Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 21 of 163
Found at i:6739081 original size:15 final size:15
Alignment explanation
Indices: 6739030--6739100 Score: 65
Period size: 15 Copynumber: 4.8 Consensus size: 15
6739020 TGTTTTTAAG
*
6739030 TTAAGGGTTATGG-TT
1 TTAAGGTTTA-GGATT
*
6739045 TTTAGGTTTAGG-TT
1 TTAAGGTTTAGGATT
* **
6739059 TTATGGTTTTTGATT
1 TTAAGGTTTAGGATT
*
6739074 TTAAGGTTTAGGGTT
1 TTAAGGTTTAGGATT
6739089 TTAAGGTTTAGG
1 TTAAGGTTTAGG
6739101 GTTTAGGGTT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
14 12 0.27
15 33 0.73
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (15 bp):
TTAAGGTTTAGGATT
Found at i:6739083 original size:7 final size:7
Alignment explanation
Indices: 6739073--6739240 Score: 69
Period size: 7 Copynumber: 23.4 Consensus size: 7
6739063 GGTTTTTGAT
6739073 TTTAAGG
1 TTTAAGG
*
6739080 TTTAGGG
1 TTTAAGG
6739087 TTTTAAGG
1 -TTTAAGG
*
6739095 TTTAGGG
1 TTTAAGG
*
6739102 TTTAGGG
1 TTTAAGG
6739109 TTTAAGG
1 TTTAAGG
6739116 TTT-AGAG
1 TTTAAG-G
*
6739123 TTTATGG
1 TTTAAGG
6739130 TTTTTAA-G
1 --TTTAAGG
6739138 -TTAAGG
1 TTTAAGG
* * *
6739144 GTTATGA
1 TTTAAGG
*
6739151 TTTATGG
1 TTTAAGG
6739158 TTTAAGG
1 TTTAAGG
* *
6739165 TTTATGTTT
1 TTTAAG--G
6739174 TTTAA-G
1 TTTAAGG
6739180 TTT-AGAG
1 TTTAAG-G
**
6739187 TTTATGATTT
1 TTTA--A-GG
6739197 TTTAA-G
1 TTTAAGG
6739203 TTTAAGG
1 TTTAAGG
*
6739210 TTTAGGG
1 TTTAAGG
*
6739217 TTTAGGG
1 TTTAAGG
*
6739224 TTTAGGG
1 TTTAAGG
6739231 TTTAAGG
1 TTTAAGG
6739238 TTT
1 TTT
6739241 TTAAGTTAAA
Statistics
Matches: 125, Mismatches: 20, Indels: 32
0.71 0.11 0.18
Matches are distributed among these distances:
5 5 0.04
6 11 0.09
7 87 0.70
8 9 0.07
9 8 0.06
10 5 0.04
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (7 bp):
TTTAAGG
Found at i:6739146 original size:108 final size:108
Alignment explanation
Indices: 6739021--6739260 Score: 299
Period size: 108 Copynumber: 2.2 Consensus size: 108
6739011 TAGGGTTAGT
* * * *
6739021 GTTTTTAAGTTAAGGGTTATGGTTTTTAGGTTT-AGGTTTTATGGTTTTTGATTTTA-AGGTTTA
1 GTTTTTAAGTTAAGGGTTATGATTTAT-GGTTTAAGG-TTTATGGTTTTTAAGTTTAGA-GTTTA
* *
6739084 -G-GGTTTTAAGGTTTAGGGTTTAGGGTTTAAGGTTTAGAGTTTATG
63 TGAGGTTTTAA-GTTTAAGGTTTAGGGTTTAAGGTTTAGAGTTTAAG
*
6739129 GTTTTTAAGTTAAGGGTTATGATTTATGGTTTAAGGTTTATGTTTTTTAAGTTTAGAGTTTATGA
1 GTTTTTAAGTTAAGGGTTATGATTTATGGTTTAAGGTTTATGGTTTTTAAGTTTAGAGTTTATGA
** * *
6739194 TTTTTTAAGTTTAAGGTTTAGGGTTTAGGGTTTAGGGTTTAAG
66 GGTTTTAAGTTTAAGGTTTAGGGTTTAAGGTTTAGAGTTTAAG
* *
6739237 GTTTTTAAGTTAAAGGTTAAGATT
1 GTTTTTAAGTTAAGGGTTATGATT
6739261 AGGGTTAGGA
Statistics
Matches: 115, Mismatches: 13, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
107 26 0.23
108 83 0.72
109 6 0.05
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (108 bp):
GTTTTTAAGTTAAGGGTTATGATTTATGGTTTAAGGTTTATGGTTTTTAAGTTTAGAGTTTATGA
GGTTTTAAGTTTAAGGTTTAGGGTTTAAGGTTTAGAGTTTAAG
Found at i:6739148 original size:21 final size:21
Alignment explanation
Indices: 6739012--6739255 Score: 97
Period size: 21 Copynumber: 11.3 Consensus size: 21
6739002 GGTTAGGATT
6739012 AGGGTTA-GTGTTTTTAAGTTA
1 AGGGTTATG-GTTTTTAAGTTA
* *
6739033 AGGGTTATGGTTTTTAGGTTT
1 AGGGTTATGGTTTTTAAGTTA
* **
6739054 AGGTTTTATGGTTTTTGATTTTA
1 AGG-GTTATGGTTTTT-AAGTTA
* * *
6739077 AGGTTTA-GGGTTTTAAGGTTT
1 AGGGTTATGGTTTTTAA-GTTA
* *
6739098 AGGGTT-TAGG-GTTTAAGGTTT
1 AGGGTTAT-GGTTTTTAA-GTTA
*
6739119 AGAGTTTATGGTTTTTAAGTTA
1 AG-GGTTATGGTTTTTAAGTTA
* * *
6739141 AGGGTTATGATTTAT-GGTTTA
1 AGGGTTATGGTTTTTAAG-TTA
* * *
6739162 AGGTTTATGTTTTTTAAGTTT
1 AGGGTTATGGTTTTTAAGTTA
* *
6739183 AGAGTTTATGATTTTTTAAGTTTA
1 AG-GGTTATG-GTTTTTAAG-TTA
* * * *
6739207 AGGTTTA-GG-GTTTAGGGTTT
1 AGGGTTATGGTTTTTA-AGTTA
*
6739227 AGGGTTTAAGGTTTTTAAGTTA
1 AGGG-TTATGGTTTTTAAGTTA
*
6739249 AAGGTTA
1 AGGGTTA
6739256 AGATTAGGGT
Statistics
Matches: 171, Mismatches: 34, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
20 11 0.06
21 81 0.47
22 45 0.26
23 30 0.18
24 4 0.02
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (21 bp):
AGGGTTATGGTTTTTAAGTTA
Found at i:6739170 original size:14 final size:14
Alignment explanation
Indices: 6739030--6739240 Score: 83
Period size: 14 Copynumber: 14.6 Consensus size: 14
6739020 TGTTTTTAAG
*
6739030 TTAAGGGTTATGGTT
1 TTAAGGTTTATGG-T
*
6739045 TTTAGGTTTA-GGTT
1 TTAAGGTTTATGG-T
* * *
6739059 TTATGGTTTTTGATT
1 TTAAGGTTTATG-GT
*
6739074 TTAAGGTTTAGGGTT
1 TTAAGGTTTATGG-T
*
6739089 TTAAGGTTTAGGGT
1 TTAAGGTTTATGGT
* *
6739103 TTAGGGTTTAAGGT
1 TTAAGGTTTATGGT
6739117 TT-AGAGTTTATGGTTT
1 TTAAG-GTTTATGG--T
* *
6739133 TTAA-G-TTAAGGG
1 TTAAGGTTTATGGT
* *
6739145 TTATGATTTATGGT
1 TTAAGGTTTATGGT
*
6739159 TTAAGGTTTATGTTTT
1 TTAAGGTTTATG--GT
6739175 TTAA-GTTTA-GAGT
1 TTAAGGTTTATG-GT
* * * *
6739188 TTATGATTTTTTAAGT
1 TTAAG-GTTTAT-GGT
*
6739204 TTAAGGTTTAGGGT
1 TTAAGGTTTATGGT
* *
6739218 TTAGGGTTTAGGGT
1 TTAAGGTTTATGGT
6739232 TTAAGGTTT
1 TTAAGGTTT
6739241 TTAAGTTAAA
Statistics
Matches: 145, Mismatches: 36, Indels: 31
0.68 0.17 0.15
Matches are distributed among these distances:
12 3 0.02
13 5 0.03
14 77 0.53
15 45 0.31
16 14 0.10
17 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (14 bp):
TTAAGGTTTATGGT
Found at i:6739278 original size:33 final size:34
Alignment explanation
Indices: 6739225--6739307 Score: 109
Period size: 33 Copynumber: 2.5 Consensus size: 34
6739215 GGTTTAGGGT
6739225 TTAGGGTTTAAGGTTTTTAAGTTAAAGGTTAAGA
1 TTAGGGTTTAAGGTTTTTAAGTTAAAGGTTAAGA
*
6739259 TTAGGG-TT-AGGATTTTTAAGTTAAGGGTT-AGAA
1 TTAGGGTTTAAGG-TTTTTAAGTTAAAGGTTAAG-A
*
6739292 TTGGGGTTTAAGGTTT
1 TTAGGGTTTAAGGTTT
6739308 AGGGTTTATG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
32 5 0.12
33 24 0.56
34 11 0.26
35 3 0.07
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (34 bp):
TTAGGGTTTAAGGTTTTTAAGTTAAAGGTTAAGA
Found at i:6739329 original size:22 final size:22
Alignment explanation
Indices: 6739302--6739536 Score: 118
Period size: 21 Copynumber: 10.9 Consensus size: 22
6739292 TTGGGGTTTA
*
6739302 AGGTTTAGGGTTTATGTTTTTT
1 AGGTTTAGGGTTTATGGTTTTT
6739324 AGGTTTAGGGTTT-TAGG-TTTT
1 AGGTTTAGGGTTTAT-GGTTTTT
* * *
6739345 AGGGTTTTTA-AG-TTAAGG--GTT
1 A-GG--TTTAGGGTTTATGGTTTTT
*
6739366 AGGATTAGGG-TTATGGTTTTT
1 AGGTTTAGGGTTTATGGTTTTT
* *
6739387 AAGTTAAGGG-TTATGGTTTTT
1 AGGTTTAGGGTTTATGGTTTTT
***
6739408 AGGTTTAGGGTTT-TTAATTTT
1 AGGTTTAGGGTTTATGGTTTTT
* ** **
6739429 ATGGTTTAGGGTTTTTAATGCTT
1 A-GGTTTAGGGTTTATGGTTTTT
* *
6739452 AGTGTTTAAGGTTTAAGGTTTTT
1 AG-GTTTAGGGTTTATGGTTTTT
*
6739475 AGGTTTAGGG-TTAAGAG--TTT
1 AGGTTTAGGGTTTATG-GTTTTT
*
6739495 AGAGTTTAGGGTTTAAGGTTTTT
1 AG-GTTTAGGGTTTATGGTTTTT
* *
6739518 AAG-TTAGGGTTTAAGGTTT
1 AGGTTTAGGGTTTATGGTTT
6739537 AGAGGTTATG
Statistics
Matches: 167, Mismatches: 29, Indels: 35
0.72 0.13 0.15
Matches are distributed among these distances:
18 3 0.02
19 6 0.04
20 7 0.04
21 73 0.44
22 49 0.29
23 25 0.15
24 4 0.02
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.49
Consensus pattern (22 bp):
AGGTTTAGGGTTTATGGTTTTT
Found at i:6739345 original size:15 final size:14
Alignment explanation
Indices: 6739320--6739352 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
6739310 GGTTTATGTT
6739320 TTTTAGGTTTAGGG
1 TTTTAGGTTTAGGG
6739334 TTTTAGGTTTTAGGG
1 TTTTAGG-TTTAGGG
6739349 TTTT
1 TTTT
6739353 TAAGTTAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.12, C:0.00, G:0.30, T:0.58
Consensus pattern (14 bp):
TTTTAGGTTTAGGG
Found at i:6739458 original size:23 final size:22
Alignment explanation
Indices: 6739406--6739465 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
6739396 GTTATGGTTT
*
6739406 TTAG-GTTTAGGGTTTTTAATT
1 TTAGTGTTTAGGGTTTTTAATC
6739427 TTA-TGGTTTAGGGTTTTTAATGC
1 TTAGT-GTTTAGGGTTTTTAAT-C
*
6739450 TTAGTGTTTAAGGTTT
1 TTAGTGTTTAGGGTTT
6739466 AAGGTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.09
22 16 0.48
23 13 0.39
24 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.25, T:0.55
Consensus pattern (22 bp):
TTAGTGTTTAGGGTTTTTAATC
Found at i:6739467 original size:7 final size:7
Alignment explanation
Indices: 6739455--6739603 Score: 67
Period size: 7 Copynumber: 20.7 Consensus size: 7
6739445 AATGCTTAGT
6739455 GTTTAAG
1 GTTTAAG
6739462 GTTTAAG
1 GTTTAAG
*
6739469 GTTTTTAG
1 G-TTTAAG
6739477 GTTT-AG
1 GTTTAAG
*
6739483 GGTTAAG
1 GTTTAAG
6739490 AGTTT-AG
1 -GTTTAAG
*
6739497 AGTTTAGG
1 -GTTTAAG
6739505 GTTTAAG
1 GTTTAAG
6739512 GTTTTTAA-
1 G--TTTAAG
*
6739520 G-TTAGG
1 GTTTAAG
6739526 GTTTAAG
1 GTTTAAG
6739533 GTTTAGAG
1 GTTTA-AG
*
6739541 G-TTATG
1 GTTTAAG
*
6739547 TTTTTTAA-
1 --GTTTAAG
*
6739555 GTTTAGG
1 GTTTAAG
6739562 GTTTAAG
1 GTTTAAG
*
6739569 GTTTTAAA
1 G-TTTAAG
6739577 GTTTAAG
1 GTTTAAG
*
6739584 AGTTTATG
1 -GTTTAAG
* *
6739592 ATTTAGG
1 GTTTAAG
6739599 GTTTA
1 GTTTA
6739604 TGATTTAGTG
Statistics
Matches: 108, Mismatches: 19, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
5 3 0.03
6 11 0.10
7 60 0.56
8 26 0.24
9 8 0.07
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (7 bp):
GTTTAAG
Found at i:6739495 original size:36 final size:37
Alignment explanation
Indices: 6739455--6739603 Score: 112
Period size: 36 Copynumber: 3.9 Consensus size: 37
6739445 AATGCTTAGT
*
6739455 GTTTA-AGGTTTAAGGTTTTTAGGTTTAGGG-TTAAG
1 GTTTATAGGTTTAAGGTTTTTAAGTTTAGGGTTTAAG
6739490 AGTTTAGAGTTTAGGGTTTAAGGTTTTTAAG-TTAGGGTTTAAG
1 -GTTT--A---TA-GGTTTAAGGTTTTTAAGTTTAGGGTTTAAG
* * *
6739533 GTTTAGAGG-TTATGTTTTTTAAGTTTAGGGTTTAAG
1 GTTTATAGGTTTAAGGTTTTTAAGTTTAGGGTTTAAG
* * *
6739569 GTTT-TAAAGTTTAAGAGTTTATGA-TTTAGGGTTTA
1 GTTTAT-AGGTTTAAG-GTTTTTAAGTTTAGGGTTTA
6739604 TGATTTAGTG
Statistics
Matches: 91, Mismatches: 10, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
35 12 0.13
36 24 0.26
37 16 0.18
38 6 0.07
40 1 0.01
42 11 0.12
