Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 144 of 160
Found at i:27423259 original size:26 final size:27
Alignment explanation
Indices: 27423198--27423259 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
27423188 AAAAATGAAT
* * **
27423198 TAAAGTTTACATTAATTTTTTAAAGTTT
1 TAAA-TTTACATTAATTCTTAAAAGTAA
*
27423226 TAATTTTACATTAA-TCTTAAAAGTAA
1 TAAATTTACATTAATTCTTAAAAGTAA
27423252 TAAATTTA
1 TAAATTTA
27423260 TATATTGCAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
26 15 0.54
27 10 0.36
28 3 0.11
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (27 bp):
TAAATTTACATTAATTCTTAAAAGTAA
Found at i:27435386 original size:28 final size:28
Alignment explanation
Indices: 27435339--27435406 Score: 65
Period size: 27 Copynumber: 2.5 Consensus size: 28
27435329 ATTAAAAATT
*
27435339 ATATTTAATAAAA--AATTTAAATTATTTA
1 ATATTT-ATAAAATTAATTT-AATAATTTA
27435367 ATATTTATAAAATTAA-TTAATAATTTA
1 ATATTTATAAAATTAATTTAATAATTTA
*
27435394 A-A-TTATTAAATTA
1 ATATTTATAAAATTA
27435407 TTTTTATGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
25 10 0.28
26 1 0.03
27 15 0.42
28 8 0.22
29 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
ATATTTATAAAATTAATTTAATAATTTA
Found at i:27435443 original size:21 final size:22
Alignment explanation
Indices: 27435417--27435468 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
27435407 TTTTTATGTC
27435417 AAATAATAATTTT-ATTA-ATAA
1 AAATAATAATTTTAATTATAT-A
* *
27435438 AAATAAAAATTTTAATTTTATA
1 AAATAATAATTTTAATTATATA
27435460 AAATAATAA
1 AAATAATAA
27435469 ATCATTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 12 0.46
22 12 0.46
23 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATAATAATTTTAATTATATA
Found at i:27441346 original size:22 final size:22
Alignment explanation
Indices: 27441317--27441359 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
27441307 ATTAATTTTT
* *
27441317 AAATTTTATACTATTTGAATATA
1 AAATTTAATA-TATTTAAATATA
27441340 AAATTTAATATATTTAAATA
1 AAATTTAATATATTTAAATA
27441360 AATTAAGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
AAATTTAATATATTTAAATATA
Found at i:27441478 original size:13 final size:13
Alignment explanation
Indices: 27441453--27441491 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
27441443 TCAAAATTCA
*
27441453 ATATAAATCTAAT
1 ATATAAATTTAAT
*
27441466 ATATATATTTAAT
1 ATATAAATTTAAT
*
27441479 GTATAAATTTAAT
1 ATATAAATTTAAT
27441492 TTAAACCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (13 bp):
ATATAAATTTAAT
Found at i:27442435 original size:22 final size:23
Alignment explanation
Indices: 27442407--27442454 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
27442397 ATTCATAATA
*
27442407 TTTTATTATA-ATTAATTAAATT
1 TTTTATTATATATTAATTAAAAT
* *
27442429 TTTTATTTTATTTTAATTAAAAT
1 TTTTATTATATATTAATTAAAAT
27442452 TTT
1 TTT
27442455 AAATAACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTATTATATATTAATTAAAAT
Found at i:27442662 original size:17 final size:18
Alignment explanation
Indices: 27442633--27442672 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
27442623 AAATATTAAA
27442633 AATT-TAAATAATTATTG-
1 AATTATAAATAATT-TTGT
27442650 AATTATAAA-AATTTTGT
1 AATTATAAATAATTTTGT
27442667 AATTAT
1 AATTAT
27442673 TTTTACCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.14
17 14 0.67
18 4 0.19
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
AATTATAAATAATTTTGT
Found at i:27445949 original size:2 final size:2
Alignment explanation
Indices: 27445944--27445978 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
27445934 TCTCTCTCTC
27445944 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27445979 TGAATTAAAC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27452174 original size:2 final size:2
Alignment explanation
Indices: 27452169--27452199 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27452159 CACAATGATT
27452169 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27452200 TCATTTCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27457399 original size:21 final size:21
Alignment explanation
Indices: 27457375--27457415 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27457365 CCTTTATAAA
*
27457375 TATAAATTTTAAATAATATTT
1 TATAAACTTTAAATAATATTT
*
27457396 TATAAACTTTATATAATATT
1 TATAAACTTTAAATAATATT
27457416 AATTTATAAT
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:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TATAAACTTTAAATAATATTT
Found at i:27458379 original size:33 final size:33
Alignment explanation
Indices: 27458337--27458406 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
27458327 TTATAAGAGG
*
27458337 GAAATTAGTACTAATATGCATAGGTGATTAATA
1 GAAATTAGTACTAATATGCACAGGTGATTAATA
27458370 GAAATTAGTACTAATATGCACAGGTGATTAATA
1 GAAATTAGTACTAATATGCACAGGTGATTAATA
27458403 GAAA
1 GAAA
27458407 AGAGGATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (33 bp):
GAAATTAGTACTAATATGCACAGGTGATTAATA
Found at i:27460306 original size:2 final size:2
Alignment explanation
Indices: 27460299--27460343 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
27460289 CCTGCACTCC
27460299 AT 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
27460341 AT A
1 AT A
27460344 CCGGAATTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27476529 original size:2 final size:2
Alignment explanation
Indices: 27476518--27476553 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
27476508 TGTTGTATTG
27476518 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27476554 TGTTTGTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27476646 original size:19 final size:19
Alignment explanation
Indices: 27476624--27476666 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
27476614 TAATGAATAA
* *
27476624 ATTTTTTTTAAAAATTTAT
1 ATTTATTTTAAAAATTAAT
27476643 ATTTATTTTAAAAATTAAT
1 ATTTATTTTAAAAATTAAT
27476662 ATTTA
1 ATTTA
27476667 CATATTAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTATTTTAAAAATTAAT
Found at i:27477980 original size:22 final size:23
Alignment explanation
Indices: 27477949--27477991 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
27477939 TTTGATTTAA
27477949 AATTAATAAAATATTATTTTTTT
1 AATTAATAAAATATTATTTTTTT
27477972 AATT-ATAAAATATTATTTTT
1 AATTAATAAAATATTATTTTT
27477992 AAATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
AATTAATAAAATATTATTTTTTT
Found at i:27477985 original size:19 final size:18
Alignment explanation
Indices: 27477963--27478005 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
27477953 AATAAAATAT
*
27477963 TATTTTTTTAATTATAAAA
1 TATTTTTTTAAATAT-AAA
27477982 TATTATTTTTAAATATAAA
1 TATT-TTTTTAAATATAAA
27478001 TATTT
1 TATTT
27478006 ATATATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 11 0.50
20 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTTTTTTAAATATAAA
Found at i:27477992 original size:20 final size:21
Alignment explanation
Indices: 27477949--27478004 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
27477939 TTTGATTTAA
27477949 AATTAATAAAATATTATTTTTTT
1 AATT-ATAAAATATTA-TTTTTT
27477972 AATTATAAAATATTA-TTTTT
1 AATTATAAAATATTATTTTTT
*
27477992 AAATAT-AAATATT
1 AATTATAAAATATT
27478005 TATATATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 7 0.22
20 10 0.31
22 11 0.34
23 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTATAAAATATTATTTTTT
Found at i:27478007 original size:20 final size:20
Alignment explanation
Indices: 27477953--27478007 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
27477943 ATTTAAAATT
*
27477953 AATA-AAATATTATTTTTTTA
1 AATATAAATATT-TATTTTTA
*
27477973 ATTATAAA-ATATTATTTTTA
1 AATATAAATAT-TTATTTTTA
27477993 AATATAAATATTTAT
1 AATATAAATATTTAT
27478008 ATATATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 23 0.79
21 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATAAATATTTATTTTTA
Found at i:27478013 original size:16 final size:16
Alignment explanation
Indices: 27477994--27478032 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27477984 TTATTTTTAA
*
27477994 ATATAAATATTTATAT
1 ATATAAATATATATAT
*
27478010 ATATAATTATATATAT
1 ATATAAATATATATAT
*
27478026 AAATAAA
1 ATATAAA
27478033 AAAATTAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATAAATATATATAT
Found at i:27478019 original size:12 final size:12
Alignment explanation
Indices: 27477994--27478027 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
27477984 TTATTTTTAA
* *
27477994 ATATAAATATTT
1 ATATATATAATT
27478006 ATATATATAATT
1 ATATATATAATT
27478018 ATATATATAA
1 ATATATATAA
27478028 ATAAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATATAATT
Found at i:27479001 original size:13 final size:13
Alignment explanation
Indices: 27478982--27479021 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
27478972 ATATACTTAA
27478982 ATATATTAAAATT
1 ATATATTAAAATT
* *
27478995 TTATATTAAAATA
1 ATATATTAAAATT
*
27479008 ATATATAAAAATT
1 ATATATTAAAATT
27479021 A
1 A
