Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 209 of 240
Found at i:63374472 original size:29 final size:29
Alignment explanation
Indices: 63374385--63374476 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
63374375 TAAATTTTTT
*
63374385 AGGTTTAGGGTTT-ATGTTTTAAAATCTAA
1 AGGTTTAGGGTTTAATGTTTTAAAA-GTAA
* *
63374414 AGGTTTAGGGTTTAA-G-GTTCAAAGTTTAA
1 AGGTTTAGGGTTTAATGTTTTAAAAG--TAA
* *
63374443 AGTTTTAGGGTTTAATGTTTTTAAAGTAA
1 AGGTTTAGGGTTTAATGTTTTAAAAGTAA
63374472 AGGTT
1 AGGTT
63374477 AGGATTAGGG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
28 5 0.10
29 38 0.75
30 2 0.04
31 6 0.12
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.43
Consensus pattern (29 bp):
AGGTTTAGGGTTTAATGTTTTAAAAGTAA
Found at i:63374535 original size:33 final size:33
Alignment explanation
Indices: 63374480--63374575 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 33
63374470 AAAGGTTAGG
*
63374480 ATTAGGGTTAGGG-TTTTAAGTTAAGGGTTAAA
1 ATTAGGATTAGGGTTTTTAAGTTAAGGGTTAAA
* **
63374512 ATTAGGATTAGGGTTTTTAAGTTAACGGTTAGG
1 ATTAGGATTAGGGTTTTTAAGTTAAGGGTTAAA
*
63374545 ATTAGGATTAGGGTTTTTATGTTAAGGGTTA
1 ATTAGGATTAGGGTTTTTAAGTTAAGGGTTA
63374576 TGTGTTTTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 12 0.21
33 45 0.79
ACGTcount: A:0.28, C:0.01, G:0.30, T:0.41
Consensus pattern (33 bp):
ATTAGGATTAGGGTTTTTAAGTTAAGGGTTAAA
Found at i:63374622 original size:7 final size:7
Alignment explanation
Indices: 63374596--63374799 Score: 60
Period size: 7 Copynumber: 28.4 Consensus size: 7
63374586 GTTTAGGGTT
*
63374596 TTTAATG
1 TTTAAGG
63374603 TTT-AGTG
1 TTTAAG-G
63374610 TTTAAGG
1 TTTAAGG
*
63374617 TTTAAGAT
1 TTTAAG-G
*
63374625 TTTTAGG
1 TTTAAGG
*
63374632 TTTAGGG
1 TTTAAGG
*
63374639 TTTAATG
1 TTTAAGG
63374646 TTT-AGTG
1 TTTAAG-G
*
63374653 TTTAGGG
1 TTTAAGG
63374660 TTTTTAA-G
1 --TTTAAGG
*
63374668 -TTAGGG
1 TTTAAGG
63374674 TTTAAGG
1 TTTAAGG
63374681 TTTAGAGG
1 TTTA-AGG
* *
63374689 -TTATGTTT
1 TTTAAG--G
63374697 TTTAA-G
1 TTTAAGG
*
63374703 TTTAGGG
1 TTTAAGG
*
63374710 TTTATGG
1 TTTAAGG
*
63374717 TTTTAAAG
1 -TTTAAGG
* *
63374725 TTCAAGTA
1 TTTAAG-G
*
63374733 TTTAAGA
1 TTTAAGG
*
63374740 TTTAGGG
1 TTTAAGG
* *
63374747 TTTATGA
1 TTTAAGG
*
63374754 TTTATGG
1 TTTAAGG
*
63374761 TTTTAGAG
1 TTTAAG-G
*
63374769 TTTAAAG
1 TTTAAGG
*
63374776 TTTAGGG
1 TTTAAGG
*
63374783 TTTAATG
1 TTTAAGG
63374790 TTTAAGG
1 TTTAAGG
63374797 TTT
1 TTT
63374800 TTTAGTTAAG
Statistics
Matches: 141, Mismatches: 39, Indels: 34
0.66 0.18 0.16
Matches are distributed among these distances:
5 3 0.02
6 8 0.06
7 96 0.68
8 27 0.19
9 7 0.05
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.50
Consensus pattern (7 bp):
TTTAAGG
Found at i:63374643 original size:29 final size:30
Alignment explanation
Indices: 63374579--63374649 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
63374569 AGGGTTATGT
* * * * *
63374579 GTTTTAGGTTTAGGGTTTTTAATGTTTAGT
1 GTTTAAGGTTTAAGATTTTTAAGGTTTAGG
63374609 GTTTAAGGTTTAAGATTTTT-AGGTTTAGG
1 GTTTAAGGTTTAAGATTTTTAAGGTTTAGG
*
63374638 GTTTAATGTTTA
1 GTTTAAGGTTTA
63374650 GTGTTTAGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
29 18 0.51
30 17 0.49
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.54
Consensus pattern (30 bp):
GTTTAAGGTTTAAGATTTTTAAGGTTTAGG
Found at i:63374648 original size:36 final size:36
Alignment explanation
Indices: 63374602--63374799 Score: 174
Period size: 36 Copynumber: 5.5 Consensus size: 36
63374592 GGTTTTTAAT
* *
63374602 GTTTAGTGTTTAAGGTTTAAGATTTTTAGGTTTAGG
1 GTTTAATGTTTAAGGTTTAAGATTTTTAAGTTTAGG
* *
63374638 GTTTAATGTTT-AGTGTTTAGGGTTTTTAAG-TTAGG
1 GTTTAATGTTTAAG-GTTTAAGATTTTTAAGTTTAGG
* * *
63374673 GTTTAAGGTTTAGAGG-TTATGTTTTTTAAGTTTAGG
1 GTTTAATGTTTA-AGGTTTAAGATTTTTAAGTTTAGG
* * *
63374709 GTTT-ATGGTTTTAAAGTTCAAG-TATTTAAGATTTAGG
1 GTTTAAT-G-TTTAAGGTTTAAGATTTTTAAG-TTTAGG
* * * *
63374746 GTTT-ATGATTTATGGTTTTAGAGTTTAAAGTTTAGG
1 GTTTAATG-TTTAAGGTTTAAGATTTTTAAGTTTAGG
63374782 GTTTAATGTTTAAGGTTT
1 GTTTAATGTTTAAGGTTT
63374800 TTTAGTTAAG
Statistics
Matches: 131, Mismatches: 21, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
35 30 0.23
36 72 0.55
37 29 0.22
ACGTcount: A:0.24, C:0.01, G:0.26, T:0.50
Consensus pattern (36 bp):
GTTTAATGTTTAAGGTTTAAGATTTTTAAGTTTAGG
Found at i:63374656 original size:14 final size:14
Alignment explanation
Indices: 63374566--63374662 Score: 70
Period size: 14 Copynumber: 6.6 Consensus size: 14
63374556 GGTTTTTATG
*
63374566 TTAAGGGTTATGTGT
1 TTAAGGTTTA-GTGT
* *
63374581 TTTAGGTTTAGGGTTT
1 TTAAGGTTTA--GTGT
*
63374597 TTAATGTTTAGTGT
1 TTAAGGTTTAGTGT
63374611 TTAAGGTTTAAGAT-T
1 TTAAGGTTT-AG-TGT
* *
63374626 TTTAGGTTTAGGGT
1 TTAAGGTTTAGTGT
*
63374640 TTAATGTTTAGTGT
1 TTAAGGTTTAGTGT
*
63374654 TTAGGGTTT
1 TTAAGGTTT
63374663 TTAAGTTAGG
Statistics
Matches: 63, Mismatches: 15, Indels: 9
0.72 0.17 0.10
Matches are distributed among these distances:
14 32 0.51
15 19 0.30
16 12 0.19
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.53
Consensus pattern (14 bp):
TTAAGGTTTAGTGT
Found at i:63374671 original size:21 final size:22
Alignment explanation
Indices: 63374581--63374683 Score: 99
Period size: 21 Copynumber: 4.7 Consensus size: 22
63374571 GGTTATGTGT
63374581 TTTAGGTTTAGGGTTTTTAATG
1 TTTAGGTTTAGGGTTTTTAATG
* * *
63374603 TTTAGTGTTTAAGG-TTTAAGATT
1 TTTAG-GTTTAGGGTTTTTA-ATG
63374626 TTTAGGTTTAGGG--TTTAATG
1 TTTAGGTTTAGGGTTTTTAATG
63374646 TTTAGTGTTTAGGGTTTTTAA-G
1 TTTAG-GTTTAGGGTTTTTAATG
*
63374668 -TTAGGGTTTAAGGTTT
1 TTTA-GGTTTAGGGTTT
63374684 AGAGGTTATG
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
20 7 0.10
21 24 0.35
22 18 0.26
23 19 0.28
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.52
Consensus pattern (22 bp):
TTTAGGTTTAGGGTTTTTAATG
Found at i:63374707 original size:22 final size:22
Alignment explanation
Indices: 63374674--63374726 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
63374664 TAAGTTAGGG
*
63374674 TTTAAGGTTTAGAGG-TTATGTTT
1 TTTAA-GTTTAG-GGTTTATGGTT
63374697 TTTAAGTTTAGGGTTTATGGTT
1 TTTAAGTTTAGGGTTTATGGTT
*
63374719 TTAAAGTT
1 TTTAAGTT
63374727 CAAGTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 20 0.74
23 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.53
Consensus pattern (22 bp):
TTTAAGTTTAGGGTTTATGGTT
Found at i:63374840 original size:33 final size:33
Alignment explanation
Indices: 63374796--63374880 Score: 143
Period size: 33 Copynumber: 2.6 Consensus size: 33
63374786 AATGTTTAAG
* *
63374796 GTTTTTTAGTTAAGGGTTAAGATTAGGGTTAGT
1 GTTTTTAAGTTAAGGGTTAAGATTAGAGTTAGT
*
63374829 GTTTTTAAGTTAAGGGTTAGGATTAGAGTTAGT
1 GTTTTTAAGTTAAGGGTTAAGATTAGAGTTAGT
63374862 GTTTTTAAGTTAAGGGTTA
1 GTTTTTAAGTTAAGGGTTA
63374881 TGGTTTTTAG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (33 bp):
GTTTTTAAGTTAAGGGTTAAGATTAGAGTTAGT
Found at i:63374903 original size:22 final size:22
Alignment explanation
Indices: 63374862--63374947 Score: 111
Period size: 22 Copynumber: 3.9 Consensus size: 22
63374852 TAGAGTTAGT
*
63374862 GTTTTTAAGTTAAGGG-TTATG
1 GTTTTTAAGTTTAGGGTTTATG
*
63374883 GTTTTTAGGTTTAGGGTTTATG
1 GTTTTTAAGTTTAGGGTTTATG
* *
63374905 GTTTTTAATTTTAGGGTTTAAG
1 GTTTTTAAGTTTAGGGTTTATG
*
63374927 GTTTTTAATATTTAGGGTTTA
1 GTTTTTAA-GTTTAGGGTTTA
63374948 GAATTTAGGG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 14 0.25
22 32 0.56
23 11 0.19
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (22 bp):
GTTTTTAAGTTTAGGGTTTATG
Found at i:63374947 original size:7 final size:7
Alignment explanation
Indices: 63374937--63374988 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
63374927 GTTTTTAATA
63374937 TTTAGGG
1 TTTAGGG
**
63374944 TTTAGAA
1 TTTAGGG
63374951 TTTAGGG
1 TTTAGGG
*
63374958 TTTATGG
1 TTTAGGG
**
63374965 TTTAAAG
1 TTTAGGG
*
63374972 TTTAGAG
1 TTTAGGG
63374979 TTTAGGG
1 TTTAGGG
63374986 TTT
1 TTT
63374989 TTAAGTTAAG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:63374961 original size:21 final size:21
Alignment explanation
Indices: 63374937--63375052 Score: 74
Period size: 21 Copynumber: 5.5 Consensus size: 21
63374927 GTTTTTAATA
*
63374937 TTTAGGGTTTAGAA-TTTAGGG
1 TTTAGGGTTTA-AAGTTTAGAG
*
63374958 TTTATGGTTTAAAGTTTAGAG
1 TTTAGGGTTTAAAGTTTAGAG
* *
63374979 TTTAGGGTTTTTAAGTTAAG-G
1 TTTAGGG-TTTAAAGTTTAGAG
* * * **
63375000 GTTATGATTTATGGTTTAGAG
1 TTTAGGGTTTAAAGTTTAGAG
* * * *
63375021 TTTATAGTTTTTAAGTTTAAAG
1 TTTA-GGGTTTAAAGTTTAGAG
63375043 TTTAGGGTTT
1 TTTAGGGTTT
63375053 TAGGGTTTTA
Statistics
Matches: 70, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
20 10 0.14
21 35 0.50
22 25 0.36
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (21 bp):
TTTAGGGTTTAAAGTTTAGAG
Found at i:63375054 original size:8 final size:8
Alignment explanation
Indices: 63375043--63375068 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
63375033 AAGTTTAAAG
63375043 TTTAGGGT
1 TTTAGGGT
63375051 TTTAGGGT
1 TTTAGGGT
63375059 TTTAGGGT
1 TTTAGGGT
63375067 TT
1 TT
63375069 ATGGTTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.54
Consensus pattern (8 bp):
TTTAGGGT
Found at i:63375069 original size:15 final size:15
Alignment explanation
Indices: 63375042--63375083 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
63375032 TAAGTTTAAA
63375042 GTTTAGGGTTTTAGG
1 GTTTAGGGTTTTAGG
*
63375057 GTTTTAGGG-TTTATG
1 G-TTTAGGGTTTTAGG
*
63375072 GTTTATGGTTTT
1 GTTTAGGGTTTT
63375084 TAAGTTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.26
15 10 0.43
16 7 0.30
ACGTcount: A:0.12, C:0.00, G:0.33, T:0.55
Consensus pattern (15 bp):
GTTTAGGGTTTTAGG
Found at i:63375156 original size:13 final size:13
Alignment explanation
Indices: 63375138--63375503 Score: 88
Period size: 14 Copynumber: 26.4 Consensus size: 13
63375128 TTAGAATTAG
*
63375138 GGTTTATGGTTTA
1 GGTTTAAGGTTTA
*
63375151 GGTTTAAGGTTTG
1 GGTTTAAGGTTTA
63375164 GGTTTTAA-GTTTA
1 GG-TTTAAGGTTTA
*
63375177 TGGTTTTAGGTTTTA
1 -GGTTTAAGG-TTTA
*
63375192 GGGTTTTAA-GTTAA
1 -GG-TTTAAGGTTTA
* *
63375206 GGGTT-AGGATTA
1 GGTTTAAGGTTTA
* *
63375218 GGGTTATGGTTTTTA
1 GGTTTAAGG--TTTA
* *
63375233 AG-TTAAGGGTTA
