATTAGGTGTTTAAATAATTTGTATGTCACATTGC--ATTATATGGTTCATAA--
* *
28776 GTAGTAC-GT-TATTAATTTCATTTACAT-A-TAGTATTTTAGTTGCATG-T-TAGGTTAATTCA
188 ATAGTACAGTATATTAATTTCATTTACATCATTAGTAGTTTAGTTGCATGTTCTAGGTTAATTCA
* * * *
28835 CATTAATAGCCCATTTATTTTGTTTTTATGAACAAGTAATAATAAAACCCAAAAATAAGTTCATT
253 CATTAACAGCCCATTTATTTTGTTGTTATGAACAAGTAATAATAAAA--CAAAAAAAAGTCCATT
*
28900 TGCATTA-TGCTAGT-AGGTCCA-A-TACATAAG-C-T-C-A-CT-CT-TTTATTACAATATATA
316 TGCATTAGTGCTAGTCAGGTACATATTACATAAGCCATACAAGCTACTCTTTATTACAATATATA
28954 TGCATTACTGCTAGTCCATTTACATTAGAGTTTGTGATTTAGGTTTAATATTTAGGGTTTAGGGT
381 TGCATTACTGCTAGTCCATTT--ATTAG-GTTT-TG---T--G------ATTTAGGGTTTA----
* * *
29019 TTAGGGTTTAGGATTTAGGATTTAGGATTTTTATAAACTATATAATTTATTACTTTATATAGTTT
427 --A-GGTTTAGGATTTAGGATTTAGGATTTCTATAAAATACATAATTTATTACTTTATATAG-TT
* * *
29084 TTTCATAATGTTTCTATAAGCTATATAATTAATTTACTT
488 ATGCATAATG-TTCTATAAGCTATATAAGTAATTTACTT
* *
29123 TATATAGTTTTTATATATGTATATATAT
1 TATATAGTTTATATATATATATATATAT
29151 TTAAAGTTAT
Statistics
Matches: 500, Mismatches: 28, Indels: 80
0.82 0.05 0.13
Matches are distributed among these distances:
517 36 0.07
518 2 0.00
519 7 0.01
520 4 0.01
521 3 0.01
524 2 0.00
525 1 0.00
526 1 0.00
527 1 0.00
529 7 0.01
532 19 0.04
533 30 0.06
534 11 0.02
535 56 0.11
536 17 0.03
537 21 0.04
538 27 0.05
539 128 0.26
540 47 0.09
541 39 0.08
542 28 0.06
543 7 0.01
544 6 0.01
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (525 bp):
TATATAGTTTATATATATATATATATATATATATATATATAACCTATATATACTATACATGGTTT
ATACATACATATTATATAAAATTATTTAATAAAATTAATAAATTATTTAAATGTAACTATATAAG
CATGATTATTAGGTGTTTAAATAATTTGTATGTCACATTGCATTATATGGTTCATAAATAGTACA
GTATATTAATTTCATTTACATCATTAGTAGTTTAGTTGCATGTTCTAGGTTAATTCACATTAACA
GCCCATTTATTTTGTTGTTATGAACAAGTAATAATAAAACAAAAAAAAGTCCATTTGCATTAGTG
CTAGTCAGGTACATATTACATAAGCCATACAAGCTACTCTTTATTACAATATATATGCATTACTG
CTAGTCCATTTATTAGGTTTTGTGATTTAGGGTTTAAGGTTTAGGATTTAGGATTTAGGATTTCT
ATAAAATACATAATTTATTACTTTATATAGTTATGCATAATGTTCTATAAGCTATATAAGTAATT
TACTT
Found at i:29045 original size:7 final size:7
Alignment explanation
Indices: 28989--29048 Score: 68
Period size: 7 Copynumber: 8.7 Consensus size: 7
28979 TAGAGTTTGT
28989 GATTTAG
1 GATTTAG
*
28996 G-TTTAA
1 GATTTAG
*
29002 TATTTAG
1 GATTTAG
*
29009 GGTTTAG
1 GATTTAG
*
29016 GGTTTAG
1 GATTTAG
*
29023 GGTTTAG
1 GATTTAG
29030 GATTTAG
1 GATTTAG
29037 GATTTAG
1 GATTTAG
29044 GATTT
1 GATTT
29049 TTATAAACTA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
6 4 0.09
7 42 0.91
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (7 bp):
GATTTAG
Found at i:29134 original size:48 final size:48
Alignment explanation
Indices: 29050--29142 Score: 136
Period size: 48 Copynumber: 1.9 Consensus size: 48
29040 TTAGGATTTT
*
29050 TATAAACTATATAATTTATTACTTTATATAGTTTTTTCATA-ATGTTTC
1 TATAAACTATATAATTAATTACTTTATATAGTTTTTT-ATATATGTTTC
*
29098 TATAAGCTATATAATTAATTTACTTTATATAG-TTTTTATATATGT
1 TATAAACTATATAATTAA-TTACTTTATATAGTTTTTTATATATGT
29143 ATATATATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
47 3 0.07
48 25 0.61
49 13 0.32
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.54
Consensus pattern (48 bp):
TATAAACTATATAATTAATTACTTTATATAGTTTTTTATATATGTTTC
Found at i:29139 original size:2 final size:2
Alignment explanation
Indices: 29134--29211 Score: 97
Period size: 2 Copynumber: 39.0 Consensus size: 2
29124 ATATAGTTTT
* * *
29134 TA TA TA TG TA TA TA TA TT TA AA GT- 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
29176 TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
29212 CTGGTTTTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
1 2 0.03
2 62 0.94
3 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:29729 original size:28 final size:28
Alignment explanation
Indices: 29698--29760 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
29688 ATTAGGGTTT
** *
29698 GTTTAGGGTTTAAT-GTTTAGTTTTTATG
1 GTTTAGGGTTT-ATGGTTTACATTTTAGG
29726 GTTTAGGGTTTATGGTTTACATTTTAGG
1 GTTTAGGGTTTATGGTTTACATTTTAGG
29754 GTTTAGG
1 GTTTAGG
29761 TTTCTATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.17, C:0.02, G:0.29, T:0.52
Consensus pattern (28 bp):
GTTTAGGGTTTATGGTTTACATTTTAGG
Found at i:29738 original size:14 final size:14
Alignment explanation
Indices: 29698--29744 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
29688 ATTAGGGTTT
29698 GTTTAGGGTTTAAT-
1 GTTTAGGGTTT-ATG
**
29712 GTTTAGTTTTTATG
1 GTTTAGGGTTTATG
29726 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
29740 GTTTA
1 GTTTA
29745 CATTTTAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 2 0.07
14 26 0.93
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:30286 original size:21 final size:21
Alignment explanation
Indices: 30239--30282 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
30229 AGTTTTTTGA
30239 TTTAGGGTTTAATGTTTAGTG
1 TTTAGGGTTTAATGTTTAGTG
30260 TTTAGGGTTT-ATGGTTTAG-G
1 TTTAGGGTTTAAT-GTTTAGTG
30280 TTT
1 TTT
30283 TAGGATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.55
Consensus pattern (21 bp):
TTTAGGGTTTAATGTTTAGTG
Found at i:30898 original size:14 final size:14
Alignment explanation
Indices: 30875--30911 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
30865 GGTTTTGTGA
30875 TTAGGG-TTAATGT
1 TTAGGGTTTAATGT
30888 TTAGGGTTTAATGT
1 TTAGGGTTTAATGT
30902 TTAGGGTTTA
1 TTAGGGTTTA
30912 GGGTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TTAGGGTTTAATGT
Found at i:30917 original size:14 final size:14
Alignment explanation
Indices: 30875--30917 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
30865 GGTTTTGTGA
*
30875 TTAGGG-TTAATGT
1 TTAGGGTTTAAGGT
*
30888 TTAGGGTTTAATGT
1 TTAGGGTTTAAGGT
*
30902 TTAGGGTTTAGGGT
1 TTAGGGTTTAAGGT
30916 TT
1 TT
30918 TTATAAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 6 0.22
14 21 0.78
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.49
Consensus pattern (14 bp):
TTAGGGTTTAAGGT
Found at i:31021 original size:15 final size:15
Alignment explanation
Indices: 30989--31065 Score: 90
Period size: 15 Copynumber: 5.3 Consensus size: 15
30979 GTAATTACTT
*
30989 TATATAGTTTTATATA
1 TATATAGTTAT-TATA
31005 TATATAGTTATTATA
1 TATATAGTTATTATA
31020 TATATA-TATATTATA
1 TATATAGT-TATTATA
*
31035 TATATA--TATAATA
1 TATATAGTTATTATA
31048 TATATAGTT-TTATA
1 TATATAGTTATTATA
31062 TATA
1 TATA
31066 CTATACATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
13 12 0.22
14 9 0.16
15 24 0.44
16 10 0.18
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (15 bp):
TATATAGTTATTATA
Found at i:31065 original size:2 final size:2
Alignment explanation
Indices: 30999--31053 Score: 73
Period size: 2 Copynumber: 29.0 Consensus size: 2
30989 TATATAGTTT
30999 TA TA TA TA TA TA GT- TA T- TA TA TA TA TA TA TA T- 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
31039 TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA
31054 GTTTTATATA
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
1 4 0.08
2 43 0.90
3 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:31070 original size:17 final size:16
Alignment explanation
Indices: 30989--31070 Score: 95
Period size: 17 Copynumber: 5.4 Consensus size: 16
30979 GTAATTACTT
30989 TATATAGTTTTATATA
1 TATATAGTTTTATATA
31005 TATATAGTTATTATATA
1 TATATAGTT-TTATATA
*
31022 TATATA-TATTATATA
1 TATATAGTTTTATATA
31037 TATATA----TA-ATA
1 TATATAGTTTTATATA
31048 TATATAGTTTTATATA
1 TATATAGTTTTATATA
31064 TACTATA
1 TA-TATA
31071 CATGTTTACA
Statistics
Matches: 58, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
11 9 0.16
12 2 0.03
15 15 0.26
16 15 0.26
17 17 0.29
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (16 bp):
TATATAGTTTTATATA
Found at i:31078 original size:19 final size:21
Alignment explanation
Indices: 31002--31077 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
30992 ATAGTTTTAT
*
31002 ATATATATAGTTATTATATATA
1 ATATACATAGTT-TTATATATA
* *
31024 TATATA-TTA-TATATATATATA
1 -ATATACATAGT-TTTATATATA
*
31045 ATATATATAGTTTTATATATA
1 ATATACATAGTTTTATATATA
*
31066 CTATACAT-GTTT
1 ATATACATAGTTT
31078 ACATACATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 9 0.20
21 26 0.59
22 4 0.09
23 5 0.11
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (21 bp):
ATATACATAGTTTTATATATA
Found at i:31465 original size:13 final size:14
Alignment explanation
Indices: 31434--31471 Score: 69
Period size: 13 Copynumber: 2.8 Consensus size: 14
31424 GGTTTTGTGA
31434 TTTAGGGTTTAATG
1 TTTAGGGTTTAATG
31448 TTTAGGGTTTAA-G
1 TTTAGGGTTTAATG
31461 TTTAGGGTTTA
1 TTTAGGGTTTA
31472 GGGTTTCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTAATG
Found at i:31470 original size:7 final size:7
Alignment explanation
Indices: 31434--31477 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
31424 GGTTTTGTGA
31434 TTTAGGG
1 TTTAGGG
**
31441 TTTAATG
1 TTTAGGG
31448 TTTAGGG
1 TTTAGGG
*
31455 TTTA-AG
1 TTTAGGG