27479022 AAAATTGATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:27479026 original size:33 final size:33
Alignment explanation
Indices: 27478947--27479027 Score: 91
Period size: 33 Copynumber: 2.5 Consensus size: 33
27478937 ATTTTAAAAA
27478947 ATAAAAA-TAATAAA-TTTATATTAAAATATACT
1 ATAAAAATTAA-AAATTTTATATTAAAATATACT
27478979 -TAAATATATT-AAAATTTTATATTAAAATAATA-T
1 ATAAA-A-ATTAAAAATTTTATATTAAAAT-ATACT
27479012 ATAAAAATTAAAAATT
1 ATAAAAATTAAAAATT
27479028 GATAAATCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
31 4 0.10
32 7 0.17
33 23 0.55
34 8 0.19
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (33 bp):
ATAAAAATTAAAAATTTTATATTAAAATATACT
Found at i:27479355 original size:22 final size:25
Alignment explanation
Indices: 27479320--27479366 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
27479310 TAATTTTTAT
27479320 ATAAAAAAAGTTAT-AAT-TTAAAA
1 ATAAAAAAAGTTATAAATATTAAAA
27479343 ATAAAAAAA-TTATAAATATTAAAA
1 ATAAAAAAAGTTATAAATATTAAAA
27479367 TTTAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.18
23 12 0.55
24 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (25 bp):
ATAAAAAAAGTTATAAATATTAAAA
Found at i:27487623 original size:16 final size:16
Alignment explanation
Indices: 27487602--27487633 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27487592 TTTCTTACTC
27487602 CTGACATAAATGAGGT
1 CTGACATAAATGAGGT
27487618 CTGACATAAATGAGGT
1 CTGACATAAATGAGGT
27487634 ATAATCGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (16 bp):
CTGACATAAATGAGGT
Found at i:27489087 original size:59 final size:59
Alignment explanation
Indices: 27488995--27489110 Score: 196
Period size: 59 Copynumber: 2.0 Consensus size: 59
27488985 AACAACCATA
* *
27488995 TTCAGTTTAGAGATACTGGCAAGTAGCTCTAGTGCCAGCTTACGCAAGAGAACAGCATG
1 TTCAGTTTAGAGACACTGGCAAGTAGCTCTAGTGCCAGATTACGCAAGAGAACAGCATG
* *
27489054 TTCAGTTTAGAGACAGTGGCAAGTAGCTCTAGTGCCAGATTACGCATGAGAACAGCA
1 TTCAGTTTAGAGACACTGGCAAGTAGCTCTAGTGCCAGATTACGCAAGAGAACAGCA
27489111 AAGCCTAGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (59 bp):
TTCAGTTTAGAGACACTGGCAAGTAGCTCTAGTGCCAGATTACGCAAGAGAACAGCATG
Found at i:27491496 original size:18 final size:18
Alignment explanation
Indices: 27491465--27491511 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
27491455 TTAATTTTAA
27491465 TATTAAAATT-TATTAATT
1 TATT-AAATTATATTAATT
* **
27491483 TATTGAATTATATTTTTT
1 TATTAAATTATATTAATT
27491501 TATTAAATTAT
1 TATTAAATTAT
27491512 TTTATTAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTAAATTATATTAATT
Found at i:27492796 original size:3 final size:3
Alignment explanation
Indices: 27492788--27492834 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
27492778 TATCATTTAG
* * * *
27492788 TGA TGA TGA TGA CGA TGG TGA TGG TGA TGA TGA TGA TGA AGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
27492835 GAGTTTCTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.30, C:0.02, G:0.38, T:0.30
Consensus pattern (3 bp):
TGA
Found at i:27504775 original size:20 final size:19
Alignment explanation
Indices: 27504741--27504778 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
27504731 TAATCCATGT
*
27504741 TTAAAAAAAAGTTAAAATA
1 TTAAAAAAAACTTAAAATA
27504760 TTAAAAAAAATCTTAAAAT
1 TTAAAAAAAA-CTTAAAAT
27504779 TTTTATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (19 bp):
TTAAAAAAAACTTAAAATA
Found at i:27504862 original size:23 final size:24
Alignment explanation
Indices: 27504832--27504881 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
27504822 AATAATCTTT
*
27504832 AATTTTTAA-TTTTCATTTAAATA
1 AATTTTTAATTTTTAATTTAAATA
*
27504855 AATTTTTAATTTTTAATTTATATA
1 AATTTTTAATTTTTAATTTAAATA
27504879 AAT
1 AAT
27504882 CAATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
AATTTTTAATTTTTAATTTAAATA
Found at i:27504864 original size:30 final size:27
Alignment explanation
Indices: 27504821--27504894 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
27504811 TATTACACCC
* *
27504821 AAATAATCTTTAATTTTTAATTTTCATTT
1 AAATAATTTTTAATTTTTAA-TTT-ATAT
27504850 AAATAAATTTTTAATTTTTAATTTATAT
1 AAAT-AATTTTTAATTTTTAATTTATAT
*
27504878 AAATCAATTTTTTATTT
1 AAAT-AATTTTTAATTT
27504895 GAAAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 18 0.45
29 7 0.17
30 15 0.38
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (27 bp):
AAATAATTTTTAATTTTTAATTTATAT
Found at i:27508912 original size:21 final size:23
Alignment explanation
Indices: 27508887--27508934 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
27508877 TATAAATATA
* *
27508887 AATTTTATGTAAT-TT-TTTTAT
1 AATTTTATATAATATTAATTTAT
27508908 AATTTTATATAATATTAATTTAT
1 AATTTTATATAATATTAATTTAT
27508931 AATT
1 AATT
27508935 AATTATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 2 0.09
23 9 0.39
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
AATTTTATATAATATTAATTTAT
Found at i:27511169 original size:27 final size:29
Alignment explanation
Indices: 27511124--27511186 Score: 96
Period size: 28 Copynumber: 2.2 Consensus size: 29
27511114 TTAATTGATT
27511124 TTTTATTATATGATAAATTAATAAA-AAA
1 TTTTATTATATGATAAATTAATAAATAAA
27511152 TTTTATTAT-TG-TATAATTAATAAATAAA
1 TTTTATTATATGATA-AATTAATAAATAAA
27511180 TTTTATT
1 TTTTATT
27511187 TTAATTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 2 0.06
27 12 0.36
28 19 0.58
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
TTTTATTATATGATAAATTAATAAATAAA
Found at i:27511178 original size:31 final size:30
Alignment explanation
Indices: 27511121--27511179 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
27511111 AATTTAATTG
* *
27511121 ATTTTTTATTATATGATAAATTAATAAAAA
1 ATTTTTTATTATATAATAAATAAATAAAAA
* *
27511151 ATTTTATTATTGTATAATTAATAAATAAA
1 ATTTT-TTATTATATAATAAATAAATAAA
27511180 TTTTATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (30 bp):
ATTTTTTATTATATAATAAATAAATAAAAA
Found at i:27512781 original size:17 final size:18
Alignment explanation
Indices: 27512748--27512781 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27512738 CTTTAAAAAT
*
27512748 TATTTTTTATTTCATCAC
1 TATTTTTTATTTAATCAC
27512766 TATTTTTT-TTTAATCA
1 TATTTTTTATTTAATCA
27512782 AATATATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTTTTATTTAATCAC
Found at i:27522180 original size:2 final size:2
Alignment explanation
Indices: 27522173--27522203 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
27522163 TTATTTTACT
*
27522173 TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27522204 TCATTCTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:27526358 original size:2 final size:2
Alignment explanation
Indices: 27526351--27526384 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
27526341 GAATATCCCA
27526351 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27526385 AAAGATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:27533534 original size:20 final size:20
Alignment explanation
Indices: 27533498--27533536 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
27533488 TATGTTTTGC
*
27533498 TTTTTTAATTAATTTTTTTA
1 TTTTTTAATAAATTTTTTTA
*
27533518 TTTTTTAA-AAATATTTTTA
1 TTTTTTAATAAATTTTTTTA
27533537 AGAAATATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTTAATAAATTTTTTTA
Found at i:27533613 original size:2 final size:2
Alignment explanation
Indices: 27533606--27533655 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
27533596 ATTCGACAAT
27533606 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27533648 TA TA TA TA
1 TA TA TA TA
27533656 CTATCACATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27538911 original size:3 final size:3
Alignment explanation
Indices: 27538905--27538931 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27538895 TTATTACCAG
27538905 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
27538932 CATCATTAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:27538959 original size:12 final size:12
Alignment explanation
Indices: 27538939--27538979 Score: 59
Period size: 11 Copynumber: 3.5 Consensus size: 12
27538929 TAACATCATT
27538939 AAAAA-AACATA
1 AAAAATAACATA
27538950 AAAAATAACAT-
1 AAAAATAACATA
27538961 AAAAATCAACATA
1 AAAAAT-AACATA
27538974 AAAAAT
1 AAAAAT
27538980 CAAAATCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.41
12 10 0.37
13 6 0.22
ACGTcount: A:0.76, C:0.10, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATAACATA
Found at i:27538977 original size:13 final size:13
Alignment explanation
Indices: 27538944--27538982 Score: 64
Period size: 12 Copynumber: 3.2 Consensus size: 13
27538934 TCATTAAAAA
27538944 AACATAAAAAAT-
1 AACATAAAAAATC
27538956 AACAT-AAAAATC
1 AACATAAAAAATC
27538968 AACATAAAAAATC
1 AACATAAAAAATC
27538981 AA
1 AA
27538983 AATCAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.24
12 10 0.40
13 9 0.36
ACGTcount: A:0.72, C:0.13, G:0.00, T:0.15
Consensus pattern (13 bp):
AACATAAAAAATC
Found at i:27538990 original size:13 final size:13
Alignment explanation