1 GGTTTAAGGTTTA
*
63375245 TGGTTTTTAGGTTTA
1 -GG-TTTAAGGTTTA
63375260 GGTTT----TTTA
1 GGTTTAAGGTTTA
** *
63375269 ATTTTATGGTTTA
1 GGTTTAAGGTTTA
63375282 TGGTTTTTAATGG-TTA
1 -GG--TTTAA-GGTTTA
63375298 GTGTTTAAGGTTTAA
1 G-GTTTAAGGTTT-A
*
63375313 GGGTTTTAGGTTTA
1 -GGTTTAAGGTTTA
*
63375327 GGGTTTAGGGTTTA
1 -GGTTTAAGGTTTA
*
63375341 TAGTTTAAGGTTTA
1 -GGTTTAAGGTTTA
*
63375355 GGGTTTTTAA-GTTAA
1 -GG--TTTAAGGTTTA
63375370 GGTTTAAGGTTTTGA
1 GGTTTAAGG-TTT-A
* *
63375385 GG-TTATGTTTTTA
1 GGTTTAAG-GTTTA
63375398 GGTTTAAGGTTTAA
1 GGTTTAAGGTTT-A
*
63375412 GGTTTTAAAGTTTAA
1 GG-TTTAAGGTTT-A
* *
63375427 GAGTTTATGATTTA
1 G-GTTTAAGGTTTA
* *
63375441 GGGTTTATGATTTA
1 -GGTTTAAGGTTTA
*
63375455 GAATTTTAAGGTTTA
1 G--GTTTAAGGTTTA
*
63375470 GAGTTTAGGGTTTA
1 G-GTTTAAGGTTTA
**
63375484 GAGTTTTGGGTTTA
1 G-GTTTAAGGTTTA
63375498 TGGTTT
1 -GGTTT
63375504 TTTAGTTAAG
Statistics
Matches: 268, Mismatches: 47, Indels: 75
0.69 0.12 0.19
Matches are distributed among these distances:
9 7 0.03
11 1 0.00
12 18 0.07
13 43 0.16
14 109 0.41
15 69 0.26
16 19 0.07
17 2 0.01
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (13 bp):
GGTTTAAGGTTTA
Found at i:63375210 original size:29 final size:27
Alignment explanation
Indices: 63375151--63375210 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
63375141 TTATGGTTTA
* *
63375151 GGTTTAAGGTTTGGGTTTTAAGTTTAT
1 GGTTTAAGGTTTGGGTTTTAAGTTAAG
*
63375178 GGTTTTAGGTTTTAGGGTTTTAAGTTAAG
1 GGTTTAAGG-TTT-GGGTTTTAAGTTAAG
63375207 GGTT
1 GGTT
63375211 AGGATTAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 8 0.29
28 3 0.11
29 17 0.61
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (27 bp):
GGTTTAAGGTTTGGGTTTTAAGTTAAG
Found at i:63375239 original size:81 final size:82
Alignment explanation
Indices: 63375114--63375265 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 82
63375104 GGGTTAGGAT
*
63375114 TTTTAAGTTAAGGGTTAGAATTAGGGTTTATGGTTTAGGTTTAA-GGTT-TGGGTTTTAAGTTTA
1 TTTTAAGTTAAGGGTTAGAATTAGGGTTTATGGTTTAAGTTTAAGGGTTATGGGTTTTAAGTTTA
63375177 TGGTTTTAGGTTTTAGGG
66 -GGTTTTAGGTTTTAGGG
* * *
63375195 TTTTAAGTTAAGGGTTAGGATTAGGG-TTATGGTTTTTAAG-TTAAGGGTTATGGTTTTTAGGTT
1 TTTTAAGTTAAGGGTTAGAATTAGGGTTTATGG--TTTAAGTTTAAGGGTTATGGGTTTTAAGTT
63375258 TAGGTTTT
64 TAGGTTTT
63375266 TTAATTTTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
80 6 0.10
81 29 0.46
82 15 0.24
83 13 0.21
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (82 bp):
TTTTAAGTTAAGGGTTAGAATTAGGGTTTATGGTTTAAGTTTAAGGGTTATGGGTTTTAAGTTTA
GGTTTTAGGTTTTAGGG
Found at i:63375418 original size:8 final size:7
Alignment explanation
Indices: 63375300--63375483 Score: 99
Period size: 7 Copynumber: 25.7 Consensus size: 7
63375290 AATGGTTAGT
63375300 GTTTAAG
1 GTTTAAG
63375307 GTTTAAGG
1 GTTTAA-G
*
63375315 GTTTTAG
1 GTTTAAG
*
63375322 GTTTAGG
1 GTTTAAG
*
63375329 GTTTAGG
1 GTTTAAG
63375336 GTTTATA-
1 GTTTA-AG
63375343 GTTTAAG
1 GTTTAAG
*
63375350 GTTTAGG
1 GTTTAAG
63375357 GTTTTTAA-
1 G--TTTAAG
63375365 G-TTAAG
1 GTTTAAG
63375371 GTTTAAG
1 GTTTAAG
*
63375378 GTTTTGAG
1 G-TTTAAG
*
63375386 G-TTATG
1 GTTTAAG
* *
63375392 TTTTTAG
1 GTTTAAG
63375399 GTTTAAG
1 GTTTAAG
63375406 GTTTAAG
1 GTTTAAG
*
63375413 GTTTTAAA
1 G-TTTAAG
63375421 GTTTAAG
1 GTTTAAG
*
63375428 AGTTTATG
1 -GTTTAAG
* *
63375436 ATTTAGG
1 GTTTAAG
*
63375443 GTTTATG
1 GTTTAAG
* *
63375450 ATTTAGAA
1 GTTTA-AG
*
63375458 TTTTAAG
1 GTTTAAG
63375465 GTTT-AG
1 GTTTAAG
*
63375471 AGTTTAGG
1 -GTTTAAG
63375479 GTTTA
1 GTTTA
63375484 GAGTTTTGGG
Statistics
Matches: 135, Mismatches: 28, Indels: 28
0.71 0.15 0.15
Matches are distributed among these distances:
5 4 0.03
6 7 0.05
7 90 0.67
8 30 0.22
9 4 0.03
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (7 bp):
GTTTAAG
Found at i:63375462 original size:29 final size:29
Alignment explanation
Indices: 63375430--63375490 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
63375420 AGTTTAAGAG
* * *
63375430 TTTATGATTTAGGGTTTATGATTTAGAAT
1 TTTAAGATTTAGAGTTTAGGATTTAGAAT
* * *
63375459 TTTAAGGTTTAGAGTTTAGGGTTTAGAGT
1 TTTAAGATTTAGAGTTTAGGATTTAGAAT
63375488 TTT
1 TTT
63375491 GGGTTTATGG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (29 bp):
TTTAAGATTTAGAGTTTAGGATTTAGAAT
Found at i:63375538 original size:33 final size:33
Alignment explanation
Indices: 63375500--63375584 Score: 125
Period size: 33 Copynumber: 2.6 Consensus size: 33
63375490 TGGGTTTATG
*
63375500 GTTTTTTAGTTAAGGGTTAAGATGAGGCTTAGT
1 GTTTTTAAGTTAAGGGTTAAGATGAGGCTTAGT
* * * *
63375533 GTTTTTAAGTTAAGGATTAGGATTAGGGTTAGT
1 GTTTTTAAGTTAAGGGTTAAGATGAGGCTTAGT
63375566 GTTTTTAAGTTAAGGGTTA
1 GTTTTTAAGTTAAGGGTTA
63375585 TGGTTTTTAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.26, C:0.01, G:0.29, T:0.44
Consensus pattern (33 bp):
GTTTTTAAGTTAAGGGTTAAGATGAGGCTTAGT
Found at i:63375581 original size:21 final size:21
Alignment explanation
Indices: 63375557--63375604 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
63375547 GATTAGGATT
63375557 AGGGTTA-GTGTTTTTAAGTTA
1 AGGGTTATG-GTTTTTAAGTTA
* *
63375578 AGGGTTATGGTTTTTAGGTTT
1 AGGGTTATGGTTTTTAAGTTA
63375599 AGGGTT
1 AGGGTT
63375605 TAGGGGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (21 bp):
AGGGTTATGGTTTTTAAGTTA
Found at i:63375611 original size:8 final size:7
Alignment explanation
Indices: 63375590--63375670 Score: 56
Period size: 7 Copynumber: 11.4 Consensus size: 7
63375580 GGTTATGGTT
63375590 TTTA-GG
1 TTTAGGG
63375596 TTTAGGG
1 TTTAGGG
63375603 TTTAGGGG
1 TTTA-GGG
**
63375611 TTTTAATG
1 -TTTAGGG
*
63375619 TTTAAGG
1 TTTAGGG
**
63375626 TTTATAG
1 TTTAGGG
63375633 TTTAGGG
1 TTTAGGG
* *
63375640 CTTAGTG
1 TTTAGGG
63375647 TTTAGGG
1 TTTAGGG
*
63375654 TTTAGAG
1 TTTAGGG
*
63375661 TTTGGGG
1 TTTAGGG
63375668 TTT
1 TTT
63375671 TAAGTTAAGG
Statistics
Matches: 58, Mismatches: 14, Indels: 5
0.75 0.18 0.06
Matches are distributed among these distances:
6 4 0.07
7 46 0.79
8 4 0.07
9 4 0.07
ACGTcount: A:0.17, C:0.01, G:0.33, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:63375635 original size:14 final size:14
Alignment explanation
Indices: 63375618--63375749 Score: 50
Period size: 14 Copynumber: 9.9 Consensus size: 14
63375608 GGGTTTTAAT
63375618 GTTTAAGGTTTATA
1 GTTTAAGGTTTATA
* *
63375632 GTTTAGGGCTTAGT-
1 GTTTAAGGTTTA-TA
* *
63375646 GTTTAGGGTTTAGA
1 GTTTAAGGTTTATA
**
63375660 GTTTGGGGTTT-TAA
1 GTTTAAGGTTTAT-A
*
63375674 G-TTAAGGGTTAT-
1 GTTTAAGGTTTATA
* *
63375686 GATTTATGGTTTATG
1 G-TTTAAGGTTTATA
63375701 GTTT-AGG-TT-T-
1 GTTTAAGGTTTATA
*
63375711 -TTT-AGGTTTAGA
1 GTTTAAGGTTTATA
* *
63375723 GTTTATGGTTTTTAA
1 GTTTAAGGTTTAT-A
63375738 GTTTAAGGTTTA
1 GTTTAAGGTTTA
63375750 GGGGTTTAGA
Statistics
Matches: 87, Mismatches: 18, Indels: 25
0.67 0.14 0.19
Matches are distributed among these distances:
9 6 0.07
10 2 0.02
11 1 0.01
12 3 0.03
13 11 0.13
14 51 0.59
15 13 0.15
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.50
Consensus pattern (14 bp):
GTTTAAGGTTTATA
Found at i:63375681 original size:28 final size:28
Alignment explanation
Indices: 63375594--63375683 Score: 76
Period size: 28 Copynumber: 3.1 Consensus size: 28
63375584 ATGGTTTTTA
*
63375594 GGTTTAGGGTTTAGGGGTTTTAATGTTTAA-
1 GGTTTAGAGTTT-GGGGTTTTAA-G-TTAAG
* * * * *
63375624 GGTTTATAGTTTAGGG-CTTAGTGTTTAG
1 GGTTTAGAGTTTGGGGTTTTA-AGTTAAG
63375652 GGTTTAGAGTTTGGGGTTTTAAGTTAAG
1 GGTTTAGAGTTTGGGGTTTTAAGTTAAG
63375680 GGTT
1 GGTT
63375684 ATGATTTATG
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
27 3 0.07
28 27 0.59
29 6 0.13
30 10 0.22
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (28 bp):
GGTTTAGAGTTTGGGGTTTTAAGTTAAG
Found at i:63375718 original size:22 final size:20
Alignment explanation
Indices: 63375688--63375751 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 20
63375678 AGGGTTATGA
63375688 TTTATGGTTTATGGTTTAGGTTT
1 TTTA-GGTTTA-GGTTTAGG-TT
63375711 TTTAGGTTTAGAGTTTATGGTT
1 TTTAGGTTTAG-GTTTA-GGTT
*
63375733 TTTAAGTTTAAGGTTTAGG
1 TTTAGGTTT-AGGTTTAGG
63375752 GGTTTAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
21 3 0.08
22 26 0.70
23 8 0.22
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.55
Consensus pattern (20 bp):
TTTAGGTTTAGGTTTAGGTT
Found at i:63375720 original size:15 final size:17
Alignment explanation
Indices: 63375695--63375726 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
63375685 TGATTTATGG
63375695 TTTATGGTTTAG-GTTT
1 TTTATGGTTTAGAGTTT
63375711 TTTA-GGTTTAGAGTTT
1 TTTATGGTTTAGAGTTT
63375727 ATGGTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.16, C:0.00, G:0.25, T:0.59
Consensus pattern (17 bp):
TTTATGGTTTAGAGTTT
Found at i:63375807 original size:21 final size:21
Alignment explanation
Indices: 63375783--63375824 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
63375773 AAGTTAAGGG
*
63375783 TTAAGATT-AGGGTTAGGATTT
1 TTAAG-TTAAGGGTTAGAATTT
63375804 TTAAGTTAAGGGTTAGAATTT
1 TTAAGTTAAGGGTTAGAATTT
63375825 GGGTTTAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (21 bp):
TTAAGTTAAGGGTTAGAATTT
Found at i:63375856 original size:21 final size:21
Alignment explanation
Indices: 63375832--63375908 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
63375822 TTTGGGTTTA
*
63375832 AGGTTTAGGGTTTATATTTTT
1 AGGTTTAGGGTTTATGTTTTT
*
63375853 AGGTTTAGGGTTTAGGTTTTT
1 AGGTTTAGGGTTTATGTTTTT
* * *
63375874 AAGTTTAAGGTTTAGTGTTTTA
1 AGGTTTAGGGTTTA-TGTTTTT
*
63375896 AGTTTTAGGGTTT
1 AGGTTTAGGGTTT
63375909 TTAAGTTTAG
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 31 0.67
22 15 0.33
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.53
Consensus pattern (21 bp):
AGGTTTAGGGTTTATGTTTTT
Found at i:63375884 original size:28 final size:28
Alignment explanation
Indices: 63375826--63375893 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
63375816 TTAGAATTTG
* * *
63375826 GGTTTAAGGTTTAGGGTTTATATTTTTA
1 GGTTTAGGGTTTAGGGTTTATAGTTTAA
*
63375854 GGTTTAGGGTTTA-GGTTTTTAAGTTTAA
1 GGTTTAGGGTTTAGGGTTTAT-AGTTTAA
*
63375882 GGTTTAGTGTTT
1 GGTTTAGGGTTT
63375894 TAAGTTTTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 6 0.18
28 28 0.82