31461 TTTAGGG
1 TTTAGGG
31468 TTTAGGG
1 TTTAGGG
31475 TTT
1 TTT
31478 CTATAAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
6 5 0.17
7 25 0.83
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (7 bp):
TTTAGGG
Found at i:31517 original size:2 final size:2
Alignment explanation
Indices: 31504--31607 Score: 110
Period size: 2 Copynumber: 54.0 Consensus size: 2
31494 TTTATTACTT
* *
31504 TA TA TA TT TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA -A T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
31544 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA CA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* *
31586 T- TA TA TA CA TA CA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
31608 AATTATTTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
1 5 0.06
2 78 0.92
3 2 0.02
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:31597 original size:15 final size:16
Alignment explanation
Indices: 31511--31607 Score: 68
Period size: 15 Copynumber: 6.4 Consensus size: 16
31501 CTTTATATAT
31511 TTATATA-TATATC-TA
1 TTATATACTATA-CATA
*
31526 TATATATA-TATATATAA
1 T-TATATACTATACAT-A
*
31543 TTATAT--TATATATA
1 TTATATACTATACATA
*
31557 -TATATA-TATATATA
1 TTATATACTATACATA
*
31571 -TATATACTATACATG
1 TTATATACTATACATA
31586 TTATATAC-ATACATA
1 TTATATACTATACATA
31601 TTATATA
1 TTATATA
31608 AATTATTTAA
Statistics
Matches: 72, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
13 5 0.07
14 15 0.21
15 27 0.38
16 23 0.32
17 2 0.03
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.48
Consensus pattern (16 bp):
TTATATACTATACATA
Found at i:31949 original size:21 final size:21
Alignment explanation
Indices: 31931--31985 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
31921 TAGAGTTTGT
*
31931 GGTTTATGGTTTAATGTTTAG
1 GGTTTAGGGTTTAATGTTTAG
31952 GGTTTAGGGTTT-ATGATTTAG
1 GGTTTAGGGTTTAATG-TTTAG
*
31973 GGTTTAGGATTTA
1 GGTTTAGGGTTTA
31986 GGTTTTAGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (21 bp):
GGTTTAGGGTTTAATGTTTAG
Found at i:31992 original size:7 final size:7
Alignment explanation
Indices: 31931--31994 Score: 65
Period size: 7 Copynumber: 9.1 Consensus size: 7
31921 TAGAGTTTGT
*
31931 GGTTTAT
1 GGTTTAG
*
31938 GGTTTAA
1 GGTTTAG
*
31945 TGTTTAG
1 GGTTTAG
31952 GGTTTAG
1 GGTTTAG
*
31959 GGTTTAT
1 GGTTTAG
*
31966 GATTTAG
1 GGTTTAG
31973 GGTTTAG
1 GGTTTAG
*
31980 GATTTAG
1 GGTTTAG
*
31987 GTTTTAG
1 GGTTTAG
31994 G
1 G
31995 ATTTCTATAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (7 bp):
GGTTTAG
Found at i:31992 original size:14 final size:14
Alignment explanation
Indices: 31946--31998 Score: 79
Period size: 14 Copynumber: 3.8 Consensus size: 14
31936 ATGGTTTAAT
*
31946 GTTTAGGGTTTAGG
1 GTTTAGGATTTAGG
*
31960 GTTTATGATTTAGG
1 GTTTAGGATTTAGG
31974 GTTTAGGATTTAGG
1 GTTTAGGATTTAGG
*
31988 TTTTAGGATTT
1 GTTTAGGATTT
31999 CTATAAACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (14 bp):
GTTTAGGATTTAGG
Found at i:32005 original size:521 final size:498
Alignment explanation
Indices: 30972--31957 Score: 1299
Period size: 521 Copynumber: 1.9 Consensus size: 498
30962 TCTCGATAAC
* *
30972 TATATAAGTAATTACTTTATATAGTTTTATATATATATAGTTATTATATATATATATATTATATA
1 TATATAATTTATTACTTTATATAGTTTTATATATATATAGTTATTATATATATATATATTATATA
*
31037 TATATATAATATATATAGTTTTATATATACTATACATGTTTACATACATATATAAAATTATTATA
66 TATATATAATATATATAG-TATATATATACTATACATGTTTACATACATATATAAAATTATTATA
* *
31102 AACTAATAAATTATTTAAATGTAAACTATATAAGCATGATTAATTAGGTTAAATTATTTGTATGT
130 AACTAATAAAATATTTAAATGTAAACTATATAAGCATGATTAATTAGGTTAAATAATTTGTATGT
* *
31167 CACATTGCATATTATATGGTTAATAAATAGTAGTACATGTCATTAATTTCATTTGCATCATTAGT
195 CACATTGCATATTATATGGTT-ACAAATAGTAGTACATGTCATTAATTTCATTTGCATAATTAGT
31232 AGTTTAGTTGCATGTTAGGTTAATTCACTTAACAGCCCATTTATTTTGTTGTTATGAATAAGTAA
259 AGTTTAGTTGCATGTTAGGTTAATTCACTTAACAGCCCATTTATTTTGTTGTTATGAATAAGTAA
*
31297 TAATAAACAAAAAAATAAGTCCATTTTCATTAGTGCTAGTCCATTTACATTAGTTTACATAGGCC
324 TAATAAACAAAAAAATAAGTCCATTTGCATTAG-GCTAG------T-CA-TAG--T---TAGGCC
* * *
31362 CAATACATAAGGCTACTCTTTTATTACAAATATATAGCATTAGTGCTAGTCCATTTATATTAGGT
375 CAATACATAAGCCCACTCTTTTATTACAAATATATAGCATTAGTGCTAGTCCATTTACATTAGGT
*
31427 TTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAGTTTAGGGTTTAGGGTTTCTATAAAA
440 TTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAGTTTAGGGTTTAGGATTTCTATAAAA
*
31486 TATAATAATTTATTACTTTATATA--TTTATATATATAT--CTATATATATATATATATAATTAT
1 TAT-ATAATTTATTACTTTATATAGTTTTATATATATATAGTTAT-TATATATATATAT-ATTAT
31547 AT-TATATATATATATATATA-TATATATATACTATACATGTTATATACATACATATTATATAAA
63 ATATATATATA-ATATATATAGTATATATATACTATACATG-T-T-TACATACATA-TATA-AAA
*
31610 TTATTTAATAAAATTAATAAAAATATTTAAATGTAAACTATATAAGCATGATTAATTAGGTGTTA
122 TTA-TT-AT-AAACTAAT-AAAATATTTAAATGTAAACTATATAAGCATGATTAATTA-G-GTTA
* *
31675 AATAATTTGTATGTCACA-TGCATATTATATGGTT-CAAATTGTAGTACATGTTATATTAATTTC
181 AATAATTTGTATGTCACATTGCATATTATATGGTTACAAATAGTAGTACATG-T-CATTAATTTC
* *
31738 ATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCC-TTTATTTTGT
244 ATTTGCATAATTAGTAGTTTAGTTGCATGTTAGGTTAATTCAC-TTAACAGCCCATTTATTTTGT
**
31802 TGTTATGAATAAGTAAT-A-AAAC-CCAAAATAAGTCCATTTGCATTA-G-T-G-C-TAG-TAGG
308 TGTTATGAATAAGTAATAATAAACAAAAAAATAAGTCCATTTGCATTAGGCTAGTCATAGTTAGG
* *
31858 CCCAATACATAAGCCCACTCTTTTATTACAAATATATATGTATTAGTGCTAGTCTATTTACATTA
373 CCCAATACATAAGCCCACTCTTTTATTACAAATATATA-GCATTAGTGCTAGTCCATTTACATTA
* *
31923 GAG-TTTGTGGTTTATGGTTTAATGTTTAGGGTTTA
437 G-GTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTA
31958 GGGTTTATGA
Statistics
Matches: 429, Mismatches: 23, Indels: 55
0.85 0.05 0.11
Matches are distributed among these distances:
498 40 0.09
499 54 0.13
500 1 0.00
504 3 0.01
506 1 0.00
511 21 0.05
512 22 0.05
513 30 0.07
514 14 0.03
515 23 0.05
516 7 0.02
517 2 0.00
518 22 0.05
519 25 0.06
520 40 0.09
521 94 0.22
522 30 0.07
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (498 bp):
TATATAATTTATTACTTTATATAGTTTTATATATATATAGTTATTATATATATATATATTATATA
TATATATAATATATATAGTATATATATACTATACATGTTTACATACATATATAAAATTATTATAA
ACTAATAAAATATTTAAATGTAAACTATATAAGCATGATTAATTAGGTTAAATAATTTGTATGTC
ACATTGCATATTATATGGTTACAAATAGTAGTACATGTCATTAATTTCATTTGCATAATTAGTAG
TTTAGTTGCATGTTAGGTTAATTCACTTAACAGCCCATTTATTTTGTTGTTATGAATAAGTAATA
ATAAACAAAAAAATAAGTCCATTTGCATTAGGCTAGTCATAGTTAGGCCCAATACATAAGCCCAC
TCTTTTATTACAAATATATAGCATTAGTGCTAGTCCATTTACATTAGGTTTTGTGATTTAGGGTT
TAATGTTTAGGGTTTAAGTTTAGGGTTTAGGATTTCTATAAAA
Found at i:32144 original size:2 final size:2
Alignment explanation
Indices: 32082--32129 Score: 53
Period size: 2 Copynumber: 24.0 Consensus size: 2
32072 TTATATTGTT
* **
32082 TA TA TA AA TA TA TA TA TA TA TA TA TA TA GG T- 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
32123 TA CTA TA
1 TA -TA TA
32130 CATGGTTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
1 1 0.03
2 36 0.92
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:33243 original size:13 final size:13
Alignment explanation
Indices: 33225--33261 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
33215 CGACCCGTTT
* *
33225 ACCCGTTTACCTG
1 ACCCGTTGACCCG
33238 ACCCGTTGACCCG
1 ACCCGTTGACCCG
33251 ACCCGTTGACC
1 ACCCGTTGACC
33262 GGTGCTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.16, C:0.43, G:0.19, T:0.22
Consensus pattern (13 bp):
ACCCGTTGACCCG
Found at i:33324 original size:29 final size:29
Alignment explanation
Indices: 33262--33337 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
33252 CCCGTTGACC
*** *
33262 GGTGCTATTTTGGGAATTAATTCGGTTTT
1 GGTGCTATTTTGGGAATTAATTCGAAATG
*
33291 TGTGCTATTTTGGGAATTAATTCGAAATG
1 GGTGCTATTTTGGGAATTAATTCGAAATG
*
33320 GGTGCTATTTTGGTAATT
1 GGTGCTATTTTGGGAATT
33338 TTTTTTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.46
Consensus pattern (29 bp):
GGTGCTATTTTGGGAATTAATTCGAAATG
Found at i:40436 original size:10 final size:10
Alignment explanation
Indices: 40421--40475 Score: 69
Period size: 9 Copynumber: 5.6 Consensus size: 10
40411 AACGCTGGAA
40421 ACCGGTTTTG
1 ACCGGTTTTG
*
40431 ACCGG-TTTA
1 ACCGGTTTTG
*
40440 ACCAGTTTTG
1 ACCGGTTTTG
40450 AACCGGTTTTG
1 -ACCGGTTTTG
40461 ACCGG-TTTG
1 ACCGGTTTTG
40470 ACCGGT
1 ACCGGT
40476 CACGACCCGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 16 0.42
10 13 0.34
11 9 0.24
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:40447 original size:19 final size:20
Alignment explanation
Indices: 40420--40458 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
40410 GAACGCTGGA
*
40420 AACCGGTTTTG-ACCGGTTT
1 AACCAGTTTTGAACCGGTTT
40439 AACCAGTTTTGAACCGGTTT
1 AACCAGTTTTGAACCGGTTT
40459 TGACCGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (20 bp):
AACCAGTTTTGAACCGGTTT
Found at i:40458 original size:11 final size:11
Alignment explanation
Indices: 40420--40468 Score: 61
Period size: 10 Copynumber: 4.8 Consensus size: 11