Indices: 27538961--27539002 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
27538951 AAAATAACAT
* *
27538961 AAAAATCAACATA
1 AAAAATCAAAATC
27538974 AAAAATCAAAATC
1 AAAAATCAAAATC
27538987 -AAAATCAAAA-C
1 AAAAATCAAAATC
27538998 AAAAA
1 AAAAA
27539003 AAAAGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 1 0.04
12 14 0.54
13 11 0.42
ACGTcount: A:0.74, C:0.14, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATCAAAATC
Found at i:27538990 original size:25 final size:24
Alignment explanation
Indices: 27538944--27539003 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 24
27538934 TCATTAAAAA
*
27538944 AACATAAAAAATAACATAAAAATC
1 AACATAAAAAATAAAATAAAAATC
*
27538968 AACATAAAAAATCAAAATCAAAATC
1 AACATAAAAAAT-AAAATAAAAATC
* *
27538993 AAAACAAAAAA
1 AACATAAAAAA
27539004 AAAGAAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (24 bp):
AACATAAAAAATAAAATAAAAATC
Found at i:27539822 original size:41 final size:41
Alignment explanation
Indices: 27539765--27539845 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
27539755 TAGCTTGATT
27539765 TCAATATCAATATCAATAGTAAACTATATAAAAAAATAATA
1 TCAATATCAATATCAATAGTAAACTATATAAAAAAATAATA
*
27539806 TCAATATCAATATCAATATTAAACTATATAAAAAAATAAT
1 TCAATATCAATATCAATAGTAAACTATATAAAAAAATAAT
27539846 TAGTTAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.58, C:0.10, G:0.01, T:0.31
Consensus pattern (41 bp):
TCAATATCAATATCAATAGTAAACTATATAAAAAAATAATA
Found at i:27540209 original size:40 final size:39
Alignment explanation
Indices: 27540056--27540387 Score: 370
Period size: 39 Copynumber: 8.5 Consensus size: 39
27540046 CTCTCACTAG
* * *
27540056 AGGCAACAAATTTTAAA--TTCAAAAGACTCATTTAATCAA
1 AGGCAACAAACTTTAAATGTTGAAAAG-CTC-TTTAACCAA
* * * *
27540095 AGGTAATAAATTTTAAATGTTG-AAAGCTCATTAACCAA
1 AGGCAACAAACTTTAAATGTTGAAAAGCTCTTTAACCAA
* *
27540133 AGGCAACAAACTTTAAATGTT-AAAAGCTCCTCTAACCAG
1 AGGCAACAAACTTTAAATGTTGAAAAGCT-CTTTAACCAA
27540172 AGGCAACAAACTTTAAATGTTGAAAAGCTTCTTTAACCAA
1 AGGCAACAAACTTTAAATGTTGAAAAGC-TCTTTAACCAA
* * * * *
27540212 AGGCAATAAACTTTAAATATT-AAAAGCTCTTTTGACTAG
1 AGGCAACAAACTTTAAATGTTGAAAAGCTC-TTTAACCAA
* * * *
27540251 AGACAACGAACTTTAAATGTTG-AAAGCTTTTCTAACCAG
1 AGGCAACAAACTTTAAATGTTGAAAAGCTCTT-TAACCAA
27540290 AGGCAACAAACTTTAAATGTTGAAAAGCTCCTTTAACCAA
1 AGGCAACAAACTTTAAATGTTGAAAAGCT-CTTTAACCAA
* *
27540330 AGGCAACGAACTTTAAATGTTGAAAGGCTCATTTAACCAA
1 AGGCAACAAACTTTAAATGTTGAAAAGCTC-TTTAACCAA
27540370 AGGCAACAAACTTTAAAT
1 AGGCAACAAACTTTAAAT
27540388 TCAAAATGCT
Statistics
Matches: 249, Mismatches: 32, Indels: 23
0.82 0.11 0.08
Matches are distributed among these distances:
38 35 0.14
39 107 0.43
40 102 0.41
41 5 0.02
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (39 bp):
AGGCAACAAACTTTAAATGTTGAAAAGCTCTTTAACCAA
Found at i:27540225 original size:79 final size:77
Alignment explanation
Indices: 27540056--27540387 Score: 405
Period size: 79 Copynumber: 4.2 Consensus size: 77
27540046 CTCTCACTAG
* * * * * * ** *
27540056 AGGCAACAAATTTTAAAT-TCAAAAGACTCATTTAATCAAAGGTAATAAATTTTAAATGTTGAAA
1 AGGCAACAAACTTTAAATGTTAAAAG-CTCCTTTAACCAGAGGCAACGAACTTTAAATGTTGAAA
*
27540120 GCTCATTAACCAA
65 GCTCTTTAACCAA
* *
27540133 AGGCAACAAACTTTAAATGTTAAAAGCTCCTCTAACCAGAGGCAACAAACTTTAAATGTTGAAAA
1 AGGCAACAAACTTTAAATGTTAAAAGCTCCTTTAACCAGAGGCAACGAACTTTAAATGTTG-AAA
27540198 GCTTCTTTAACCAA
65 GC-TCTTTAACCAA
* * * * * *
27540212 AGGCAATAAACTTTAAATATTAAAAGCTCTTTTGACTAGAGACAACGAACTTTAAATGTTGAAAG
1 AGGCAACAAACTTTAAATGTTAAAAGCTCCTTTAACCAGAGGCAACGAACTTTAAATGTTGAAAG
* *
27540277 CTTTTCTAACCAG
66 CTCTT-TAACCAA
*
27540290 AGGCAACAAACTTTAAATGTTGAAAAGCTCCTTTAACCAAAGGCAACGAACTTTAAATGTTGAAA
1 AGGCAACAAACTTTAAATGTT-AAAAGCTCCTTTAACCAGAGGCAACGAACTTTAAATGTTGAAA
27540355 GGCTCATTTAACCAA
65 -GCTC-TTTAACCAA
27540370 AGGCAACAAACTTTAAAT
1 AGGCAACAAACTTTAAAT
27540388 TCAAAATGCT
Statistics
Matches: 219, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
77 48 0.22
78 41 0.19
79 101 0.46
80 27 0.12
81 2 0.01
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (77 bp):
AGGCAACAAACTTTAAATGTTAAAAGCTCCTTTAACCAGAGGCAACGAACTTTAAATGTTGAAAG
CTCTTTAACCAA
Found at i:27540287 original size:118 final size:117
Alignment explanation
Indices: 27540042--27540387 Score: 410
Period size: 118 Copynumber: 2.9 Consensus size: 117
27540032 AATTCAACAG
* * * * * *
27540042 GCTCCTCTCACTAGAGGCAACAAATTTTAAA--TTCAAAAGAC-TCATTTAATCAAAGGTAATAA
1 GCTCCTCTAACCAGAGGCAACAAACTTTAAATGTTGAAAAG-CTTC-TTTAACCAAAGGCAATAA
* * * *
27540104 ATTTTAAATGTTGAAAGCTCATTAACCAAAGGCAACAAACTTTAAATGTTAAAA
64 ACTTTAAATATTAAAAGCTCATTAACCAAAGACAACAAACTTTAAATGTTAAAA
27540158 GCTCCTCTAACCAGAGGCAACAAACTTTAAATGTTGAAAAGCTTCTTTAACCAAAGGCAATAAAC
1 GCTCCTCTAACCAGAGGCAACAAACTTTAAATGTTGAAAAGCTTCTTTAACCAAAGGCAATAAAC
* * * * * *
27540223 TTTAAATATTAAAAGCTCTTTTGACTAGAGACAACGAACTTTAAATGTTGAAA
66 TTTAAATATTAAAAGCTC-ATTAACCAAAGACAACAAACTTTAAATGTTAAAA
** * **
27540276 GCTTTTCTAACCAGAGGCAACAAACTTTAAATGTTGAAAAGCTCCTTTAACCAAAGGCAACGAAC
1 GCTCCTCTAACCAGAGGCAACAAACTTTAAATGTTGAAAAGCTTCTTTAACCAAAGGCAATAAAC
* * *
27540341 TTTAAATGTTGAAAGGCTCATTTAACCAAAGGCAACAAACTTTAAAT
66 TTTAAATATT-AAAAGCTCA-TTAACCAAAGACAACAAACTTTAAAT
27540388 TCAAAATGCT
Statistics
Matches: 195, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
116 28 0.14
117 34 0.17
118 105 0.54
119 28 0.14
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (117 bp):
GCTCCTCTAACCAGAGGCAACAAACTTTAAATGTTGAAAAGCTTCTTTAACCAAAGGCAATAAAC
TTTAAATATTAAAAGCTCATTAACCAAAGACAACAAACTTTAAATGTTAAAA
Found at i:27542191 original size:25 final size:25
Alignment explanation
Indices: 27542157--27542212 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
27542147 TATGATCTCT
27542157 TTCTTGATGAATTTGTAAATCATAA
1 TTCTTGATGAATTTGTAAATCATAA
27542182 TTCTTGATGAATTTGTAAATCATAA
1 TTCTTGATGAATTTGTAAATCATAA
27542207 TTCTTG
1 TTCTTG
27542213 TCACATTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (25 bp):
TTCTTGATGAATTTGTAAATCATAA
Found at i:27549102 original size:21 final size:21
Alignment explanation
Indices: 27549076--27549117 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27549066 ATGCATGAAG
27549076 GCATGAATGCAAAGAATGTGC
1 GCATGAATGCAAAGAATGTGC
27549097 GCATGAATGCAAAGAATGTGC
1 GCATGAATGCAAAGAATGTGC
27549118 TTATTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.29, T:0.19
Consensus pattern (21 bp):
GCATGAATGCAAAGAATGTGC
Found at i:27549704 original size:56 final size:56
Alignment explanation
Indices: 27549629--27549746 Score: 218
Period size: 56 Copynumber: 2.1 Consensus size: 56
27549619 ATTTTTTAAG
* *
27549629 CTCTGTAGTCATTGTGGCAATGGACTTATGCCAGCTTTCAGAGATATTTTCTTGTT
1 CTCTTTAGTCATTATGGCAATGGACTTATGCCAGCTTTCAGAGATATTTTCTTGTT
27549685 CTCTTTAGTCATTATGGCAATGGACTTATGCCAGCTTTCAGAGATATTTTCTTGTT
1 CTCTTTAGTCATTATGGCAATGGACTTATGCCAGCTTTCAGAGATATTTTCTTGTT
27549741 CTCTTT
1 CTCTTT
27549747 CAAGCCTTCG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (56 bp):
CTCTTTAGTCATTATGGCAATGGACTTATGCCAGCTTTCAGAGATATTTTCTTGTT
Found at i:27553036 original size:12 final size:11
Alignment explanation
Indices: 27552976--27553051 Score: 57
Period size: 11 Copynumber: 6.6 Consensus size: 11
27552966 AATTATTAAA
27552976 ATTTTTTATTT
1 ATTTTTTATTT
*
27552987 ATATTTT-TTT
1 ATTTTTTATTT
* *
27552997 AGGTCTTTATTT
1 A-TTTTTTATTT
*
27553009 -TATTTTAGTTT
1 ATTTTTTA-TTT
27553020 CATTTTTTATTCT
1 -ATTTTTTATT-T
27553033 ATTTATTTATTT
1 ATTT-TTTATTT
27553045 ATTTTTT
1 ATTTTTT
27553052 TAAAATTATT
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
10 8 0.16
11 15 0.30
12 14 0.28
13 13 0.26
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (11 bp):
ATTTTTTATTT
Found at i:27553045 original size:17 final size:19
Alignment explanation
Indices: 27553002--27553047 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
27552992 TTTTTAGGTC
*
27553002 TTTATTTTATTTTAGTTTCA
1 TTTA-TTTATTCTAGTTTCA
27553022 TTT-TTTATTCTA-TTT-A
1 TTTATTTATTCTAGTTTCA
27553038 TTTATTTATT
1 TTTATTTATT
27553048 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 4 0.17
17 9 0.38
18 8 0.33
20 3 0.12
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTATTTATTCTAGTTTCA
Found at i:27553073 original size:3 final size:3
Alignment explanation
Indices: 27553067--27553109 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
27553057 TTATTACCAG
* *
27553067 TAA TAA T-A TAA -AA TAA CAA TAA TAA TAA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
27553110 AAAAATATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:27553142 original size:6 final size:6
Alignment explanation
Indices: 27553071--27553177 Score: 63
Period size: 6 Copynumber: 17.2 Consensus size: 6
27553061 TACCAGTAAT
* * * * *
27553071 AATATAA AATAAC AATAAT AATAAT AATAAT AACAATA AA-AAA ATATAAA
1 AATA-AA AATAAA AATAAA AATAAA AATAAA AATAA-A AATAAA A-ATAAA
* * * * *
27553121 AATCAA CATAAAA AATAAA AATCAA AATCAA AATGAAA AATAAA AAGAAA
1 AATAAA AAT-AAA AATAAA AATAAA AATAAA AAT-AAA AATAAA AATAAA