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (28 bp):
GGTTTAGGGTTTAGGGTTTATAGTTTAA
Found at i:63375895 original size:15 final size:16
Alignment explanation
Indices: 63375877--63375922 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
63375867 GGTTTTTAAG
*
63375877 TTTAAGGTTTAGTG-T
1 TTTAAGGTTTAGGGTT
*
63375892 TTTAAGTTTTAGGGTT
1 TTTAAGGTTTAGGGTT
63375908 TTTAA-GTTTAGGGTT
1 TTTAAGGTTTAGGGTT
63375923 AGGATTAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 21 0.78
16 6 0.22
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (16 bp):
TTTAAGGTTTAGGGTT
Found at i:63375932 original size:27 final size:28
Alignment explanation
Indices: 63375900--63375995 Score: 104
Period size: 33 Copynumber: 3.3 Consensus size: 28
63375890 GTTTTAAGTT
63375900 TTAGGG-TTTTTAAGTTTAGGGTTAGGA
1 TTAGGGTTTTTTAAGTTTAGGGTTAGGA
*
63375927 TTAGGGTTTTTATGTTAAGTGTTAGGGTTAGGG
1 TTAGGG--TTT-T-TTAAGT-TTAGGGTTAGGA
* *
63375960 TTAGGGTTTTTTAAGTTAATGGTTAGGA
1 TTAGGGTTTTTTAAGTTTAGGGTTAGGA
*
63375988 TTAAGGTT
1 TTAGGGTT
63375996 AGGGTTCTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
27 6 0.10
28 16 0.28
29 6 0.10
30 3 0.05
31 4 0.07
32 6 0.10
33 17 0.29
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (28 bp):
TTAGGGTTTTTTAAGTTTAGGGTTAGGA
Found at i:63375967 original size:138 final size:139
Alignment explanation
Indices: 63375678--63375968 Score: 356
Period size: 138 Copynumber: 2.1 Consensus size: 139
63375668 TTTTAAGTTA
* * * *
63375678 AGGGTTATGATTTATGGTTTATGGTTTAGGTTTTTTAGGTTTAGAGTTTATGGTTTTTAAGTTTA
1 AGGGTTAGGGTTTAAGGTTTAGGGTTTA-GTTTTTTAGGTTTAGAGTTTATGGTTTTTAAGTTTA
* *
63375743 AGGTTTAGGGGTTTAGATTTTAGTGTTTTTAAGTTAAGGGTTAAGATTAGGGTTAGGATTTTTAA
65 AGGTTTAGGGGTTTAGATTTTAGGGTTTTTAAGTTAAGGGTTAAGATTAGGGTTAGGATTGTTAA
63375808 GTTAAGGGTT
130 GTTAAGGGTT
** * *
63375818 AGAATTTGGGTTTAAGGTTTAGGGTTTA-TATTTTTAGGTTTAGGGTTTA-GGTTTTTAAGTTTA
1 AGGGTTAGGGTTTAAGGTTTAGGGTTTAGT-TTTTTAGGTTTAGAGTTTATGGTTTTTAAGTTTA
* * * * ***
63375881 AGGTTTAGTGTTTTA-AGTTTTAGGGTTTTTAAGTTTAGGGTTAGGATTAGGGTTTTTA-TGTTA
65 AGGTTTAGGGGTTTAGA-TTTTAGGGTTTTTAAGTTAAGGGTTAAGATTAGGGTTAGGATTGTTA
*
63375944 AGTGTTAGGGTT
129 AGT-TAAGGGTT
63375956 AGGGTTAGGGTTT
1 AGGGTTAGGGTTT
63375969 TTTAAGTTAA
Statistics
Matches: 127, Mismatches: 21, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
137 8 0.06
138 80 0.63
139 18 0.14
140 21 0.17
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (139 bp):
AGGGTTAGGGTTTAAGGTTTAGGGTTTAGTTTTTTAGGTTTAGAGTTTATGGTTTTTAAGTTTAA
GGTTTAGGGGTTTAGATTTTAGGGTTTTTAAGTTAAGGGTTAAGATTAGGGTTAGGATTGTTAAG
TTAAGGGTT
Found at i:63376047 original size:32 final size:32
Alignment explanation
Indices: 63375915--63376044 Score: 127
Period size: 34 Copynumber: 4.0 Consensus size: 32
63375905 GTTTTTAAGT
* * *
63375915 TTAGGGTTAGGATTAGGGTTTTTATGTTAAGTG
1 TTAGGATTAGGGTTAGGGTTTTTA-GTTAAGGG
* *
63375948 TTAGGGTTAGGGTTAGGGTTTTTTAAGTTAATGG
1 TTAGGATTAGGGTTAGGG-TTTTT-AGTTAAGGG
* * * *
63375982 TTAGGATTAAGGTTAGGGTTCTAAGTTATGGG
1 TTAGGATTAGGGTTAGGGTTTTTAGTTAAGGG
* *
63376014 TTATGATTAGGGTTA-GGTTTTTAGTTTAGGG
1 TTAGGATTAGGGTTAGGGTTTTTAGTTAAGGG
63376045 GTTTATGGTT
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
31 12 0.15
32 20 0.25
33 20 0.25
34 27 0.34
35 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.44
Consensus pattern (32 bp):
TTAGGATTAGGGTTAGGGTTTTTAGTTAAGGG
Found at i:63376620 original size:18 final size:18
Alignment explanation
Indices: 63376597--63376636 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
63376587 GACTCGGAAA
* *
63376597 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGCT
63376615 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
63376633 AGGA
1 AGGA
63376637 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:63377518 original size:20 final size:20
Alignment explanation
Indices: 63377481--63377518 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
63377471 TTTATTTTTA
*
63377481 AAAATCTACATAATAATTAT
1 AAAATCTACATAAAAATTAT
63377501 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
63377519 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTAT
Found at i:63380899 original size:16 final size:15
Alignment explanation
Indices: 63380878--63380925 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
63380868 GATGTGAATA
63380878 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
63380894 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
63380909 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
63380925 A
1 A
63380926 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:63380901 original size:24 final size:24
Alignment explanation
Indices: 63380874--63380929 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
63380864 TAATGATGTG
*
63380874 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
63380898 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
63380922 AATAATAA
1 AATAATAA
63380930 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:63380908 original size:8 final size:8
Alignment explanation
Indices: 63380874--63380925 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
63380864 TAATGATGTG
*
63380874 AATAATAA
1 AATATTAA
63380882 AATATATAA
1 AATAT-TAA
63380891 AATA-TAA
1 AATATTAA
63380898 AATATTAA
1 AATATTAA
*
63380906 AATATCAA
1 AATATTAA
*
63380914 AATATTAG
1 AATATTAA
63380922 AATA
1 AATA
63380926 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:63381089 original size:20 final size:21
Alignment explanation
Indices: 63381038--63381093 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
63381028 ATACTACATC
63381038 AATATGTACAT-ATATAAAAA
1 AATATGTACATAATATAAAAA
* * *
63381058 AATACGT-GATAATAT-TAAA
1 AATATGTACATAATATAAAAA
63381077 AATATGTACATAATATA
1 AATATGTACATAATATA
63381094 GTGTTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AATATGTACATAATATAAAAA
Found at i:63381186 original size:25 final size:25
Alignment explanation
Indices: 63381158--63381291 Score: 77
Period size: 25 Copynumber: 5.6 Consensus size: 25
63381148 AAAAAAATAT
63381158 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * * *
63381183 ATATATACATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* *
63381208 ATATATATACGTAATATAGA-ATTTAA-
1 ATATATA-A-ATAATATA-ATATTAAAG
** *
63381234 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
63381256 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
63381279 AAATAT-AATAATA
1 ATATATAAATAATA
63381292 ACAAAAAAAA
Statistics
Matches: 82, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.15
23 18 0.22
24 5 0.06
25 32 0.39
26 1 0.01
27 10 0.12
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:63381213 original size:27 final size:27
Alignment explanation
Indices: 63381078--63381226 Score: 94
Period size: 25 Copynumber: 5.6 Consensus size: 27
63381068 AATATTAAAA
* * *
63381078 ATATGTACATAATATAGTGTTAAA-A-
1 ATATATACATAATATAGTATAAAATAT
* *
63381103 ATACATACATAATATAGT-TAAGATAT
1 ATATATACATAATATAGTATAAAATAT
* * * *
63381129 ATACATAAGATAACAT-GTAAAAAAAATAT
1 ATATAT-ACATAATATAGT--ATAAAATAT
* * * *
63381158 ATATATAAATAATATAATAT-TAA-AG
1 ATATATACATAATATAGTATAAAATAT
*
63381183 ATATATACATAAAATAGTATAAAATAT
1 ATATATACATAATATAGTATAAAATAT
*
63381210 ATATATACGTAATATAG
1 ATATATACATAATATAG
63381227 AATTTAAAAT
Statistics
Matches: 93, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
24 3 0.03
25 35 0.38
26 12 0.13
27 24 0.26
28 7 0.08
29 12 0.13
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (27 bp):
ATATATACATAATATAGTATAAAATAT
Found at i:63381858 original size:30 final size:30
Alignment explanation
Indices: 63381824--63381897 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
63381814 AATGGAGCAA
* *
63381824 GTGTGGCTAGTGGATTTAGTGGTGGAAGAG
1 GTGTGGCTAGTGGAGTTAGTGGTGGAAAAG
*
63381854 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTAGTGGTGGAAAAG
*
63381884 GAGTGGCTAGTGGA
1 GTGTGGCTAGTGGA
63381898 AAAGGTGTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.20, C:0.04, G:0.49, T:0.27
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTAGTGGTGGAAAAG
Found at i:63381922 original size:18 final size:18
Alignment explanation
Indices: 63381875--63381915 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
63381865 GGAGTTGGTG
*
63381875 GTGGAAAAGGAGTGGCTA
1 GTGGAAAAGGTGTGGCTA
63381893 GTGGAAAAGGTGTGGCTA
1 GTGGAAAAGGTGTGGCTA
63381911 GTGGA
1 GTGGA
63381916 GTTGGTGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.46, T:0.20
Consensus pattern (18 bp):
GTGGAAAAGGTGTGGCTA
Found at i:63382838 original size:13 final size:14
Alignment explanation
Indices: 63382790--63382852 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
63382780 GAGTTGATTT
* *
63382790 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
*
63382804 TTGGAAAAACATAAA
1 TT-GAAAAACAGAAA
*
63382819 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
*
63382833 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
63382846 TTGAAAA
1 TTGAAAA
63382853 GACCTCAGCG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 11 0.26
14 18 0.43
15 13 0.31
ACGTcount: A:0.60, C:0.05, G:0.13, T:0.22
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:63382908 original size:117 final size:117
Alignment explanation
Indices: 63382717--63382941 Score: 292
Period size: 117 Copynumber: 1.9 Consensus size: 117
63382707 ACTTAATTTG
* * * *
63382717 AAAAACAGATTTTGAAAATACCTCGACATGTGAACCCAAGGCTCAACTCACATCTCACGATATGA
1 AAAAACAGAATTTGAAAAGACCTCGACATGTGAACCCAAGACTCAACTCACATCTCACAATATGA
* * * *
63382782 GTTGATTTTTGAAAAATATAAATTGGAAAAACATAAATTGAAAAGCAGAAATT
66 GTTGATTTTTGAAAAACAGAAATT-GAAAAACAGAAATGGAAAAGCAGAAATT
* * * * *
63382835 AAAAACAGAATTTGAAAAGACCTC-AGCGTGTG-GCCCGAGACTCAACTCACCTCTCGCAATATG
1 AAAAACAGAATTTGAAAAGACCTCGA-CATGTGAACCCAAGACTCAACTCACATCTCACAATATG
*
63382898 AGTTGATTTTTGAAAAGCAGAAATTGAAAAACAGAAATGGAAAA
65 AGTTGATTTTTGAAAAACAGAAATTGAAAAACAGAAATGGAAAA
63382942 CACCTCAGCG
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
116 17 0.18
117 48 0.52
118 27 0.29
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.23
Consensus pattern (117 bp):