43 21 0.23
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (37 bp):
GTTTATAGGTTTAAGGTTTTTAAGTTTAGGGTTTAAG
Found at i:6739508 original size:43 final size:42
Alignment explanation
Indices: 6739450--6739540 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 42
6739440 TTTTTAATGC
* *
6739450 TTAGTGTTTAAGGTTTAAGGTTTTTAGGTTTAGGG-TTAAGAGT
1 TTAGAGTTTAAGGTTTAAGGTTTTTAAG-TTAGGGTTTAAG-GT
*
6739493 TTAGAGTTTAGGGTTTAAGGTTTTTAAGTTAGGGTTTAAGGT
1 TTAGAGTTTAAGGTTTAAGGTTTTTAAGTTAGGGTTTAAGGT
6739535 TTAGAG
1 TTAGAG
6739541 GTTATGTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 14 0.32
43 30 0.68
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (42 bp):
TTAGAGTTTAAGGTTTAAGGTTTTTAAGTTAGGGTTTAAGGT
Found at i:6739560 original size:22 final size:22
Alignment explanation
Indices: 6739527--6739591 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
6739517 TAAGTTAGGG
*
6739527 TTTAAGGTTTAGAGGTTATGTTT
1 TTTAA-GTTTAGAGGTTATGGTT
*
6739550 TTTAAGTTTAG-GGTTTAAGGTT
1 TTTAAGTTTAGAGG-TTATGGTT
* *
6739572 TTAAAGTTTAAGAGTTTATG
1 TTTAAGTTT-AGAGGTTATG
6739592 ATTTAGGGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 2 0.06
22 20 0.59
23 11 0.32
24 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (22 bp):
TTTAAGTTTAGAGGTTATGGTT
Found at i:6739602 original size:22 final size:21
Alignment explanation
Indices: 6739577--6739646 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 21
6739567 AGGTTTTAAA
6739577 GTTTAAGAGTTTATGATTTAGG
1 GTTTAAGA-TTTATGATTTAGG
* *
6739599 GTTTATGATTTAGTGTTTTAGG
1 GTTTAAGATTTA-TGATTTAGG
6739621 GTTTAA-ATTT-TAGAGTTTAGG
1 GTTTAAGATTTAT-GA-TTTAGG
6739642 GTTTA
1 GTTTA
6739647 GGGTTTTTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 19 0.46
22 20 0.49
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (21 bp):
GTTTAAGATTTATGATTTAGG
Found at i:6739625 original size:7 final size:7
Alignment explanation
Indices: 6739555--6739679 Score: 54
Period size: 7 Copynumber: 17.6 Consensus size: 7
6739545 TGTTTTTTAA
6739555 GTTTAGG
1 GTTTAGG
6739562 GTTTAAGG
1 GTTT-AGG
* **
6739570 TTTTAAA
1 GTTTAGG
*
6739577 GTTTAAGA
1 GTTT-AGG
*
6739585 GTTTATG
1 GTTTAGG
*
6739592 ATTTAGG
1 GTTTAGG
*
6739599 GTTTATG
1 GTTTAGG
*
6739606 ATTTAGTG
1 GTTTAG-G
*
6739614 TTTTAGG
1 GTTTAGG
**
6739621 GTTTAAA
1 GTTTAGG
* *
6739628 TTTTAGA
1 GTTTAGG
6739635 GTTTAGG
1 GTTTAGG
6739642 GTTTAGG
1 GTTTAGG
***
6739649 GTTTTTA
1 GTTTAGG
* *
6739656 GTTAATG
1 GTTTAGG
6739663 G-TTAGG
1 GTTTAGG
6739669 GTTTAGG
1 GTTTAGG
6739676 GTTT
1 GTTT
6739680 TAAGTTAAGG
Statistics
Matches: 85, Mismatches: 29, Indels: 8
0.70 0.24 0.07
Matches are distributed among these distances:
6 4 0.05
7 63 0.74
8 18 0.21
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (7 bp):
GTTTAGG
Found at i:6739646 original size:14 final size:14
Alignment explanation
Indices: 6739472--6739692 Score: 56
Period size: 14 Copynumber: 16.1 Consensus size: 14
6739462 GTTTAAGGTT
6739472 TTTAG-GTTTAGGG
1 TTTAGAGTTTAGGG
* *
6739485 TTAAGAGTTTAGAG
1 TTTAGAGTTTAGGG
* *
6739499 TTTAGGGTTTAAGGTT
1 TTTAGAGTTT-AGG-G
6739515 TTTA-AG-TTAGGG
1 TTTAGAGTTTAGGG
6739527 TTTA-AGGTTTAGAGG
1 TTTAGA-GTTTAG-GG
*
6739542 -TTA-TGTTT----
1 TTTAGAGTTTAGGG
6739550 TTTA-AGTTTAGGG
1 TTTAGAGTTTAGGG
**
6739563 TTTA-AGGTTTTAAAG
1 TTTAGA-G-TTTAGGG
* *
6739578 TTTAAGAGTTTATGA
1 TTT-AGAGTTTAGGG
* * *
6739593 TTTAGGGTTTATGA
1 TTTAGAGTTTAGGG
*
6739607 TTTAGTGTTTTAGGG
1 TTTAGAG-TTTAGGG
* * *
6739622 TTTAAATTTTAGAG
1 TTTAGAGTTTAGGG
*
6739636 TTTAGGGTTTAGGG
1 TTTAGAGTTTAGGG
** * *
6739650 TTTTTAGTTAATGG
1 TTTAGAGTTTAGGG
*
6739664 -TTAGGGTTTAGGG
1 TTTAGAGTTTAGGG
*
6739677 TTTTA-AGTTAAGGG
1 -TTTAGAGTTTAGGG
6739691 TT
1 TT
6739693 ATGATTAGGG
Statistics
Matches: 151, Mismatches: 39, Indels: 36
0.67 0.17 0.16
Matches are distributed among these distances:
9 7 0.05
12 5 0.03
13 27 0.18
14 73 0.48
15 32 0.21
16 6 0.04
17 1 0.01
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.48
Consensus pattern (14 bp):
TTTAGAGTTTAGGG
Found at i:6739673 original size:27 final size:27
Alignment explanation
Indices: 6739637--6739693 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
6739627 ATTTTAGAGT
* *
6739637 TTAGGGTTTAGGGTTTTTAGTTAATGG
1 TTAGGGTTTAGGGTTTTAAGTTAAGGG
6739664 TTAGGGTTTAGGGTTTTAAGTTAAGGG
1 TTAGGGTTTAGGGTTTTAAGTTAAGGG
6739691 TTA
1 TTA
6739694 TGATTAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (27 bp):
TTAGGGTTTAGGGTTTTAAGTTAAGGG
Found at i:6739714 original size:33 final size:33
Alignment explanation
Indices: 6739664--6739728 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
6739654 TAGTTAATGG
6739664 TTAGGGTTTAGGGTTTTAAGTTAAGGGTTATGA
1 TTAGGGTTTAGGGTTTTAAGTTAAGGGTTATGA
* * *
6739697 TTAGGG-TTAGTGTTTTTAGGTTTAGGGTTATG
1 TTAGGGTTTAG-GGTTTTAAGTTAAGGGTTATG
6739729 GTTTTTAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (33 bp):
TTAGGGTTTAGGGTTTTAAGTTAAGGGTTATGA
Found at i:6739753 original size:22 final size:22
Alignment explanation
Indices: 6739703--6739779 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
6739693 ATGATTAGGG
* *
6739703 TTAGTGTTTTTAGGTTTAG-GG
1 TTAGGGTTTTTAGGTTTAGTGT
*
6739724 TTATGGTTTTTAGGTTTAGTGT
1 TTAGGGTTTTTAGGTTTAGTGT
**
6739746 TTAGGGTTTTTAATTTTAAGT-T
1 TTAGGGTTTTTAGGTTT-AGTGT
*
6739768 TTAGGATTTTTA
1 TTAGGGTTTTTA
6739780 ATTTTTAGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
21 17 0.36
22 27 0.57
23 3 0.06
ACGTcount: A:0.18, C:0.00, G:0.25, T:0.57
Consensus pattern (22 bp):
TTAGGGTTTTTAGGTTTAGTGT
Found at i:6739822 original size:14 final size:14
Alignment explanation
Indices: 6739783--6739927 Score: 71
Period size: 14 Copynumber: 10.8 Consensus size: 14
6739773 ATTTTTAATT
* *
6739783 TTTAGGGTTTACAA
1 TTTAGGGTTTAGAG
*
6739797 TTTAGGGTTTAGTG
1 TTTAGGGTTTAGAG
6739811 TTTAGGGTTTAGAG
1 TTTAGGGTTTAGAG
6739825 TTT-GGGTTTTTA-AG
1 TTTAGGG--TTTAGAG
*
6739839 TTAAGGG-TTACGA-
1 TTTAGGGTTTA-GAG
*
6739852 TTTATGGTTTA-AGG
1 TTTAGGGTTTAGA-G
6739866 TTTA-GGTTT----
1 TTTAGGGTTTAGAG
*
6739875 TTTA-GGTTTATAG
1 TTTAGGGTTTAGAG
*
6739888 TTTATGGTTTTTA-AG
1 TTTA-GG-GTTTAGAG
* *
6739903 TTTAAGGTTTAGGG
1 TTTAGGGTTTAGAG
6739917 TTTAGGGTTTA
1 TTTAGGGTTTA
6739928 AGGGTTTTAA
Statistics
Matches: 103, Mismatches: 12, Indels: 32
0.70 0.08 0.22
Matches are distributed among these distances:
9 9 0.09
12 4 0.04
13 21 0.20
14 51 0.50
15 14 0.14
16 4 0.04
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTAGAG
Found at i:6739884 original size:22 final size:21
Alignment explanation
Indices: 6739797--6739930 Score: 82
Period size: 22 Copynumber: 6.3 Consensus size: 21
6739787 GGGTTTACAA
* *
6739797 TTTAGGGTTTA-GTGTTTAGGG
1 TTTAAGGTTTAGGTTTTTA-GG
* *
6739818 TTT-AGAGTTTGGGTTTTTAAG
1 TTTAAG-GTTTAGGTTTTTAGG
* * *
6739839 -TTAAGGGTTACG-ATTTATGG
1 TTTAAGGTTTAGGTTTTTA-GG
6739859 TTTAAGGTTTAGGTTTTTTAGG
1 TTTAAGGTTTAGG-TTTTTAGG
*
6739881 TTTATA-GTTTATGGTTTTTAAG
1 TTTA-AGGTTTA-GGTTTTTAGG
*
6739903 TTTAAGGTTTAGG-GTTTAGGG
1 TTTAAGGTTTAGGTTTTTA-GG
6739924 TTTAAGG
1 TTTAAGG
6739931 GTTTTAAGTT
Statistics
Matches: 87, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
19 4 0.05
20 12 0.14
21 31 0.36
22 33 0.38
23 7 0.08
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.49
Consensus pattern (21 bp):
TTTAAGGTTTAGGTTTTTAGG
Found at i:6739933 original size:8 final size:7
Alignment explanation
Indices: 6739783--6739934 Score: 53
Period size: 7 Copynumber: 21.4 Consensus size: 7
6739773 ATTTTTAATT
6739783 TTTAGGG
1 TTTAGGG
***
6739790 TTTACAA
1 TTTAGGG
6739797 TTTAGGG
1 TTTAGGG
*
6739804 TTTAGTG
1 TTTAGGG
6739811 TTTAGGG
1 TTTAGGG
*
6739818 TTTAGAG
1 TTTAGGG
6739825 TTT-GGG
1 TTTAGGG
*
6739831 TTTTTA-AG
1 --TTTAGGG
*
6739839 TTAAGGG
1 TTTAGGG
* *
6739846 -TTACGA
1 TTTAGGG
*
6739852 TTTATGG
1 TTTAGGG
*
6739859 TTTAAGG
1 TTTAGGG
*
6739866 TTTAGGTTT
1 TTTAGG--G
6739875 TTTA-GG
1 TTTAGGG
**
6739881 TTTATAG
1 TTTAGGG
*
6739888 TTTATGGTT
1 TTTA-GG-G
*
6739897 TTTA-AG
1 TTTAGGG
*
6739903 TTTAAGG
1 TTTAGGG
6739910 TTTAGGG
1 TTTAGGG
6739917 TTTAGGG
1 TTTAGGG
6739924 TTTAAGGG
1 TTT-AGGG
6739932 TTT
1 TTT
6739935 TAAGTTAAGG
Statistics
Matches: 103, Mismatches: 30, Indels: 23
0.66 0.19 0.15
Matches are distributed among these distances:
6 16 0.16
7 67 0.65
8 12 0.12
9 8 0.08
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:6739973 original size:33 final size:32
Alignment explanation
Indices: 6739893--6740210 Score: 193
Period size: 33 Copynumber: 9.6 Consensus size: 32
6739883 TATAGTTTAT
* *
6739893 GGTTTTTAAGTTTAAGGTTTAGGGTTTAGGGTTTAA
1 GGTTTTTAAG-TTAAGGGTTA-GGATTAGGG-TT-A
* *
6739929 GGGTTTTAAGTTAAGGGTTAAGATTAGGGTTA
1 GGTTTTTAAGTTAAGGGTTAGGATTAGGGTTA
*
6739961 GGATTTTTAAGTTAAGGGTTAGAATTAGGGTTTA
1 GG-TTTTTAAGTTAAGGGTTAGGATTAGGG-TTA
* * ** * *
6739995 GG-GTTTATGTT---TTTTAGGTTTAGGGTTTT
1 GGTTTTTAAGTTAAGGGTTAGGATTAGGG-TTA
* * *
6740024 TGTTTTTAAGTTTAGGGTTTA-GATTTTTAGGTTTTA
1 GGTTTTTAAGTTAAGGG-TTAGGA---TTAGG-GTTA
*
6740060 GAGTTTTTATA-TTAAGAGTTAGGATTAGGGTTA
1 G-GTTTTTA-AGTTAAGGGTTAGGATTAGGGTTA
* * *
6740093 GGGTTTTTAAGTTAAGTGTTAGGGTTAAGGTTA
1 -GGTTTTTAAGTTAAGGGTTAGGATTAGGGTTA
* *
6740126 GGGTTTTTTATGTTAAGGGTTGGGATTA-GGTTA
1 -GG-TTTTTAAGTTAAGGGTTAGGATTAGGGTTA
* * * *
6740159 GGGTTTTAGGTTATGGGTTATGATTAGGGTTA
1 GGTTTTTAAGTTAAGGGTTAGGATTAGGGTTA
6740191 GAGTTTTT-AGTTTAAGGGTT
1 G-GTTTTTAAG-TTAAGGGTT
6740211 TATGGTTTGT
Statistics
Matches: 221, Mismatches: 41, Indels: 43
0.72 0.13 0.14
Matches are distributed among these distances:
29 14 0.06
30 7 0.03
31 19 0.09
32 20 0.09
33 77 0.35
34 41 0.19
35 9 0.04
36 19 0.09
37 14 0.06
38 1 0.00
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (32 bp):
GGTTTTTAAGTTAAGGGTTAGGATTAGGGTTA
Found at i:6740013 original size:132 final size:132
Alignment explanation