40410 GAACGCTGGA
40420 AACCGGTTTTG
1 AACCGGTTTTG
40431 -ACCGG-TTT-
1 AACCGGTTTTG
*
40439 AACCAGTTTTG
1 AACCGGTTTTG
40450 AACCGGTTTTG
1 AACCGGTTTTG
40461 -ACCGGTTT
1 AACCGGTTT
40469 GACCGGTCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
9 7 0.21
10 16 0.48
11 10 0.30
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.37
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:42282 original size:7 final size:7
Alignment explanation
Indices: 42270--42307 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
42260 GGGTTTGTGT
42270 TTTAGGG
1 TTTAGGG
42277 TTTAGGG
1 TTTAGGG
42284 TTTAGGG
1 TTTAGGG
42291 TTTAGGG
1 TTTAGGG
42298 TTTAGGG
1 TTTAGGG
42305 TTT
1 TTT
42308 CTATAAACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:42415 original size:15 final size:13
Alignment explanation
Indices: 42382--42413 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
42372 TAATTTACTT
42382 TATATAGTTTATA
1 TATATAGTTTATA
*
42395 TATATAGGTTATA
1 TATATAGTTTATA
42408 TATATA
1 TATATA
42414 TATATATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:42453 original size:20 final size:20
Alignment explanation
Indices: 42401--42453 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
42391 TATATATATA
*
42401 GGTTATATATATA-TATATAT
1 GGTT-TATATATACTATACAT
42421 GGTTTATATATACTATACAT
1 GGTTTATATATACTATACAT
*
42441 GGTTTATACATAC
1 GGTTTATATATAC
42454 ATATTATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (20 bp):
GGTTTATATATACTATACAT
Found at i:42471 original size:13 final size:13
Alignment explanation
Indices: 42461--42487 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42451 TACATATTAT
42461 ATAAAATTATTTA
1 ATAAAATTATTTA
42474 ATAAAATTATTTA
1 ATAAAATTATTTA
42487 A
1 A
42488 ATGTAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:42845 original size:21 final size:21
Alignment explanation
Indices: 42821--42873 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
42811 TAGGGTCAAT
**
42821 GTTTAGTGTTTATGTTTTAGG
1 GTTTAGTGTTTACATTTTAGG
42842 GTTTA-TAGTTTACATTTTAGG
1 GTTTAGT-GTTTACATTTTAGG
*
42863 GTTTAGGGTTT
1 GTTTAGTGTTT
42874 CTATAAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.17, C:0.02, G:0.26, T:0.55
Consensus pattern (21 bp):
GTTTAGTGTTTACATTTTAGG
Found at i:42966 original size:20 final size:20
Alignment explanation
Indices: 42943--42995 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
42933 ATAAGTAATT
*
42943 TACTTTATATAGTTTATATA
1 TACTTTATATAGTTTATACA
* * *
42963 TACTATACATGGTTTATACA
1 TACTTTATATAGTTTATACA
42983 TACATATTATATA
1 TAC-T-TTATATA
42996 AAATTATTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 19 0.79
21 1 0.04
22 4 0.17
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (20 bp):
TACTTTATATAGTTTATACA
Found at i:43131 original size:542 final size:527
Alignment explanation
Indices: 42073--43481 Score: 1681
Period size: 542 Copynumber: 2.7 Consensus size: 527
42063 GGGGGTTACA
* *
42073 TTGCATGTTAGGTTAATTCACATTAATAGCCTATTTATTTTGTTGTTATGAATAAATAATAATAA
1 TTGCATGTTAGGTTAATTCACATTAATAGCC-CTTTATTTTGTTGTTATGAATAAGTAATAATAA
* *
42138 AACAAAAAAATAAGTCCATTTGCATTATGCTAGTCCATTTACATTAGGTTACATAGGCCCAATAC
65 AACAAAAAAATAAGTTCATTTGCATTGTGCTA-TCCATTTACATTA-GTTACATAGGCCCAATAC
* * *
42203 ATAAGCCAACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATAATAGGGTTTGT
128 ATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTACATTA-GGTTTGT
* ** * *
42268 GTTTTAGGGTTTAGGGTTTAGGGTTTAGGGTTTAGGGTTTCTATAAACTACATAATTTATTACTT
192 GATTTAGGGTTTAATGTTTAGGGTTTAGGGTTTAGGG----T-T----T--ATAGTTTA-CA-TT
** * * *
42333 TATATAGTTTATGCATAATGTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTAT--AT
244 T-TAGGGTTTA-G-----GGTTTCTATAAACTATATAATTTA-TTACTTTATATAGTTTATGCAT
* ** * *
42396 -AT-ATAGGT---TATAT-A-T-A--TA-TATATATGGTTTATATATACTATACATGGTTTATAC
301 AATGTTCTGTAACTATATAAGTAATTTACTTTATATAGTTTATATATACTATACATGGTTTATAC
42450 ATACATATTATATAAAATTATTTAATAAAATTATTTAAATGTAAACTATATAAAACATGATTAAT
366 ATACATATTATATAAAATTATTTAATAAAATTATTTAAATGTAAACTATATAAAACATGATTAAT
*
42515 TAGGTGTTAAATAATTAGTATGCCATATTGCATATTATATGGTTCATAAATAGTAGTACATGTCA
431 TAGGTGTTAAATAATTAGTATGCCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCA
42580 TATTAATTTCATTTGCAGAATTAGTATTTTAG
496 TATTAATTTCATTTGCAGAATTAGTATTTTAG
*
42612 TTTCATGTTAGGTTAATTCACATTAATAGCCCTTTATTTTGTTGTTATGAATAAGTAATAATAAA
1 TTGCATGTTAGGTTAATTCACATTAATAGCCCTTTATTTTGTTGTTATGAATAAGTAATAATAAA
42677 ACAAAAAAATAAGTTCATTTGCATTGGTGCTATTCCATTTACATTAGTTTACATAGGCCCAATAC
66 ACAAAAAAATAAGTTCATTTGCATT-GTGCTA-TCCATTTACATTAG-TTACATAGGCCCAATAC
* * *
42742 ATAATCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTTCATTTACATTATGGTTTGC
128 ATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTACATTA-GGTTTGT
* * * * *
42807 AATTTAGGG-TCAATGTTTAGTGTTTATGTTTTAGGGTTTATAGTTTACATTTTAGGGTTTAGGG
192 GATTTAGGGTTTAATGTTTAGGGTTTAGGGTTTAGGGTTTATAGTTTACATTTTAGGGTTTAGGG
42871 TTTCTATAAACTATATAATTTATTACTTTATATAGTTTATGCATAATGCTTCTGTAAACTATATA
257 TTTCTATAAACTATATAATTTATTACTTTATATAGTTTATGCATAATG-TTCTGT-AACTATATA
42936 AGTAATTTACTTTATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATT
320 AGTAATTTACTTTATATAGTTTATATATACTATACATGGTTTATACATACATATTATAT-AAA--
*
43001 ATTTAATTAAATTAATAAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTA
382 A-TT-A-T---TTAAT-AAAATTATTTAAATGTAAACTATATAAAACATGATTAATTAGGTGTTA
* *
43066 AATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATTGTAGTACATGTCATATTAATTT
440 AATAATTAGTATGCCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTT
*
43131 CATTTGCATAATTAGTATTTTAG
505 CATTTGCAGAATTAGTATTTTAG
* *
43154 TTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTTTTATGAACAAGTAATAATAA
1 TTGCATGTTAGGTTAATTCACATTAATAGCCC-TTTATTTTGTTGTTATGAATAAGTAATAATAA
** *
43219 AACCCAAAAATAAGTTCATTTGCATTAGTG-----------C--TAG-----TAGGTCCAATACA
65 AACAAAAAAATAAGTTCATTTGCATT-GTGCTATCCATTTACATTAGTTACATAGGCCCAATACA
* *
43266 TAAGCTCACTCTTTTATTACAAATATATATGCATTACTGCTAGTCCATTTACATTAGAGTTTGTG
129 TAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTACATTAG-GTTTGTG
* * * *
43331 ATTTAGGGTTTAATATTTAGGGTTTAGGGTTTAGGG-TT-TAG----GA-TTTAGGATTTAGGAT
193 ATTTAGGGTTTAATGTTTAGGGTTTAGGGTTTAGGGTTTATAGTTTACATTTTAGGGTTTAGGGT
* * *
43389 TTTTATAAACTATATAATTTATTACTTTATATAGTTTTTGCATAATGTTTCTATAAGCTATATAA
258 TTCTATAAACTATATAATTTATTACTTTATATAGTTTATGCATAATG-TTCTGTAA-CTATATAA
43454 GTAATTTACTTTATATAGTTTATATATA
321 GTAATTTACTTTATATAGTTTATATATA
43482 TATGTATATA
Statistics
Matches: 776, Mismatches: 63, Indels: 84
0.84 0.07 0.09
Matches are distributed among these distances:
516 2 0.00
517 117 0.15
518 22 0.03
519 2 0.00
520 2 0.00
522 7 0.01
523 80 0.10
524 29 0.04
525 3 0.00
526 6 0.01
527 8 0.01
528 1 0.00
529 5 0.01
531 3 0.00
532 47 0.06
533 4 0.01
534 1 0.00
535 1 0.00
536 2 0.00
537 1 0.00
538 79 0.10
539 130 0.17
541 5 0.01
542 162 0.21
543 57 0.07
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.43
Consensus pattern (527 bp):
TTGCATGTTAGGTTAATTCACATTAATAGCCCTTTATTTTGTTGTTATGAATAAGTAATAATAAA
ACAAAAAAATAAGTTCATTTGCATTGTGCTATCCATTTACATTAGTTACATAGGCCCAATACATA
AGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTACATTAGGTTTGTGATT
TAGGGTTTAATGTTTAGGGTTTAGGGTTTAGGGTTTATAGTTTACATTTTAGGGTTTAGGGTTTC
TATAAACTATATAATTTATTACTTTATATAGTTTATGCATAATGTTCTGTAACTATATAAGTAAT
TTACTTTATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAA
TAAAATTATTTAAATGTAAACTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGCCA
CATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCAGAATTAGT
ATTTTAG
Found at i:43341 original size:14 final size:14
Alignment explanation
Indices: 43330--43390 Score: 86
Period size: 14 Copynumber: 4.4 Consensus size: 14
43320 TAGAGTTTGT
*
43330 GATTTAGGGTTTAA
1 GATTTAGGGTTTAG
*
43344 TATTTAGGGTTTAG
1 GATTTAGGGTTTAG
*
43358 GGTTTAGGGTTTAG
1 GATTTAGGGTTTAG
*
43372 GATTTAGGATTTAG
1 GATTTAGGGTTTAG
43386 GATTT
1 GATTT
43391 TTATAAACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
GATTTAGGGTTTAG
Found at i:43370 original size:21 final size:21
Alignment explanation
Indices: 43330--43390 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
43320 TAGAGTTTGT
**
43330 GATTTAGGGTTTAATATTTAG
1 GATTTAGGGTTTAGGATTTAG
* *
43351 GGTTTAGGGTTTAGGGTTTAG
1 GATTTAGGGTTTAGGATTTAG
*
43372 GATTTAGGATTTAGGATTT
1 GATTTAGGGTTTAGGATTT
43391 TTATAAACTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (21 bp):
GATTTAGGGTTTAGGATTTAG
Found at i:43387 original size:7 final size:7
Alignment explanation
Indices: 43330--43390 Score: 68
Period size: 7 Copynumber: 8.7 Consensus size: 7
43320 TAGAGTTTGT
43330 GATTTAG
1 GATTTAG
* *
43337 GGTTTAA
1 GATTTAG
*
43344 TATTTAG
1 GATTTAG
*
43351 GGTTTAG
1 GATTTAG
*
43358 GGTTTAG
1 GATTTAG
*
43365 GGTTTAG
1 GATTTAG
43372 GATTTAG
1 GATTTAG
43379 GATTTAG
1 GATTTAG
43386 GATTT
1 GATTT
43391 TTATAAACTA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (7 bp):