*
27553171 AAGAAA A
1 AATAAA A
27553178 GAAAAAAAAC
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
5 2 0.02
6 63 0.75
7 19 0.23
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:27553153 original size:19 final size:19
Alignment explanation
Indices: 27553110--27553172 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
27553100 ATAACAATAA
*
27553110 AAAAATATAAAAATCAACAT
1 AAAAA-ATAAAAATCAAAAT
27553130 AAAAAATAAAAATCAAAAT
1 AAAAAATAAAAATCAAAAT
* * *
27553149 -CAAAATGAAAAATAAAAAG
1 AAAAAAT-AAAAATCAAAAT
27553168 AAAAA
1 AAAAA
27553173 GAAAAGAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 5 0.14
19 23 0.64
20 8 0.22
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.14
Consensus pattern (19 bp):
AAAAAATAAAAATCAAAAT
Found at i:27553159 original size:25 final size:25
Alignment explanation
Indices: 27553119--27553166 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
27553109 AAAAAATATA
*
27553119 AAAATCAACATAAAAAATAAAAATC
1 AAAATCAAAATAAAAAATAAAAATC
*
27553144 AAAATCAAAATGAAAAATAAAAA
1 AAAATCAAAATAAAAAATAAAAA
27553167 GAAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (25 bp):
AAAATCAAAATAAAAAATAAAAATC
Found at i:27553172 original size:25 final size:25
Alignment explanation
Indices: 27553118--27553172 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
27553108 AAAAAAATAT
* *
27553118 AAAAATCAACATAAAAAATAAAAAT
1 AAAAATCAAAATAAAAAATAAAAAG
* *
27553143 CAAAATCAAAATGAAAAATAAAAAG
1 AAAAATCAAAATAAAAAATAAAAAG
27553168 AAAAA
1 AAAAA
27553173 GAAAAGAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.76, C:0.07, G:0.04, T:0.13
Consensus pattern (25 bp):
AAAAATCAAAATAAAAAATAAAAAG
Found at i:27556364 original size:6 final size:6
Alignment explanation
Indices: 27556352--27556388 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
27556342 TCTAGAGGCA
*
27556352 GAGGTG GACGTG GAGGTG GAGGTG GAGGTG GAGGTG G
1 GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG G
27556389 TCGGGGACGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.16, C:0.03, G:0.65, T:0.16
Consensus pattern (6 bp):
GAGGTG
Found at i:27560298 original size:15 final size:15
Alignment explanation
Indices: 27560278--27560308 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27560268 AATAAAGATC
27560278 CTTCTTTTTCTTTTT
1 CTTCTTTTTCTTTTT
*
27560293 CTTCTTTTTTTTTTT
1 CTTCTTTTTCTTTTT
27560308 C
1 C
27560309 CTATAAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
CTTCTTTTTCTTTTT
Found at i:27562707 original size:22 final size:22
Alignment explanation
Indices: 27562679--27562722 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
27562669 CTAAATCTTC
*
27562679 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
27562701 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
27562723 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:27566190 original size:18 final size:18
Alignment explanation
Indices: 27566164--27566198 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27566154 TAATCCATGA
*
27566164 GAACCAGAAGCTTTACCT
1 GAACCAGAAACTTTACCT
*
27566182 GAACTAGAAACTTTACC
1 GAACCAGAAACTTTACC
27566199 CAAAGAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (18 bp):
GAACCAGAAACTTTACCT
Found at i:27566430 original size:23 final size:24
Alignment explanation
Indices: 27566374--27566432 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
27566364 AAAGGGTTCG
* *
27566374 GCAATGAAGGCCTAAACAGGATTC
1 GCAATGAAGGCCTAAACAGAAGTC
27566398 GACAATGAAGGCCTAAA-A-AAGTC
1 G-CAATGAAGGCCTAAACAGAAGTC
27566421 AGCAATGAAGGC
1 -GCAATGAAGGC
27566433 TGGAAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 13 0.42
24 3 0.10
25 15 0.48
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.14
Consensus pattern (24 bp):
GCAATGAAGGCCTAAACAGAAGTC
Found at i:27566608 original size:22 final size:22
Alignment explanation
Indices: 27566580--27566623 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
27566570 CTAAATCTTC
*
27566580 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
27566602 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
27566624 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:27576077 original size:1 final size:1
Alignment explanation
Indices: 27576071--27576096 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
27576061 GTACAATTAG
27576071 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
27576097 AGAAAGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:27589843 original size:13 final size:13
Alignment explanation
Indices: 27589827--27589866 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
27589817 TTTATTTTTA
*
27589827 ATTTTTATATATT
1 ATTTTAATATATT
**
27589840 ATTTTAATATAAA
1 ATTTTAATATATT
27589853 ATTTTAATATATT
1 ATTTTAATATATT
27589866 A
1 A
27589867 AAAAAGATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:27589980 original size:20 final size:21
Alignment explanation
Indices: 27589914--27589988 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
27589904 GTTAAATTTT
*
27589914 TATTCAATTTTAATTGAATTA-A
1 TATT-AATTTTAATTG-TTTATA
* *
27589936 -ATTAAATTTTATTTGTTTATT
1 TATT-AATTTTAATTGTTTATA
27589957 TATTAATTTTAATT-TTTATA
1 TATTAATTTTAATTGTTTATA
27589977 TATT-ATTTTAAT
1 TATTAATTTTAAT
27589989 ATATTAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
19 8 0.18
20 12 0.27
21 22 0.49
22 3 0.07
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (21 bp):
TATTAATTTTAATTGTTTATA
Found at i:27590021 original size:19 final size:19
Alignment explanation
Indices: 27589957--27590024 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
27589947 TTTGTTTATT
* * *
27589957 TATTAATTTTAATTTTTATA
1 TATT-ATTTTAATATATAAA
27589977 TATTATTTTAATATATTAAA
1 TATTATTTTAATATA-TAAA
*
27589997 -AATATTTTAATATA-AAA
1 TATTATTTTAATATATAAA
27590014 TTATTATTTTA
1 -TATTATTTTA
27590025 TTTTTAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
17 3 0.08
19 30 0.75
20 7 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTATTTTAATATATAAA
Found at i:27590042 original size:21 final size:21
Alignment explanation
Indices: 27589987--27590061 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
27589977 TATTATTTTA
27589987 ATATA-TTAAAAATAT-T-TT
1 ATATATTTAAAAATATATATT
*
27590005 A-ATA--TAAAATTAT-TATT
1 ATATATTTAAAAATATATATT
* *
27590022 TTATTTTTAAAAATATATATT
1 ATATATTTAAAAATATATATT
*
27590043 ATATATTAAAAAATATATA
1 ATATATTTAAAAATATATA
27590062 ATTCGATTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
16 9 0.20
17 5 0.11
18 3 0.07
20 8 0.18
21 20 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATATTTAAAAATATATATT
Found at i:27590053 original size:19 final size:19
Alignment explanation
Indices: 27589987--27590060 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
27589977 TATTATTTTA
*
27589987 ATATATTAAAA-ATATTTT
1 ATATATTAAAATATATATT
27590005 A-ATA-TAAAAT-TATTATT
1 ATATATTAAAATATA-TATT
* *
27590022 TTATTTTTAAAAATATATATT
1 ATA-TATT-AAAATATATATT
*
27590043 ATATATTAAAAAATATAT
1 ATATATTAAAATATATAT
27590061 AATTCGATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
16 7 0.16
17 6 0.14
18 2 0.05
19 11 0.26
20 4 0.09
21 11 0.26
22 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATATTAAAATATATATT
Found at i:27595885 original size:29 final size:29
Alignment explanation
Indices: 27595827--27595882 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
27595817 ATCTTCCATC
*
27595827 TTTATTTTAATGATAAAAAACTTTAAAAT
1 TTTAATTTAATGATAAAAAACTTTAAAAT
27595856 TTTAATTTAATGATAAAAAA-TTTAAAA
1 TTTAATTTAATGATAAAAAACTTTAAAA
27595883 ATTATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (29 bp):
TTTAATTTAATGATAAAAAACTTTAAAAT
Found at i:27596986 original size:37 final size:37
Alignment explanation
Indices: 27596908--27596988 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
27596898 CATATAAAAT
* * ***
27596908 ATAAGATAAAATAATATTATTCGATCTAATAGTATTT
1 ATAATATAAAATAATATTATTCAATCTAATAGTACCC
*
27596945 ATAATATAAAATAATATTATTTAATCTAATCA-TACCC
1 ATAATATAAAATAATATTATTCAATCTAAT-AGTACCC
27596982 ATAATAT
1 ATAATAT
27596989 CATCTTATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (37 bp):
ATAATATAAAATAATATTATTCAATCTAATAGTACCC
Found at i:27597739 original size:11 final size:11
Alignment explanation
Indices: 27597723--27597760 Score: 53
Period size: 9 Copynumber: 3.5 Consensus size: 11
27597713 ATATTTAAAA
27597723 ATATGAATTTT
1 ATATGAATTTT
27597734 ATATGATATTTT
1 ATATGA-ATTTT
27597746 ATA--AATTTT
1 ATATGAATTTT
27597755 ATATGA
1 ATATGA
27597761 TATTAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 8 0.33
10 1 0.04
11 7 0.29
12 8 0.33
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (11 bp):
ATATGAATTTT
Found at i:27613650 original size:2 final size:2
Alignment explanation
Indices: 27613643--27613669 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27613633 GATTATATGA
27613643 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