Indices: 6739831--6740131 Score: 367
Period size: 132 Copynumber: 2.3 Consensus size: 132
6739821 AGAGTTTGGG
* * * *
6739831 TTTTTAAGTTAAGGGTTACGATTTATGGTTTAAGGTTTAGGTTTTTTAGGTTTATAGTTTATGGT
1 TTTTTAAGTTAAGGGTTA-GAATTAAGGTTTAGGGTTTAGGTTTTTTAGGTTTAGAGTTT-TGGT
*
6739896 TTTTAAGTTTAAGGTTTAG-GGTTTAGGGTTTAAG-GGTTTTA-AGTTAAGGGTTAAGATTAGGG
64 TTTTAAGTTTAAGGTTTAGAGGTTTA-GGTTTAAGAGGTTTTATA-TTAAGAGTTAAGATTAGGG
6739958 TTAGGA
127 TTAGGA
* * * *
6739964 TTTTTAAGTTAAGGGTTAGAATTAGGGTTTAGGGTTTATGTTTTTTAGGTTTAGGGTTTTTGTTT
1 TTTTTAAGTTAAGGGTTAGAATTAAGGTTTAGGGTTTAGGTTTTTTAGGTTTAGAGTTTTGGTTT
* ** * * *
6740029 TTAAGTTTAGGGTTTAGATTTTTAGGTTTTAGAGTTTTTATATTAAGAGTTAGGATTAGGGTTAG
66 TTAAGTTTAAGGTTTAGAGGTTTAGGTTTAAGAGGTTTTATATTAAGAGTTAAGATTAGGGTTAG
*
6740094 GG
131 GA
* **
6740096 TTTTTAAGTTAAGTGTTAGGGTTAAGG-TTAGGGTTT
1 TTTTTAAGTTAAGGGTTAGAATTAAGGTTTAGGGTTT
6740132 TTTATGTTAA
Statistics
Matches: 146, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
131 37 0.25
132 90 0.62
133 19 0.13
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (132 bp):
TTTTTAAGTTAAGGGTTAGAATTAAGGTTTAGGGTTTAGGTTTTTTAGGTTTAGAGTTTTGGTTT
TTAAGTTTAAGGTTTAGAGGTTTAGGTTTAAGAGGTTTTATATTAAGAGTTAAGATTAGGGTTAG
GA
Found at i:6740016 original size:22 final size:21
Alignment explanation
Indices: 6739989--6740057 Score: 95
Period size: 21 Copynumber: 3.2 Consensus size: 21
6739979 TTAGAATTAG
6739989 GGTTTAGGGTTTATGTTTTTTA
1 GGTTTAGGGTTTATG-TTTTTA
*
6740011 GGTTTAGGGTTTTTGTTTTTA
1 GGTTTAGGGTTTATGTTTTTA
*
6740032 AGTTTAGGGTTTA-GATTTTTA
1 GGTTTAGGGTTTATG-TTTTTA
6740053 GGTTT
1 GGTTT
6740058 TAGAGTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
20 1 0.02
21 27 0.64
22 14 0.33
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.58
Consensus pattern (21 bp):
GGTTTAGGGTTTATGTTTTTA
Found at i:6740052 original size:15 final size:16
Alignment explanation
Indices: 6740034--6740068 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
6740024 TGTTTTTAAG
6740034 TTTAGGGTTTAGA-TT
1 TTTAGGGTTTAGAGTT
*
6740049 TTTAGGTTTTAGAGTT
1 TTTAGGGTTTAGAGTT
6740065 TTTA
1 TTTA
6740069 TATTAAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (16 bp):
TTTAGGGTTTAGAGTT
Found at i:6740065 original size:22 final size:20
Alignment explanation
Indices: 6739302--6740057 Score: 91
Period size: 21 Copynumber: 36.3 Consensus size: 20
6739292 TTGGGGTTTA
6739302 AGGTTTAGGGTTTATGTTTTTT
1 AGGTTTAGGGTTTA-G-TTTTT
*
6739324 AGGTTTAGGGTTTTAGGTTTT
1 AGGTTTAGGG-TTTAGTTTTT
* * **
6739345 AGGGTTTTTA-AGTTAAG-GGTT
1 A-GG--TTTAGGGTTTAGTTTTT
* *
6739366 AGGATTAGGGTTATGGTTTTT
1 AGGTTTAGGGTT-TAGTTTTT
* * *
6739387 AAGTTAAGGGTTATGGTTTTT
1 AGGTTTAGGGTT-TAGTTTTT
*
6739408 AGGTTTAGGGTTTTTA-ATTTT
1 AGGTTTAGGG--TTTAGTTTTT
* **
6739429 ATGGTTTAGGGTTTTTAATGCTT
1 A-GGTTTAGGG--TTTAGTTTTT
*
6739452 AGTGTTTAAGGTTTAAGGTTTTT
1 AG-GTTTAGGGTTT-A-GTTTTT
* **
6739475 AGGTTTAGGGTTAAGAGTTT
1 AGGTTTAGGGTTTAGTTTTT
6739495 AGAGTTTAGGGTTTAAGGTTTTT
1 AG-GTTTAGGGTTT-A-GTTTTT
*
6739518 AAG-TTAGGGTTTA------
1 AGGTTTAGGGTTTAGTTTTT
6739531 AGGTTTAGAGG-TTATGTTTTTT
1 AGGTTTAG-GGTTTA-G-TTTTT
* *
6739553 AAGTTTAGGGTTTAAGGTTTTA
1 AGGTTTAGGGTTT-A-GTTTTT
* * *
6739575 AAGTTTAAGAGTTTA-TGATTT
1 AGGTTT-AGGGTTTAGT-TTTT
* *
6739596 AGGGTTTATGATTTAGTGTTTT
1 A-GGTTTAGGGTTTAGT-TTTT
*** **
6739618 AGGGTTTAAATTTTAGAGTTT
1 A-GGTTTAGGGTTTAGTTTTT
**
6739639 AGGGTTTAGGGTTTTTAGTTAAT
1 A-GGTTTAGGG--TTTAGTTTTT
*
6739662 -GG-TTAGGGTTTAGGGTTTT
1 AGGTTTAGGGTTTA-GTTTTT
* * **
6739681 AAGTTAAGGG-TTA-TGATT
1 AGGTTTAGGGTTTAGTTTTT
*
6739699 AGGGTTA--G--T-GTTTTT
1 AGGTTTAGGGTTTAGTTTTT
*
6739714 AGGTTTAGGGTTATGGTTTTT
1 AGGTTTAGGGTT-TAGTTTTT
*
6739735 AGGTTTAGTGTTTAGGGTTTTT
1 AGGTTTAGGGTTTA--GTTTTT
** * *
6739757 AATTTTAAGTTTTAGGATTTTT
1 AGGTTTAGGGTTTA-G-TTTTT
** *
6739779 AATTTTTAGGGTTTA-----C
1 -AGGTTTAGGGTTTAGTTTTT
* *
6739795 A-ATTTAGGGTTTAGTGTTT
1 AGGTTTAGGGTTTAGTTTTT
* *
6739814 AGGGTTTAGAGTTTGGGTTTTT
1 A-GGTTTAGGGTTT-AGTTTTT
* * *
6739836 AAGTTAAGGG-TTACG-ATTT
1 AGGTTTAGGGTTTA-GTTTTT
*
6739855 ATGGTTTAAGGTTTAGGTTTTTT
1 A-GGTTTAGGGTTTA-G-TTTTT
**
6739878 AGGTTTATAGTTTATGGTTTTT
1 AGGTTTAGGGTTTA--GTTTTT
* * **
6739900 AAGTTTAAGGTTTAGGGTTT
1 AGGTTTAGGGTTTAGTTTTT
*
6739920 AGGGTTTAAGGGTTTTAAGTTAAGGGTT
1 A-GGTTT-AGGG-TTT-AGTT----TTT
* *
6739948 AAGATTAGGG-TTAGGATTTTT
1 AGGTTTAGGGTTTA-G-TTTTT
* * **
6739969 AAGTTAAGGG-TTAG-AATT
1 AGGTTTAGGGTTTAGTTTTT
6739987 AGGGTTTAGGGTTTATGTTTTTT
1 A-GGTTTAGGGTTTA-G-TTTTT
*
6740010 AGGTTTAGGGTTTTTGTTTTT
1 AGGTTTAGGG-TTTAGTTTTT
*
6740031 AAGTTTAGGGTTTAGATTTTT
1 AGGTTTAGGGTTTAG-TTTTT
6740052 AGGTTT
1 AGGTTT
6740058 TAGAGTTTTT
Statistics
Matches: 529, Mismatches: 125, Indels: 161
0.65 0.15 0.20
Matches are distributed among these distances:
13 2 0.00
14 18 0.03
15 13 0.02
16 1 0.00
17 1 0.00
18 16 0.03
19 18 0.03
20 45 0.09
21 172 0.33
22 154 0.29
23 68 0.13
24 9 0.02
25 2 0.00
26 4 0.01
27 3 0.01
28 3 0.01
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (20 bp):
AGGTTTAGGGTTTAGTTTTT
Found at i:6740268 original size:8 final size:7
Alignment explanation
Indices: 6740239--6740276 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
6740229 TTATGCATTT
6740239 AATTATA
1 AATTATA
6740246 AATTATA
1 AATTATA
6740253 AATTATA
1 AATTATA
6740260 AATTTATA
1 AA-TTATA
6740268 AATTTATA
1 AA-TTATA
6740276 A
1 A
6740277 TTTTTTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
AATTATA
Found at i:6740278 original size:15 final size:14
Alignment explanation
Indices: 6740239--6740279 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
6740229 TTATGCATTT
*
6740239 AATTATAAATTATA
1 AATTATAATTTATA
6740253 AATTATAAATTTATA
1 AATTAT-AATTTATA
6740268 AATTTATAATTT
1 AA-TTATAATTT
6740280 TTTAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 14 0.58
16 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AATTATAATTTATA
Found at i:6740787 original size:18 final size:18
Alignment explanation
Indices: 6740764--6740803 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6740754 GACTCGGAAA
* *
6740764 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGCT
*
6740782 AGGATACCTAAAAGGGCT
1 AGGATACATAAAAGGGCT
6740800 AGGA
1 AGGA
6740804 AACGTACCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:6741684 original size:20 final size:20
Alignment explanation
Indices: 6741647--6741684 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6741637 TTTATTTTTA
*
6741647 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
6741667 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
6741685 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:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:6742721 original size:11 final size:12
Alignment explanation
Indices: 6742705--6742748 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
6742695 ATTAAATATG
6742705 AATTTGAGA-GA
1 AATTTGAGAGGA
6742716 AATTTG-GAAGGA
1 AATTTGAG-AGGA
6742728 AA-TTGAGAGGA
1 AATTTGAGAGGA
6742739 AATTTGAGAG
1 AATTTGAGAG
6742749 AGGATTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 16 0.55
12 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (12 bp):
AATTTGAGAGGA
Found at i:6745116 original size:16 final size:16
Alignment explanation
Indices: 6745097--6745138 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
6745087 AGGATCGAAA
*
6745097 TATAATTTTATTATTG
1 TATAATTTTATTATTC
6745113 TAT-ATGTTTATTATTC
1 TATAAT-TTTATTATTC
*
6745129 TAGAATTTTA
1 TATAATTTTA
6745139 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:6746412 original size:32 final size:33
Alignment explanation
Indices: 6746352--6746419 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
6746342 AATTTTCAAT
6746352 AAATAAAAAATATATAAAATTATTAAAT-ATTA
1 AAATAAAAAATATATAAAATTATTAAATAATTA
* * *
6746384 AAATAAAAAATGTAT-AATTTTTTAAAATAATTA
1 AAATAAAAAATATATAAAATTATT-AAATAATTA
6746417 AAA
1 AAA
6746420 ATAATATAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 6 0.19
32 18 0.58
33 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (33 bp):
AAATAAAAAATATATAAAATTATTAAATAATTA
Found at i:6766755 original size:10 final size:10
Alignment explanation
Indices: 6766740--6766767 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
6766730 TTTTAAAGAA
6766740 ATTTTAACCC
1 ATTTTAACCC
6766750 ATTTTAACCC
1 ATTTTAACCC
6766760 ATTTTAAC
1 ATTTTAAC
6766768 TTCCAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.43
Consensus pattern (10 bp):
ATTTTAACCC
Found at i:6768512 original size:32 final size:32
Alignment explanation
Indices: 6768472--6768532 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
6768462 TCTATCAAAA
*
6768472 AATTTTCTTCTCTCATTTTATCCCAACATCCT
1 AATTTTCTTCTCCCATTTTATCCCAACATCCT
*
6768504 AATTTTCTTCTCCCATTTTCTCCCAACAT
1 AATTTTCTTCTCCCATTTTATCCCAACAT
6768533 ATTTTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.21, C:0.33, G:0.00, T:0.46
Consensus pattern (32 bp):
AATTTTCTTCTCCCATTTTATCCCAACATCCT
Found at i:6771429 original size:49 final size:49
Alignment explanation
Indices: 6771300--6771431 Score: 137
Period size: 48 Copynumber: 2.7 Consensus size: 49
6771290 TCAACAGGCA
* *
6771300 TCCATCAATTCATGCAGAGATTTGTTTTATCAT-TGCACTCATCAAGCT
1 TCCATCAACTCATGCAGAGAATTGTTTTATCATCTGCACTCATCAAGCT
* * *
6771348 TCCATCAACTCATGCAGAGAAAAT-TTTAATCATCT-CAAC-CATCAGGCT
1 TCCATCAACTCATGCAGAG-AATTGTTTTATCATCTGC-ACTCATCAAGCT
* * *
6771396 TCCTTTCAACTCATGTAGAGACTTGTTTTATCATCT
1 TCC-ATCAACTCATGCAGAGAATTGTTTTATCATCT
6771432 TAGTCTTCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
48 40 0.58
49 29 0.42
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (49 bp):
TCCATCAACTCATGCAGAGAATTGTTTTATCATCTGCACTCATCAAGCT
Found at i:6778484 original size:12 final size:14
Alignment explanation
Indices: 6778468--6778500 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