AAAAACAGAATTTGAAAAGACCTCGACATGTGAACCCAAGACTCAACTCACATCTCACAATATGA
GTTGATTTTTGAAAAACAGAAATTGAAAAACAGAAATGGAAAAGCAGAAATT
Found at i:63382926 original size:14 final size:14
Alignment explanation
Indices: 63382907--63382941 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
63382897 GAGTTGATTT
*
63382907 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
63382921 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
63382935 TGGAAAA
1 TTGAAAA
63382942 CACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.20, T:0.14
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:63382985 original size:85 final size:86
Alignment explanation
Indices: 63382819--63383011 Score: 255
Period size: 85 Copynumber: 2.2 Consensus size: 86
63382809 AAAACATAAA
* * *
63382819 TTGAAAAGCAGAAATTAAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCCGAGACTCAACTCA
1 TTGAAAAGCAGAAATTAAAAACAGAAATGGAAAACACCTCAGCG-GT-GCCCGAGACTCAACTCA
63382884 CCTCTCGCAATATGAGTTGATTT
64 CCTCTCGCAATATGAGTTGATTT
** **
63382907 TTGAAAAGCAGAAATTGAAAAACAGAAATGGAAAACACCTCAGC-GT-CTTGAGGTTCAACTCAC
1 TTGAAAAGCAGAAATT-AAAAACAGAAATGGAAAACACCTCAGCGGTGCCCGAGACTCAACTCAC
**
63382970 CTCTCGCAATATGAGTTTTTTT
65 CTCTCGCAATATGAGTTGATTT
*
63382992 TTGAAAAACAGAAATTAAAA
1 TTGAAAAGCAGAAATTAAAA
63383012 GGCTCAACTC
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
84 4 0.04
85 48 0.51
87 2 0.02
88 16 0.17
89 24 0.26
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (86 bp):
TTGAAAAGCAGAAATTAAAAACAGAAATGGAAAACACCTCAGCGGTGCCCGAGACTCAACTCACC
TCTCGCAATATGAGTTGATTT
Found at i:63383120 original size:14 final size:14
Alignment explanation
Indices: 63383101--63383163 Score: 74
Period size: 14 Copynumber: 4.5 Consensus size: 14
63383091 GAGTTGATTT
*
63383101 TTGAAAAATAGAAA
1 TTGAAAAACAGAAA
*
63383115 TTGAAAAAATAGAAA
1 TTG-AAAAACAGAAA
*
63383130 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
*
63383144 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
63383157 TTGAAAA
1 TTGAAAA
63383164 GACCTCAGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.26
14 18 0.42
15 14 0.33
ACGTcount: A:0.62, C:0.03, G:0.14, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:63383124 original size:15 final size:15
Alignment explanation
Indices: 63383104--63383136 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
63383094 TTGATTTTTG
63383104 AAAAATAGAAATTGA
1 AAAAATAGAAATTGA
63383119 AAAAATAGAAATTGA
1 AAAAATAGAAATTGA
63383134 AAA
1 AAA
63383137 GCAGAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (15 bp):
AAAAATAGAAATTGA
Found at i:63383136 original size:13 final size:13
Alignment explanation
Indices: 63383105--63383163 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
63383095 TGATTTTTGA
*
63383105 AAAATAGAAATTG
1 AAAACAGAAATTG
*
63383118 AAAAAATAGAAATTG
1 --AAAACAGAAATTG
*
63383133 AAAAGCAGAAATTA
1 AAAA-CAGAAATTG
*
63383147 AAAACAGAATTTG
1 AAAACAGAAATTG
63383160 AAAA
1 AAAA
63383164 GACCTCAGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
13 15 0.38
14 11 0.28
15 13 0.33
ACGTcount: A:0.64, C:0.03, G:0.14, T:0.19
Consensus pattern (13 bp):
AAAACAGAAATTG
Found at i:63383143 original size:29 final size:27
Alignment explanation
Indices: 63383101--63383164 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
63383091 GAGTTGATTT
** *
63383101 TTGAAAAATAGAAATTGAAAAAATAGAAA
1 TTGAAAAGCAGAAATT--AAAAACAGAAA
*
63383130 TTGAAAAGCAGAAATTAAAAACAGAAT
1 TTGAAAAGCAGAAATTAAAAACAGAAA
63383157 TTGAAAAG
1 TTGAAAAG
63383165 ACCTCAGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 17 0.55
29 14 0.45
ACGTcount: A:0.61, C:0.03, G:0.16, T:0.20
Consensus pattern (27 bp):
TTGAAAAGCAGAAATTAAAAACAGAAA
Found at i:63383328 original size:77 final size:76
Alignment explanation
Indices: 63383146--63384311 Score: 688
Period size: 77 Copynumber: 15.1 Consensus size: 76
63383136 AGCAGAAATT
* * * * * * * *
63383146 AAAAACAGAATTTGAAAAGACCTCAGTGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATAAG
1 AAAAGCAGAAATTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAG
63383211 TTGA-TTTTTG
66 TTGATTTTTTG
*
63383221 -AAAGCAGAAATTGAAAATGCCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAGCAGAAATTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAG
63383285 TTGATTCTTTTG
66 TTGATT-TTTTG
** *
63383297 AAAAGCAGAAATTGAAAACGCCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAGCAGAAATTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAG
63383362 TTGATTCTTTTG
66 TTGATT-TTTTG
* ** ** * *
63383374 AAAAGTAGAAATTGAAAAGCAGAAATTGAAAATACCTCAGTGTGTCCCGAGGCTCAACTCACCTC
1 AAAAGCAGAAATT-----G-A-AAA-T--ACCT-CAGC-GTGTGACTCGAGGCTCAACTCACCTC
*
63383439 TCGCAATGTGAGTTGATTTTTTTG
54 TCGCAATATGAGTTGA-TTTTTTG
** * * *
63383463 ATAAAAATAGAATTTGAAAATACCTCA--GTGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 --AAAAGCAGAAATTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATG
63383526 AGTTGATGTTTTTG
64 AGTTGAT-TTTTTG
* *** * * * * * *
63383540 AAAAACAGAAATTGAAGAACAAAAATGGAAAACA-CCTCAGCGTCTTGAGGTTCAACTCACATCT
1 AAAAGCAGAAATT---G----AAAAT--ACCTCAGCGT--GTGACTCGAGGCTCAACTCACCTCT
*
63383604 CGCAATATGAGCTGATTTTTTTG
55 CGCAATATGAGTTGA-TTTTTTG
* * * * *
63383627 -AAAGACAGAAATTGAAAATACCTCA--ATGTGTCTTGAGGCTCAACTTATCTCTCGCAATATGA
1 AAAAG-CAGAAATTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGA
63383689 GTTGA--TTTTG
65 GTTGATTTTTTG
* * * * *
63383699 ACAAA-CAAAAATTGAAATTACCTCAGC--GT--CTTGAGGTTCAACTCACCTCTTGCAATATGA
1 A-AAAGCAGAAATTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGA
* *
63383759 GCTGATTTTTTT
65 GTTGATTTTTTG
* * **
63383771 AAAAGACAGAAATTGAAAATACCTCAACGTGAGAAACGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAG-CAGAAATTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGA
63383836 GTTGATTTTTTTG
65 GTTGA-TTTTTTG
* * * *
63383849 --ATG-ATAAATTGAAAATACCTCA--ATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAGCAGAAATTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAG
63383909 TTGA-TTTTTG
66 TTGATTTTTTG
* * *** ** * * * * *
63383919 AAAA--ATAAATT-AAAACACAAAAATTGAC-AAT-ACCTCAGCGTGCCCCGAGGCTCAACTCAC
1 AAAAGCAGAAATTGAAAATAC-CTCA--G-CGTGTGA-CTC-GAG-G-CTC-A-ACTCACCTCTC
* *
63383979 -C--TCTCGCAATATGAGTTGATTTTTG
56 GCAATAT-G-AGT-TGA--T--TTTTTG
* * * *
63384004 AAAAACAGAAATTTAAAAATACTTCAGCGTGT-CCT-GAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAGCAGAAA-TTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGA
*
63384067 GTTGATTTTTTTTTT
65 GTTGA---TTTTTTG
* * *
63384082 ACGAA-CAGAAATTG-AAAGACCTCAGCATGTGAGC-CGAGGCTCAACTCACCTCTCGCAATATG
1 A-AAAGCAGAAATTGAAAATACCTCAGCGTGTGA-CTCGAGGCTCAACTCACCTCTCGCAATATG
*
63384144 AGTT-AATTTTTG
64 AGTTGATTTTTTG
* * * *
63384156 ACAAA-CAAAAATTG-AATTACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATAA
1 A-AAAGCAGAAATTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGA
63384217 GTTGA-TTTTTG
65 GTTGATTTTTTG
** * * * *
63384228 AAAAATAGAAATTTAAAAATACCTCAGCGTGT-CCT-GAGGCTCAACTCATCTCTCGTAATATGA
1 AAAAGCAGAAA-TTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGA
63384291 GTTGATTTTCCTTG
65 GTTGATTTT--TTG
63384305 AAAAGCA
1 AAAAGCA
63384312 TGAATTAAAA
Statistics
Matches: 870, Mismatches: 131, Indels: 178
0.74 0.11 0.15
Matches are distributed among these distances:
70 43 0.05
71 15 0.02
72 110 0.13
73 22 0.03
74 156 0.18
75 54 0.06
76 23 0.03
77 178 0.20
78 57 0.07
79 17 0.02
80 23 0.03
81 5 0.01
82 9 0.01
83 4 0.00
84 10 0.01
85 15 0.02
86 6 0.01
87 53 0.06
88 6 0.01
89 51 0.06
90 2 0.00
91 11 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (76 bp):
AAAAGCAGAAATTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTG
Found at i:63383390 original size:14 final size:14
Alignment explanation
Indices: 63383371--63383405 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
63383361 GTTGATTCTT
*
63383371 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
63383385 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
63383399 TTGAAAA
1 TTGAAAA
63383406 TACCTCAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:63383451 original size:89 final size:91
Alignment explanation
Indices: 63383294--63383482 Score: 283
Period size: 89 Copynumber: 2.1 Consensus size: 91
63383284 GTTGATTCTT
*
63383294 TTGAAAAGCAGAAATTGAAAACGCCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAGCAGAAATTGAAAACACCTCA-CGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
63383359 GAGTTGATTCTTTTG-AAAAGTAGAAA
65 GAGTTGATTCTTTTGAAAAAATAGAAA
* * *
63383385 TTGAAAAGCAGAAATTGAAAATACCTCA-GTGTGTCCCGAGGCTCAACTCACCTCTCGCAATGTG
1 TTGAAAAGCAGAAATTGAAAACACCTCACGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
* *
63383449 AGTTGATTTTTTTGATAAAAATAGAAT
66 AGTTGATTCTTTTGA-AAAAATAGAAA
63383476 TTGAAAA
1 TTGAAAA
63383483 TACCTCAGTG
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
89 47 0.53
91 42 0.47
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (91 bp):
TTGAAAAGCAGAAATTGAAAACACCTCACGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTCTTTTGAAAAAATAGAAA
Found at i:63384069 original size:74 final size:73
Alignment explanation
Indices: 63383586--63384299 Score: 401
Period size: 72 Copynumber: 9.5 Consensus size: 73
63383576 TCAGCGTCTT
* * * * *
63383586 GAGGTTCAACTCACATCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAATACCTC
** **
63383651 AATGTGTCTT
64 AGCGTGTCCC
* * * * * *
63383661 GAGGCTCAACTTATCTCTCGCAATATGAGTTGA-TTTTGACAAACAAAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAATACCTCAG
**
63383725 C--GTCTT
66 CGTGTCCC
* * * * *
63383731 GAGGTTCAACTCACCTCTTGCAATATGAGCTGATTTTTTTAAAAGACAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAA-ACAGAAATTTAAAATACCTC
* ***
63383796 AACGTGAGAAAC
64 AGCGT--GTCCC
*** ** * * *
63383808 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TTGATGATAAATTGAAAATACCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAATACCTCAG
* * **
63383872 TGTGACTT
66 CGTGTCCC
* * ***
63383880 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA-ATAAA-TTAAAACACAAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAATAC-CTCA
* *
63383942 TTGACAAT-ACCTC