27613670 ATTTTATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27620668 original size:1 final size:1
Alignment explanation
Indices: 27620662--27620686 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
27620652 TATTCTATAG
27620662 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
27620687 GCTGTCTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:27621374 original size:17 final size:18
Alignment explanation
Indices: 27621348--27621381 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27621338 ATTTTAAATA
*
27621348 TTTATTAAATTA-ATTTT
1 TTTATAAAATTAGATTTT
27621365 TTTATAAAATTAGATTT
1 TTTATAAAATTAGATTT
27621382 AAAAAACTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTATAAAATTAGATTTT
Found at i:27623843 original size:168 final size:168
Alignment explanation
Indices: 27623574--27623878 Score: 511
Period size: 168 Copynumber: 1.8 Consensus size: 168
27623564 CATAACACCT
* * * *
27623574 ATCGAAAGATGGTACCAACTTAATTTTGTGTTTTTCAATAAGCCTTAAAAATTTTATTAAGTAAT
1 ATCGAAAGATGGTACCAACTTAATTTCGTGTTATCCAATAAGCCTTAAAAATTTTACTAAGTAAT
* *
27623639 TAATTATTAAAAATTATTCTTAATTAACTTTAATACTTTTGACAGAAAATTAAAAAACTTTCATT
66 TAATTATTAAAAATTATTCTTAATTAACTCTAATACTTTTGACAGAAAATTAAAAAACTTTCATC
27623704 ACCTCAAAAATATGCAAGATAGTACCCTCATAATGCTA
131 ACCTCAAAAATATGCAAGATAGTACCCTCATAATGCTA
* *
27623742 ATCGAAAGATGGTATCAACTTAATTTCGTGTTATCCAATAAGTCTTAAAAATTTTACTAAGTAAT
1 ATCGAAAGATGGTACCAACTTAATTTCGTGTTATCCAATAAGCCTTAAAAATTTTACTAAGTAAT
* * *
27623807 TAATTATTGAAAATTATTCTTAATTAACTCTAATACTTTTGACAGAAAATTAAAAAAGTTTCCTC
66 TAATTATTAAAAATTATTCTTAATTAACTCTAATACTTTTGACAGAAAATTAAAAAACTTTCATC
27623872 ACCTCAA
131 ACCTCAA
27623879 GAGTATGTAA
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
168 126 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (168 bp):
ATCGAAAGATGGTACCAACTTAATTTCGTGTTATCCAATAAGCCTTAAAAATTTTACTAAGTAAT
TAATTATTAAAAATTATTCTTAATTAACTCTAATACTTTTGACAGAAAATTAAAAAACTTTCATC
ACCTCAAAAATATGCAAGATAGTACCCTCATAATGCTA
Found at i:27624160 original size:60 final size:59
Alignment explanation
Indices: 27624082--27624433 Score: 249
Period size: 59 Copynumber: 5.9 Consensus size: 59
27624072 CATTTGGAGG
* *
27624082 TTTTT-ATTTTAAGAAAAATTGGTACTTCCAACTTTTCCTCAAAATATTTTTTTTCTAAA
1 TTTTTAATTTCAAGAAAAATTGATACTTCCAACTTTTCCTCAAAATATTTTTTTT-TAAA
* * * **
27624141 ATTTTAATTTCAAGAAAAATTGATAC-TCTCAACTTTTTTCTCAAAA-ATATTTTTAGAAA
1 TTTTTAATTTCAAGAAAAATTGATACTTC-CAAC-TTTTCCTCAAAATATTTTTTTTTAAA
* * * * * **
27624200 TTTTTATTTTTAAGAAAAATTGATACTTTCAAAATTTT-TTCAAAAATATTTTTTTTATATTT
1 TTTTTAATTTCAAGAAAAATTGATAC-TTCCAACTTTTCCTC-AAAATATTTTTTTT-TA-AA
* ** * *
27624262 TTTTTATTTTCAAGGGAAATTGATACTTTCAACTTTCTCCT-AAAATCATTTTTTTTTTAA
1 TTTTTAATTTCAAGAAAAATTGATACTTCCAACTTT-TCCTCAAAAT-ATTTTTTTTTAAA
** * **
27624322 TTTTTTGTGTTCAA-AGAAAATTAATACATT-CAAC-TTTCCTTCAAAA-ATAATTTTTTAAA
1 TTTTTAAT-TTCAAGA-AAAATTGATAC-TTCCAACTTTTCC-TCAAAATATTTTTTTTTAAA
* * *
27624381 -ATTT-ATTTGCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTT
1 TTTTTAATTT-CAAGAAAAATTGATACTTCCAACTTTTCCTC-AAAATATTTTTT
27624434 AGAAATTAAA
Statistics
Matches: 228, Mismatches: 42, Indels: 46
0.72 0.13 0.15
Matches are distributed among these distances:
56 4 0.02
57 20 0.09
58 15 0.07
59 57 0.25
60 47 0.21
61 49 0.21
62 35 0.15
63 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (59 bp):
TTTTTAATTTCAAGAAAAATTGATACTTCCAACTTTTCCTCAAAATATTTTTTTTTAAA
Found at i:27624313 original size:62 final size:60
Alignment explanation
Indices: 27624082--27624433 Score: 290
Period size: 61 Copynumber: 5.9 Consensus size: 60
27624072 CATTTGGAGG
* * * *
27624082 TTTTTATTTT-AAGAAAAATTGGTACTTCCAACTTT-TCCTCAAAATATTTTTTTTCTAAA
1 TTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTCTTCT-AAAATATTTTTTTTATAAA
* * * * * *
27624141 ATTTTAATTTCAAGAAAAATTGATACTCTCAACTTTTTTCTCAAAA-A-TATTTTTAGAAA
1 TTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTCTTCT-AAAATATTTTTTTTATAAA
* * * * **
27624200 TTTTTATTTTTAAGAAAAATTGATACTTTCAAAATTTTTTCAAAAATATTTTTTTTATATTT
1 TTTTTATTTTCAAGAAAAATTGATACTTTC-AACTTTCTTCTAAAATATTTTTTTTATA-AA
** * * *
27624262 TTTTTATTTTCAAGGGAAATTGATACTTTCAACTTTCTCCTAAAATCATTTTTTTTTTAAT
1 TTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTCTTCTAAAAT-ATTTTTTTTATAAA
* * * * * *
27624323 TTTTTGTGTTCAA-AGAAAATTAATACATTCAACTTTCCTTCAAAAATA-ATTTTTTA-AAA
1 TTTTTATTTTCAAGA-AAAATTGATACTTTCAACTTT-CTTCTAAAATATTTTTTTTATAAA
* * * *
27624382 --TTTATTTGCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTT
1 TTTTTATTTTCAAGAAAAATTGATACTTTCAAC-TTTCTTCTAAAATATTTTTT
27624434 AGAAATTAAA
Statistics
Matches: 235, Mismatches: 46, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
57 34 0.14
58 8 0.03
59 49 0.21
60 39 0.17
61 59 0.25
62 46 0.20
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (60 bp):
TTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTCTTCTAAAATATTTTTTTTATAAA
Found at i:27624314 original size:61 final size:59
Alignment explanation
Indices: 27624082--27624433 Score: 232
Period size: 62 Copynumber: 5.9 Consensus size: 59
27624072 CATTTGGAGG
* * * * * *
27624082 TTTTTATTTT-AAGAAAAATTGGTACTTCCAACTTTTCCTC-AAAATATTTTTTTTCTAAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAAC-TTTCTTCAAAAATATTTTTTTT-TTAT
* * * * * *** *
27624141 ATTTTAATTTCAAGAAAAATTGATACTCTCAACTTTTTTCTCAAAAATA--TTTTTAGAAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAAC-TTTCT-TCAAAAATATTTTTTTTTTAT
* * * * *
27624200 TTTTTATTTTTAAGAAAAATTGATACTTTCAAAATTTTTTCAAAAATATTTTTTTTATATTT
1 TTTTTATTTTCAAGGAAAATTGATACTTTC-AACTTTCTTCAAAAATATTTTTTTT-T-TAT
* * *
27624262 TTTTTATTTTCAAGGGAAATTGATACTTTCAACTTTCTCCTAAAATCATTTTTTTTTTAAT
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTCTTCAAAAAT-ATTTTTTTTTT-AT
* * * * * * *
27624323 TTTTTGTGTTCAAAGAAAATTAATACATTCAACTTTCCTTCAAAAATA---ATTTTTTAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTT-CTTCAAAAATATTTTTTTTTTAT
** * * * *
27624380 AATTTATTTGCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTT
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAAC-TTTCTTCAAAAATATTTTTT
27624434 AGAAATTAAA
Statistics
Matches: 230, Mismatches: 48, Indels: 29
0.75 0.16 0.09
Matches are distributed among these distances:
57 35 0.15
58 18 0.08
59 42 0.18
60 38 0.17
61 47 0.20
62 50 0.22
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (59 bp):
TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTCTTCAAAAATATTTTTTTTTTAT
Found at i:27624450 original size:19 final size:20
Alignment explanation
Indices: 27624421--27624459 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
27624411 ACTTTTCCTC
27624421 AAAAATAATTTTTAGAAATT
1 AAAAATAATTTTTAGAAATT
27624441 AAAAAT-ATTTTTAGAAATT
1 AAAAATAATTTTTAGAAATT
27624460 TTATTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAAATAATTTTTAGAAATT
Found at i:27624536 original size:77 final size:78
Alignment explanation
Indices: 27624364--27624536 Score: 221
Period size: 77 Copynumber: 2.3 Consensus size: 78
27624354 ACTTTCCTTC
* * *
27624364 AAAAATAATTTT-TTAAAATTTATTTGCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA
1 AAAAATATTTTTATTAAATTTTATTTGCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAATA
27624428 ATTTTTAGAAATT
66 ATTTTTAGAAATT
* *
27624441 AAAAATATTTTTA-GAAATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCCTC-AAAAT-
1 AAAAATATTTTTATTAAATTTTATTTGCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAATA
*
27624503 TTTTTTA-AAATTTT
66 ATTTTTAGAAA--TT
**
27624517 AAATTTATTTTTATTAAATT
1 AAAAATATTTTTATTAAATT
27624537 AATTCAAGAA
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
74 3 0.04
75 6 0.07
76 18 0.22
77 56 0.67
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.46
Consensus pattern (78 bp):
AAAAATATTTTTATTAAATTTTATTTGCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAATA
ATTTTTAGAAATT
Found at i:27624575 original size:13 final size:13
Alignment explanation
Indices: 27624559--27624594 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
27624549 AAACTCATAA
27624559 AAATAAATAATA-C
1 AAATAAATAA-ACC
27624572 AAATAAATAAACC
1 AAATAAATAAACC
27624585 AAATAAATAA
1 AAATAAATAA
27624595 GATACCTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 1 0.05
13 21 0.95
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAATAAACC
Found at i:27625806 original size:13 final size:13
Alignment explanation
Indices: 27625784--27625813 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27625774 AATAAATGAT
27625784 AAATACGAAATAA
1 AAATACGAAATAA
*
27625797 AAATATGAAATAA
1 AAATACGAAATAA
27625810 AAAT
1 AAAT
27625814 GAATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (13 bp):
AAATACGAAATAA
Found at i:27626097 original size:44 final size:44
Alignment explanation
Indices: 27626014--27626135 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
27626004 CTAAAAAGGG
* * *
27626014 GCTCAACGATTTTAAAAAAATAAACAAAGCTCATTTAATCAAAA
1 GCTCAACGACTTTGAAAAAATAAACAAAGCTCATCTAATCAAAA
* * * * *