GATTTAG
Found at i:43721 original size:15 final size:14
Alignment explanation
Indices: 43684--43712 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
43674 TACCTATTAT
43684 ATAAAATTA-TTTA
1 ATAAAATTATTTTA
43697 ATAAAATTATTTTA
1 ATAAAATTATTTTA
43711 AT
1 AT
43713 GTAAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAAATTATTTTA
Found at i:44064 original size:28 final size:28
Alignment explanation
Indices: 44033--44098 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
44023 GGGTTTGTGA
** *
44033 TTTAGGGTTTAAT-GTTTAGTTTTTATGG
1 TTTAGGGTTT-ATGGTTTACATTTTAGGG
44061 TTTAGGGTTTATGGTTTACATTTTAGGG
1 TTTAGGGTTTATGGTTTACATTTTAGGG
44089 TTTAGGGTTT
1 TTTAGGGTTT
44099 CTATAAACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 2 0.06
28 32 0.94
ACGTcount: A:0.17, C:0.02, G:0.27, T:0.55
Consensus pattern (28 bp):
TTTAGGGTTTATGGTTTACATTTTAGGG
Found at i:44072 original size:14 final size:14
Alignment explanation
Indices: 44020--44098 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
44010 TCTATTTACA
* *
44020 TTAGGGTTTGTGAT
1 TTAGGGTTTATGGT
44034 TTAGGGTTTAAT-GT
1 TTAGGGTTT-ATGGT
**
44048 TTAGTTTTTATGGT
1 TTAGGGTTTATGGT
44062 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
*** *
44076 TTACATTTTAGGGT
1 TTAGGGTTTATGGT
44090 TTAGGGTTT
1 TTAGGGTTT
44099 CTATAAACTA
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
13 2 0.04
14 47 0.94
15 1 0.02
ACGTcount: A:0.16, C:0.01, G:0.29, T:0.53
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:44092 original size:7 final size:7
Alignment explanation
Indices: 44020--44098 Score: 52
Period size: 7 Copynumber: 11.3 Consensus size: 7
44010 TCTATTTACA
44020 TTAGGGT
1 TTAGGGT
*
44027 TT-GTGAT
1 TTAG-GGT
44034 TTAGGGT
1 TTAGGGT
**
44041 TTAATGT
1 TTAGGGT
**
44048 TTAGTTT
1 TTAGGGT
*
44055 TTATGGT
1 TTAGGGT
44062 TTAGGGT
1 TTAGGGT
*
44069 TTATGGT
1 TTAGGGT
***
44076 TTACATT
1 TTAGGGT
44083 TTAGGGT
1 TTAGGGT
44090 TTAGGGT
1 TTAGGGT
44097 TT
1 TT
44099 CTATAAACTA
Statistics
Matches: 53, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
6 1 0.02
7 51 0.96
8 1 0.02
ACGTcount: A:0.16, C:0.01, G:0.29, T:0.53
Consensus pattern (7 bp):
TTAGGGT
Found at i:44197 original size:19 final size:20
Alignment explanation
Indices: 44168--44239 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
44158 ATAAGTAATT
*
44168 TACTTTATATAGTTTATATA
1 TACTATATATAGTTTATATA
44188 TA-TATATATAGTTTATATA
1 TACTATATATAGTTTATATA
* * *
44207 TACTATACATGGTTTATACA
1 TACTATATATAGTTTATATA
44227 TACATATTATATA
1 TAC-TA-TATATA
44240 AAATTATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
19 18 0.42
20 19 0.44
21 2 0.05
22 4 0.09
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.49
Consensus pattern (20 bp):
TACTATATATAGTTTATATA
Found at i:44258 original size:23 final size:25
Alignment explanation
Indices: 44232--44290 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 25
44222 ATACATACAT
44232 ATTATATAAAATTATTTAA-T-AAA
1 ATTATATAAAATTATTTAATTGAAA
*
44255 ATTA-ATAAAAATTATTTAATTGTAA
1 ATTATAT-AAAATTATTTAATTGAAA
44280 ATTATATAAAA
1 ATTATATAAAA
44291 CATGATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 2 0.06
23 16 0.52
24 1 0.03
25 10 0.32
26 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTATATAAAATTATTTAATTGAAA
Found at i:44299 original size:26 final size:25
Alignment explanation
Indices: 44253--44301 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
44243 TTATTTAATA
*
44253 AAATTAATAAAAATTATTTAATTGT
1 AAATTAATAAAAATGATTTAATTGT
44278 AAATTATATAAAACATGA-TTAATT
1 AAATTA-ATAAAA-ATGATTTAATT
44302 AGGTGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 12 0.57
27 3 0.14
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (25 bp):
AAATTAATAAAAATGATTTAATTGT
Found at i:44623 original size:21 final size:21
Alignment explanation
Indices: 44576--44619 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
44566 GAGTTTTTGA
44576 TTTAGGGTTTAATGTTTAGTG
1 TTTAGGGTTTAATGTTTAGTG
44597 TTTAGGGTTT-ATGGTTTAG-G
1 TTTAGGGTTTAAT-GTTTAGTG
44617 TTT
1 TTT
44620 TAGGATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.55
Consensus pattern (21 bp):
TTTAGGGTTTAATGTTTAGTG
Found at i:44729 original size:49 final size:47
Alignment explanation
Indices: 44628--44729 Score: 116
Period size: 49 Copynumber: 2.1 Consensus size: 47
44618 TTTAGGATTT
* * * *
44628 CTATAAACTATATAATTTATTACTTTATATAGTTTATGCATAATGTTT
1 CTATAAACTATATAAGTAATTACTTTATATAGTTTAT-CATAATATTA
*
44676 CTATAAACTATATAAGTAATTTGCTTTATATAGTTTAT-ATATATATATA
1 CTATAAACTATATAAGTAA-TTACTTTATATAGTTTATCATA-ATAT-TA
44725 CTATA
1 CTATA
44730 CATGGTTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
47 3 0.07
48 20 0.43
49 23 0.50
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (47 bp):
CTATAAACTATATAAGTAATTACTTTATATAGTTTATCATAATATTA
Found at i:44928 original size:15 final size:14
Alignment explanation
Indices: 44891--44919 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
44881 GACCTATTAT
44891 ATAAAATTA-TTTA
1 ATAAAATTATTTTA
44904 ATAAAATTATTTTA
1 ATAAAATTATTTTA
44918 AT
1 AT
44920 GTAAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAAATTATTTTA
Found at i:45357 original size:2 final size:2
Alignment explanation
Indices: 45352--45386 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
45342 TAATTTACTT
45352 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
45387 CATGGTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:45774 original size:14 final size:14
Alignment explanation
Indices: 45755--45802 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
45745 TCTGTTTATA
*
45755 TTAGGGTTTGTGAT
1 TTAGGGTTTATGAT
45769 TTAGGGTTTAATG-T
1 TTAGGGTTT-ATGAT
*
45783 TTAGTGTTTATGAT
1 TTAGGGTTTATGAT
45797 TTAGGG
1 TTAGGG
45803 ATCTATAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 3 0.10
14 24 0.83
15 2 0.07
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (14 bp):
TTAGGGTTTATGAT
Found at i:45905 original size:18 final size:19
Alignment explanation
Indices: 45882--45917 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
45872 ATATAGTTTA
45882 TATATATATATAG-GTATG
1 TATATATATATAGTGTATG
45900 TATATATATATAGTGTAT
1 TATATATATATAGTGTAT
45918 ATATTGTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (19 bp):
TATATATATATAGTGTATG
Found at i:45909 original size:528 final size:524
Alignment explanation
Indices: 44901--45893 Score: 1606
Period size: 528 Copynumber: 1.9 Consensus size: 524
44891 ATAAAATTAT
*
44901 TTAATAAAATTATTTTAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
1 TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
*
44966 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGACATATTAATTTCATTTGCATCAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGACATATTAATTTCATTTGCATAAT
45031 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCTATTTATTTTGTTGTTATGAATA
131 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCTATTTATTTTGTTGTTATGAATA
45096 AAAAATAATAAAACAAAAAAATAAGTCTATTTGCATTAGTCCCAGTCCATTTACATTAGTTTACA
196 AAAAATAATAAAACAAAAAAATAAGTCTATTTGCATTAGTCCCAGTCCATTTACATTAGTTTACA
* * *
45161 TAGGCCCAATATATAAGCCCGCTCTTTTATTACAAATATATATGCATTAGTGGTAGTCCATTTAT
261 TAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAT
* * * **
45226 ATTAGGGTTTGTGTTTTAGGGTTTATGGTTTATATTTTAGGGTTTAAGGTTTCTATAAACTACAT
326 ATTAGGGTTTGTGATTTAGGGTTTATGGTTTATAGTTTAGGATTTAAGGGATCTATAAACTA-AT
45291 AATTTATAACTTTATATAGTTTATGCATAATGTTTCTATAAACTATATAAGTAATTTACTTTATA
390 AA-TTAT-A-TTTATATAGTTTATGCATAATGTTTCTATAAACTATATAAGTAATTTACTTTATA
45356 TATATATATATATATATATATATATACTATACATGGTTTATACATACATATTATATAAAATTATT
452 TATATATATATATATATATATATATACTATACATGGTTTATACATACATATTATATAAAATTATT
45421 TAATAAAA
517 TAATAAAA
45429 TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
1 TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
* * * *
45494 GTCACATTTCCTATTATATGGTTCATGAATAGTAGTACATGTCATATTAATTTCATTTGCATAAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGACATATTAATTTCATTTGCATAAT
* *
45559 TATTATTTTAGTTGTATGTTAGGTTAATTCACATTAATAG-CTCATTTATTTTGTTGTTATGAAT
131 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCT-ATTTATTTTGTTGTTATGAAT
** ** * * *
45623 AAGTAATAATAAAACCCAAAAATAAGTCTATTTGCATTAGTGCTAGTTCATTTACATTAGTTTAC
195 AAAAAATAATAAAACAAAAAAATAAGTCTATTTGCATTAGTCCCAGTCCATTTACATTAGTTTAC
**
45688 ATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCTGTTTA
260 ATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTA
*
45753 TATTAGGGTTTGTGATTTAGGGTTTAAT-GTTTAGT-GTTTATGATTT-AGGGATCTATAAACT-
325 TATTAGGGTTTGTGATTTAGGGTTT-ATGGTTTA-TAGTTTAGGATTTAAGGGATCTATAAACTA
*
45814 AT-A-TAT-TTTATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATAT
388 ATAATTATATTTATATAGTTTATGCATAATGTTTCTATAAACTATATAAGTAATTTACTTTATAT
*
45876 AGTTTATATATATATATA
453 A-TATATATATATATATA
45894 GGTATGTATA