65 --G-C-GTGTCC-C
* * * * * * *
63383955 AGCGTGCCCCGAGGCTCAACTCAC-C--TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
1 -GAG-G-CTC-A-ACTCACCTCTCGCAATAT-G-AGT-T-----GATTTTTGAAAAACAGAAATT
* *
63384017 TAAAAATACTTCAGCGTGTCCT
53 T-AAAATACCTCAGCGTGTCCC
* ** * *
63384039 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTACGAACAGAAA-TTGAAAGACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAACAGAAATTTAAAATACC
**
63384103 TCAGCATGTGAGCC
62 TCAGC--GTGTCCC
* * * * *
63384117 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACA-AAAATTGAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAATACCTCAG
63384181 CGTGTCCC
66 CGTGTCCC
* *
63384189 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAATAGAAATTTAAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT-AAAATACCTCA
*
63384254 GCGTGTCCT
65 GCGTGTCCC
* *
63384263 GAGGCTCAACTCATCTCTCGTAATATGAGTTGATTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
63384300 CCTTGAAAAG
Statistics
Matches: 495, Mismatches: 100, Indels: 89
0.72 0.15 0.13
Matches are distributed among these distances:
70 40 0.08
71 6 0.01
72 121 0.24
73 28 0.06
74 100 0.20
75 30 0.06
76 17 0.03
77 36 0.07
78 53 0.11
79 13 0.03
80 13 0.03
81 3 0.01
82 3 0.01
83 2 0.00
84 1 0.00
85 11 0.02
86 5 0.01
87 4 0.01
88 3 0.01
89 6 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAATACCTCAG
CGTGTCCC
Found at i:63384122 original size:309 final size:304
Alignment explanation
Indices: 63383661--63384234 Score: 765
Period size: 309 Copynumber: 1.9 Consensus size: 304
63383651 AATGTGTCTT
* * * * *
63383661 GAGGCTCAACTTATCTCTCGCAATATGAGTTGATTTTGACAAACAAAAATTGAAATTACCTCAGC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAATACCTCAGC
* * * *
63383726 GTCTTGAGGTTCAACTCACCTCTTGCAATATGAGCTGATTTTTTTAAAAGACAGAAATTGAAAAT
66 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAGACAGAAATTGAAAAG
* * *** ** *
63383791 ACCTCAACGTGAGAAACGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TTGATGATA
131 ACCTCAACATGAGAAACGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAAA
* ** *
63383855 AATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
196 AATTG-AAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGA
63383920 AAAATAAATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCC
260 AAAATAAATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCC
* *
63383965 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACTTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACA-AAAATTAAAAATACCTCA
* ** *
63384030 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTACGAACAGAAATT
64 GC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTTAAAAG-ACAGAAATT
* * **
63384095 G-AAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACA
125 GAAAAGACCTCAACATGAGAAACGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACA
* * *
63384159 AACAAAAATTGAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATT
190 AACAAAAATTGAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATT
63384224 TTTGAAAAATA
255 TTTGAAAAATA
63384235 GAAATTTAAA
Statistics
Matches: 229, Mismatches: 34, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
304 31 0.14
305 11 0.05
306 16 0.07
308 34 0.15
309 119 0.52
310 18 0.08
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (304 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAATACCTCAGC
GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAGACAGAAATTGAAAAG
ACCTCAACATGAGAAACGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAAA
AATTGAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAA
AAATAAATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCC
Found at i:63403314 original size:14 final size:15
Alignment explanation
Indices: 63403284--63403316 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
63403274 AAACTAAACC
*
63403284 AAAATTAAAACCATA
1 AAAATTAAAAACATA
63403299 AAAATTAAAAAC-TA
1 AAAATTAAAAACATA
63403313 AAAA
1 AAAA
63403317 CAACCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATTAAAAACATA
Found at i:63404081 original size:16 final size:15
Alignment explanation
Indices: 63404060--63404107 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
63404050 GATGTGAATA
63404060 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
63404076 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
63404091 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
63404107 A
1 A
63404108 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:63404083 original size:24 final size:24
Alignment explanation
Indices: 63404056--63404111 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
63404046 TAATGATGTG
*
63404056 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
63404080 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
63404104 AATAATAA
1 AATAATAA
63404112 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:63404090 original size:8 final size:8
Alignment explanation
Indices: 63404056--63404107 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
63404046 TAATGATGTG
*
63404056 AATAATAA
1 AATATTAA
63404064 AATATATAA
1 AATAT-TAA
63404073 AATA-TAA
1 AATATTAA
63404080 AATATTAA
1 AATATTAA
*
63404088 AATATCAA
1 AATATTAA
*
63404096 AATATTAG
1 AATATTAA
63404104 AATA
1 AATA
63404108 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:63404274 original size:20 final size:20
Alignment explanation
Indices: 63404222--63404278 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
63404212 ATACTACATC
*
63404222 AATATGTACATATATAAAAAA
1 AATATGTACATA-ATATAAAA
* * *
63404243 AATACGT-GATAATATTAAA
1 AATATGTACATAATATAAAA
63404262 AATATGTACATAATATA
1 AATATGTACATAATATA
63404279 GTGTTAAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AATATGTACATAATATAAAA
Found at i:63404295 original size:24 final size:22
Alignment explanation
Indices: 63404268--63404320 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
63404258 TAAAAATATG
63404268 TACATAATATAGTGTTAAAATACA
1 TACATAATATA--GTTAAAATACA
* *
63404292 TACATAATATAGTTAAGATATA
1 TACATAATATAGTTAAAATACA
63404314 TACATAA
1 TACATAA
63404321 GATAACATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 16 0.59
24 11 0.41
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.34
Consensus pattern (22 bp):
TACATAATATAGTTAAAATACA
Found at i:63404316 original size:22 final size:23
Alignment explanation
Indices: 63404260--63404320 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 23
63404250 GATAATATTA
*
63404260 AAAATATGTACATAATATAGTGTT
1 AAAATATATACATAATATAG-GTT
*
63404284 AAAATACATACATAATATA-GTT
1 AAAATATATACATAATATAGGTT
*
63404306 AAGATATATACATAA
1 AAAATATATACATAA
63404321 GATAACATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 16 0.48
24 17 0.52
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (23 bp):
AAAATATATACATAATATAGGTT
Found at i:63404371 original size:31 final size:31
Alignment explanation
Indices: 63404309--63404386 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
63404299 TATAGTTAAG
* *
63404309 ATATATACATAAGATAACATGTAAAAAATAT
1 ATATATAAATAATATAACATGTAAAAAATAT
* *
63404340 ATATATAAATAATATAATAT-T-AAAGATAT
1 ATATATAAATAATATAACATGTAAAAAATAT
* *
63404369 ATACATAAAATAGTATAA
1 ATATAT-AAATAATATAA
63404387 ATATATATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 12 0.30
30 11 0.28
31 17 0.43
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (31 bp):
ATATATAAATAATATAACATGTAAAAAATAT
Found at i:63404404 original size:51 final size:46
Alignment explanation
Indices: 63404333--63404470 Score: 122
Period size: 51 Copynumber: 2.9 Consensus size: 46
63404323 TAACATGTAA
63404333 AAAATATATATATAAATAATATAATATTAAAGATATATACATAAAATAGT
1 AAAATATATATAT--ATAATATAATATT-AAGA-ATATACATAAAATAGT
* * *
63404383 ATAAATATATATATACGTAATATAGA-ATTTAA-AATATACCTAATATATT
1 A-AAATATATATATA--TAATATA-ATA-TTAAGAATATACATAAAATAGT
*
63404432 AAAAGA-ATATATATAATATAATATTAAGAAATATA-ATAA
1 AAAATATATATATATAATATAATATTAAG-AATATACATAA
63404471 TAACAAAAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 21
0.74 0.05 0.21
Matches are distributed among these distances:
44 5 0.07
45 11 0.15
46 6 0.08
47 7 0.09
48 4 0.05
49 15 0.20
50 2 0.03
51 22 0.29
52 3 0.04
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (46 bp):
AAAATATATATATATAATATAATATTAAGAATATACATAAAATAGT
Found at i:63405033 original size:30 final size:30
Alignment explanation
Indices: 63404999--63405085 Score: 165
Period size: 30 Copynumber: 2.9 Consensus size: 30
63404989 TAGAGCAAGT
63404999 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
1 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
*
63405029 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGT
1 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
63405059 GTGGCTAGTGGAGTTGGTGGTGGAAAA
1 GTGGCTAGTGGAGTTGGTGGTGGAAAA
63405086 AGCTAAGATT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.22, C:0.03, G:0.49, T:0.25
Consensus pattern (30 bp):
GTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
Found at i:63405925 original size:16 final size:16
Alignment explanation
Indices: 63405906--63405947 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
63405896 AGGATCGAAA
*
63405906 TATAATTTTATTATTG
1 TATAATTTTATTATTC
63405922 TAT-ATGTTTATTATTC
1 TATAAT-TTTATTATTC
*
63405938 TAGAATTTTA
1 TATAATTTTA
63405948 AAAGATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.09
16 18 0.82
17 2 0.09
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (16 bp):
TATAATTTTATTATTC
Found at i:63407200 original size:32 final size:34
Alignment explanation
Indices: 63407142--63407210 Score: 88
Period size: 32 Copynumber: 2.1 Consensus size: 34
63407132 AATTTTCAAT
63407142 AAATAAAAAATATATAAAATTATT-AAAT-ATTA
1 AAATAAAAAATATATAAAATTATTAAAATAATTA
* ** *
63407174 AAATAAAAAATGTATAATTTTTTTAAAATAATTA
1 AAATAAAAAATATATAAAATTATTAAAATAATTA
63407208 AAA
1 AAA
63407211 ATAATATAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 20 0.65
33 4 0.13
34 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (34 bp):
AAATAAAAAATATATAAAATTATTAAAATAATTA
Found at i:63414167 original size:16 final size:16