6778458 CAATTTTTTT
6778468 TATATTTTT-TAAA
1 TATATTTTTATAAA
6778481 -ATATTTTTATAAA
1 TATATTTTTATAAA
6778494 TATATTT
1 TATATTT
6778501 AAAAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 4 0.22
14 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATATTTTTATAAA
Found at i:6781637 original size:15 final size:16
Alignment explanation
Indices: 6781617--6781646 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6781607 ATGTCTTGTG
6781617 TTCTTTTT-TTTTTCT
1 TTCTTTTTCTTTTTCT
6781632 TTCTTTTTCTTTTTC
1 TTCTTTTTCTTTTTC
6781647 CTTTTTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTCTTTTTCTTTTTCT
Found at i:6786251 original size:16 final size:16
Alignment explanation
Indices: 6786230--6786260 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6786220 ATCATTGTGT
*
6786230 TATATATTTTATTTAG
1 TATATATATTATTTAG
6786246 TATATATATTATTTA
1 TATATATATTATTTA
6786261 TACTAGATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TATATATATTATTTAG
Found at i:6788183 original size:21 final size:21
Alignment explanation
Indices: 6788154--6788210 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
6788144 TCAAACTAAG
* *
6788154 GTTTGAAATCAAGAGAACAAT
1 GTTTGAAATCAAAAGAACAAA
*
6788175 GTTTTAAATATCAAAAGAACAAA
1 G-TTTGAA-ATCAAAAGAACAAA
6788198 GTTTGAAATCAAA
1 GTTTGAAATCAAA
6788211 CTTTGTGGAT
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:6789892 original size:30 final size:30
Alignment explanation
Indices: 6789839--6789897 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
6789829 TTTACTACTA
*
6789839 AACTTTGAATTTTATTAAAAATTT-CCACC
1 AACTTTGAATTTAATTAAAAATTTACCACC
6789868 AACTTTGATTATTTAATT-AAAATTTACCAC
1 AACTTTGA--ATTTAATTAAAAATTTACCAC
6789898 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:6791456 original size:16 final size:18
Alignment explanation
Indices: 6791426--6791458 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6791416 ATCGAACTTA
6791426 TAAATATATTGTATTTTT
1 TAAATATATTGTATTTTT
6791444 TAAATAT-TT-TATTTT
1 TAAATATATTGTATTTT
6791459 ATTTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TAAATATATTGTATTTTT
Found at i:6792534 original size:29 final size:29
Alignment explanation
Indices: 6792485--6792543 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
6792475 CACGGCCGTG
* * *
6792485 TGTCCCCTATTTTTTAGATTTTATAATTT
1 TGTCCCCTACTTTATAAATTTTATAATTT
*
6792514 TGTCCCCTACTTTATAAATTTTATAGTTT
1 TGTCCCCTACTTTATAAATTTTATAATTT
6792543 T
1 T
6792544 ATCCAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (29 bp):
TGTCCCCTACTTTATAAATTTTATAATTT
Found at i:6792845 original size:34 final size:33
Alignment explanation
Indices: 6792801--6792913 Score: 111
Period size: 34 Copynumber: 3.3 Consensus size: 33
6792791 GGCTACCGAG
*
6792801 TTGATCTGTTATAAGCATATTATTTGCTACTGTA
1 TTGATTTGTTATAAGCATATTA-TTGCTACTGTA
* * *
6792835 TTGAATTGTTATAAGCATATTGATTGTTACCGTA
1 TTGATTTGTTATAAGCATATT-ATTGCTACTGTA
* * *
6792869 TTG-TTCTGTTAAAAGCATAATTACATGCTATTGTA
1 TTGATT-TGTTATAAGCAT-ATTA-TTGCTACTGTA
6792904 TTGATTTGTT
1 TTGATTTGTT
6792914 TGAGCTTGCC
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
33 1 0.02
34 43 0.67
35 18 0.28
36 2 0.03
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (33 bp):
TTGATTTGTTATAAGCATATTATTGCTACTGTA
Found at i:6797543 original size:15 final size:15
Alignment explanation
Indices: 6797519--6797569 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
6797509 TATCATTACC
6797519 ATTATTTATAATATT
1 ATTATTTATAATATT
* *
6797534 ATTATCTATATTATT
1 ATTATTTATAATATT
* * *
6797549 TTTATTTATCATACT
1 ATTATTTATAATATT
6797564 ATTATT
1 ATTATT
6797570 ATATGATAGT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTATTTATAATATT
Found at i:6797571 original size:18 final size:19
Alignment explanation
Indices: 6797530--6797571 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
6797520 TTATTTATAA
*
6797530 TATTA-TTATCTATATTAT
1 TATTATTTATCTATACTAT
*
6797548 TTTTATTTATC-ATACTAT
1 TATTATTTATCTATACTAT
6797566 TATTAT
1 TATTAT
6797572 ATGATAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTATTTATCTATACTAT
Found at i:6798563 original size:17 final size:18
Alignment explanation
Indices: 6798516--6798570 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 18
6798506 TGCTAATCCT
* *
6798516 TCCTTGTACGTAACCGAC
1 TCCTCGTACGTAACCCAC
* *
6798534 TCC-CGAACCTAACCCA-
1 TCCTCGTACGTAACCCAC
*
6798550 TCCTCGTACGTAACCGAC
1 TCCTCGTACGTAACCCAC
6798568 TCC
1 TCC
6798571 CGAACCCATT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
16 3 0.11
17 19 0.68
18 6 0.21
ACGTcount: A:0.24, C:0.42, G:0.13, T:0.22
Consensus pattern (18 bp):
TCCTCGTACGTAACCCAC
Found at i:6798577 original size:29 final size:30
Alignment explanation
Indices: 6798516--6798579 Score: 76
Period size: 34 Copynumber: 2.0 Consensus size: 30
6798506 TGCTAATCCT
*
6798516 TCCTTGTACGTAACCGACTCCCGAACCTAACCCA
1 TCCTCGTACGTAACCGACTCCCG-A---AACCCA
6798550 TCCTCGTACGTAACCGACTCCCG-AACCCA
1 TCCTCGTACGTAACCGACTCCCGAAACCCA
6798579 T
1 T
6798580 TTTTCTGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 7 0.24
34 22 0.76
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.20
Consensus pattern (30 bp):
TCCTCGTACGTAACCGACTCCCGAAACCCA
Found at i:6799862 original size:107 final size:106
Alignment explanation
Indices: 6799725--6799938 Score: 401
Period size: 107 Copynumber: 2.0 Consensus size: 106
6799715 TTAATAGAAT
6799725 ATGTAAATGTTGTGGCTAAATTTATTAAATTAAGACCATATTGAGAAAATGTGTAAACTTTAATG
1 ATGTAAATGTTGTGGCTAAATTTATTAAATTAAGACCATATTGAGAAAATGTGTAAACTTTAATG
6799790 GTTAATTTTGTTATTATATAACTAAAAAATATGTACCATTG
66 GTTAATTTTGTTATTATATAACTAAAAAATATGTACCATTG
* *
6799831 ATGTAAATGTTTTGTGCTAAATTTATTAAATTAGGACCATATTGAGAAAATGTGTAAACTTTAAT
1 ATGTAAATGTTGTG-GCTAAATTTATTAAATTAAGACCATATTGAGAAAATGTGTAAACTTTAAT
6799896 GGTTAATTTTGTTATTATATAACTAAAAAATATGTACCATTG
65 GGTTAATTTTGTTATTATATAACTAAAAAATATGTACCATTG
6799938 A
1 A
6799939 CAAAAAAACA
Statistics
Matches: 105, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
106 13 0.12
107 92 0.88
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (106 bp):
ATGTAAATGTTGTGGCTAAATTTATTAAATTAAGACCATATTGAGAAAATGTGTAAACTTTAATG
GTTAATTTTGTTATTATATAACTAAAAAATATGTACCATTG
Found at i:6800988 original size:3 final size:3
Alignment explanation
Indices: 6800980--6801014 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
6800970 TCATTTTGTT
* *
6800980 TAA TAA TAA TAA TAA TAA CAA TAA TAA CAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6801015 GGCTACCACA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:6800994 original size:9 final size:9
Alignment explanation
Indices: 6800981--6801014 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
6800971 CATTTTGTTT
*
6800981 AATAATAAT
1 AATAATAAC
6800990 AATAATAAC
1 AATAATAAC
6800999 AATAATAAC
1 AATAATAAC
6801008 AATAATA
1 AATAATA
6801015 GGCTACCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (9 bp):
AATAATAAC
Found at i:6802028 original size:16 final size:16
Alignment explanation
Indices: 6802007--6802076 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
6801997 TTTGGTTCGC
*
6802007 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
6802023 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
6802039 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
6802055 TGTAATAGAATAGAGG
1 TGTAATGGATTAGAGG
6802071 TGTAAT
1 TGTAAT
6802077 AGCAAATCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:6802111 original size:45 final size:41
Alignment explanation
Indices: 6802055--6802164 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
6802045 GGATTAGAGG
*
6802055 TGTAATAGAATAGAGGTGTAATAGCAAATCAAATGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGG-T
* * ***
6802097 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGGT
6802140 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
6802165 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGGT
Found at i:6802331 original size:18 final size:17
Alignment explanation
Indices: 6802310--6802344 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6802300 TTATTATTAA
*
6802310 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6802328 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6802345 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6806695 original size:91 final size:92
Alignment explanation
Indices: 6806339--6806797 Score: 685
Period size: 93 Copynumber: 5.0 Consensus size: 92
6806329 TTTTAATAAA
* *
6806339 AGTAGGGGCTTAATTGCTTTTTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATGGATTTTGAAAGT
1 AGTAGGGGCTTAATTGC--TTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGT
* *
6806404 TCAAGTACCCAATTAAGTGCAAAAAAAAAG
64 TCAAGTACCCAATTGAGTAC-AAAAAAAAG
*
6806434 AGTAGGGGCTTAATTACTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTC
1 AGTAGGGGCTTAATTGCTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTC
* **
6806499 AAGTACCGAATTGAGTACAAATCAAAG
66 AAGTACCCAATTGAGTACAAAAAAAAG
*
6806526 AGTAGGGGCTTAATTGCTTTTTTTTTGAAAAGGTTTGAGGGCATTTTTGATGCATTTTGAAAGTT
1 AGTAGGGGCTTAATTGC-TTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTT
* *
6806591 CAAGTACCAAATTGAGTACAAATAAAAG
65 CAAGTACCCAATTGAGTACAAAAAAAAG
*
6806619 AGTAGGGGCTTAATTGC-TTTTTTTGAAAAGGTTTGAGGGCATTTTTGATGCATTTTGAAAGTTC
1 AGTAGGGGCTTAATTGCTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTC
*
6806683 AAGTACCGAATTGAGTAC--AAAAAA-
66 AAGTACCCAATTGAGTACAAAAAAAAG
* *
6806707 AGTAGGGGCTTAATTACTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGTATTTTGAAAGGTT
1 AGTAGGGGCTTAATTGCTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAA-GTT
* *
6806772 -AAGTACCCAAATGAGTGCAAAAAAAA
65 CAAGTACCCAATTGAGTACAAAAAAAA
6806798 AAAGAAAAAA
Statistics