Statistics
Matches: 433, Mismatches: 28, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
519 56 0.13
520 15 0.03
522 3 0.01
524 1 0.00
525 2 0.00
527 15 0.03
528 338 0.78
529 3 0.01
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (524 bp):
TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGACATATTAATTTCATTTGCATAAT
TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCTATTTATTTTGTTGTTATGAATA
AAAAATAATAAAACAAAAAAATAAGTCTATTTGCATTAGTCCCAGTCCATTTACATTAGTTTACA
TAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAT
ATTAGGGTTTGTGATTTAGGGTTTATGGTTTATAGTTTAGGATTTAAGGGATCTATAAACTAATA
ATTATATTTATATAGTTTATGCATAATGTTTCTATAAACTATATAAGTAATTTACTTTATATATA
TATATATATATATATATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAAT
AAAA
Found at i:46076 original size:2 final size:2
Alignment explanation
Indices: 46069--46240 Score: 105
Period size: 2 Copynumber: 88.0 Consensus size: 2
46059 CTATAAACTA
* *
46069 AT AT AT AT AT AT AT AT A- AT CT AT AG AT -T ACT -T AT AT -T AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T
* * *
46109 -T AT AC AT AC AT AT AT AT ACT AT AT -T A- AT AT AA AT -T AT A-
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* * * * *
46147 AT TT AT AA ACT AT AT AT -T TT AA AT AGT -T GAT AC AT AT AT AGT
1 AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT -AT AT AT AT AT A-T
*
46189 TT AT AT AT AT 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 AT AT AT AT AT
46231 AT AT AT AT AT
1 AT AT AT AT AT
46241 TAAAAGTAAT
Statistics
Matches: 131, Mismatches: 21, Indels: 36
0.70 0.11 0.19
Matches are distributed among these distances:
1 11 0.08
2 112 0.85
3 8 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:46477 original size:20 final size:19
Alignment explanation
Indices: 46452--46503 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
46442 TTCTATTACA
46452 TCTAAATTTCTCAATTTCCC
1 TCTAAA-TTCTCAATTTCCC
*
46472 TCTAAATTCCCAATTTCCC
1 TCTAAATTCTCAATTTCCC
46491 TCTAAATTCTCAA
1 TCTAAATTCTCAA
46504 ATAAAATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 24 0.80
20 6 0.20
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (19 bp):
TCTAAATTCTCAATTTCCC
Found at i:46582 original size:2 final size:2
Alignment explanation
Indices: 46575--46629 Score: 58
Period size: 2 Copynumber: 27.5 Consensus size: 2
46565 ACTTTGAATA
* * *
46575 AT AT AT AT AT AT AT AT AT AT AT AT A- AA AGT AT AT AC AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
*
46617 TT AT AT AT AT AT A
1 AT AT AT AT AT AT A
46630 ATTAAACATA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
1 1 0.02
2 42 0.95
3 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:47137 original size:2 final size:2
Alignment explanation
Indices: 47132--47210 Score: 140
Period size: 2 Copynumber: 39.0 Consensus size: 2
47122 TTTTATAGTT
*
47132 TA TA TA TA TA TA TA TA TA GTT 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
47175 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
47211 CAATATTAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 73 0.99
3 1 0.01
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:47355 original size:18 final size:19
Alignment explanation
Indices: 47334--47369 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
47324 TATAATAATT
47334 ATATAGTATATA-ATATAA
1 ATATAGTATATATATATAA
*
47352 ATATAGTTTATATATATA
1 ATATAGTATATATATATA
47370 GTTTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (19 bp):
ATATAGTATATATATATAA
Found at i:47366 original size:11 final size:13
Alignment explanation
Indices: 47140--47380 Score: 125
Period size: 13 Copynumber: 18.6 Consensus size: 13
47130 TTTATATATA
47140 TATATATATAGTT
1 TATATATATAGTT
47153 TATATATATA-TAT
1 TATATATATAGT-T
*
47166 ATATATATATA-TA
1 -TATATATATAGTT
*
47179 TATATATATA-TA
1 TATATATATAGTT
*
47191 TATATATATA-TA
1 TATATATATAGTT
* *
47203 TATATATACAATAT
1 TATATATATAGT-T
47217 TAATATAAATTATAGTT
1 T-ATAT--A-TATAGTT
*
47234 TATAAACTATA-TT
1 TATATA-TATAGTT
47247 T-T-TA-ATAGTT
1 TATATATATAGTT
47257 TATACATATATAG-T
1 TAT--ATATATAGTT
*
47271 T-TACATATAGTT
1 TATATATATAGTT
*
47283 TTTATATATAGTT
1 TATATATATAGTT
* * *
47296 CATATAAACATAATT
1 --TATATATATAGTT
*
47311 TATATATATAGCT
1 TATATATATAGTT
47324 TATA-ATA-A--T
1 TATATATATAGTT
*
47333 TATATAGTATA-TAA
1 TATATA-TATAGT-T
*
47347 TATAAATATAGTT
1 TATATATATAGTT
47360 TATATATATAGTT
1 TATATATATAGTT
47373 TATATATA
1 TATATATA
47381 AACTTATATT
Statistics
Matches: 182, Mismatches: 22, Indels: 48
0.72 0.09 0.19
Matches are distributed among these distances:
9 8 0.04
10 4 0.02
11 12 0.07
12 41 0.23
13 63 0.35
14 27 0.15
15 17 0.09
16 3 0.02
17 3 0.02
18 4 0.02
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (13 bp):
TATATATATAGTT
Found at i:47382 original size:30 final size:31
Alignment explanation
Indices: 47333--47398 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
47323 TTATAATAAT
47333 TATATAGTATATAATATAAA--TATAGTTTATA
1 TATATAGTATATAATATAAACTTATA--TTATA
*
47364 TATATAGTTTAT-ATATAAACTTATATTATA
1 TATATAGTATATAATATAAACTTATATTATA
47394 TATAT
1 TATAT
47399 TATGTTTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
30 17 0.53
31 11 0.34
32 4 0.12
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (31 bp):
TATATAGTATATAATATAAACTTATATTATA
Found at i:48530 original size:2 final size:2
Alignment explanation
Indices: 48523--48557 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
48513 ATTAAATTGC
48523 AT AT AT AT 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 AT AT AT AT A
48558 AGAAAGCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:57740 original size:31 final size:31
Alignment explanation
Indices: 57698--57775 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
57688 TTAAAACTTT
* * *
57698 CAATATAGTCCCATAACATTTAATTCGTTTG
1 CAATATGGTCCCACAACATTTAATCCGTTTG
* * *
57729 TAATATGGTCCCCCAACATTTAGTCCGTTTG
1 CAATATGGTCCCACAACATTTAATCCGTTTG
57760 CAATATGGTCCC-CAAC
1 CAATATGGTCCCACAAC
57776 GTAAATATTG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 4 0.10
31 36 0.90
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (31 bp):
CAATATGGTCCCACAACATTTAATCCGTTTG
Found at i:65599 original size:16 final size:17
Alignment explanation
Indices: 65578--65609 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
65568 GAGCTTGACC
65578 CCAACAG-ATTAGAGGA
1 CCAACAGTATTAGAGGA
65594 CCAACAGTATTAGAGG
1 CCAACAGTATTAGAGG
65610 CTAGACAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.16
Consensus pattern (17 bp):
CCAACAGTATTAGAGGA
Found at i:68476 original size:27 final size:27
Alignment explanation
Indices: 68438--68494 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
68428 GTCTGAGTCA
* *
68438 ACCCATTGACTTTGACTGTTGCCTTTG
1 ACCCATTGACTTTGACCGTTGACTTTG
*
68465 ACCCATTTACTTTGACCGTTGACTTTG
1 ACCCATTGACTTTGACCGTTGACTTTG
68492 ACC
1 ACC
68495 AATAAGTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.39
Consensus pattern (27 bp):
ACCCATTGACTTTGACCGTTGACTTTG
Found at i:68491 original size:13 final size:13
Alignment explanation
Indices: 68443--68494 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
68433 AGTCAACCCA
*
68443 TTGACTTTGACTG
1 TTGACTTTGACCG
* *
68456 TTGCCTTTGACCCA
1 TTGACTTTGA-CCG
*
68470 TTTACTTTGACCG
1 TTGACTTTGACCG
68483 TTGACTTTGACC
1 TTGACTTTGACC
68495 AATAAGTCAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
13 22 0.71
14 9 0.29
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.42
Consensus pattern (13 bp):
TTGACTTTGACCG
Found at i:73877 original size:2 final size:2
Alignment explanation
Indices: 73823--73863 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
73813 CAACGGGTAG
73823 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
73864 AAGAAGTTTA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:79626 original size:32 final size:32
Alignment explanation
Indices: 79576--79636 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
79566 TGGGTTTTAA
79576 TGAATGGGGCATCCTAGGGAACATGCCTCCCT
1 TGAATGGGGCATCCTAGGGAACATGCCTCCCT
* * * *
79608 TGAATGGTGTATCGTAGGGAACGTGCCTC
1 TGAATGGGGCATCCTAGGGAACATGCCTC
79637 TCATGATCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.25
Consensus pattern (32 bp):
TGAATGGGGCATCCTAGGGAACATGCCTCCCT
Found at i:85817 original size:21 final size:21
Alignment explanation
Indices: 85791--85835 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
85781 GATTTCTGGG
* *
85791 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
85812 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
85833 CAA
1 CAA
85836 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:87591 original size:23 final size:22
Alignment explanation
Indices: 87532--87598 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
87522 TATGGACATC
*
87532 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