Alignment explanation
Indices: 63414146--63414181 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
63414136 TCAATATCAA
63414146 TTTTTTTATA-AATAT
1 TTTTTTTATATAATAT
63414161 GTTTTTTTATATAATAT
1 -TTTTTTTATATAATAT
63414178 TTTT
1 TTTT
63414182 CACCTAGACG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTTTTATATAATAT
Found at i:63429312 original size:32 final size:32
Alignment explanation
Indices: 63429272--63429332 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
63429262 TCTATCAAAA
*
63429272 AATTTTCTTCTCTCATTTTATCCCAACATCCT
1 AATTTTCTTCTCCCATTTTATCCCAACATCCT
* *
63429304 AATTTTCTTCTCCCTTTTTCTCCCAACAT
1 AATTTTCTTCTCCCATTTTATCCCAACAT
63429333 ATTTTTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.48
Consensus pattern (32 bp):
AATTTTCTTCTCCCATTTTATCCCAACATCCT
Found at i:63432065 original size:19 final size:20
Alignment explanation
Indices: 63432030--63432070 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
63432020 AGGAACTAAA
*
63432030 ATATCACAATAGTGACTGTT
1 ATATCACAATAGTGACTATT
*
63432050 ATATCAC-ATCGTGACTATT
1 ATATCACAATAGTGACTATT
63432069 AT
1 AT
63432071 TTAAATCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (20 bp):
ATATCACAATAGTGACTATT
Found at i:63437483 original size:309 final size:309
Alignment explanation
Indices: 63436917--63437536 Score: 1231
Period size: 309 Copynumber: 2.0 Consensus size: 309
63436907 TTCTCGTTGG
63436917 TTAGATAAATCTAGATCAAATTTTCGGGCAATTTACCAATAAAAGCCCTTTTTTTCAAAAATTAT
1 TTAGATAAATCTAGATCAAATTTTCGGGCAATTTACCAATAAAAGCCCTTTTTTTCAAAAATTAT
63436982 CGAAATGGGCCTATTTTTTAATTATTTACCGGAATGGTCCTTTTTTCGGGAAATCGCGTCTACGT
66 CGAAATGGGCCTATTTTTTAATTATTTACCGGAATGGTCCTTTTTTCGGGAAATCGCGTCTACGT
63437047 CAGCGCGATGTTAGGGTACGCATCAAGAAATCGCGTCCACGTCAGCGCGAGATGCTGACGTGGAC
131 CAGCGCGATGTTAGGGTACGCATCAAGAAATCGCGTCCACGTCAGCGCGAGATGCTGACGTGGAC
63437112 GCGATTTCGGCCCGCGCGTGAACAGTACCCAACGGTCAAAAAAATAAAATACCGGGCCCATTTCG
196 GCGATTTCGGCCCGCGCGTGAACAGTACCCAACGGTCAAAAAAATAAAATACCGGGCCCATTTCG
63437177 ATAAATTTTAAAAAATATAGGGCTTTTTTGGTATTTTGAAAAAATAAAT
261 ATAAATTTTAAAAAATATAGGGCTTTTTTGGTATTTTGAAAAAATAAAT
*
63437226 TTAGATCAATCTAGATCAAATTTTCGGGCAATTTACCAATAAAAGCCCTTTTTTTCAAAAATTAT
1 TTAGATAAATCTAGATCAAATTTTCGGGCAATTTACCAATAAAAGCCCTTTTTTTCAAAAATTAT
63437291 CGAAATGGGCCTATTTTTTAATTATTTACCGGAATGGTCCTTTTTTCGGGAAATCGCGTCTACGT
66 CGAAATGGGCCTATTTTTTAATTATTTACCGGAATGGTCCTTTTTTCGGGAAATCGCGTCTACGT
63437356 CAGCGCGATGTTAGGGTACGCATCAAGAAATCGCGTCCACGTCAGCGCGAGATGCTGACGTGGAC
131 CAGCGCGATGTTAGGGTACGCATCAAGAAATCGCGTCCACGTCAGCGCGAGATGCTGACGTGGAC
63437421 GCGATTTCGGCCCGCGCGTGAACAGTACCCAACGGTCAAAAAAATAAAATACCGGGCCCATTTCG
196 GCGATTTCGGCCCGCGCGTGAACAGTACCCAACGGTCAAAAAAATAAAATACCGGGCCCATTTCG
63437486 ATAAATTTTAAAAAATATAGGGCTTTTTTGGTATTTTGAAAAAATAAAT
261 ATAAATTTTAAAAAATATAGGGCTTTTTTGGTATTTTGAAAAAATAAAT
63437535 TT
1 TT
63437537 TGAATCTTTT
Statistics
Matches: 310, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
309 310 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (309 bp):
TTAGATAAATCTAGATCAAATTTTCGGGCAATTTACCAATAAAAGCCCTTTTTTTCAAAAATTAT
CGAAATGGGCCTATTTTTTAATTATTTACCGGAATGGTCCTTTTTTCGGGAAATCGCGTCTACGT
CAGCGCGATGTTAGGGTACGCATCAAGAAATCGCGTCCACGTCAGCGCGAGATGCTGACGTGGAC
GCGATTTCGGCCCGCGCGTGAACAGTACCCAACGGTCAAAAAAATAAAATACCGGGCCCATTTCG
ATAAATTTTAAAAAATATAGGGCTTTTTTGGTATTTTGAAAAAATAAAT
Found at i:63438260 original size:29 final size:29
Alignment explanation
Indices: 63438200--63438260 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
63438190 CGGGAAAAAT
*
63438200 GGCCCATTCCGATAAATAATAAAATATAG
1 GGCCCATTCCGATAAATAATAAAAAATAG
* ** *
63438229 GGCCCATTTCGATAAATTTTAAAAAATCG
1 GGCCCATTCCGATAAATAATAAAAAATAG
63438258 GGC
1 GGC
63438261 TTTTTTTGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (29 bp):
GGCCCATTCCGATAAATAATAAAAAATAG
Found at i:63438625 original size:11 final size:11
Alignment explanation
Indices: 63438611--63438645 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
63438601 ATTTTTTTAT
63438611 ATATTTTTAAA
1 ATATTTTTAAA
63438622 ATATTTTTCAAA
1 ATATTTTT-AAA
*
63438634 ATATATTTAAA
1 ATATTTTTAAA
63438645 A
1 A
63438646 ATGTATAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (11 bp):
ATATTTTTAAA
Found at i:63440074 original size:29 final size:29
Alignment explanation
Indices: 63440031--63440091 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
63440021 TATTAATTAT
63440031 AATAATATATATTTAATATTT-TTTATCAA
1 AATAATATATATTT-ATATTTATTTATCAA
63440060 AATAATAT-TAGTTTATATTTATTTATCAA
1 AATAATATATA-TTTATATTTATTTATCAA
63440089 AAT
1 AAT
63440092 GATGTTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (29 bp):
AATAATATATATTTATATTTATTTATCAA
Found at i:63444476 original size:21 final size:18
Alignment explanation
Indices: 63444437--63444481 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 18
63444427 ATGTACAATA
63444437 TTAAATTTTAAAAAAAAT
1 TTAAATTTTAAAAAAAAT
63444455 TTAAATTGTGTAAAACAAAAT
1 TTAAATT-T-TAAAA-AAAAT
63444476 TTAAAT
1 TTAAAT
63444482 ATATATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.29
19 1 0.04
20 5 0.21
21 11 0.46
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (18 bp):
TTAAATTTTAAAAAAAAT
Found at i:63447889 original size:21 final size:21
Alignment explanation
Indices: 63447865--63447921 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
63447855 TTAAACTAAG
* *
63447865 GTTTGAAATCAAGAGAACAAT
1 GTTTGAAATCAAAAGAACAAA
*
63447886 GTTTTAAATATCAAAAGAACAAA
1 G-TTTGAA-ATCAAAAGAACAAA
63447909 GTTTGAAATCAAA
1 GTTTGAAATCAAA
63447922 CTTTGGGGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 7 0.23
22 10 0.33
23 13 0.43
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (21 bp):
GTTTGAAATCAAAAGAACAAA
Found at i:63449620 original size:30 final size:30
Alignment explanation
Indices: 63449567--63449625 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
63449557 TTTACTACTA
*
63449567 AACTTTGAATTTTATTAAAAATTT-CCACC
1 AACTTTGAATTTAATTAAAAATTTACCACC
63449596 AACTTTGATTATTTAATT-AAAATTTACCAC
1 AACTTTGA--ATTTAATTAAAAATTTACCAC
63449626 TCAGTATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 8 0.31
30 7 0.27
31 11 0.42
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.42
Consensus pattern (30 bp):
AACTTTGAATTTAATTAAAAATTTACCACC
Found at i:63459308 original size:19 final size:19
Alignment explanation
Indices: 63459284--63459321 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
63459274 TCTGGCACGC
*
63459284 TTTTAGGTTTTCTTGTTTT
1 TTTTAGGTCTTCTTGTTTT
63459303 TTTTAGGTCTTCTTGTTTT
1 TTTTAGGTCTTCTTGTTTT
63459322 GTCTTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.08, G:0.16, T:0.71
Consensus pattern (19 bp):
TTTTAGGTCTTCTTGTTTT
Found at i:63465283 original size:15 final size:13
Alignment explanation
Indices: 63465250--63465291 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
63465240 TGGTCTTATT
*
63465250 AAAAATT-AGAAA
1 AAAAATTAAAAAA
63465262 AAAAATTATAAAAA
1 AAAAATTA-AAAAA
63465276 ATAAAATTAAAAAA
1 A-AAAATTAAAAAA
63465290 AA
1 AA
63465292 CTATAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 7 0.27
13 1 0.04
14 11 0.42
15 7 0.27
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (13 bp):
AAAAATTAAAAAA
Found at i:63465301 original size:27 final size:27
Alignment explanation
Indices: 63465251--63465302 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
63465241 GGTCTTATTA
*
63465251 AAAATTAGAAAAAAAATTATAAAAAAT
1 AAAATTAGAAAAAAAATTAGAAAAAAT
*
63465278 AAAATTA-AAAAAAACTATAGAAAAA
1 AAAATTAGAAAAAAAAT-TAGAAAAA
63465303 TTATTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (27 bp):
AAAATTAGAAAAAAAATTAGAAAAAAT
Found at i:63465331 original size:20 final size:20
Alignment explanation
Indices: 63465298--63465361 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 20
63465288 AAAACTATAG
*
63465298 AAAAATTATTAAATTTTTAAT
1 AAAAA-TATAAAATTTTTAAT
*
63465319 AAAAATATAAAA--TTTATT
1 AAAAATATAAAATTTTTAAT
* *
63465337 AAAAAT-TAGAATTTTTTAT
1 AAAAATATAAAATTTTTAAT
63465356 AAAAAT
1 AAAAAT
63465362 CGTAAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
17 4 0.11
18 11 0.31
19 10 0.28
20 6 0.17
21 5 0.14
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
AAAAATATAAAATTTTTAAT
Found at i:63465693 original size:20 final size:20
Alignment explanation
Indices: 63465669--63465720 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
63465659 TTTTAACAAT
63465669 TTTTTAATATTTTTTT-TACTA
1 TTTTTAATATTTTTTTCTA--A
63465690 TTTTT-ATATTTTTTTCTAA
1 TTTTTAATATTTTTTTCTAA
63465709 TTTTTAATATTT
1 TTTTTAATATTT
63465721 GAAATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.21
20 16 0.55
21 7 0.24
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTAATATTTTTTTCTAA
Found at i:63466035 original size:92 final size:91
Alignment explanation
Indices: 63465803--63466164 Score: 473
Period size: 88 Copynumber: 4.0 Consensus size: 91
63465793 TTTTAATAAA
* * * *
63465803 AGTAGGGGCTTAATTGCTTTTTTTTTTGAAAAAATTTGAGGGCTTTTTTGATGGATTTTGAAAGT
1 AGTAGGGGCTTAATTAC--TTTTTTTTGAAAAGATTTGAGGGCCTTTTTGATGCATTTTGAAAGT
* * *
63465868 TCAAGTACCCAATTAAGTGCAAAAAAAG
64 TCAAGTACCCAAATGAGTACAAAAAAAG
* *
63465896 AGTAGGGGCTTAATTAC-TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTT
1 AGTAGGGGCTTAATTACTTTTTTTTGAAAAGATTTGAGGGCCTTTTTGATGCATTTTGAAAGTTC
* *
63465960 AAGTACCGAATTGAGTACAAATAAAAG
66 AAGTACCCAAATGAGTACAAA-AAAAG
* * * *
63465987 AGTAGGGGCTTAATTGCTTTTTTTTGAGAAGGTTTGAGGGCATTTTTGATGCATTTTGAAAGTTC
1 AGTAGGGGCTTAATTACTTTTTTTTGAAAAGATTTGAGGGCCTTTTTGATGCATTTTGAAAGTTC
* *
63466052 AAGTACCGAAATGAATAC--AAAAA-
66 AAGTACCCAAATGAGTACAAAAAAAG
* *
63466075 AGTAGGGGCTTAATTACTTTTTTTTGAAAAGATTTGAGGGCCTTTTTAATGTATTTTGAAAGGTT
1 AGTAGGGGCTTAATTACTTTTTTTTGAAAAGATTTGAGGGCCTTTTTGATGCATTTTGAAA-GTT
*
63466140 -AAGTACCCAAATGAGTGCAAAAAAA
65 CAAGTACCCAAATGAGTACAAAAAAA
63466165 AAAAAGAAAA
Statistics
Matches: 240, Mismatches: 24, Indels: 13
0.87 0.09 0.05
Matches are distributed among these distances:
88 70 0.29
89 7 0.03
90 66 0.28
91 21 0.09
92 60 0.25
93 16 0.07
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (91 bp):