27626058 GTTTAACGACTTTGAAAAAATAAAC-AAGACTCCTCTAATCAGAG
1 GCTCAACGACTTTGAAAAAATAAACAAAG-CTCATCTAATCAAAA
* *
27626102 GCTCAACAACTTTGAAAAAATAAATAAAGCTCAT
1 GCTCAACGACTTTGAAAAAATAAACAAAGCTCAT
27626136 TGACGATCAT
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
43 3 0.05
44 57 0.90
45 3 0.05
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.25
Consensus pattern (44 bp):
GCTCAACGACTTTGAAAAAATAAACAAAGCTCATCTAATCAAAA
Found at i:27626700 original size:46 final size:46
Alignment explanation
Indices: 27626633--27626784 Score: 186
Period size: 46 Copynumber: 3.3 Consensus size: 46
27626623 TTTACATCTT
*
27626633 AAAGATTCTCATTTGAAAATGTCTTAAAAGTTATCATTTAAGACTC
1 AAAGATTCTCATTTGAAAATGTCTTAAAAGTTCTCATTTAAGACTC
* * *
27626679 AAAGATGCTTATTTGAAAATGTCTTAAAAGTTCTCATTTAAGACTA
1 AAAGATTCTCATTTGAAAATGTCTTAAAAGTTCTCATTTAAGACTC
* * *
27626725 AAAAATTCTCATTTGAAGAT-TC---AAAGATTCTCATTTAAGGATTC
1 AAAGATTCTCATTTGAAAATGTCTTAAAAG-TTCTCATTTAA-GACTC
*
27626769 AAAGATTCTTATTTGA
1 AAAGATTCTCATTTGA
27626785 GTTCGAAGAT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 4 0.04
43 11 0.12
44 17 0.18
45 2 0.02
46 58 0.63
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (46 bp):
AAAGATTCTCATTTGAAAATGTCTTAAAAGTTCTCATTTAAGACTC
Found at i:27626767 original size:22 final size:21
Alignment explanation
Indices: 27626705--27626801 Score: 99
Period size: 22 Copynumber: 4.6 Consensus size: 21
27626695 AAATGTCTTA
* *
27626705 AAAG-TTCTCATTTAAGACTA
1 AAAGATTCTCATTTAAGATTC
*
27626725 AAAAATTCTCATTTGAAGATTC
1 AAAGATTCTCATTT-AAGATTC
27626747 AAAGATTCTCATTTAAGGATTC
1 AAAGATTCTCATTTAA-GATTC
* *
27626769 AAAGATTCTTATTTGAG-TTC
1 AAAGATTCTCATTTAAGATTC
* *
27626789 GAAGATTCACATT
1 AAAGATTCTCATT
27626802 CGATAAATTT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
20 16 0.25
21 12 0.18
22 37 0.57
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.37
Consensus pattern (21 bp):
AAAGATTCTCATTTAAGATTC
Found at i:27626854 original size:21 final size:21
Alignment explanation
Indices: 27626827--27627073 Score: 131
Period size: 21 Copynumber: 11.7 Consensus size: 21
27626817 TTCACACTTT
*
27626827 AAAGATTCTCATTTGAAATTC
1 AAAGATTCTCATTTGAAAATC
* * *
27626848 TAAGATTCTCATTTGACACTC
1 AAAGATTCTCATTTGAAAATC
27626869 AAAGATTCTCATTT-AAGGAATC
1 AAAGATTCTCATTTGAA--AATC
**
27626891 AAAGATTCTCATTTG-AGTTC
1 AAAGATTCTCATTTGAAAATC
* * *
27626911 GAAGATT-TACATTCGATAAATT
1 AAAGATTCT-CATTTGA-AAATC
** ** *
27626933 TTAGATT-TCACAT-ATAA--
1 AAAGATTCTCATTTGAAAATC
*
27626950 AAA-ATTCTCATTTGAAATTC
1 AAAGATTCTCATTTGAAAATC
*
27626970 AAAGATTCTCA--T-AAGATTC
1 AAAGATTCTCATTTGAA-AATC
27626989 AAAGATTCTCATTTGAAAATGTC
1 AAAGATTCTCATTTGAAAA--TC
*
27627012 TTAAATATTCTCATTT-AAAACTC
1 --AAAGATTCTCATTTGAAAA-TC
27627035 AAAGATTCTCATTTGAAAACGTC
1 AAAGATTCTCATTTGAAAA--TC
27627058 TTAAAGATTCTCATTT
1 --AAAGATTCTCATTT
27627074 AAGAATTTCT
Statistics
Matches: 173, Mismatches: 30, Indels: 42
0.71 0.12 0.17
Matches are distributed among these distances:
16 3 0.02
17 5 0.03
18 4 0.02
19 19 0.11
20 18 0.10
21 55 0.32
22 32 0.18
23 6 0.03
24 4 0.02
25 27 0.16
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (21 bp):
AAAGATTCTCATTTGAAAATC
Found at i:27626923 original size:122 final size:122
Alignment explanation
Indices: 27626729--27627002 Score: 410
Period size: 122 Copynumber: 2.3 Consensus size: 122
27626719 AGACTAAAAA
* *
27626729 ATTCTCATTTGAAGATTCAAAGATTCTCATTTAAGGATTCAAAGATTCTTATTTGAGTTCGAAGA
1 ATTCTCATTTG-AGATTCAAAGATTCTCATTTAAGGAATCAAAGATTCTCATTTGAGTTCGAAGA
* * * * *
27626794 TTCACATTCGATAAATTTTGGGTTTCACACT-TTAAAGATTCTCATTTGAAATTCTAAG
65 TTCACATTCGATAAATTTTAGATTTCACA-TATAAAAAATTCTCATTTGAAATTCAAAG
* *
27626852 ATTCTCATTTGACACTCAAAGATTCTCATTTAAGGAATCAAAGATTCTCATTTGAGTTCGAAGAT
1 ATTCTCATTTGAGATTCAAAGATTCTCATTTAAGGAATCAAAGATTCTCATTTGAGTTCGAAGAT
*
27626917 TTACATTCGATAAATTTTAGATTTCACATATAAAAAATTCTCATTTGAAATTCAAAG
66 TCACATTCGATAAATTTTAGATTTCACATATAAAAAATTCTCATTTGAAATTCAAAG
*
27626974 ATTCTCA--TAAGATTCAAAGATTCTCATTT
1 ATTCTCATTTGAGATTCAAAGATTCTCATTT
27627003 GAAAATGTCT
Statistics
Matches: 137, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
120 19 0.14
121 1 0.01
122 106 0.77
123 11 0.08
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (122 bp):
ATTCTCATTTGAGATTCAAAGATTCTCATTTAAGGAATCAAAGATTCTCATTTGAGTTCGAAGAT
TCACATTCGATAAATTTTAGATTTCACATATAAAAAATTCTCATTTGAAATTCAAAG
Found at i:27627040 original size:46 final size:46
Alignment explanation
Indices: 27626970--27627075 Score: 162
Period size: 46 Copynumber: 2.3 Consensus size: 46
27626960 TTTGAAATTC
* * *
27626970 AAAGATTCTCA--TAAGATTCAAAGATTCTCATTTGAAAATGTCTT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAACGTCTT
*
27627014 AAATATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAACGTCTT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAACGTCTT
27627060 AAAGATTCTCATTTAA
1 AAAGATTCTCATTTAA
27627076 GAATTTCTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 10 0.18
46 45 0.82
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (46 bp):
AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAACGTCTT
Found at i:27627085 original size:25 final size:25
Alignment explanation
Indices: 27626989--27627073 Score: 115
Period size: 25 Copynumber: 3.6 Consensus size: 25
27626979 CATAAGATTC
27626989 AAAGATTCTCATTTGAAAATGTCTT
1 AAAGATTCTCATTTGAAAATGTCTT
* *
27627014 AAATATTCTCATTT-AAAA---CTC
1 AAAGATTCTCATTTGAAAATGTCTT
*
27627035 AAAGATTCTCATTTGAAAACGTCTT
1 AAAGATTCTCATTTGAAAATGTCTT
27627060 AAAGATTCTCATTT
1 AAAGATTCTCATTT
27627074 AAGAATTTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
21 15 0.29
22 4 0.08
24 4 0.08
25 29 0.56
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (25 bp):
AAAGATTCTCATTTGAAAATGTCTT
Found at i:27627183 original size:43 final size:37
Alignment explanation
Indices: 27627060--27627253 Score: 250
Period size: 37 Copynumber: 5.1 Consensus size: 37
27627050 AAAACGTCTT
*
27627060 AAAGATTCTCATTT-AAGAATTTCTTATTTTAAAACTC
1 AAAGATTCTCATTTGAAG-ATTTCTTATTTAAAAACTC
27627097 AAAGATTCTCATTTGAAGATTTCTTATTTAAAAACTC
1 AAAGATTCTCATTTGAAGATTTCTTATTTAAAAACTC
*
27627134 AAAGATTCTCATTTGAAGATTTTTTATTTAAAAAAAAAAACTC
1 AAAGATTCTCATTTGAAGATTTCTTATTT------AAAAACTC
*
27627177 AAAGATTCTCA-TTCAAGGATTTCTTATTTAAAAACTC
1 AAAGATTCTCATTTGAA-GATTTCTTATTTAAAAACTC
*
27627214 AAAGATTCTCATTTAAAGAATTT-TTATTTAAAAACTC
1 AAAGATTCTCATTTGAAG-ATTTCTTATTTAAAAACTC
27627251 AAA
1 AAA
27627254 ATTTCTTTTG
Statistics
Matches: 142, Mismatches: 5, Indels: 20
0.85 0.03 0.12
Matches are distributed among these distances:
37 97 0.68
38 11 0.08
42 4 0.03
43 30 0.21
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (37 bp):
AAAGATTCTCATTTGAAGATTTCTTATTTAAAAACTC
Found at i:27627189 original size:80 final size:80
Alignment explanation
Indices: 27627090--27627247 Score: 273
Period size: 80 Copynumber: 2.0 Consensus size: 80
27627080 TTCTTATTTT
* * *
27627090 AAAACTCAAAGATTCTCATTTGAA-GATTTCTTATTTAAAAACTCAAAGATTCTCATTTGAAGAT
1 AAAACTCAAAGATTCTCA-TTCAAGGATTTCTTATTTAAAAACTCAAAGATTCTCATTTAAAGAA
27627154 TTTTTATTTAAAAAAA
65 TTTTTATTTAAAAAAA
27627170 AAAACTCAAAGATTCTCATTCAAGGATTTCTTATTTAAAAACTCAAAGATTCTCATTTAAAGAAT
1 AAAACTCAAAGATTCTCATTCAAGGATTTCTTATTTAAAAACTCAAAGATTCTCATTTAAAGAAT
27627235 TTTTATTTAAAAA
66 TTTTATTTAAAAA
27627248 CTCAAAATTT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
79 4 0.05
80 70 0.95
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (80 bp):
AAAACTCAAAGATTCTCATTCAAGGATTTCTTATTTAAAAACTCAAAGATTCTCATTTAAAGAAT
TTTTATTTAAAAAAA
Found at i:27628338 original size:13 final size:13
Alignment explanation
Indices: 27628322--27628404 Score: 70
Period size: 13 Copynumber: 6.8 Consensus size: 13
27628312 TCAATTTGAG
27628322 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
* *
27628335 TTTTCATCTTTTC
1 TTTTCTTTTTTTC
*
27628348 -TCT-TTTTTTTC
1 TTTTCTTTTTTTC
27628359 -TTTC-TTTTTT-
1 TTTTCTTTTTTTC
*
27628369 TTTTCATTTATTT-
1 TTTTC-TTTTTTTC
*
27628382 TTTTCATTTTTTC
1 TTTTCTTTTTTTC
27628395 TTTTCTTTTT
1 TTTTCTTTTT
27628405 CATCTTTTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
11 18 0.33
12 7 0.13
13 30 0.55
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:27628386 original size:47 final size:46
Alignment explanation
Indices: 27628322--27628414 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 46
27628312 TCAATTTGAG
* *
27628322 TTTTCTTTTTTTCTTTTCATCTTTTCTCTTT-TTTTTCTTTCTTTTTT
1 TTTTCTTTATTTCTTTTCATCTTTTCT-TTTCTTTTTC-ATCTTTTTT
*
27628369 TTTTCATTTATTT-TTTTCATTTTTTCTTTTCTTTTTCATCTTTTTT
1 TTTTC-TTTATTTCTTTTCATCTTTTCTTTTCTTTTTCATCTTTTTT
27628415 CATTCTCTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
46 11 0.27
47 24 0.59
48 6 0.15
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (46 bp):
TTTTCTTTATTTCTTTTCATCTTTTCTTTTCTTTTTCATCTTTTTT
Found at i:27628415 original size:16 final size:16
Alignment explanation
Indices: 27628328--27628430 Score: 52
Period size: 16 Copynumber: 6.4 Consensus size: 16