87554 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
87576 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
87599 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:90701 original size:21 final size:21
Alignment explanation
Indices: 90675--90719 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
90665 GATTTCTGGG
* *
90675 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
90696 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
90717 CAA
1 CAA
90720 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:92472 original size:23 final size:22
Alignment explanation
Indices: 92413--92479 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
92403 TATGGACATC
*
92413 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
92435 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
92457 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
92480 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:98389 original size:23 final size:23
Alignment explanation
Indices: 98360--98406 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
98350 GTTCAGGGGT
98360 TAAAATAAAATTTTACTCTTTCA
1 TAAAATAAAATTTTACTCTTTCA
98383 TAAAATAAAATTTTACTCTTTCA
1 TAAAATAAAATTTTACTCTTTCA
98406 T
1 T
98407 TAAACCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAAATAAAATTTTACTCTTTCA
Found at i:98679 original size:20 final size:20
Alignment explanation
Indices: 98643--98680 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
98633 ATCCTATTCG
**
98643 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
98663 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
98681 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:101824 original size:81 final size:81
Alignment explanation
Indices: 101730--102017 Score: 247
Period size: 81 Copynumber: 3.6 Consensus size: 81
101720 ACCTCAAAGT
* * * * * *
101730 ATTTAGCTTTTCATTTAACTTGCATATTTGAC-CCTTTTCTGTCAAATACACAGCTA-ATCCATT
1 ATTTAACTATTCATATAACTGGCATAATTGACACC-TTTCTGCCAAATACACAGCTAGA-CCATT
101793 ATTCTTTTACTCAACGGC
64 ATTCTTTTACTCAACGGC
* * * *
101811 ATTTAACTATTCATATAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGACTATTAT
1 ATTTAACTATTCATATAACTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGACCATTAT
***
101876 TCTTTTACTCAACAAT
66 TCTTTTACTCAACGGC
* ** ** * * * * * * * * *
101892 GTTTAACCGTTCACCTAATTGACATAATTGACACCTTTCTACCGATTGCACAGTTAGGCTATTAT
1 ATTTAACTATTCATATAACTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGACCATTAT
*
101957 TCTTTTACTCAACGGT
66 TCTTTTACTCAACGGC
* * ** *
101973 ATTTAACCATTCATCTAACTCACATAATTGACACCTTTCTACCAA
1 ATTTAACTATTCATATAACTGGCATAATTGACACCTTTCTGCCAA
102018 TTGCACAGTT
Statistics
Matches: 174, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
81 171 0.98
82 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (81 bp):
ATTTAACTATTCATATAACTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGACCATTAT
TCTTTTACTCAACGGC
Found at i:102021 original size:81 final size:81
Alignment explanation
Indices: 101790--102031 Score: 358
Period size: 81 Copynumber: 3.0 Consensus size: 81
101780 CAGCTAATCC
* * * * *
101790 ATTATTCTTTTACTCAACGGCATTTAACTATTCATATAACTGGCATAATTGACACCTTTCTGCCA
1 ATTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTACCA
*
101855 ATTGCACAGTTAGACT
66 ATTGCACAGTTAGGCT
** * * * * *
101871 ATTATTCTTTTACTCAACAATGTTTAACCGTTCACCTAATTGACATAATTGACACCTTTCTACCG
1 ATTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTACCA
101936 ATTGCACAGTTAGGCT
66 ATTGCACAGTTAGGCT
*
101952 ATTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTCACATAATTGACACCTTTCTACCA
1 ATTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTACCA
102017 ATTGCACAGTTAGGC
66 ATTGCACAGTTAGGC
102032 CTCAAAGGAA
Statistics
Matches: 140, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 140 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (81 bp):
ATTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTACCA
ATTGCACAGTTAGGCT
Found at i:102073 original size:68 final size:68
Alignment explanation
Indices: 101982--102440 Score: 740
Period size: 68 Copynumber: 6.8 Consensus size: 68
101972 TATTTAACCA
** * ** * *
101982 TTCATCTAACTCACATAATTGACACCTTTCTACCAATTGCACAGTTAGGCCTCAAAGGAACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
102047 CAT
66 CCT
* *
102050 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAAGCCT-AAAGGCACTTAA
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
102114 CCT
66 CCT
** * *
102117 TTCATCTAACTGGCATAAATGACACCTTTCTAACAAATGCATAGTTAGGTCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
102182 CCT
66 CCT
* *
102185 TTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
102250 CCT
66 CCT
* *
102253 TTCATCTAACTGGCATAAATAACACCTTTATGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
102318 CCT
66 CCT
102321 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
102386 CCT
66 CCT
*
102389 TTCATCTAACTGGCATAAATGACACCTTTCTGTTAAATGCACAGTTAGGCCT
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCT
102441 ATAATCTTTT
Statistics
Matches: 363, Mismatches: 27, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
67 59 0.16
68 304 0.84
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:102785 original size:59 final size:59
Alignment explanation
Indices: 102651--102868 Score: 256
Period size: 59 Copynumber: 3.8 Consensus size: 59
102641 TATATTTACC
* * * *
102651 ATACGGAAATTCATACA-TT-GATATGAATTTCTT---ATTTCA-CACACATAGTGCCC-
1 ATACGAAAAATCATACACTTAG-TATGAATTTCTTAACATTTTAGCACACAAAGTGCCCA
* * *
102704 ATATGAAAACTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTTCCCA
1 ATACGAAAAATCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCA
* * * *
102763 ATAC-ATAAATTCATACACTTAGTATGATTTTCTTAACCTTTTAGCACACATAGTGCCCA
1 ATACGA-AAAATCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCA
102822 ATACGAAAAATCATACACTTAGTATGAATTTCTTAACATTTTA-CACA
1 ATACGAAAAATCATACACTTAGTATGAATTTCTTAACATTTTAGCACA
102869 TTAGTGCCAT
Statistics
Matches: 141, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
53 14 0.10
54 14 0.10
55 1 0.01
57 5 0.04
58 17 0.12
59 89 0.63
60 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (59 bp):
ATACGAAAAATCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCA
Found at i:103365 original size:94 final size:96
Alignment explanation
Indices: 103195--103413 Score: 284
Period size: 95 Copynumber: 2.3 Consensus size: 96
103185 AAGTTCAATA
* * * * *
103195 GTATCGATACCAC-TACCCTGGTACCGATACTT-CTATACTATGGTACAGATACCCCCTTTTGGT
1 GTATCAATACC-CTTACCATGGTATCGATA-TTACCATACTATAGTACAGATACCCCCTTTTGGT
* *
103258 ATCGATACCAATTTTAGTTTCGATG-TTGCCTG
64 ATAGATACCAATTTTAGATTCGATGTTTGCCTG
* *
103290 GTATCAATATCCTTACCATGGTATCGATATTACCATACTATAGTACTGATA-CCCCTTTTGGTAT
1 GTATCAATACCCTTACCATGGTATCGATATTACCATACTATAGTACAGATACCCCCTTTTGGTAT
* *
103354 AGATACCAATTTTAGATTCGATGTTTTCTTG
66 AGATACCAATTTTAGATTCGATGTTTGCCTG
*
103385 GTATCGATACCCTTACCATGGTATCGATA
1 GTATCAATACCCTTACCATGGTATCGATA
103414 CTATCTCGTC
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
94 37 0.34
95 71 0.66
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (96 bp):
GTATCAATACCCTTACCATGGTATCGATATTACCATACTATAGTACAGATACCCCCTTTTGGTAT
AGATACCAATTTTAGATTCGATGTTTGCCTG
Found at i:103427 original size:20 final size:20
Alignment explanation
Indices: 103404--103457 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
103394 CCCTTACCAT
*
103404 GGTATCGATACTATCTC-GTC
1 GGTATCGATACTAT-TCAATC
103424 GGTATCGATACTGATTCAATC
1 GGTATCGATACT-ATTCAATC
*
103445 AGTATCGATACTA
1 GGTATCGATACTA
103458 CTCAGTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (20 bp):
GGTATCGATACTATTCAATC
Found at i:108979 original size:11 final size:12
Alignment explanation
Indices: 108956--108995 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
108946 TATGAACTTA
*
108956 AAAAATATATTT
1 AAAAATATGTTT
108968 AAAAATA-GTTT
1 AAAAATATGTTT
*
108979 AAAAATATTTTT
1 AAAAATATGTTT
108991 AAAAA
1 AAAAA
108996 CGTGGTATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (12 bp):
AAAAATATGTTT
Found at i:110096 original size:12 final size:12
Alignment explanation
Indices: 110069--110108 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
110059 ATTTACTATT
*
110069 ATTATATATTTA
1 ATTATATATTAA
110081 ATTAT-TATTAA
1 ATTATATATTAA
110092 TATTATATATTAA
1 -ATTATATATTAA
110105 ATTA
1 ATTA
110109 AAGTAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 5 0.20
12 14 0.56
13 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATATATTAA
Found at i:114610 original size:3 final size:3
Alignment explanation
Indices: 114597--114658 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
114587 GTAATATGTA
** *
114597 AAT AA- AAT AAT AAT AAT AAT GCT AAT AAT AAT AATT AA- AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
*
114641 GAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT A-AT AA