AGTAGGGGCTTAATTACTTTTTTTTGAAAAGATTTGAGGGCCTTTTTGATGCATTTTGAAAGTTC
AAGTACCCAAATGAGTACAAAAAAAG
Found at i:63467032 original size:18 final size:17
Alignment explanation
Indices: 63467004--63467060 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
63466994 ACCGTGTTCA
*
63467004 AATAATTTATATATTTT
1 AATAGTTTATATATTTT
63467021 AATATGTTTATATTATTTT
1 AATA-GTTTATA-TATTTT
*
63467040 AA-AGTATTATATATGTT
1 AATAGT-TTATATATTTT
63467057 AATA
1 AATA
63467061 CTTCAATACT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
17 13 0.38
18 13 0.38
19 8 0.24
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
AATAGTTTATATATTTT
Found at i:63479504 original size:21 final size:21
Alignment explanation
Indices: 63479480--63479522 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
63479470 ATCCACTAGA
*
63479480 ATGATACTGACTACTTGATCT
1 ATGATACTGAATACTTGATCT
63479501 ATGATACTGAATACTTGATCT
1 ATGATACTGAATACTTGATCT
63479522 A
1 A
63479523 GAGAAGTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (21 bp):
ATGATACTGAATACTTGATCT
Found at i:63489005 original size:14 final size:14
Alignment explanation
Indices: 63488986--63489013 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63488976 TTGAATCTAT
63488986 ACTTTGCTTGCTCA
1 ACTTTGCTTGCTCA
63489000 ACTTTGCTTGCTCA
1 ACTTTGCTTGCTCA
63489014 GAAGACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (14 bp):
ACTTTGCTTGCTCA
Found at i:63494773 original size:31 final size:29
Alignment explanation
Indices: 63494704--63494777 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
63494694 ACAAAATAAT
*
63494704 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATTGCA
63494733 AACATAAGTGACTAAAATGTAAC-TTAAGGCA
1 AACATAAGTGACTAAAATGTAACATT---GCA
*
63494764 AACAAAAGTGACTA
1 AACATAAGTGACTA
63494778 TTTTTGTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 2 0.05
29 23 0.57
31 15 0.38
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATTGCA
Found at i:63500400 original size:54 final size:53
Alignment explanation
Indices: 63500340--63500494 Score: 138
Period size: 53 Copynumber: 2.9 Consensus size: 53
63500330 CCAAACCCTT
*
63500340 TTACTTTTCCCAAAAAAATTTACTTTCC-CTCAAACCCTCAAAACATTTTTCCTA
1 TTACTTTTCCCAAAAAAATTTAC-TTCCTC-CAAACCCTAAAAACATTTTTCCTA
* ** * * * *
63500394 TTACTTTTCCCTAAAACTTTTACTTCTTCCAAACTCTAAAAACATTTTTTCTT
1 TTACTTTTCCCAAAAAAATTTACTTCCTCCAAACCCTAAAAACATTTTTCCTA
* ** *
63500447 TTGCTTTTCCTC-AAAACTTTTACTT-CTCCAAA-CCTCAAAAACTTTTTT
1 TTACTTTTCC-CAAAAAAATTTACTTCCTCCAAACCCT-AAAAACATTTTT
63500495 TTGAATTTAT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
51 2 0.02
52 17 0.20
53 45 0.52
54 22 0.26
ACGTcount: A:0.30, C:0.27, G:0.01, T:0.43
Consensus pattern (53 bp):
TTACTTTTCCCAAAAAAATTTACTTCCTCCAAACCCTAAAAACATTTTTCCTA
Found at i:63500454 original size:53 final size:51
Alignment explanation
Indices: 63500370--63500495 Score: 155
Period size: 53 Copynumber: 2.4 Consensus size: 51
63500360 TACTTTCCCT
* *
63500370 CAAACCCTCAAAACATTTTTCCTATTACTTTTCC-CTAAAACTTTTACTTCTTC
1 CAAA-CCTAAAAACATTTTTTCTATTACTTTTCCTC-AAAACTTTTACTTC-TC
* *
63500423 CAAACTCTAAAAACATTTTTTCTTTTGCTTTTCCTCAAAACTTTTACTTCTC
1 CAAAC-CTAAAAACATTTTTTCTATTACTTTTCCTCAAAACTTTTACTTCTC
*
63500475 CAAACCTCAAAAACTTTTTTT
1 CAAACCT-AAAAACATTTTTT
63500496 TGAATTTATA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
51 2 0.03
52 20 0.31
53 42 0.65
54 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.01, T:0.43
Consensus pattern (51 bp):
CAAACCTAAAAACATTTTTTCTATTACTTTTCCTCAAAACTTTTACTTCTC
Found at i:63506284 original size:41 final size:41
Alignment explanation
Indices: 63506173--63506332 Score: 212
Period size: 41 Copynumber: 3.9 Consensus size: 41
63506163 CTTTCATGGA
* *
63506173 TTTAGCGGCGTTTTTGAATAAGCGCTGCTAATGCTCAGAGC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGAGC
* * *
63506214 TTTAGCGGCATTTTTTGAATAAGCACCGCTAATGCTCAGAGC
1 TTTAGCGGC-GTTTTTGAAGAAGCGCCGCTAATGCTCAGAGC
* * *
63506256 TTTAACGGCTTTTTTGAAGAAGCGCCGCTAATGCTCAGAGG
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGAGC
** *
63506297 TTTAGCGGCGAATGTGAAGAAGCGCCGCTAATGCTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
63506333 GGTTTTTTTA
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 69 0.65
42 37 0.35
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGAGC
Found at i:63506348 original size:83 final size:81
Alignment explanation
Indices: 63506173--63506370 Score: 211
Period size: 83 Copynumber: 2.4 Consensus size: 81
63506163 CTTTCATGGA
* * * * *
63506173 TTTAGCGGCGTTTTTGAATAAGCGCTGCTAATGCTCAGAGCTTTAGCGGCATTTTTTGAATAAGC
1 TTTAGCGGCTTTTTTGAA-AAGCGCCGCTAATGCTCAGAGCTTTAGCGGCA-TATGTGAAGAAGC
63506238 ACCGCTAATGCTCAGAGC
64 ACCGCTAATGCTCAGAGC
* *
63506256 TTTAACGGCTTTTTTGAAGAAGCGCCGCTAATGCTCAGAGGTTTAGCGGCGA-ATGTGAAGAAGC
1 TTTAGCGGCTTTTTTGAA-AAGCGCCGCTAATGCTCAGAGCTTTAGCGGC-ATATGTGAAGAAGC
* * ***
63506320 GCCGCTAATGCTCGGTTTT
64 ACCGCTAATGCTCAG-AGC
63506339 TTTAGCGGCTTTTTTCAGAAAA-CGCCGCTAAT
1 TTTAGCGGCTTTTTT--GAAAAGCGCCGCTAAT
63506371 AGTCGGGGTT
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
82 22 0.23
83 69 0.71
84 3 0.03
85 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (81 bp):
TTTAGCGGCTTTTTTGAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCATATGTGAAGAAGCAC
CGCTAATGCTCAGAGC
Found at i:63507009 original size:29 final size:29
Alignment explanation
Indices: 63506969--63507042 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
63506959 TTGGGGTTTA
* *
63506969 GGGTTTAAGATTTAGAAATTATGGTTTTG
1 GGGTTTAGGATTTAGAAATTATGATTTTG
63506998 GGGTTTAGGATTTAGAAATTATGATTTTG
1 GGGTTTAGGATTTAGAAATTATGATTTTG
*
63507027 GGGTTTTAGAATTTAG
1 GGG-TTTAGGATTTAG
63507043 GGTTTAAGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 30 0.73
30 11 0.27
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.45
Consensus pattern (29 bp):
GGGTTTAGGATTTAGAAATTATGATTTTG
Found at i:63512647 original size:6 final size:6
Alignment explanation
Indices: 63512636--63512663 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
63512626 ATCTTAATTT
63512636 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
63512664 ATTGTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:63520659 original size:40 final size:39
Alignment explanation
Indices: 63520591--63520707 Score: 139
Period size: 40 Copynumber: 3.0 Consensus size: 39
63520581 GGCGTTTGCA
* *
63520591 TAAAAAATGCCGCTAAAAATAAGCATTAGCGGTGCTTTT
1 TAAAAAATGCCGCTAAAAATGAGCATTAGCGGCGCTTTT
* * *
63520630 TAAAAAACGCAGCTAAAAATCGAGTATTAG-GAGCGCTTTT
1 TAAAAAATGCCGCTAAAAAT-GAGCATTAGCG-GCGCTTTT
**
63520670 TGCAAAATGCCGCTAAAAATGAGCATTAGCGGCG-TTTT
1 TAAAAAATGCCGCTAAAAATGAGCATTAGCGGCGCTTTT
63520708 CCAAAAAGCG
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
38 4 0.06
39 30 0.46
40 31 0.48
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (39 bp):
TAAAAAATGCCGCTAAAAATGAGCATTAGCGGCGCTTTT
Found at i:63520721 original size:39 final size:38
Alignment explanation
Indices: 63520593--63520727 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 38
63520583 CGTTTGCATA
* * * *
63520593 AAAAATGCCGCTAAAAATAAGCATTAGCGGTGCTTTTTA
1 AAAAACGCCGCTAAAAATGAGCATTAGCGGCGC-TTTTC
* *
63520632 AAAAACGCAGCTAAAAATCGAGTATTAG-GAGCGCTTTTTGC
1 AAAAACGCCGCTAAAAAT-GAGCATTAGCG-GCGC-TTTT-C
*
63520673 -AAAATGCCGCTAAAAATGAGCATTAGCGGCG-TTTTCC
1 AAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTT-C
*
63520710 AAAAAGCGCCGCAAAAAA
1 AAAAA-CGCCGCTAAAAA
63520728 CCTAAGCCCA
Statistics
Matches: 78, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
37 5 0.06
38 4 0.05
39 38 0.49
40 31 0.40
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (38 bp):
AAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTTC
Found at i:63520822 original size:40 final size:40
Alignment explanation
Indices: 63520756--63520853 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 40
63520746 TTCGGGGCTT
* ** * *
63520756 TAGCAGCGTTTTTGAATTAGCGCCGCTATTGCTCTATTTG
1 TAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCTATTTG
* * *
63520796 TAGTGTCGTTTTTGAAAAAGCACCGCTAATGCTCTATTTT
1 TAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCTATTTG
63520836 TAGCGGCGTTTTTGAAAA
1 TAGCGGCGTTTTTGAAAA
63520854 GGCGCTGCAA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.39
Consensus pattern (40 bp):
TAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCTATTTG
Found at i:63521137 original size:14 final size:14
Alignment explanation
Indices: 63521087--63521131 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
63521077 TTAATTATCA
*
63521087 TTATTGTTTAGGGT
1 TTATGGTTTAGGGT
*
63521101 TTATGGTTAAGGGT
1 TTATGGTTTAGGGT
*
63521115 ATATGGTTTAGGGT
1 TTATGGTTTAGGGT
63521129 TTA
1 TTA
63521132 AAGTTTTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:63521182 original size:15 final size:15
Alignment explanation
Indices: 63521164--63521217 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
63521154 AGGTTTATAA
63521164 ATTATGGGTTTAAGG
1 ATTATGGGTTTAAGG
*
63521179 ATTAT-GGTTTACGG
1 ATTATGGGTTTAAGG
* *
63521193 TTTATGCGTTTAAGG
1 ATTATGGGTTTAAGG
* *
63521208 TTTAAGGGTT
1 ATTATGGGTT
63521218 ACGGTTTATG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.22, C:0.04, G:0.30, T:0.44
Consensus pattern (15 bp):
ATTATGGGTTTAAGG
Found at i:63521197 original size:29 final size:29
Alignment explanation
Indices: 63521165--63521245 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
63521155 GGTTTATAAA
63521165 TTATGGGTTTAAGGATTATGGTTTACGGT
1 TTATGGGTTTAAGGATTATGGTTTACGGT
* * * *
63521194 TTATGCGTTTAAGGTTTAAGGGTTACGGT
1 TTATGGGTTTAAGGATTATGGTTTACGGT
63521223 TTAT-GGTTTATA-GATTAATGGTT
1 TTATGGGTTTA-AGGATT-ATGGTT
63521246 GGGGTTTAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 8 0.19
29 34 0.81
ACGTcount: A:0.22, C:0.04, G:0.28, T:0.46
Consensus pattern (29 bp):
TTATGGGTTTAAGGATTATGGTTTACGGT
Found at i:63521233 original size:7 final size:7
Alignment explanation
Indices: 63521165--63521233 Score: 57
Period size: 7 Copynumber: 9.6 Consensus size: 7
63521155 GGTTTATAAA
63521165 TTATGGGT
1 TTAT-GGT
* *