Matches: 339, Mismatches: 20, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
88 16 0.05
89 61 0.18
90 3 0.01
91 70 0.21
92 23 0.07
93 150 0.44
95 16 0.05
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (92 bp):
AGTAGGGGCTTAATTGCTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTC
AAGTACCCAATTGAGTACAAAAAAAAG
Found at i:6819077 original size:30 final size:30
Alignment explanation
Indices: 6819058--6819166 Score: 161
Period size: 29 Copynumber: 3.7 Consensus size: 30
6819048 TGACCCCTGT
6819058 ACTTTCT-TGAAATTACATTTCAACCCCTAA
1 ACTTTCTCT-AAATTACATTTCAACCCCTAA
**
6819088 ACTTT-TCTAAATTACATTTTGACCCCTAA
1 ACTTTCTCTAAATTACATTTCAACCCCTAA
6819117 ACTTTCTC-AAATTACATTTCAACCCCTAA
1 ACTTTCTCTAAATTACATTTCAACCCCTAA
*
6819146 ACTTTCTCTAAATTACGTTTC
1 ACTTTCTCTAAATTACATTTC
6819167 GGCCCCAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
29 52 0.73
30 19 0.27
ACGTcount: A:0.31, C:0.27, G:0.03, T:0.39
Consensus pattern (30 bp):
ACTTTCTCTAAATTACATTTCAACCCCTAA
Found at i:6819156 original size:59 final size:59
Alignment explanation
Indices: 6819037--6819161 Score: 198
Period size: 59 Copynumber: 2.1 Consensus size: 59
6819027 AAAAATAAAA
* ** *
6819037 AAATTGCATTTTGACCCCTGTACTTTCTTGAAATTACATTTCAACCCCTAAACTTTTCT
1 AAATTACATTTTGACCCCTAAACTTTCTTCAAATTACATTTCAACCCCTAAACTTTTCT
6819096 AAATTACATTTTGACCCCTAAACTTTC-TCAAATTACATTTCAACCCCTAAACTTTCTCT
1 AAATTACATTTTGACCCCTAAACTTTCTTCAAATTACATTTCAACCCCTAAACTTT-TCT
6819155 AAATTAC
1 AAATTAC
6819162 GTTTCGGCCC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
58 27 0.44
59 34 0.56
ACGTcount: A:0.31, C:0.26, G:0.04, T:0.38
Consensus pattern (59 bp):
AAATTACATTTTGACCCCTAAACTTTCTTCAAATTACATTTCAACCCCTAAACTTTTCT
Found at i:6819646 original size:18 final size:18
Alignment explanation
Indices: 6819625--6819704 Score: 51
Period size: 18 Copynumber: 4.4 Consensus size: 18
6819615 GAGCAAGGTC
6819625 GAAGGGAAGAAGGAAGAA
1 GAAGGGAAGAAGGAAGAA
*
6819643 GAA-GG-A-AAGGAAAAA
1 GAAGGGAAGAAGGAAGAA
* *
6819658 GAGAGGAAAAAAGGAAAGAA
1 GA-AGGGAAGAAGG-AAGAA
* *
6819678 GAA-AGAAGAAAGAAAGAA
1 GAAGGGAAG-AAGGAAGAA
6819696 GAAAGGGAA
1 G-AAGGGAA
6819705 AGAAAATAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
15 10 0.22
16 2 0.04
17 3 0.07
18 12 0.26
19 10 0.22
20 9 0.20
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (18 bp):
GAAGGGAAGAAGGAAGAA
Found at i:6819652 original size:15 final size:16
Alignment explanation
Indices: 6819634--6819666 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6819624 CGAAGGGAAG
*
6819634 AAGGAAGAAGA-AGGA
1 AAGGAAAAAGAGAGGA
6819649 AAGGAAAAAGAGAGGA
1 AAGGAAAAAGAGAGGA
6819665 AA
1 AA
6819667 AAAGGAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (16 bp):
AAGGAAAAAGAGAGGA
Found at i:6819672 original size:24 final size:25
Alignment explanation
Indices: 6819631--6819708 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 25
6819621 GGTCGAAGGG
6819631 AAGAAGGAAGAAGAAGGAAAGGAA-A
1 AAGAAGGAAGAAGAAGGAAA-GAAGA
6819656 AAGAGAGGAA-AA-AAGGAAAGAAGA
1 AAGA-AGGAAGAAGAAGGAAAGAAGA
* *
6819680 AAGAAGAAAGAAAGAA-GAAAG-GGA
1 AAGAAGGAAG-AAGAAGGAAAGAAGA
6819704 AAGAA
1 AAGAA
6819709 AATAAAAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
23 7 0.15
24 19 0.41
25 13 0.28
26 7 0.15
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (25 bp):
AAGAAGGAAGAAGAAGGAAAGAAGA
Found at i:6819690 original size:31 final size:32
Alignment explanation
Indices: 6819641--6819708 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
6819631 AAGAAGGAAG
*
6819641 AAGAAGGAAAGGAAAAAGAGAGGAA-AAAAGGA
1 AAGAAGGAAAGGAAAAAGA-AAGAAGAAAAGGA
*
6819673 AAGAA-GAAA-GAAGAAAGAAAGAAGAAAGGGA
1 AAGAAGGAAAGGAA-AAAGAAAGAAGAAAAGGA
6819704 AAGAA
1 AAGAA
6819709 AATAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 7 0.22
31 20 0.62
32 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (32 bp):
AAGAAGGAAAGGAAAAAGAAAGAAGAAAAGGA
Found at i:6819692 original size:11 final size:11
Alignment explanation
Indices: 6819676--6819700 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6819666 AAAAGGAAAG
6819676 AAGAAAGAAGA
1 AAGAAAGAAGA
6819687 AAGAAAGAAGA
1 AAGAAAGAAGA
6819698 AAG
1 AAG
6819701 GGAAAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAGA
Found at i:6820021 original size:8 final size:7
Alignment explanation
Indices: 6819999--6820073 Score: 96
Period size: 7 Copynumber: 10.0 Consensus size: 7
6819989 CAGCAGAGAG
6819999 GAAAAAA
1 GAAAAAA
6820006 GAAAAAA
1 GAAAAAA
6820013 GAAAGAAA
1 GAAA-AAA
6820021 GAAGAAAA
1 GAA-AAAA
*
6820029 AAAAAAA
1 GAAAAAA
6820036 GAAAAAGA
1 GAAAAA-A
6820044 GAGAAAAA
1 GA-AAAAA
6820052 GAAAAAAA
1 G-AAAAAA
6820060 GAAAAAA
1 GAAAAAA
6820067 GAAAAAA
1 GAAAAAA
6820074 CAAGAAAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
7 33 0.54
8 22 0.36
9 6 0.10
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:6820035 original size:25 final size:25
Alignment explanation
Indices: 6819999--6820083 Score: 91
Period size: 25 Copynumber: 3.3 Consensus size: 25
6819989 CAGCAGAGAG
* *
6819999 GAAAAAAGAAAAAAGAAAGAAAGAA
1 GAAAAAAAAAAAAAGAAAGAAAAAA
*
6820024 GAAAAAAAAAAAGAAAAAGAGAGAAAAA
1 GAAAAAAAAAAA-AAGAA-AGA-AAAAA
*
6820052 GAAAAAAAGAAAAAAGAAA-AAACAA
1 GAAAAAAA-AAAAAAGAAAGAAAAAA
6820077 GAAAAAA
1 GAAAAAA
6820084 GGGGTTAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
25 22 0.43
26 5 0.10
27 4 0.08
28 16 0.31
29 4 0.08
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.00
Consensus pattern (25 bp):
GAAAAAAAAAAAAAGAAAGAAAAAA
Found at i:6820053 original size:31 final size:30
Alignment explanation
Indices: 6819999--6820073 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 30
6819989 CAGCAGAGAG
6819999 GAAAAAAGAAAAAAGAAAGAAAGAAGAAAAA
1 GAAAAAAGAAAAAAGAAAGAAAGAA-AAAAA
6820030 -AAAAAAGAAAAAGAGAGAA-AAAGAAAAAAA
1 GAAAAAAGAAAAA-AGA-AAGAAAGAAAAAAA
6820060 GAAAAAAGAAAAAA
1 GAAAAAAGAAAAAA
6820074 CAAGAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
30 18 0.44
31 21 0.51
32 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (30 bp):
GAAAAAAGAAAAAAGAAAGAAAGAAAAAAA
Found at i:6820080 original size:31 final size:31
Alignment explanation
Indices: 6819999--6820082 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 31
6819989 CAGCAGAGAG
*
6819999 GAAAAAAGAAAAAAGAA-AGAAAGAAGAAAAA
1 GAAAAAAGAAAAAA-AAGAAAAAGAAGAAAAA
*
6820030 -AAAAAAGAAAAAGAGAGAAAAAGAA-AAAAA
1 GAAAAAAGAAAAA-AAAGAAAAAGAAGAAAAA
6820060 GAAAAAAGAAAAAACAAGAAAAA
1 GAAAAAAGAAAAAA-AAGAAAAA
6820083 AGGGGTTAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
30 19 0.41
31 27 0.59
ACGTcount: A:0.82, C:0.01, G:0.17, T:0.00
Consensus pattern (31 bp):
GAAAAAAGAAAAAAAAGAAAAAGAAGAAAAA
Found at i:6820263 original size:5 final size:5
Alignment explanation
Indices: 6820255--6820279 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6820245 TTAATTTAAT
6820255 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
6820280 AATACTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:6820267 original size:16 final size:15
Alignment explanation
Indices: 6820229--6820277 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
6820219 CATTTATATC
* *
6820229 TTTAATTTCATTTAA
1 TTTAATTTTATTTTA
*
6820244 TTTAATTTAATTTTTA
1 TTTAATTTTA-TTTTA
*
6820260 TTTTATTTTATTTTA
1 TTTAATTTTATTTTA
6820275 TTT
1 TTT
6820278 TAAATACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTAATTTTATTTTA
Found at i:6820444 original size:18 final size:19
Alignment explanation
Indices: 6820423--6820470 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
6820413 AATCTCATGG
6820423 TTTCAAAAAATTTC-TATC
1 TTTCAAAAAATTTCGTATC
** *
6820441 TTTCAAAATTTTTCGTGTC
1 TTTCAAAAAATTTCGTATC
6820460 -TTCAAAAAATT
1 TTTCAAAAAATT
6820471 AGTGTTAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.35, C:0.15, G:0.04, T:0.46
Consensus pattern (19 bp):
TTTCAAAAAATTTCGTATC
Found at i:6820558 original size:17 final size:19
Alignment explanation
Indices: 6820518--6820563 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
6820508 AAATTTTTCG
*
6820518 TGTTTTC-AAAAATTCTCA
1 TGTTTTCAAAAAAATCTCA
6820536 TGTTTTCAAAAAAATC-CA
1 TGTTTTCAAAAAAATCTCA
6820554 T-TTTTCAAAA
1 TGTTTTCAAAA
6820564 TTTTTTGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.35
18 10 0.38
19 7 0.27
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.41
Consensus pattern (19 bp):
TGTTTTCAAAAAAATCTCA
Found at i:6820590 original size:36 final size:36
Alignment explanation
Indices: 6820536--6820619 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 36
6820526 AAAATTCTCA
*
6820536 TGTTTTCAAAAAAATCCATTTTTC-AAAATTTTTTG
1 TGTTTTCAAAAAAATCCATATTTCTAAAATTTTTTG
** *
6820571 TGTTTTCTAAAAATTTCCATATTTCTAAAA-TTTTCG
1 TGTTTTC-AAAAAAATCCATATTTCTAAAATTTTTTG
6820607 TG-TTT-AAAAAAAT
1 TGTTTTCAAAAAAAT
6820620 TTCGTATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
33 6 0.15
35 10 0.24
36 21 0.51
37 4 0.10
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.48
Consensus pattern (36 bp):
TGTTTTCAAAAAAATCCATATTTCTAAAATTTTTTG
Found at i:6820802 original size:19 final size:18
Alignment explanation
Indices: 6820651--6821004 Score: 191
Period size: 17 Copynumber: 19.6 Consensus size: 18
6820641 TTTTTATTTT
* *
6820651 TTTTCAACAATTCTCGAG
1 TTTTCAAAAATTCTCGTG
*
6820669 -TTTCACAAATTCTCGTG
1 TTTTCAAAAATTCTCGTG
* * **
6820686 TTTT-AAAATTTTTTATG
1 TTTTCAAAAATTCTCGTG
*
6820703 TTTTAAAAAATAAATTTCTCGTG
1 TTTT---CAA-AAA-TTCTCGTG
*
6820726 -TTTCAAAAAATTGTCGTG
1 TTTTC-AAAAATTCTCGTG
* *
6820744 TTTT-AAAAATTTTCATG
1 TTTTCAAAAATTCTCGTG
*
6820761 -TTTCTAAAATGT-TCGT-
1 TTTTCAAAAAT-TCTCGTG
* *
6820777 ATTTCAAAAAATCCTCGTG
1 TTTTC-AAAAATTCTCGTG
*
6820796 TTTTCAAAAATTCTCATG
1 TTTTCAAAAATTCTCGTG
6820814 -TTTCAAAAA-TCTTCGTG
1 TTTTCAAAAATTC-TCGTG
*