114659 AAAAGACCCG
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:114659 original size:24 final size:23
Alignment explanation
Indices: 114597--114660 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
114587 GTAATATGTA
* *
114597 AATAA-AATAATAATAATAATGCT
1 AATAATAATAATAA-AATAACGAT
114620 AATAATAATAATTAAAATAACGAT
1 AATAATAATAA-TAAAATAACGAT
114644 AATAATAATATATAAAA
1 AATAATAATA-ATAAAA
114661 AAGACCCGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 5 0.14
24 27 0.75
25 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (23 bp):
AATAATAATAATAAAATAACGAT
Found at i:115177 original size:134 final size:133
Alignment explanation
Indices: 114870--115248 Score: 564
Period size: 134 Copynumber: 2.8 Consensus size: 133
114860 ACTCTGTTCC
** *
114870 TACGTGATGAAGAGTTCTTGGCCATCTTTAGGAAGGGTGATAACTTGGTTCCTACGCGATGAGGA
1 TACGTGATGAAGAGTTC-TGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGA
* * * * *
114935 CGGCTGGTTATCTAGGGGTGACACGGCTCCTA-CG-TGAGGAGATCTAGTCGGGAGATGACATGG
65 CGTCTGGTTATCTAGGGGTGACACGGCTCCTAGCGATGAGGAGATCTGGTCGGGAGACGACACGA
114998 CTCA
130 CTCA
* * *
115002 TATGTGATGAAGTGTTCTGGCCATCTTTAGGAAGGGCGATAACACGGTTCCTACGTGATGAGGAC
1 TACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGAC
* *
115067 GTCTGGTTATCTAGGAGTGACACGGCTCCTATGCGATGAGGAGATCTGGTCGGGGGACGACACGA
66 GTCTGGTTATCTAGGGGTGACACGGCTCCTA-GCGATGAGGAGATCTGGTCGGGAGACGACACGA
115132 CTCA
130 CTCA
* *
115136 TACGTGGTGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGAT
1 TACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGAC
* *
115201 GTCTGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAAGAGATCTG
66 GTCTGGTTATCTAGGGGTGACACGGCTCCTA-GCGATGAGGAGATCTG
115249 ACCATCTTAA
Statistics
Matches: 222, Mismatches: 22, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
131 73 0.33
132 15 0.07
133 2 0.01
134 132 0.59
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (133 bp):
TACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGAC
GTCTGGTTATCTAGGGGTGACACGGCTCCTAGCGATGAGGAGATCTGGTCGGGAGACGACACGAC
TCA
Found at i:115233 original size:43 final size:43
Alignment explanation
Indices: 115043--115248 Score: 136
Period size: 43 Copynumber: 4.7 Consensus size: 43
115033 AAGGGCGATA
* *
115043 ACACGGTTCCTACGTGATGAGGACG-TCTGGTTATCTAGGAGTG
1 ACACGGCTCCTACGTGATGAGGA-GATCTGGTTATCTAGGGGTG
* * * *
115086 ACACGGCTCCTATGCGATGAGGAGATCTGG---TC-GGGGGACG
1 ACACGGCTCCTACGTGATGAGGAGATCTGGTTATCTAGGGG-TG
* * * * * **
115126 ACACGACTCATACGTGGTGAAGAGTTCTGGCCATCTTTAGGAAGGGTG
1 ACACGGCTCCTACGTGATGAGGAGATCTGGTTATC--TA-G--GGGTG
*
115174 ATAACACGGTTCCTACGTGATGAGGATG-TCTGGTTATCTAGGGGTG
1 ---ACACGGCTCCTACGTGATGAGGA-GATCTGGTTATCTAGGGGTG
*
115220 ACACGGCTCCTACGTGATGAAGAGATCTG
1 ACACGGCTCCTACGTGATGAGGAGATCTG
115249 ACCATCTTAA
Statistics
Matches: 123, Mismatches: 24, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
39 3 0.02
40 26 0.21
42 2 0.02
43 52 0.42
46 5 0.04
47 1 0.01
48 2 0.02
49 5 0.04
51 26 0.21
52 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (43 bp):
ACACGGCTCCTACGTGATGAGGAGATCTGGTTATCTAGGGGTG
Found at i:115483 original size:27 final size:27
Alignment explanation
Indices: 115453--115512 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
115443 AATCACAGAT
* *
115453 GATTTTGTTAAGAGACACA-ATCTCAAA
1 GATTTTGTTAAAAGAAACAGA-CTCAAA
*
115480 GATTTTTTTAAAAGAAACAGACTCAAA
1 GATTTTGTTAAAAGAAACAGACTCAAA
115507 GATTTT
1 GATTTT
115513 CCTCAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (27 bp):
GATTTTGTTAAAAGAAACAGACTCAAA
Found at i:115701 original size:91 final size:93
Alignment explanation
Indices: 115469--115695 Score: 227
Period size: 91 Copynumber: 2.5 Consensus size: 93
115459 GTTAAGAGAC
* **
115469 ACAATCTCAAAGA--TTTTTTT-AAAAGAAACAGACTCAAAGATTTTCCTCAAGAAAAACTGTCT
1 ACAAACTCAAAGATGTTTTTTTCAAAAGAAACA-ACTCAAAGATTTTTTTCAAG-AAAACTGTCT
* *
115531 CAAGAGAGACAAAACTTTGTTTCAAAAGAA
64 CAAGAGAAACAAAACTTTGGTTCAAAAGAA
** * ** * * * *
115561 ACAAACTCAAAGATGTTGGTTTCAAAATAAATGACTCAAAG-GTTTTTTCACG-AAATTGTCTTA
1 ACAAACTCAAAGATGTTTTTTTCAAAAGAAACAACTCAAAGATTTTTTTCAAGAAAACTGTCTCA
*
115624 AGAGAAACAAAACTTTGGTTCAAAAGAG
66 AGAGAAACAAAACTTTGGTTCAAAAGAA
* *
115652 ACATACT-GAA-AT-TTTTTTTCAAAAGAAACAACTCAAAGATTTTT
1 ACAAACTCAAAGATGTTTTTTTCAAAAGAAACAACTCAAAGATTTTT
115696 ATTTCAAAAG
Statistics
Matches: 108, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
88 21 0.19
89 6 0.06
90 2 0.02
91 40 0.37
92 12 0.11
93 7 0.06
94 13 0.12
95 7 0.06
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (93 bp):
ACAAACTCAAAGATGTTTTTTTCAAAAGAAACAACTCAAAGATTTTTTTCAAGAAAACTGTCTCA
AGAGAAACAAAACTTTGGTTCAAAAGAA
Found at i:115790 original size:33 final size:29
Alignment explanation
Indices: 115637--115829 Score: 185
Period size: 29 Copynumber: 6.6 Consensus size: 29
115627 GAAACAAAAC
* * *
115637 TTTGGTTCAAAAGAGACATACT-GAA-ATT
1 TTTGTTTCAAAAGAAACA-ACTCAAAGATT
115665 TTT-TTTCAAAAGAAACAACTCAAAGATT
1 TTTGTTTCAAAAGAAACAACTCAAAGATT
*
115693 TTTATTTCAAAAGAAACAACTCAAAGATT
1 TTTGTTTCAAAAGAAACAACTCAAAGATT
* * *
115722 TTTATTTCAAAAGAAACAACTCACAGACT
1 TTTGTTTCAAAAGAAACAACTCAAAGATT
*
115751 TTTGTTTCAAGAGAAACAAACTCAAAGATAGGT
1 TTTGTTTCAAAAGAAAC-AACTCAAAGAT---T
** * *
115784 TTTGTTTCAAGGGAAACAATTTCAAAGATG
1 TTTGTTTCAAAAGAAACAA-CTCAAAGATT
* *
115814 TTTGTTTTAAGAGAAA
1 TTTGTTTCAAAAGAAA
115830 TTGTCTTAAA
Statistics
Matches: 143, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
26 3 0.02
27 14 0.10
28 9 0.06
29 67 0.47
30 23 0.16
32 2 0.01
33 25 0.17
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.32
Consensus pattern (29 bp):
TTTGTTTCAAAAGAAACAACTCAAAGATT
Found at i:115909 original size:65 final size:64
Alignment explanation
Indices: 115825--116016 Score: 251
Period size: 65 Copynumber: 3.0 Consensus size: 64
115815 TTGTTTTAAG
* * * * *
115825 AGAAATTGTCTTAAAAGAGACAAACTTTTGTTTTCATAA-AAATAAACTTAAAGATTTTCTTCAA
1 AGAAACTGTCTTAAAAGAGACAAAATTTTGTTTTCA-AAGAAACATACTCAAAGATTTT-TTCAA
115889 A
64 A
* * *
115890 AGGAACTGTCTTAAAAGAGACAAAATTTTGTTTCCAAAGAAACATTCTCAAAGATTTTTTTCAAA
1 AGAAACTGTCTTAAAAGAGACAAAATTTTGTTTTCAAAGAAACATACTCAAAGA-TTTTTTCAAA
* * *
115955 AGAAACTTTCTCAAAAGAGACAAAATTTTGTTATCAAAGAAACATACTCAAAGATTTTTTCA
1 AGAAACTGTCTTAAAAGAGACAAAATTTTGTTTTCAAAGAAACATACTCAAAGATTTTTTCA
116017 TTTTGTTTTA
Statistics
Matches: 111, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
64 10 0.09
65 97 0.87
66 4 0.04
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (64 bp):
AGAAACTGTCTTAAAAGAGACAAAATTTTGTTTTCAAAGAAACATACTCAAAGATTTTTTCAAA
Found at i:115951 original size:28 final size:28
Alignment explanation
Indices: 115910--115970 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
115900 TTAAAAGAGA
*
115910 CAAAATTTTGTTTCCAAAGAAACATTCT
1 CAAAATTTTGTTTCAAAAGAAACATTCT
*
115938 CAAAGATTTT-TTTCAAAAGAAACTTTCT
1 CAAA-ATTTTGTTTCAAAAGAAACATTCT
115966 CAAAA
1 CAAAA
115971 GAGACAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 1 0.03
28 24 0.80
29 5 0.17
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (28 bp):
CAAAATTTTGTTTCAAAAGAAACATTCT
Found at i:116020 original size:37 final size:37
Alignment explanation
Indices: 115979--116050 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
115969 AAGAGACAAA
*
115979 ATTTTGTTATCAA-AGAAACATACTCAAAGATTTTTTC
1 ATTTTGTT-TCAAGAGAAACAGACTCAAAGATTTTTTC
* *
116016 ATTTTGTTTTAAGTGAAACAGACTCAAAGATTTTT
1 ATTTTGTTTCAAGAGAAACAGACTCAAAGATTTTT
116051 CAATAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 3 0.10
37 28 0.90
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (37 bp):
ATTTTGTTTCAAGAGAAACAGACTCAAAGATTTTTTC
Found at i:116111 original size:28 final size:27
Alignment explanation
Indices: 116075--116184 Score: 87
Period size: 28 Copynumber: 3.9 Consensus size: 27
116065 TCAAGAGAGA
* *
116075 CAAAGTTTTGTTTCAAAAGAAATAGACT
1 CAAAATTTTGTTTCAAAAGAAACA-ACT
* *
116103 CAAAATTTTTTTCTCACAAGAAACAACT
1 CAAAATTTTGTT-TCAAAAGAAACAACT
* *
116131 CAAAAATTTTTATATTCAAAAGGAACATACT
1 C-AAAA-TTTTGT-TTCAAAAGAAACA-ACT
*
116162 CAAAGA-TTTGTTTCAAGAGAAAC
1 CAAA-ATTTTGTTTCAAAAGAAAC
116185 CGTCTCAAGA
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
28 24 0.36
29 18 0.27
30 18 0.27
31 6 0.09
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.31
Consensus pattern (27 bp):
CAAAATTTTGTTTCAAAAGAAACAACT
Found at i:116554 original size:21 final size:21
Alignment explanation
Indices: 116496--116554 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
116486 AAAATGTCTC
116496 AAGCGAGACAAAATTTGTTTT
1 AAGCGAGACAAAATTTGTTTT
*
116517 AA--GAG---AAA-TTGTCTT
1 AAGCGAGACAAAATTTGTTTT
116532 AAGCGAGACAAAATTTGTTTT
1 AAGCGAGACAAAATTTGTTTT
116553 AA
1 AA
116555 AATTCTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
15 8 0.27
16 3 0.10
17 3 0.10
19 3 0.10
20 3 0.10
21 10 0.33
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (21 bp):