27628318 TGAGTTTTCT
27628328 TTTTTTC-TTTTCATC
1 TTTTTTCTTTTTCATC
* **
27628343 TTTTCTCTTTTTTTTC
1 TTTTTTCTTTTTCATC
*
27628359 TTTCTTT-TTTTT-TTC
1 TTT-TTTCTTTTTCATC
* *
27628374 ATTTATT-TTTTTCATTTT
1 -TTTTTTCTTTTTCA--TC
27628392 TTCTTTTCTTTTTCATC
1 TT-TTTTCTTTTTCATC
* * *
27628409 TTTTTTCATTCTCTTC
1 TTTTTTCTTTTTCATC
27628425 TTTTTT
1 TTTTTT
27628431 ATTCATCTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 15
0.72 0.13 0.16
Matches are distributed among these distances:
15 16 0.24
16 34 0.50
17 7 0.10
18 4 0.06
19 7 0.10
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTCTTTTTCATC
Found at i:27628434 original size:15 final size:17
Alignment explanation
Indices: 27628407--27628439 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
27628397 TTCTTTTTCA
27628407 TCTTTTTTCATTC-TCT
1 TCTTTTTTCATTCATCT
27628423 TCTTTTTT-ATTCATCT
1 TCTTTTTTCATTCATCT
27628439 T
1 T
27628440 TCATCCACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (17 bp):
TCTTTTTTCATTCATCT
Found at i:27628435 original size:29 final size:28
Alignment explanation
Indices: 27628352--27628440 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 28
27628342 CTTTTCTCTT
* * *
27628352 TTTTTTCTTTCTTTTTTTTTTCATTTAT-
1 TTTTTTCATTCTTTCTTTTTT-ATTCATC
* *
27628380 TTTTTTCATTTTTTCTTTTCTTTTTCATC
1 TTTTTTCATTCTTTCTTTT-TTATTCATC
27628409 TTTTTTCATTCTCTTCTTTTTTATTCATC
1 TTTTTTCATTCT-TTCTTTTTTATTCATC
27628438 TTT
1 TTT
27628441 CATCCACTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
28 20 0.39
29 24 0.47
30 7 0.14
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (28 bp):
TTTTTTCATTCTTTCTTTTTTATTCATC
Found at i:27628439 original size:16 final size:16
Alignment explanation
Indices: 27628345--27628439 Score: 57
Period size: 15 Copynumber: 6.4 Consensus size: 16
27628335 TTTTCATCTT
*
27628345 TTCTCTT-TTTTTTCT
1 TTCTCTTCTTTTTTCA
*
27628360 TTCT-TTTTTTTTTCA
1 TTCTCTTCTTTTTTCA
*
27628375 TT-T-AT-TTTTTTCA
1 TTCTCTTCTTTTTTCA
*
27628388 TT-TTTTCTTTTCTT--
1 TTCTCTTCTTTT-TTCA
*
27628402 TT-TCATCTTTTTTCA
1 TTCTCTTCTTTTTTCA
27628417 TTCTCTTCTTTTTT-A
1 TTCTCTTCTTTTTTCA
27628432 TTCATCTT
1 TTC-TCTT
27628440 TCATCCACTA
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
13 13 0.20
14 14 0.21
15 23 0.35
16 16 0.24
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (16 bp):
TTCTCTTCTTTTTTCA
Found at i:27628803 original size:9 final size:9
Alignment explanation
Indices: 27628789--27628836 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
27628779 GTGACATTCA
27628789 TTTTTTCTTT
1 TTTTTTC-TT
27628799 TTTTTTCTT
1 TTTTTTCTT
27628808 TTTTTTCTT
1 TTTTTTCTT
*
27628817 TATTTTACTT
1 T-TTTTTCTT
*
27628827 TTCTTTCTT
1 TTTTTTCTT
27628836 T
1 T
27628837 CATTTCTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
9 19 0.56
10 15 0.44
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:27628804 original size:10 final size:10
Alignment explanation
Indices: 27628789--27628828 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
27628779 GTGACATTCA
27628789 TTTTTTCTTT
1 TTTTTTCTTT
27628799 TTTTTTC-TT
1 TTTTTTCTTT
27628808 TTTTTTCTTT
1 TTTTTTCTTT
* *
27628818 ATTTTACTTT
1 TTTTTTCTTT
27628828 T
1 T
27628829 CTTTCTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:27628813 original size:19 final size:19
Alignment explanation
Indices: 27628789--27628841 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
27628779 GTGACATTCA
* *
27628789 TTTTTTCTTTTTTTTTCTT
1 TTTTTTCTTTATTTTACTT
27628808 TTTTTTCTTTATTTTACTT
1 TTTTTTCTTTATTTTACTT
*
27628827 TTCTTTCTTTCATTT
1 TTTTTTCTTT-ATTT
27628842 CTTTCTATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 26 0.87
20 4 0.13
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTCTTTATTTTACTT
Found at i:27632613 original size:60 final size:58
Alignment explanation
Indices: 27632445--27632780 Score: 276
Period size: 59 Copynumber: 5.7 Consensus size: 58
27632435 TTATTTAAAA
* * * * *
27632445 AAAAATTGATGCTTTCAAC-TTTTCTGTAAAATGCTTTTCTTGAT-AATTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTCT-AAAAAT-ATTTT-TTTATAAATTTTATTTTCAAG
* * * *
27632504 AAAAATTGGTACTTCCAA-TTTTTCCTTAAAATATTTTTTTCTAAAATTTTAATTTT-AAG
1 AAAAATTGATACTTTCAACTTTTT-CTAAAAATATTTTTTTAT-AAATTTT-ATTTTCAAG
*
27632563 AAAAATTGATACTTTCAACTTTTTTCTAAAAAATATTTTTTTATACATTTTTATTTTCAAG
1 AAAAATTGATACTTTCAAC-TTTTTCT-AAAAATATTTTTTTATA-AATTTTATTTTCAAG
** ** * * ** *
27632624 GGAAATTGATACTTTCAACTTTCCCTCAAAATCGTTTTTTT-TTTATTTTTTGTGTTCAA-
1 AAAAATTGATACTTTCAACTTTTTCTAAAAAT-ATTTTTTTATAAATTTTAT-T-TTCAAG
*
27632683 AGAAAATTGATACATTCAACTTTCCTTC-AAAAATA-TTTTTTA-AAATTTTATTTTCAAG
1 A-AAAATTGATACTTTCAACTTT--TTCTAAAAATATTTTTTTATAAATTTTATTTTCAAG
*
27632741 AAAAATTGATACTTTTAACTTTTTCTTAAAAATATTTTTT
1 AAAAATTGATACTTTCAACTTTTTC-TAAAAATATTTTTT
27632781 AGGAATTGAA
Statistics
Matches: 223, Mismatches: 33, Indels: 43
0.75 0.11 0.14
Matches are distributed among these distances:
55 3 0.01
57 34 0.15
58 16 0.07
59 69 0.31
60 51 0.23
61 49 0.22
62 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTTCTAAAAATATTTTTTTATAAATTTTATTTTCAAG
Found at i:27632800 original size:19 final size:20
Alignment explanation
Indices: 27632769--27632806 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
27632759 CTTTTTCTTA
*
27632769 AAAATATTTTTTAGGAATTG
1 AAAATATTTTTTAGAAATTG
27632789 AAAATA-TTTTTAGAAATT
1 AAAATATTTTTTAGAAATT
27632807 TTATTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (20 bp):
AAAATATTTTTTAGAAATTG
Found at i:27632910 original size:4 final size:4
Alignment explanation
Indices: 27632903--27632944 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
27632893 AACCTCATAA
* * *
27632903 AAAT AAAT -AAC ACAT AAAT AAAT AAAT AAAC AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
27632945 ATACCAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
3 2 0.06
4 29 0.94
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:27632952 original size:16 final size:16
Alignment explanation
Indices: 27632903--27632944 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 16
27632893 AACCTCATAA
27632903 AAATAAATAACACATAAAT
1 AAATAAATAA-AC--AAAT
27632922 AAATAAATAAACAAAT
1 AAATAAATAAACAAAT
27632938 AAATAAA
1 AAATAAA
27632945 ATACCAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.48
18 2 0.09
19 10 0.43
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (16 bp):
AAATAAATAAACAAAT
Found at i:27643453 original size:18 final size:19
Alignment explanation
Indices: 27643430--27643465 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27643420 ACTTTAAATA
*
27643430 TTTTATTAAATTA-ATTTT
1 TTTTATAAAATTAGATTTT
27643448 TTTTATAAAATTAGATTT
1 TTTTATAAAATTAGATTT
27643466 AAAAAACTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTATAAAATTAGATTTT
Found at i:27644226 original size:31 final size:30
Alignment explanation
Indices: 27644163--27644226 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
27644153 TATTTAATTT
* *
27644163 AAAATTAAATATTTTAATTTGTATAAATAA
1 AAAATTAAATATTTCAATTTATATAAATAA
*
27644193 AAAATTAAATATTATCGATTTATA-ATAATAA
1 AAAATTAAATATT-TCAATTTATATA-AATAA
27644224 AAA
1 AAA
27644227 TTATATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (30 bp):
AAAATTAAATATTTCAATTTATATAAATAA
Found at i:27644749 original size:33 final size:33
Alignment explanation
Indices: 27644712--27644782 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
27644702 TTTTACTGGT
* **
27644712 AAAAAATTTGATTTGTATATAGCGTTTGGCATG
1 AAAAAATTTGATCTGTATATAGCGTTTCACATG
* *
27644745 AAAAAATTTGGTCTGTATATAGTGTTTCACATG
1 AAAAAATTTGATCTGTATATAGCGTTTCACATG
27644778 AAAAA
1 AAAAA
27644783 TGCATTCAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.37
Consensus pattern (33 bp):
AAAAAATTTGATCTGTATATAGCGTTTCACATG
Found at i:27650859 original size:24 final size:26
Alignment explanation
Indices: 27650798--27650859 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 26
27650788 TGGTATGGTG
*
27650798 GATGG-AAAAATGAAAAGATAGAAAA
1 GATGGAAAAAAAGAAAAGATAGAAAA
* * *
27650823 -TTGGAACACAAGAAAAG-T-GAAAA
1 GATGGAAAAAAAGAAAAGATAGAAAA
27650846 GATGGAAAAAAAGA
1 GATGGAAAAAAAGA
27650860 TTTTTTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 5
0.70 0.17 0.12
Matches are distributed among these distances:
23 5 0.18
24 14 0.50
25 9 0.32
ACGTcount: A:0.61, C:0.03, G:0.24, T:0.11
Consensus pattern (26 bp):
GATGGAAAAAAAGAAAAGATAGAAAA
Found at i:27655893 original size:19 final size:19
Alignment explanation
Indices: 27655808--27655899 Score: 62
Period size: 19 Copynumber: 4.6 Consensus size: 19
27655798 CGGCGAGGAA
* * *
27655808 TCCCAGAAACCGACGAATAT
1 TCCCAGAATCCGGCGACT-T
*
27655828 TCCCAGAAACCGGCCGACTT
1 TCCCAGAATCCGG-CGACTT
*
27655848 TCGGCCA-AATTCCGGCGAAATT
1 TC--CCAGAA-TCCGGCG-ACTT
*
27655870 T-CCAGATTCCGGCGACTT
1 TCCCAGAATCCGGCGACTT
27655888 TCCCAGAATCCG
1 TCCCAGAATCCG
27655900 ACACCGGTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
18 4 0.07
19 19 0.33