6820831 TTTTC-AAAATTCTAGTG
1 TTTTCAAAAATTCTCGTG
* *
6820848 -TTTCAAAAATTTTCATG
1 TTTTCAAAAATTCTCGTG
* *
6820865 TTTTCAAAAATTTCCCCTG
1 TTTTCAAAAA-TTCTCGTG
*
6820884 TTTTCAAAAATTCTCGTA
1 TTTTCAAAAATTCTCGTG
* * *
6820902 TTTT-GAAAATTTTCTTG
1 TTTTCAAAAATTCTCGTG
6820919 TTTTCAAAAAAAAAACTT-TCGTG
1 TTTTC-----AAAAA-TTCTCGTG
*
6820942 TTTT-ATAAA-TCTCCGTG
1 TTTTCAAAAATTCT-CGTG
6820959 TTTTCAAAAAATTCTCGT-
1 TTTTC-AAAAATTCTCGTG
* *
6820977 CTTTCAAAAATTTTCGTG
1 TTTTCAAAAATTCTCGTG
6820995 TTTTCAAAAA
1 TTTTCAAAAA
6821005 ATTGACCTTG
Statistics
Matches: 257, Mismatches: 45, Indels: 68
0.69 0.12 0.18
Matches are distributed among these distances:
15 1 0.00
16 10 0.04
17 115 0.45
18 68 0.26
19 32 0.12
20 5 0.02
21 2 0.01
22 5 0.02
23 17 0.07
24 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (18 bp):
TTTTCAAAAATTCTCGTG
Found at i:6820818 original size:36 final size:37
Alignment explanation
Indices: 6820778--6821006 Score: 147
Period size: 36 Copynumber: 6.3 Consensus size: 37
6820768 AATGTTCGTA
6820778 TTTCAAAAAATCCTCGTGTTTTCAAAAATTCTCATG-
1 TTTCAAAAAATCCTCGTGTTTTCAAAAATTCTCATGT
*
6820814 TTTC-AAAAATCTTCGTGTTTTC-AAAATTCT-A-GT
1 TTTCAAAAAATCCTCGTGTTTTCAAAAATTCTCATGT
** * * *
6820847 GTTTC-AAAAATTTTCATGTTTTCAAAAATTTCCCCTGT
1 -TTTCAAAAAATCCTCGTGTTTTCAAAAA-TTCTCATGT
* * * * *
6820885 TTTC-AAAAATTCTCGTATTTT-GAAAATTTTCTTGT
1 TTTCAAAAAATCCTCGTGTTTTCAAAAATTCTCATGT
* * * *
6820920 TTTCAAAAAAAAAACTTTCGTGTTTT-ATAAA-TCTCCGTGT
1 TTTC---AAAAAATC-CTCGTGTTTTCAAAAATTCT-CATGT
* * * *
6820960 TTTCAAAAAATTCTCGT-CTTTCAAAAATTTTCGTGT
1 TTTCAAAAAATCCTCGTGTTTTCAAAAATTCTCATGT
6820996 TTTCAAAAAAT
1 TTTCAAAAAAT
6821007 TGACCTTGTT
Statistics
Matches: 153, Mismatches: 26, Indels: 28
0.74 0.13 0.14
Matches are distributed among these distances:
32 1 0.01
33 1 0.01
34 28 0.18
35 34 0.22
36 35 0.23
37 26 0.17
38 2 0.01
39 7 0.05
40 19 0.12
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (37 bp):
TTTCAAAAAATCCTCGTGTTTTCAAAAATTCTCATGT
Found at i:6820853 original size:16 final size:16
Alignment explanation
Indices: 6820797--6820855 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
6820787 ATCCTCGTGT
6820797 TTTCAAAAATTCTCA-TG
1 TTTC-AAAATTCT-AGTG
* *
6820814 TTTCAAAAATCTTCGTG
1 TTTCAAAATTC-TAGTG
6820831 TTTTCAAAATTCTAGTG
1 -TTTCAAAATTCTAGTG
6820848 TTTCAAAA
1 TTTCAAAA
6820856 ATTTTCATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 14 0.40
17 11 0.31
18 10 0.29
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (16 bp):
TTTCAAAATTCTAGTG
Found at i:6820927 original size:35 final size:36
Alignment explanation
Indices: 6820669--6821004 Score: 164
Period size: 35 Copynumber: 9.2 Consensus size: 36
6820659 AATTCTCGAG
* *
6820669 TTTCACAAATTCTCGTGTTTT--AAAATTTTTTATGT
1 TTTCAAAAATTCTCGTGTTTTCAAAAATTTTCT-TGT
* * *
6820704 TTTAAAAAATAAATTTCTCGTG-TTTCAAAAAATTGTCGTGT
1 TTT---CAA-AAA-TTCTCGTGTTTTC-AAAAATTTTCTTGT
* * * *
6820745 TTT-AAAAATTTTCATG-TTTCTAAAATGTTC--GT
1 TTTCAAAAATTCTCGTGTTTTCAAAAATTTTCTTGT
* * *
6820777 ATTTCAAAAAATCCTCGTGTTTTCAAAAATTCTCATG-
1 -TTTC-AAAAATTCTCGTGTTTTCAAAAATTTTCTTGT
*
6820814 TTTCAAAAA-TCTTCGTGTTTTC-AAAA--TTCTAGT
1 TTTCAAAAATTC-TCGTGTTTTCAAAAATTTTCTTGT
* * * *
6820847 GTTTCAAAAATTTTCATGTTTTCAAAAATTTCCCCTGT
1 -TTTCAAAAATTCTCGTGTTTTCAAAAATTT-TCTTGT
* *
6820885 TTTCAAAAATTCTCGTATTTT-GAAAATTTTCTTGT
1 TTTCAAAAATTCTCGTGTTTTCAAAAATTTTCTTGT
* * * *
6820920 TTTCAAAAAAAAAACTT-TCGTGTTTT-ATAAATCTCCGTGT
1 TTTC-----AAAAA-TTCTCGTGTTTTCAAAAATTTTCTTGT
* *
6820960 TTTCAAAAAATTCTCGT-CTTTCAAAAATTTTCGTGT
1 TTTC-AAAAATTCTCGTGTTTTCAAAAATTTTCTTGT
6820996 TTTCAAAAA
1 TTTCAAAAA
6821005 ATTGACCTTG
Statistics
Matches: 230, Mismatches: 41, Indels: 60
0.69 0.12 0.18
Matches are distributed among these distances:
32 5 0.02
33 3 0.01
34 30 0.13
35 61 0.27
36 50 0.22
37 21 0.09
38 5 0.02
39 6 0.03
40 34 0.15
41 8 0.03
42 7 0.03
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (36 bp):
TTTCAAAAATTCTCGTGTTTTCAAAAATTTTCTTGT
Found at i:6821054 original size:37 final size:37
Alignment explanation
Indices: 6820937--6821059 Score: 119
Period size: 37 Copynumber: 3.4 Consensus size: 37
6820927 AAAAAAACTT
* * *
6820937 TCGTGTTTTATAAATCTCCGTGTTTTC-AAAAAATTC
1 TCGTGTTTCATAAATTTCCGTGTTTTCAAAAAAATCC
* * * *
6820973 TCGTCTTTCAAAAATTTTCGTGTTTTCAAAAAATTGACC
1 TCGTGTTTCATAAATTTCCGTGTTTTCAAAAAAAT--CC
*
6821012 T--TGTTTCATAAATTTCCATG-TTTCAAAAAAAATCC
1 TCGTGTTTCATAAATTTCCGTGTTTTC-AAAAAAATCC
6821047 TCGTGTTTCATAA
1 TCGTGTTTCATAA
6821060 TTTATCAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
35 3 0.04
36 26 0.38
37 38 0.55
39 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (37 bp):
TCGTGTTTCATAAATTTCCGTGTTTTCAAAAAAATCC
Found at i:6821096 original size:21 final size:20
Alignment explanation
Indices: 6821066--6821105 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6821056 ATAATTTATC
*
6821066 AAAATTTGTGTTTTCAAAAT
1 AAAATTTGTGTTTTAAAAAT
6821086 AAAATTTTGTGTTTTAAAAA
1 AAAA-TTTGTGTTTTAAAAA
6821106 ATTCTCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (20 bp):
AAAATTTGTGTTTTAAAAAT
Found at i:6821198 original size:18 final size:19
Alignment explanation
Indices: 6821166--6821219 Score: 85
Period size: 17 Copynumber: 2.9 Consensus size: 19
6821156 AAATTTTGTG
6821166 TTTTCGTGTTTTCAAAAAA
1 TTTTCGTGTTTTCAAAAAA
6821185 TTTTCGTG-TTTC-AAAAA
1 TTTTCGTGTTTTCAAAAAA
*
6821202 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
6821220 TTATTATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 12 0.38
18 8 0.25
19 12 0.38
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (19 bp):
TTTTCGTGTTTTCAAAAAA
Found at i:6821202 original size:17 final size:18
Alignment explanation
Indices: 6821166--6821221 Score: 87
Period size: 18 Copynumber: 3.1 Consensus size: 18
6821156 AAATTTTGTG
6821166 TTTTCGTGTTTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
6821185 TTTTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
6821202 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
6821220 TT
1 TT
6821222 ATTATTTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 12 0.35
18 14 0.41
19 8 0.24
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:6827865 original size:1 final size:1
Alignment explanation
Indices: 6827859--6827953 Score: 55
Period size: 1 Copynumber: 95.0 Consensus size: 1
6827849 ATTATGCCTG
* * * * * ** * * * *
6827859 AAAAAAAAAGAGAAAAAAACAAAAAAAAACAACAAAAAGGAACAAAAAACAAAACAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
6827924 GAAAAAAACAAAAAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6827954 TCAAGATGAA
Statistics
Matches: 66, Mismatches: 28, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.84, C:0.07, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:6827939 original size:22 final size:21
Alignment explanation
Indices: 6827871--6827953 Score: 89
Period size: 22 Copynumber: 3.8 Consensus size: 21
6827861 AAAAAAAGAG
6827871 AAAAAA-ACAAAAAAAAACAAC
1 AAAAAAGA-AAAAAAAAACAAC
*
6827892 AAAAAGGAACAAAAAACAA-AAC
1 AAAAAAGAA-AAAAAA-AACAAC
*
6827914 AAAAAAGAAAGAAAAAAACAAA
1 AAAAAAGAAA-AAAAAAACAAC
6827936 AAAAAAGAAAAAGAAAAA
1 AAAAAAGAAAAA-AAAAA
6827954 TCAAGATGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
21 11 0.21
22 40 0.75
23 2 0.04
ACGTcount: A:0.84, C:0.08, G:0.07, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAAAAAAAAACAAC
Found at i:6827941 original size:10 final size:10
Alignment explanation
Indices: 6827859--6827952 Score: 82
Period size: 10 Copynumber: 8.9 Consensus size: 10
6827849 ATTATGCCTG
*
6827859 AAAAAAAAAG
1 AAAAAAAAAC
*
6827869 AGAAAAAAAC
1 AAAAAAAAAC
6827879 AAAAAAAAAC
1 AAAAAAAAAC
6827889 AACAAAAAGGAAC
1 AA-AAAAA--AAC
6827902 AAAAAACAAAAC
1 -AAAAA-AAAAC
*
6827914 AAAAAAGAA-
1 AAAAAAAAAC
*
6827923 AGAAAAAAAC
1 AAAAAAAAAC
*
6827933 AAAAAAAAAG
1 AAAAAAAAAC
6827943 AAAAAGAAAA
1 AAAAA-AAAA
6827953 ATCAAGATGA
Statistics
Matches: 69, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
9 7 0.10
10 35 0.51
11 14 0.20
12 3 0.04
13 6 0.09
14 4 0.06
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:6829029 original size:155 final size:155
Alignment explanation
Indices: 6828737--6829049 Score: 431
Period size: 155 Copynumber: 2.0 Consensus size: 155
6828727 AGAAAGTTGC
* *
6828737 ACAGAATCAATAAGGAAGAAGGCTTTTAGTTTCACCTGATGTTTTTTTTGAAACCCTGTTTCTTT
1 ACAGAATCAATAAGAAAGAAGGCTTTTAGTTTCACCAGATG-TTTTTTTGAAACCCTGTTTCTTT
6828802 CAAGAAATATTTTTAAAATTCTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAG
65 --AGAAATATTTTTAAAATTCTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAG
6828867 GCCCGGGTCACGCTGAGGTATTTTTTTT
128 GCCCGGGTCACGCTGAGGTATTTTTTTT
*
6828895 ACAGAATCAATGAA-AAAGAAGGCTTTTAGTTTCACCAGATG-TTTTTTGAAACCTTGTTTCTTT
1 ACAGAATCAAT-AAGAAAGAAGGCTTTTAGTTTCACCAGATGTTTTTTTGAAACCCTGTTTCTTT
* ** * *
6828958 -TATTTTTTTTTATTTAATT-T-TTATTTTTCCAAAAAATCAACTCATAATACAGAGGTGAGTTG
65 AGAAATATTTTTA--AAATTCTGTT-TTTTT-CAAAAAATCAACTCATAATACAGAGGTGAGTTG
6829020 A-GCCTCGGGTCACGCTGAGGTATTTTTTTT
126 AGGCC-CGGGTCACGCTGAGGTATTTTTTTT
6829050 TAATTTAATT
Statistics
Matches: 141, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
153 10 0.07
154 9 0.06
155 63 0.45
156 21 0.15
158 36 0.26
159 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (155 bp):
ACAGAATCAATAAGAAAGAAGGCTTTTAGTTTCACCAGATGTTTTTTTGAAACCCTGTTTCTTTA
GAAATATTTTTAAAATTCTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGGCC
CGGGTCACGCTGAGGTATTTTTTTT
Found at i:6829091 original size:78 final size:79
Alignment explanation
Indices: 6828958--6829127 Score: 272
Period size: 78 Copynumber: 2.1 Consensus size: 79
6828948 TTGTTTCTTT
*
6828958 TATTTTTTTTTATTTAATTTTTATTTTTCCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGC
1 TATTTTTTTTTATTTAATTTTTATTTTTCC--AAAA-CAACTCATAATACAGAGGTGAGGTGAGC