AAGCGAGACAAAATTTGTTTT
Found at i:116640 original size:21 final size:21
Alignment explanation
Indices: 116579--116640 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
116569 GGTGGAAAAA
*
116579 TGTCTCAAGCGAGACATAATT
1 TGTCTCAAGCGAGACAAAATT
* * * *
116600 TGTTTTAA---AGA-GAAAGT
1 TGTCTCAAGCGAGACAAAATT
116617 TGTCTCAAGCGAGACAAAATT
1 TGTCTCAAGCGAGACAAAATT
116638 TGT
1 TGT
116641 TTTTAAGAAA
Statistics
Matches: 28, Mismatches: 9, Indels: 8
0.62 0.20 0.18
Matches are distributed among these distances:
17 9 0.32
18 3 0.11
20 3 0.11
21 13 0.46
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (21 bp):
TGTCTCAAGCGAGACAAAATT
Found at i:116657 original size:36 final size:36
Alignment explanation
Indices: 116573--116681 Score: 119
Period size: 38 Copynumber: 2.9 Consensus size: 36
116563 AAATTTGGTG
* *
116573 GAAAAATGTCTCAAGCGAGACATAATTTGTTTTAAA
1 GAAAAATGTCTCAAGCGAGACAAAATTTGTTTTTAA
*
116609 GAGAAAGTTGTCTCAAGCGAGACAAAATTTGTTTTTAA
1 GA-AAA-ATGTCTCAAGCGAGACAAAATTTGTTTTTAA
* * * * *
116647 GAAAACTGTCTCTAGTGAGACGACACTTTGTTTTT
1 GAAAAATGTCTCAAGCGAGAC-AAAATTTGTTTTT
116682 TTAATAAGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
36 15 0.24
37 17 0.27
38 30 0.48
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (36 bp):
GAAAAATGTCTCAAGCGAGACAAAATTTGTTTTTAA
Found at i:124093 original size:3 final size:3
Alignment explanation
Indices: 124080--124141 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
124070 GTAATATGTA
** *
124080 AAT AA- AAT AAT AAT AAT AAT GCT AAT AAT AAT AATT AA- AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
*
124124 GAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT A-AT AA
124142 AAAAGACCCG
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:124142 original size:24 final size:23
Alignment explanation
Indices: 124080--124143 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
124070 GTAATATGTA
* *
124080 AATAA-AATAATAATAATAATGCT
1 AATAATAATAATAA-AATAACGAT
124103 AATAATAATAATTAAAATAACGAT
1 AATAATAATAA-TAAAATAACGAT
124127 AATAATAATATATAAAA
1 AATAATAATA-ATAAAA
124144 AAGACCCGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 5 0.14
24 27 0.75
25 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (23 bp):
AATAATAATAATAAAATAACGAT
Found at i:124622 original size:134 final size:134
Alignment explanation
Indices: 124353--124735 Score: 613
Period size: 134 Copynumber: 2.9 Consensus size: 134
124343 ACTCGGTTCC
** *
124353 TATGTGATGAAGAGTTCTTGGCCATCTTTAGGAAGGGTGATAACTTGGTTCCTACGCGATGAGGA
1 TATGTGATGAAGAGTTC-TGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGA
* * * *
124418 CGGCTGGTTATCTAGGGGTGACACGGCTCCTACGCGATGAGGAGATCTAGTCGGGAGATGACATG
65 CGTCTGGTTATCTAGGGGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGGAGACGACACG
*
124483 GCTCA
130 ACTCA
*
124488 TATGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCGATAACACGGTTCCTACGTGATGAGGAC
1 TATGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGAC
* *
124553 GTCTGGTTATCTAGGAGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGGGGACGACACGA
66 GTCTGGTTATCTAGGGGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGGAGACGACACGA
124618 CTCA
131 CTCA
* * *
124622 TACGTGGTGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATTAGGAC
1 TATGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGAC
* *
124687 GTCTGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAAGAGATCTGG
66 GTCTGGTTATCTAGGGGTGACACGGCTCCTACGCGATGAGGAGATCTGG
124736 CCATCTTAAG
Statistics
Matches: 230, Mismatches: 18, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
134 213 0.93
135 17 0.07
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (134 bp):
TATGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGAC
GTCTGGTTATCTAGGGGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGGAGACGACACGA
CTCA
Found at i:124719 original size:43 final size:43
Alignment explanation
Indices: 124402--124735 Score: 143
Period size: 43 Copynumber: 7.5 Consensus size: 43
124392 ATAACTTGGT
* *
124402 TCCTACGCGATGAGGACG-GCTGGTTATCTAGGGGTGACACGGC
1 TCCTACGTGATGAGGA-GATCTGGTTATCTAGGGGTGACACGGC
* * *
124445 TCCTACGCGATGAGGAGATCTAG---TC--GGGAGATGACATGGC
1 TCCTACGTGATGAGGAGATCTGGTTATCTAGGG-G-TGACACGGC
* * * * ** * *
124485 TCATATGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCGATAACACGGT
1 TCCTACGTGATGAGGAGATCTGGTTATC--T----AGGG-G-TGACACGGC
*
124536 TCCTACGTGATGAGGACG-TCTGGTTATCTAGGAGTGACACGGC
1 TCCTACGTGATGAGGA-GATCTGGTTATCTAGGGGTGACACGGC
* * * *
124579 TCCTACGCGATGAGGAGATCTGG---TC-GGGGGACGACACGAC
1 TCCTACGTGATGAGGAGATCTGGTTATCTAGGGG-TGACACGGC
* * * * ** *
124619 TCATACGTGGTGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGT
1 TCCTACGTGATGAGGAGATCTGGTTATC--TA-G--GGGTG---ACACGGC
*
124670 TCCTACGTGATTAGGACG-TCTGGTTATCTAGGGGTGACACGGC
1 TCCTACGTGATGAGGA-GATCTGGTTATCTAGGGGTGACACGGC
*
124713 TCCTACGTGATGAAGAGATCTGG
1 TCCTACGTGATGAGGAGATCTGG
124736 CCATCTTAAG
Statistics
Matches: 216, Mismatches: 44, Indels: 62
0.67 0.14 0.19
Matches are distributed among these distances:
38 3 0.01
39 4 0.02
40 54 0.25
42 3 0.01
43 75 0.35
44 1 0.00
45 3 0.01
46 5 0.02
47 1 0.00
48 2 0.01
49 6 0.03
51 57 0.26
52 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (43 bp):
TCCTACGTGATGAGGAGATCTGGTTATCTAGGGGTGACACGGC
Found at i:126173 original size:16 final size:16
Alignment explanation
Indices: 126152--126183 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
126142 TGAGAAAAAT
126152 TTAATTTAAATTTAAA
1 TTAATTTAAATTTAAA
*
126168 TTAATTTAATTTTAAA
1 TTAATTTAAATTTAAA
126184 ATAACATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTTAAATTTAAA
Found at i:129084 original size:3 final size:3
Alignment explanation
Indices: 129076--129104 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
129066 TGTTTATAAG
129076 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
129105 TTGTTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:130869 original size:36 final size:36
Alignment explanation
Indices: 130822--130894 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
130812 TTTGTCTTCC
130822 TAAAAATTGAAAGAATAAGATGAATAAAGACTACTT
1 TAAAAATTGAAAGAATAAGATGAATAAAGACTACTT
*
130858 TAAAATTTGAAAGAATAAGATGAATAAAGACTACTT
1 TAAAAATTGAAAGAATAAGATGAATAAAGACTACTT
130894 T
1 T
130895 GACACCATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.27
Consensus pattern (36 bp):
TAAAAATTGAAAGAATAAGATGAATAAAGACTACTT
Found at i:131190 original size:23 final size:21
Alignment explanation
Indices: 131140--131191 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
131130 GGTTATTGGT
*
131140 ATAATTTACCTTTTATTTCAA
1 ATAATTTACCTTTAATTTCAA
*
131161 ATGATTTACCTTTAAATTTTCAA
1 ATAATTTACCTTT-AA-TTTCAA
*
131184 TTAATTTA
1 ATAATTTA
131192 TAATTATACG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 12 0.48
22 1 0.04
23 12 0.48
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.52
Consensus pattern (21 bp):
ATAATTTACCTTTAATTTCAA
Found at i:132342 original size:23 final size:23
Alignment explanation
Indices: 132316--132372 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
132306 TCAATTTTGC
132316 AGCTGCCAATTTGGACTTCAACA
1 AGCTGCCAATTTGGACTTCAACA
* *
132339 AGCT-CCAAATTGGACTTTAACA
1 AGCTGCCAATTTGGACTTCAACA
*
132361 AGCTGTCAATTT
1 AGCTGCCAATTT
132373 AGAATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (23 bp):
AGCTGCCAATTTGGACTTCAACA
Found at i:135933 original size:12 final size:12
Alignment explanation
Indices: 135916--135944 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
135906 CTGGAGAGAG
135916 CCGCCATAAGAC
1 CCGCCATAAGAC
135928 CCGCCATAAGAC
1 CCGCCATAAGAC
135940 CCGCC
1 CCGCC
135945 GTGGTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.48, G:0.17, T:0.07
Consensus pattern (12 bp):
CCGCCATAAGAC
Found at i:136814 original size:22 final size:23
Alignment explanation
Indices: 136781--136837 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
136771 TTAATTTTGC
136781 AGCTGCCAATTTGGACTTCAACA
1 AGCTGCCAATTTGGACTTCAACA
* * *
136804 AGCT-CCAATTTGTATTTTAACA
1 AGCTGCCAATTTGGACTTCAACA
*
136826 AGCTGTCAATTT
1 AGCTGCCAATTT
136838 AAGCTGCCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 19 0.66
23 10 0.34
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (23 bp):
AGCTGCCAATTTGGACTTCAACA
Found at i:146487 original size:29 final size:31
Alignment explanation
Indices: 146427--146490 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
146417 ACTTAGATCC
* *
146427 CTAAACTTTTCTAAATTTCATGCTTTCGTCA
1 CTAAACTTTTCAAAACTTCATGCTTTCGTCA
* *
146458 CTAAACTTTT-AAAACTT-ATGTTTTGGTCA
1 CTAAACTTTTCAAAACTTCATGCTTTCGTCA
146487 CTAA
1 CTAA
146491 CTAAAATTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 14 0.48
30 5 0.17
31 10 0.34
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.44
Consensus pattern (31 bp):
CTAAACTTTTCAAAACTTCATGCTTTCGTCA
Done.