20 16 0.28
21 8 0.14
22 11 0.19
ACGTcount: A:0.27, C:0.34, G:0.20, T:0.20
Consensus pattern (19 bp):
TCCCAGAATCCGGCGACTT
Found at i:27656465 original size:60 final size:59
Alignment explanation
Indices: 27656283--27656868 Score: 830
Period size: 57 Copynumber: 9.7 Consensus size: 59
27656273 AAAAAATTCT
*
27656283 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTCC
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
*
27656343 --AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC
27656405 AAAATAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAA-AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* *
27656465 AAAATAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAA-AAATTTCA
1 AAAA-AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
27656524 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCC
*
27656583 --AAAAAATATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
27656640 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 -AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC
* *
27656705 AAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCAA
1 -AAAAAAAA-TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTC-C
* *
27656769 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
*
27656828 --AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
27656869 CTAAAAAAAA
Statistics
Matches: 489, Mismatches: 13, Indels: 51
0.88 0.02 0.09
Matches are distributed among these distances:
57 132 0.27
58 49 0.10
59 18 0.04
60 112 0.23
61 5 0.01
62 56 0.11
63 18 0.04
64 2 0.00
65 61 0.12
66 36 0.07
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (59 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:27659967 original size:16 final size:17
Alignment explanation
Indices: 27659946--27659988 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
27659936 TTATAAATTA
*
27659946 ATAAATATATGA-TTTT
1 ATAAATATATAATTTTT
*
27659962 ATAAATTTATAATTTTT
1 ATAAATATATAATTTTT
*
27659979 ATTAATATAT
1 ATAAATATAT
27659989 TACTTACATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
ATAAATATATAATTTTT
Found at i:27661047 original size:59 final size:58
Alignment explanation
Indices: 27660981--27661319 Score: 255
Period size: 59 Copynumber: 5.7 Consensus size: 58
27660971 TGCTTTTGTA
* *
27660981 CAAGAAAAATTAATACTTTTAACTTTTTCTCAAAATATTTTTTTTTGAAATTTTAATTT
1 CAAGAAAAATTAATACTTTCAACTTTTTCTCAAAATATTTTTTTTT-AAATTTTATTTT
* * * * **
27661040 CAAGAAAAATTGATGCTTTCAACTTTTTTTTCAAAA-ATATTTTTAAAAATTTTTATTTT
1 CAAGAAAAATTAATACTTTCAAC-TTTTTCTCAAAATATTTTTTTTTAAA-TTTTATTTT
* * * * * * **
27661099 AAAAAAAAATTGAT-CATTTCAATTTTTTTCTAAAAATATTTTTTTATATCTTTTTATTTT
1 CAAGAAAAATTAATAC-TTTCAA-CTTTTTCTCAAAATATTTTTTTTTA-AATTTTATTTT
* * * * * *
27661159 CAAGAGAAATTGATACTTTCAAC-TTTCCCCAAAAATCATATTTTTTTT-TATTTTTTGTGTT
1 CAAGAAAAATTAATACTTTCAACTTTTTCTC-AAAAT-AT-TTTTTTTTAAATTTTAT-T-TT
* *
27661220 CAA-AAGAAATTAATACATTCAACTTTCTT-TCAAAA-A-TATTTTTTAAATTTTATTTT
1 CAAGAA-AAATTAATACTTTCAACTTT-TTCTCAAAATATTTTTTTTTAAATTTTATTTT
*
27661276 CAAGAAAAATTGAA-ACTTTCAACTTTTCCTCAAAAATATTTTTT
1 CAAGAAAAATT-AATACTTTCAACTTTTTCTC-AAAATATTTTTT
27661320 AGAAATTGAA
Statistics
Matches: 219, Mismatches: 39, Indels: 44
0.73 0.13 0.15
Matches are distributed among these distances:
55 1 0.00
56 23 0.11
57 16 0.07
58 15 0.07
59 78 0.36
60 50 0.23
61 32 0.15
62 3 0.01
63 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (58 bp):
CAAGAAAAATTAATACTTTCAACTTTTTCTCAAAATATTTTTTTTTAAATTTTATTTT
Found at i:27661106 original size:117 final size:117
Alignment explanation
Indices: 27660985--27661318 Score: 331
Period size: 119 Copynumber: 2.8 Consensus size: 117
27660975 TTTGTACAAG
* *
27660985 AAAAATTAATACTTTTAACTTTTTCTCAAAATATTTTTTTTTGAAATTTTAATTTCAAGAAAAAT
1 AAAAATTAATACTTTCAACTTTTTCTCAAAATATTTTTTTTT-AAATTTTATTTTCAAGAAAAAT
* **
27661050 TGATGCTTTCAACTTTTTTTTCAAAAATATTTTTAAAAATTTTTAT-T-TTAAAA
65 TGATACTTTCAAC-TTTTCCTCAAAAATATTTTTAAAAATTTTT-TGTGTTAAAA
* * * * ** *
27661103 AAAAATTGAT-CATTTCAATTTTTTTCTAAAAATATTTTTTTATATCTTTTTATTTTCAAGAGAA
1 AAAAATTAATAC-TTTCAA-CTTTTTCTCAAAATATTTTTTTTTA-AATTTTATTTTCAAGAAAA
* **** *
27661167 ATTGATACTTTCAAC-TTTCCCCAAAAATCATATTTTTTTTTATTTTTTGTGTTCAAA
63 ATTGATACTTTCAACTTTTCCTC-AAAA--ATATTTTTAAAAATTTTTTGTGTTAAAA
* * *
27661224 AGAAATTAATACATTCAACTTTCTT-TCAAAA-A-TATTTTTTAAATTTTATTTTCAAGAAAAAT
1 AAAAATTAATACTTTCAACTTT-TTCTCAAAATATTTTTTTTTAAATTTTATTTTCAAGAAAAAT
*
27661286 TGAAACTTTCAACTTTTCCTCAAAAATATTTTT
65 TGATACTTTCAACTTTTCCTCAAAAATATTTTT
27661319 TAGAAATTGA
Statistics
Matches: 175, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
115 8 0.05
117 39 0.22
118 32 0.18
119 52 0.30
120 23 0.13
121 20 0.11
122 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (117 bp):
AAAAATTAATACTTTCAACTTTTTCTCAAAATATTTTTTTTTAAATTTTATTTTCAAGAAAAATT
GATACTTTCAACTTTTCCTCAAAAATATTTTTAAAAATTTTTTGTGTTAAAA
Found at i:27661156 original size:60 final size:62
Alignment explanation
Indices: 27661004--27661319 Score: 236
Period size: 61 Copynumber: 5.3 Consensus size: 62
27660994 TACTTTTAAC
* * * * * *
27661004 TTTTTCTCAAAATATTTTTTTTTGA-AATTTTAATTTCAAGAAAAATTGATGC-TTTCAACTT
1 TTTTTCTAAAAATATTTTTTTAT-ATATTTTTATTTTCAAAAAAAATTGATACATTTCAACTT
* * *
27661065 TTTTT-TCAAAAATA--TTTTTAAAAATTTTTATTTTAAAAAAAAATTGAT-CATTTCAA-TT
1 TTTTTCT-AAAAATATTTTTTTATATATTTTTATTTTCAAAAAAAATTGATACATTTCAACTT
* * *
27661123 TTTTTCTAAAAATATTTTTTTATATCTTTTTATTTTCAAGAGAAATTGATAC-TTTCAAC-T
1 TTTTTCTAAAAATATTTTTTTATATATTTTTATTTTCAAAAAAAATTGATACATTTCAACTT
*** * * * * * *
27661183 TTCCCCAAAAATCATATTTTTTTTTAT-TTTTTGTGTTCAAAAGAAATTAATACA-TTCAACTT
1 TTTTTCTAAAA--ATATTTTTTTATATATTTTTATTTTCAAAAAAAATTGATACATTTCAACTT
* * *
27661245 TCTTTC-AAAAATA-TTTTTTA-A-A-TTTTATTTTCAAGAAAAATTGAAAC-TTTCAACTT
1 TTTTTCTAAAAATATTTTTTTATATATTTTTATTTTCAAAAAAAATTGATACATTTCAACTT
**
27661301 TTCCTC-AAAAATATTTTTT
1 TTTTTCTAAAAATATTTTTT
27661320 AGAAATTGAA
Statistics
Matches: 204, Mismatches: 36, Indels: 34
0.74 0.13 0.12
Matches are distributed among these distances:
56 37 0.18
57 6 0.03
58 22 0.11
59 36 0.18
60 43 0.21
61 44 0.22
62 16 0.08
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (62 bp):
TTTTTCTAAAAATATTTTTTTATATATTTTTATTTTCAAAAAAAATTGATACATTTCAACTT
Found at i:27661338 original size:76 final size:75
Alignment explanation
Indices: 27661252--27661395 Score: 211
Period size: 77 Copynumber: 1.9 Consensus size: 75
27661242 CTTTCTTTCA
*
27661252 AAAATATTTTT-TAAATTTTATTTTCAAGAAA-AATTGAAACTTTCAACTTTTCCTCAAAAATAT
1 AAAATATTTTTAGAAATTTTATTTTCAA-AAATAATTGAAACTTTCAACTTTTCCTC-AAAAT-T
27661315 TTTTTAGAAATTG
63 TTTTTAGAAATTG
* * *
27661328 AAAATATTTTTAGAAATTTTATTTTTAAAAATAATTGATACTTTCAACTTTTTCTCAAAATTTTT
1 AAAATATTTTTAGAAATTTTATTTTCAAAAATAATTGAAACTTTCAACTTTTCCTCAAAATTTTT
27661393 TTA
66 TTA
27661396 ATTTTTAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
75 7 0.11
76 19 0.31
77 36 0.58
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (75 bp):
AAAATATTTTTAGAAATTTTATTTTCAAAAATAATTGAAACTTTCAACTTTTCCTCAAAATTTTT
TTAGAAATTG
Found at i:27661339 original size:19 final size:20
Alignment explanation
Indices: 27661308--27661345 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
27661298 CTTTTCCTCA
27661308 AAAATATTTTTTAGAAATTG
1 AAAATATTTTTTAGAAATTG
27661328 AAAATA-TTTTTAGAAATT
1 AAAATATTTTTTAGAAATT
27661346 TTATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (20 bp):
AAAATATTTTTTAGAAATTG
Found at i:27661453 original size:4 final size:4
Alignment explanation
Indices: 27661444--27661477 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
27661434 AAACTCATAA
*
27661444 AAAT AAAT -AAC AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
27661478 ATACCCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 2 0.07
4 25 0.93
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:27662678 original size:13 final size:13
Alignment explanation
Indices: 27662656--27662685 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27662646 AATAAATGAT
27662656 AAATACGAAATAA
1 AAATACGAAATAA
*
27662669 AAATATGAAATAA
1 AAATACGAAATAA
27662682 AAAT
1 AAAT
27662686 GAATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (13 bp):
AAATACGAAATAA
Found at i:27662917 original size:45 final size:44
Alignment explanation
Indices: 27662867--27663007 Score: 183
Period size: 44 Copynumber: 3.2 Consensus size: 44
27662857 TTAAATTAAC
** *
27662867 CAAAGCTCTTCTAAAAAGAGGTTCAACGACTTTAAAAAAAATAAA
1 CAAAGCTCTTCTAATCAGAGGTTCAACGACTTT-GAAAAAATAAA
* *
27662912 CAAAGCTCCTCTAATCAGAGGTTGAACGACTTTGAAAAAATAAA
1 CAAAGCTCTTCTAATCAGAGGTTCAACGACTTTGAAAAAATAAA
* * * *
27662956 CAAGGCTCTTCTAGTCAGAGGCTCAATGACTTTGAAAAAATAAA
1 CAAAGCTCTTCTAATCAGAGGTTCAACGACTTTGAAAAAATAAA
*
27663000 TAAAGCTC
1 CAAAGCTC
27663008 ATTAACGATC
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 54 0.65
45 29 0.35
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (44 bp):
CAAAGCTCTTCTAATCAGAGGTTCAACGACTTTGAAAAAATAAA
Done.