6829023 CTCGGGTCACGCTGAGG
63 CTCGGGTCACGCTGAGG
*
6829040 TATTTTTTTTTAATTTAATTTTTATTTTTTC-AAA-AACTCATAATACAGAGGTGAGGTGAGCCT
1 TATTTTTTTTT-ATTTAATTTTTATTTTTCCAAAACAACTCATAATACAGAGGTGAGGTGAGCCT
6829103 CGGGTCACGCTGAGG
65 CGGGTCACGCTGAGG
6829118 TATTTTTTTT
1 TATTTTTTTT
6829128 NNNNNNNNNN
Statistics
Matches: 85, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
78 53 0.62
80 3 0.04
82 11 0.13
83 18 0.21
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (79 bp):
TATTTTTTTTTATTTAATTTTTATTTTTCCAAAACAACTCATAATACAGAGGTGAGGTGAGCCTC
GGGTCACGCTGAGG
Found at i:6830188 original size:20 final size:21
Alignment explanation
Indices: 6830165--6830203 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
6830155 AAAACCAAGC
6830165 AAAAAAAAACAAG-AAAAAGT
1 AAAAAAAAACAAGCAAAAAGT
* *
6830185 AAAAGAAATCAAGCAAAAA
1 AAAAAAAAACAAGCAAAAA
6830204 CAGTAGCCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.77, C:0.08, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAAAAAAACAAGCAAAAAGT
Found at i:6830460 original size:18 final size:17
Alignment explanation
Indices: 6830437--6830488 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
6830427 GGGGCCGAAC
6830437 AAGGAAGAAGAAGAAAGA
1 AAGGAAGAAGAA-AAAGA
6830455 AAGGAAGAAGAAAAAG-
1 AAGGAAGAAGAAAAAGA
6830471 AA-GAAG--GAAAAAGA
1 AAGGAAGAAGAAAAAGA
6830485 AAGG
1 AAGG
6830489 GGGAAAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 7 0.22
14 2 0.06
15 5 0.16
16 2 0.06
17 4 0.12
18 12 0.38
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
AAGGAAGAAGAAAAAGA
Found at i:6830504 original size:7 final size:7
Alignment explanation
Indices: 6830492--6830535 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
6830482 AGAAAGGGGG
6830492 AAAGAAA
1 AAAGAAA
6830499 AAAG-AA
1 AAAGAAA
6830505 AAAGAAA
1 AAAGAAA
6830512 AAA-AAA
1 AAAGAAA
6830518 CAAAGAAA
1 -AAAGAAA
6830526 AAAGAAA
1 AAAGAAA
6830533 AAA
1 AAA
6830536 ATTTTACAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 9 0.26
7 22 0.65
8 3 0.09
ACGTcount: A:0.86, C:0.02, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:6830693 original size:15 final size:14
Alignment explanation
Indices: 6830672--6830741 Score: 63
Period size: 15 Copynumber: 4.8 Consensus size: 14
6830662 AGCAGGCCAG
*
6830672 AAAAAAAAGAGAGA
1 AAAAAAAAAAGAGA
6830686 AGAAAAAAAAAGAGA
1 A-AAAAAAAAAGAGA
6830701 AAAAAACAAAA-A-A
1 AAAAAA-AAAAGAGA
*
6830714 ACAAAAAAAAAGAAA
1 A-AAAAAAAAAGAGA
6830729 AAGAAAAGAAAAG
1 AA-AAAA-AAAAG
6830742 TTCAATTTGC
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
13 6 0.12
14 14 0.29
15 23 0.48
16 5 0.10
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAGA
Found at i:6830702 original size:28 final size:28
Alignment explanation
Indices: 6830670--6830740 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
6830660 GAAGCAGGCC
* * *
6830670 AGAAAAAAAAGAGAGAAGAAAAAAAAAG
1 AGAAAAAAAAGAAAAAACAAAAAAAAAG
6830698 AGAAAAAAACA-AAAAAACAAAAAAAAAG
1 AGAAAAAAA-AGAAAAAACAAAAAAAAAG
6830726 A-AAAAGAAAAGAAAA
1 AGAAAA-AAAAGAAAA
6830741 GTTCAATTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 5 0.14
28 31 0.84
29 1 0.03
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (28 bp):
AGAAAAAAAAGAAAAAACAAAAAAAAAG
Found at i:6830703 original size:10 final size:9
Alignment explanation
Indices: 6830670--6830740 Score: 56
Period size: 9 Copynumber: 7.7 Consensus size: 9
6830660 GAAGCAGGCC
6830670 AGAAAAAAA
1 AGAAAAAAA
* * *
6830679 AGAGAGAAG
1 AGAAAAAAA
6830688 A-AAAAAAA
1 AGAAAAAAA
6830696 AGAGAAAAAA
1 AGA-AAAAAA
*
6830706 ACAAAAAAA
1 AGAAAAAAA
6830715 CA-AAAAAAA
1 -AGAAAAAAA
6830724 AGAAAAAGAAA
1 AG-AAAA-AAA
6830735 AGAAAA
1 AGAAAA
6830741 GTTCAATTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
8 6 0.12
9 21 0.43
10 17 0.35
11 5 0.10
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:6830740 original size:16 final size:15
Alignment explanation
Indices: 6830670--6830741 Score: 67
Period size: 16 Copynumber: 4.8 Consensus size: 15
6830660 GAAGCAGGCC
*
6830670 AGAAAAAAAAGAGAGA
1 AGAAAAAAAA-AGAAA
*
6830686 AGAAAAAAAAAGAGA
1 AGAAAAAAAAAGAAA
*
6830701 A-AAAAACAAA-AAA
1 AGAAAAAAAAAGAAA
*
6830714 ACAAAAAAAAAGAAAA
1 AGAAAAAAAAAG-AAA
*
6830730 AGAAAAGAAAAG
1 AGAAAAAAAAAG
6830742 TTCAATTTGC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
13 3 0.06
14 16 0.33
15 6 0.12
16 23 0.48
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAAAGAAA
Found at i:6830923 original size:22 final size:23
Alignment explanation
Indices: 6830879--6830925 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
6830869 GCATTTTTAT
*
6830879 ATTTTTATTTTTAATTTAATTCA
1 ATTTTTATTTTTAATATAATTCA
6830902 ATTTTTA-TTTTAA-ATAATTTCA
1 ATTTTTATTTTTAATATAA-TTCA
6830924 AT
1 AT
6830926 AAATAAGGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 12 0.55
23 7 0.32
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTTTTATTTTTAATATAATTCA
Found at i:6831107 original size:22 final size:22
Alignment explanation
Indices: 6831076--6831118 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6831066 TCGCGTTTCG
*
6831076 AAATTTTCGTGTCTTCAAAAAA
1 AAATTCTCGTGTCTTCAAAAAA
*
6831098 AAATTCTCGTGTTTTCAAAAA
1 AAATTCTCGTGTCTTCAAAAA
6831119 TAAGGTAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (22 bp):
AAATTCTCGTGTCTTCAAAAAA
Found at i:6831252 original size:18 final size:19
Alignment explanation
Indices: 6831231--6831725 Score: 137
Period size: 17 Copynumber: 26.9 Consensus size: 19
6831221 AGAAAATTTT
6831231 TCGTGTTTT-AAAAAATTC
1 TCGTGTTTTCAAAAAATTC
6831249 TCGTGTTTTCAAAAAATTC
1 TCGTGTTTTCAAAAAATTC
* * *
6831268 -CAT-TTTTC-AAAATTTT
1 TCGTGTTTTCAAAAAATTC
* *
6831284 TCGTCTTTTCTAAAAATT-
1 TCGTGTTTTCAAAAAATTC
* * * *
6831302 TCCAT-ATTTC-TAAAATTT
1 T-CGTGTTTTCAAAAAATTC
*
6831320 TCGTG-TTTAAAAAAATT-
1 TCGTGTTTTCAAAAAATTC
* * *
6831337 TCGTATTTTCAAAATTTTTATTTT
1 TCGTGTTTTCAAAA-----AATTC
** * *
6831361 TATTTTTTTC-AACAATTC
1 TCGTGTTTTCAAAAAATTC
* *
6831379 TCGAG-TTTC-ACAAATTC
1 TCGTGTTTTCAAAAAATTC
* *
6831396 TCGTGTTTT--AAAATTTT
1 TCGTGTTTTCAAAAAATTC
** *
6831413 TTATGTTTTAAAAAATAAATTTC
1 TCGTGTTTT--CAAA-AAAT-TC
*
6831436 TCGTG-TTTCAAAAAAATTG
1 TCGTGTTTTC-AAAAAATTC
*
6831455 TCGTGTTTT--AAAAATTT
1 TCGTGTTTTCAAAAAATTC
* *
6831472 TCATG-TTTC-TAAAATGT-
1 TCGTGTTTTCAAAAAAT-TC
* *
6831489 TCGT-ATTTCAAAAAATCC
1 TCGTGTTTTCAAAAAATTC
6831507 TCGTGTTTTC-AAAAATTC
1 TCGTGTTTTCAAAAAATTC
**
6831525 TTATG-TTTC-AAAAA-TC
1 TCGTGTTTTCAAAAAATTC
6831541 TTCGTGTTTTC--AAAATTC
1 -TCGTGTTTTCAAAAAATTC
* *
6831559 TAGTG-TTTC-AAAAATTT
1 TCGTGTTTTCAAAAAATTC
* *
6831576 TCATGTTTTCAAAAATTTC
1 TCGTGTTTTCAAAAAATTC
* *
6831595 CCCTGTTTTC-AAAAATTC
1 TCGTGTTTTCAAAAAATTC
* * *
6831613 TCGTATTTT--GAAAATTT
1 TCGTGTTTTCAAAAAATTC
*
6831630 TCTTGTTTTCAAAAAAAAAATTC
1 TCGTGTTTTC----AAAAAATTC
* *
6831653 -CGTG-TTTCATAAATTTC
1 TCGTGTTTTCAAAAAATTC
6831670 T-GTGTTTTCAAAAAAAATTTC
1 TCGTGTTTTC--AAAAAA-TTC
* *
6831691 TCGT-CTTTC-AAAAATTT
1 TCGTGTTTTCAAAAAATTC
6831708 TCGTGTTTTCAAAAAATT
1 TCGTGTTTTCAAAAAATT
6831726 GACCGTTTTT
Statistics
Matches: 351, Mismatches: 76, Indels: 99
0.67 0.14 0.19
Matches are distributed among these distances:
16 15 0.04
17 129 0.37
18 98 0.28
19 48 0.14
20 11 0.03
21 17 0.05
22 11 0.03
23 15 0.04
24 7 0.02
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (19 bp):
TCGTGTTTTCAAAAAATTC
Found at i:6831299 original size:35 final size:34
Alignment explanation
Indices: 6831249--6831355 Score: 108
Period size: 36 Copynumber: 3.0 Consensus size: 34
6831239 TAAAAAATTC
6831249 TCGTGTTTTCAAAAAATTCCATTTTTCAAAATTTT
1 TCGT-TTTTCAAAAAATTCCATTTTTCAAAATTTT
* *
6831284 TCGTCTTTTCTAAAAATTTCCATATTTCTAAAA-TTT
1 TCGT-TTTTC-AAAAAATTCCATTTTTC-AAAATTTT
* * * *
6831320 TCGTGTTTAAAAAAATTTCGTATTTTCAAAATTTT
1 TCGTTTTTCAAAAAATTCCAT-TTTTCAAAATTTT
6831355 T
1 T
6831356 ATTTTTATTT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
34 13 0.22
35 20 0.34
36 22 0.37
37 4 0.07
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.50
Consensus pattern (34 bp):
TCGTTTTTCAAAAAATTCCATTTTTCAAAATTTT
Found at i:6831522 original size:53 final size:53
Alignment explanation
Indices: 6831436--6831644 Score: 184
Period size: 54 Copynumber: 3.9 Consensus size: 53
6831426 AATAAATTTC
* * * *
6831436 TCGTGTTTCAAAAAAATTGTCGTGTTTT-AAAAATTTTCATGTTTCTAAAATGT
1 TCGTATTTC-AAAAAATTCTCGTGTTTTCAAAAATTTTCATGTTTCAAAAATCT
*
6831489 TCGTATTTCAAAAAATCCTCGTGTTTTCAAAAATTCTT-ATGTTTCAAAAATCT
1 TCGTATTTCAAAAAATTCTCGTGTTTTCAAAAATT-TTCATGTTTCAAAAATCT
* *
6831542 TCGTGTTTTC--AAAATTCTAGTG-TTTCAAAAATTTTCATGTTTTCAAAAAT-T
1 TCGT-ATTTCAAAAAATTCTCGTGTTTTCAAAAATTTTCATG-TTTCAAAAATCT
* * *
6831593 TCCCCTGT-TTTC-AAAAATTCTCGTATTTT-GAAAATTTTCTTGTTTTCAAAAA
1 T---C-GTATTTCAAAAAATTCTCGTGTTTTCAAAAATTTTCATG-TTTCAAAAA
6831645 AAAAATTCCG
Statistics
Matches: 133, Mismatches: 12, Indels: 21
0.80 0.07 0.13
Matches are distributed among these distances:
50 2 0.02
51 16 0.12
52 36 0.27
53 36 0.27
54 38 0.29
55 5 0.04
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.45
Consensus pattern (53 bp):
TCGTATTTCAAAAAATTCTCGTGTTTTCAAAAATTTTCATGTTTCAAAAATCT
Found at i:6831643 original size:35 final size:35
Alignment explanation
Indices: 6831494--6831644 Score: 139
Period size: 35 Copynumber: 4.3 Consensus size: 35
6831484 AATGTTCGTA
* * *
6831494 TTTCAAAAAATCCTCGTGTTTTCAAAAATTCTTATG
1 TTTC-AAAAATTCTCGTGTTTTCAAAATTTCTTGTG
*
6831530 TTTCAAAAA-TCTTCGTGTTTTCAAAA-TTCTAGTG
1 TTTCAAAAATTC-TCGTGTTTTCAAAATTTCTTGTG
* * *
6831564 TTTCAAAAATTTTCATGTTTTCAAAAATTTCCCCTGT-
1 TTTCAAAAATTCTCGTGTTTTC-AAAATTT--CTTGTG
* *
6831601 TTTCAAAAATTCTCGTATTTTGAAAATTTTCTTGT-
1 TTTCAAAAATTCTCGTGTTTTCAAAA-TTTCTTGTG
6831636 TTTCAAAAA
1 TTTCAAAAA
6831645 AAAAATTCCG
Statistics
Matches: 96, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