63521173 TTAAGGA
1 TTATGGT
63521180 TTATGGT
1 TTATGGT
*
63521187 TTACGGT
1 TTATGGT
63521194 TTATGCGT
1 TTATG-GT
*
63521202 TTAAGGT
1 TTATGGT
* *
63521209 TTAAGGG
1 TTATGGT
*
63521216 TTACGGT
1 TTATGGT
63521223 TTATGGT
1 TTATGGT
63521230 TTAT
1 TTAT
63521234 AGATTAATGG
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
7 40 0.82
8 9 0.18
ACGTcount: A:0.20, C:0.04, G:0.29, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:63521434 original size:15 final size:15
Alignment explanation
Indices: 63521415--63521451 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
63521405 ATTATTTTAA
63521415 GGTTTATGA-ATTAT
1 GGTTTATGAGATTAT
63521429 GAGTTTA-GAGATTAT
1 G-GTTTATGAGATTAT
63521444 GGTTTATG
1 GGTTTATG
63521452 GTTTAAGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (15 bp):
GGTTTATGAGATTAT
Found at i:63521435 original size:22 final size:22
Alignment explanation
Indices: 63521387--63521460 Score: 53
Period size: 22 Copynumber: 3.4 Consensus size: 22
63521377 ATAGTTTTGG
* * * *
63521387 GTTTAGGGTTTAAGAGTTATTA
1 GTTTAAGGTTTATGAATTATGA
*
63521409 TTTTAAGGTTTATGAATTATGA
1 GTTTAAGGTTTATGAATTATGA
* **
63521431 GTTT-AGAGATTATGGTTTATG-
1 GTTTAAG-GTTTATGAATTATGA
63521452 GTTTAAGGT
1 GTTTAAGGT
63521461 AGAGGTGCTC
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
21 7 0.17
22 33 0.82
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (22 bp):
GTTTAAGGTTTATGAATTATGA
Found at i:63524010 original size:28 final size:27
Alignment explanation
Indices: 63523978--63524039 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 27
63523968 ATTTTTTAAT
*
63523978 TTATATATTAAATTATTTAA-ATTATTTC
1 TTATAT-TTAAATTATTTAAGA-GATTTC
63524006 TTATAGTTTAAATTATTTAAGAGATTTC
1 TTATA-TTTAAATTATTTAAGAGATTTC
63524034 TTATAT
1 TTATAT
63524040 GGTTTACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 1 0.03
28 28 0.90
29 2 0.06
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (27 bp):
TTATATTTAAATTATTTAAGAGATTTC
Found at i:63532543 original size:21 final size:20
Alignment explanation
Indices: 63532470--63532543 Score: 57
Period size: 21 Copynumber: 3.8 Consensus size: 20
63532460 TATTTATACT
63532470 ATATTATTTTAATATTTAAT-A
1 ATATTATTTTAATA--TAATAA
* * * *
63532491 ATTTTATTTTTATTTATTAA
1 ATATTATTTTAATATAATAA
63532511 A-ATT-TTTT-ATATAATCAA
1 ATATTATTTTAATATAAT-AA
63532529 ATATTATTTTAATAT
1 ATATTATTTTAATAT
63532544 TTACATCAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
17 5 0.12
18 7 0.17
19 8 0.20
20 6 0.15
21 15 0.37
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATTATTTTAATATAATAA
Found at i:63536467 original size:21 final size:21
Alignment explanation
Indices: 63536429--63536468 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
63536419 TATTCTTTGT
* *
63536429 GCTTTCTTTAAGTCATAAAAC
1 GCTTTCTTCAAATCATAAAAC
*
63536450 GCTTTCTTCAAATGATAAA
1 GCTTTCTTCAAATCATAAA
63536469 CATAATTTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (21 bp):
GCTTTCTTCAAATCATAAAAC
Found at i:63550683 original size:21 final size:21
Alignment explanation
Indices: 63550657--63550699 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
63550647 ACTTAAGTCC
*
63550657 GATGCCTCAAAGAAACAACCG
1 GATGCCTCAAAGAAAAAACCG
63550678 GATGCCTCAAAGAAAAAACCG
1 GATGCCTCAAAGAAAAAACCG
63550699 G
1 G
63550700 CCACGCCGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.26, G:0.21, T:0.09
Consensus pattern (21 bp):
GATGCCTCAAAGAAAAAACCG
Found at i:63555381 original size:21 final size:21
Alignment explanation
Indices: 63555357--63555396 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
63555347 TTAAATTATG
* *
63555357 TTTATCATTTGAAGAAAGCGT
1 TTTATCACTTAAAGAAAGCGT
*
63555378 TTTATGACTTAAAGAAAGC
1 TTTATCACTTAAAGAAAGC
63555397 ACAAAGAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (21 bp):
TTTATCACTTAAAGAAAGCGT
Found at i:63559306 original size:24 final size:24
Alignment explanation
Indices: 63559262--63559308 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
63559252 TATATAATAT
* *
63559262 TAAATATATAATACTACTTTGATG
1 TAAATATAAAATAATACTTTGATG
63559286 TAAATATTAAAATAATA-TTTGAT
1 TAAATA-TAAAATAATACTTTGAT
63559309 TATATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (24 bp):
TAAATATAAAATAATACTTTGATG
Found at i:63567833 original size:28 final size:28
Alignment explanation
Indices: 63567798--63567851 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
63567788 AAGTAAACCA
*
63567798 TATAAGAAAT-CTCTTAAATAATTTAAAC
1 TATAAGAAATAAT-TTAAATAATTTAAAC
63567826 TATAAGAAATAATTTAAATAATTTAA
1 TATAAGAAATAATTTAAATAATTTAA
63567852 TATATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (28 bp):
TATAAGAAATAATTTAAATAATTTAAAC
Found at i:63567857 original size:28 final size:27
Alignment explanation
Indices: 63567797--63567858 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 27
63567787 CAAGTAAACC
*
63567797 ATATAAGAAATCTCTTAAATAATTTAA
1 ATATAAGAAATATCTTAAATAATTTAA
63567824 ACTATAAGAAATAAT-TTAAATAATTTAA
1 A-TATAAGAAAT-ATCTTAAATAATTTAA
63567852 TATATAA
1 -ATATAA
63567859 ATTAAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 1 0.03
28 28 0.90
29 2 0.06
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (27 bp):
ATATAAGAAATATCTTAAATAATTTAA
Found at i:63570407 original size:15 final size:15
Alignment explanation
Indices: 63570373--63570409 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
63570363 TACCTTAAAC
63570373 CATAAACCATAATCT
1 CATAAACCATAATCT
63570388 C-TAAACTCATAAT-T
1 CATAAAC-CATAATCT
63570402 CATAAACC
1 CATAAACC
63570410 TTAAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (15 bp):
CATAAACCATAATCT
Found at i:63570414 original size:22 final size:22
Alignment explanation
Indices: 63570364--63570437 Score: 53
Period size: 22 Copynumber: 3.4 Consensus size: 22
63570354 GAGCACCTCT
*
63570364 ACCTTAAAC-CATAAACCAT-A
1 ACCTTAAACTCATAAATCATAA
* *
63570384 ATCTCTAAACTCATAATTCATAA
1 ACCT-TAAACTCATAAATCATAA
* * * *
63570407 ACCTTAAAATAATAACTCTTAA
1 ACCTTAAACTCATAAATCATAA
*
63570429 ACCCTAAAC
1 ACCTTAAAC
63570438 CCAAAACTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 3 0.07
21 5 0.12
22 29 0.71
23 4 0.10
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (22 bp):
ACCTTAAACTCATAAATCATAA
Found at i:63570649 original size:29 final size:28
Alignment explanation
Indices: 63570557--63570659 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 28
63570547 CCTCAACCCC
* * **
63570557 TAATCCCTAAACCTTAAACC-CCAACCA
1 TAATCCTTAAACCATAAACCGTAAACCA
* *
63570584 TTAAT-CTATAAACCATAAACCGTAACCCT
1 -TAATCCT-TAAACCATAAACCGTAAACCA
*
63570613 TAAACCTTAAACGCATAAACCGTAAACCA
1 TAATCCTTAAAC-CATAAACCGTAAACCA
63570642 TAATCCTTAAACCCATAA
1 TAATCCTTAAA-CCATAA
63570660 TTTATAAACC
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
27 1 0.02
28 24 0.40
29 34 0.57
30 1 0.02
ACGTcount: A:0.44, C:0.31, G:0.03, T:0.22
Consensus pattern (28 bp):
TAATCCTTAAACCATAAACCGTAAACCA
Found at i:63570660 original size:15 final size:15
Alignment explanation
Indices: 63570592--63570659 Score: 70
Period size: 14 Copynumber: 4.7 Consensus size: 15
63570582 CATTAATCTA
*
63570592 TAAA-CCATAAACCG
1 TAAACCCATAAACCT
*
63570606 T-AACCCTTAAACCT
1 TAAACCCATAAACCT
* *
63570620 TAAACGCATAAACCG
1 TAAACCCATAAACCT
*
63570635 TAAA-CCATAATCCT
1 TAAACCCATAAACCT
63570649 TAAACCCATAA
1 TAAACCCATAA
63570660 TTTATAAACC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
13 2 0.05
14 21 0.49
15 20 0.47
ACGTcount: A:0.46, C:0.29, G:0.04, T:0.21
Consensus pattern (15 bp):
TAAACCCATAAACCT
Found at i:63570674 original size:7 final size:7
Alignment explanation
Indices: 63570591--63570659 Score: 57
Period size: 7 Copynumber: 9.6 Consensus size: 7
63570581 CCATTAATCT
63570591 ATAAACC
1 ATAAACC
63570598 ATAAACC
1 ATAAACC
* *
63570605 GTAACCC
1 ATAAACC
*
63570612 TTAAACC
1 ATAAACC
*
63570619 TTAAACGC
1 ATAAAC-C
63570627 ATAAACC
1 ATAAACC
*
63570634 GTAAACC
1 ATAAACC
*
63570641 ATAATCC
1 ATAAACC
*
63570648 TTAAACCC
1 ATAAA-CC
63570656 ATAA
1 ATAA
63570660 TTTATAAACC
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
7 38 0.78
8 11 0.22
ACGTcount: A:0.46, C:0.29, G:0.04, T:0.20
Consensus pattern (7 bp):
ATAAACC
Found at i:63570704 original size:14 final size:14
Alignment explanation
Indices: 63570693--63570737 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
63570683 TCAAAAACTT
63570693 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* *
63570707 TATACCCTTAACCA
1 TAAACCCTAAACCA
*
63570721 TAAACCCTAAACAA
1 TAAACCCTAAACCA
63570735 TAA
1 TAA
63570738 TGATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:63570952 original size:20 final size:20
Alignment explanation
Indices: 63570914--63570953 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
63570904 TTGAATTAAT
*
63570914 ATAAATAAACAAATTAAATA
1 ATAAATAAACAAATAAAATA
* *
63570934 ATAAATAGACAGATAAAATA
1 ATAAATAAACAAATAAAATA
63570954 TTTTTGCAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (20 bp):
ATAAATAAACAAATAAAATA
Found at i:63571011 original size:39 final size:40
Alignment explanation
Indices: 63570967--63571064 Score: 126
Period size: 39 Copynumber: 2.5 Consensus size: 40
63570957 TTGCAGCGCC
* *
63570967 TTTCAAAAACGCCGCTAAAAATAGAGCATTAGCGGTGCT-
1 TTTCAAAAACGCCGCTAAAAATAGAGCAATAGCGGCGCTA
* * *
63571006 TTTCAAAAACGACACTACAAATAGAGCAATAGCGGCGCTA
1 TTTCAAAAACGCCGCTAAAAATAGAGCAATAGCGGCGCTA
* *
63571046 ATTCAAAAACGCTGCTAAA
1 TTTCAAAAACGCCGCTAAA
63571065 GCCCGAACAG
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 34 0.71
40 14 0.29
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (40 bp):
TTTCAAAAACGCCGCTAAAAATAGAGCAATAGCGGCGCTA
Found at i:63583343 original size:21 final size:21
Alignment explanation
Indices: 63583317--63583359 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
63583307 CTCGGCGTGG
*
63583317 CCGGTTTTTTCTTTGAGGCAT
1 CCGGTTGTTTCTTTGAGGCAT
63583338 CCGGTTGTTTCTTTGAGGCAT
1 CCGGTTGTTTCTTTGAGGCAT
63583359 C
1 C
63583360 GGACTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.21, G:0.26, T:0.44
Consensus pattern (21 bp):
CCGGTTGTTTCTTTGAGGCAT
Done.