34 25 0.26
35 37 0.39
36 10 0.10
37 21 0.22
38 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.45
Consensus pattern (35 bp):
TTTCAAAAATTCTCGTGTTTTCAAAATTTCTTGTG
Found at i:6831667 original size:39 final size:40
Alignment explanation
Indices: 6831605--6831723 Score: 145
Period size: 39 Copynumber: 3.0 Consensus size: 40
6831595 CCCTGTTTTC
* **
6831605 AAAAATTCTCGTATTTTGAAAATTTTCTTGTTTTCAAAAA
1 AAAAATTCTCGTCTTTCAAAAATTTTCTTGTTTTCAAAAA
* *
6831645 AAAAATTC-CGTGTTTCATAAA-TTTCTGTGTTTTC-AAAA
1 AAAAATTCTCGTCTTTCAAAAATTTTCT-TGTTTTCAAAAA
* *
6831683 AAAATTTCTCGTCTTTCAAAAATTTTCGTGTTTTCAAAAA
1 AAAAATTCTCGTCTTTCAAAAATTTTCTTGTTTTCAAAAA
6831723 A
1 A
6831724 TTGACCGTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
38 16 0.24
39 34 0.51
40 17 0.25
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (40 bp):
AAAAATTCTCGTCTTTCAAAAATTTTCTTGTTTTCAAAAA
Found at i:6831761 original size:39 final size:37
Alignment explanation
Indices: 6831605--6831762 Score: 130
Period size: 39 Copynumber: 4.2 Consensus size: 37
6831595 CCCTGTTTTC
*
6831605 AAAAATTCTCGTATTTTGA-AAATTTTCT-TGTTTTCAAAAA
1 AAAAATTC-CGT-TTTTAATAAATTTT-TGTGTTTTC--AAA
* * *
6831645 AAAAATTCCGTGTTTCATAAATTTCTGTGTTTTCAAA
1 AAAAATTCCGTTTTTAATAAATTTTTGTGTTTTCAAA
* *
6831682 AAAAATTTCTCGTCTTTCAA-AAATTTTCGTGTTTTC--A
1 AAAAA-TTC-CGT-TTTTAATAAATTTTTGTGTTTTCAAA
6831719 AAAAATTGACCGTTTTTAATAAATTTTTGTG-TTTCAAA
1 AAAAATT--CCGTTTTTAATAAATTTTTGTGTTTTCAAA
6831757 AAAAAT
1 AAAAAT
6831763 CCTCGTATTT
Statistics
Matches: 98, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
36 11 0.11
37 27 0.28
38 16 0.16
39 33 0.34
40 11 0.11
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (37 bp):
AAAAATTCCGTTTTTAATAAATTTTTGTGTTTTCAAA
Found at i:6831908 original size:18 final size:19
Alignment explanation
Indices: 6831876--6831929 Score: 85
Period size: 17 Copynumber: 2.9 Consensus size: 19
6831866 AAATTTTGTG
6831876 TTTTCGTGTTTTCAAAAAA
1 TTTTCGTGTTTTCAAAAAA
6831895 TTTTCGTG-TTTC-AAAAA
1 TTTTCGTGTTTTCAAAAAA
*
6831912 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
6831930 TTATTTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 12 0.38
18 8 0.25
19 12 0.38
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (19 bp):
TTTTCGTGTTTTCAAAAAA
Found at i:6831912 original size:17 final size:18
Alignment explanation
Indices: 6831876--6831931 Score: 87
Period size: 18 Copynumber: 3.1 Consensus size: 18
6831866 AAATTTTGTG
6831876 TTTTCGTGTTTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
6831895 TTTTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
6831912 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
6831930 TT
1 TT
6831932 ATTTATTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 12 0.35
18 14 0.41
19 8 0.24
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:6833567 original size:21 final size:21
Alignment explanation
Indices: 6833543--6833586 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
6833533 CATCCACTAG
*
6833543 TATGATACTGACTACTTGATC
1 TATGATACTGAATACTTGATC
6833564 TATGATACTGAATACTTGATC
1 TATGATACTGAATACTTGATC
6833585 TA
1 TA
6833587 GAGAAGTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (21 bp):
TATGATACTGAATACTTGATC
Found at i:6844184 original size:14 final size:14
Alignment explanation
Indices: 6844165--6844192 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6844155 TTGAATCTAT
6844165 ACTTTGCTTGCTCA
1 ACTTTGCTTGCTCA
6844179 ACTTTGCTTGCTCA
1 ACTTTGCTTGCTCA
6844193 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:6849939 original size:31 final size:29
Alignment explanation
Indices: 6849870--6849943 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
6849860 ACAAAATAAT
*
6849870 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATTGCA
6849899 AACATAAGTGACTAAAATGTAAC-TTAAGGCA
1 AACATAAGTGACTAAAATGTAACATT---GCA
*
6849930 AACAAAAGTGACTA
1 AACATAAGTGACTA
6849944 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:6855162 original size:74 final size:75
Alignment explanation
Indices: 6855041--6855192 Score: 297
Period size: 74 Copynumber: 2.0 Consensus size: 75
6855031 TATCATGTTT
6855041 TTATTATTTTAAATTATTATATATTTCAATACTTCAATAATTTATATTAATTTTTTAAGGTAAAA
1 TTATTATTTTAAATTATTATATATTTCAATACTTCAATAATTTATATTAATTTTTTAAGGTAAAA
6855106 TTCATTTAAA
66 TTCATTTAAA
6855116 TTATTATTTTAAA-TATTATATATTTCAATACTTCAATAATTTATATTAATTTTTTAAGGTAAAA
1 TTATTATTTTAAATTATTATATATTTCAATACTTCAATAATTTATATTAATTTTTTAAGGTAAAA
6855180 TTCATTTAAA
66 TTCATTTAAA
6855190 TTA
1 TTA
6855193 GAGGGAGCAA
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 64 0.83
75 13 0.17
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (75 bp):
TTATTATTTTAAATTATTATATATTTCAATACTTCAATAATTTATATTAATTTTTTAAGGTAAAA
TTCATTTAAA
Found at i:6855636 original size:54 final size:53
Alignment explanation
Indices: 6855576--6855730 Score: 138
Period size: 53 Copynumber: 2.9 Consensus size: 53
6855566 CCAAACCCTT
*
6855576 TTACTTTTCCCAAAAAAATTTACTTTCC-CTCAAACCCTCAAAACATTTTTCCTA
1 TTACTTTTCCCAAAAAAATTTAC-TTCCTC-CAAACCCTAAAAACATTTTTCCTA
** ** * * *
6855630 TTACTTTTCCTTAAAACTTTTACTTCTTCCAAACCCTAAAAACATTTTTTCTT
1 TTACTTTTCCCAAAAAAATTTACTTCCTCCAAACCCTAAAAACATTTTTCCTA
* ** *
6855683 TTGCTTTTCCTC-AAAACTTTTACTT-CTCCAAA-CCTCAAAAACTTTTTT
1 TTACTTTTCC-CAAAAAAATTTACTTCCTCCAAACCCT-AAAAACATTTTT
6855731 TTGAATTTAT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
51 3 0.03
52 17 0.20
53 46 0.53
54 20 0.23
ACGTcount: A:0.30, C:0.27, G:0.01, T:0.43
Consensus pattern (53 bp):
TTACTTTTCCCAAAAAAATTTACTTCCTCCAAACCCTAAAAACATTTTTCCTA
Found at i:6855676 original size:53 final size:52
Alignment explanation
Indices: 6855606--6855730 Score: 171
Period size: 53 Copynumber: 2.4 Consensus size: 52
6855596 TACTTTCCCT
* *
6855606 CAAACCCTCAAAACATTTTTCCTATTACTTTTCCTTAAAACTTTTACTTCTTC
1 CAAACCCTAAAAACATTTTTCCTATTACTTTTCCTCAAAACTTTTACTTC-TC
* * *
6855659 CAAACCCTAAAAACATTTTTTCTTTTGCTTTTCCTCAAAACTTTTACTTCTC
1 CAAACCCTAAAAACATTTTTCCTATTACTTTTCCTCAAAACTTTTACTTCTC
*
6855711 CAAA-CCTCAAAAACTTTTTT
1 CAAACCCT-AAAAACATTTTT
6855731 TTGAATTTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
51 3 0.05
52 17 0.26
53 45 0.69
ACGTcount: A:0.30, C:0.27, G:0.01, T:0.42
Consensus pattern (52 bp):
CAAACCCTAAAAACATTTTTCCTATTACTTTTCCTCAAAACTTTTACTTCTC
Found at i:6857995 original size:14 final size:14
Alignment explanation
Indices: 6857976--6858003 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6857966 TTTAGAACAC
6857976 ATAATTTTGATACA
1 ATAATTTTGATACA
6857990 ATAATTTTGATACA
1 ATAATTTTGATACA
6858004 TACAAAAAAC
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:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
ATAATTTTGATACA
Found at i:6861161 original size:40 final size:40
Alignment explanation
Indices: 6861117--6861213 Score: 115
Period size: 40 Copynumber: 2.5 Consensus size: 40
6861107 AACGCTGCTT
*
6861117 AAGATCAAGCATTAGCGGCGCTTTACGGAAAACACCGCTA
1 AAGATCAAGAATTAGCGGCGCTTTACGGAAAACACCGCTA
* * * * *
6861157 AAGATCGAGAATTAGCGGCGCTTTCCTGAAATCGCCGCTA
1 AAGATCAAGAATTAGCGGCGCTTTACGGAAAACACCGCTA
* *
6861197 AAAAT-GAGAATTAGCGG
1 AAGATCAAGAATTAGCGG
6861214 AGTGTCTCCC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 12 0.24
40 38 0.76
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (40 bp):
AAGATCAAGAATTAGCGGCGCTTTACGGAAAACACCGCTA
Found at i:6862973 original size:36 final size:36
Alignment explanation
Indices: 6862933--6863051 Score: 113
Period size: 36 Copynumber: 3.3 Consensus size: 36
6862923 GTAACAAAAT
6862933 TAACAATAAAACAAAAATTATACAATATCCAAATAA
1 TAACAATAAAACAAAAATTATACAATATCCAAATAA
* * ** *
6862969 TAACAATAAAATAGTAGCAA-CGTA-AATAGT--AACA-AT
1 TAACAATAAAACA--A-AAATTATACAATA-TCCAA-ATAA
6863005 TAACAATAAAACAAAAATTATACAATATCCAAATAA
1 TAACAATAAAACAAAAATTATACAATATCCAAATAA
6863041 TAACAATAAAA
1 TAACAATAAAA
6863052 TAGTAGCAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 20
0.68 0.11 0.22
Matches are distributed among these distances:
33 2 0.03
34 4 0.06
35 5 0.08
36 41 0.65
37 5 0.08
38 4 0.06
39 2 0.03
ACGTcount: A:0.62, C:0.13, G:0.03, T:0.22
Consensus pattern (36 bp):
TAACAATAAAACAAAAATTATACAATATCCAAATAA
Found at i:6863013 original size:72 final size:73
Alignment explanation
Indices: 6862918--6863065 Score: 280
Period size: 72 Copynumber: 2.0 Consensus size: 73
6862908 CAAATGTGAA
6862918 AAATAGTAACAAAATTAACAATAAAACAAAAATTATACAATATCCAAATAATAACAATAAAATAG
1 AAATAGTAAC-AAATTAACAATAAAACAAAAATTATACAATATCCAAATAATAACAATAAAATAG
6862983 TAGCAACGT
65 TAGCAACGT
6862992 AAATAGTAAC-AATTAACAATAAAACAAAAATTATACAATATCCAAATAATAACAATAAAATAGT
1 AAATAGTAACAAATTAACAATAAAACAAAAATTATACAATATCCAAATAATAACAATAAAATAGT
6863056 AGCAACGT
66 AGCAACGT
6863064 AA
1 AA
6863066 TTACGAAATG
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
72 64 0.86
74 10 0.14
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.22
Consensus pattern (73 bp):
AAATAGTAACAAATTAACAATAAAACAAAAATTATACAATATCCAAATAATAACAATAAAATAGT
AGCAACGT
Found at i:6863369 original size:40 final size:40
Alignment explanation
Indices: 6863325--6863423 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
6863315 AACGCTGCTT
* *
6863325 AAGATCAAGCATTAGCGGCGCTTTACGGAAAACACCGCTA
1 AAGATCGAGAATTAGCGGCGCTTTACGGAAAACACCGCTA
* * * *
6863365 AAGATCGAGAATTAGCGGCGCTTTCCTGAAATCGCCGCTA
1 AAGATCGAGAATTAGCGGCGCTTTACGGAAAACACCGCTA
*
6863405 AAAAT-GAGAATTAGCGGCG
1 AAGATCGAGAATTAGCGGCG
6863424 TTTGTTTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
39 14 0.27
40 38 0.73
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (40 bp):
AAGATCGAGAATTAGCGGCGCTTTACGGAAAACACCGCTA
Found at i:6863598 original size:41 final size:41
Alignment explanation
Indices: 6863487--6863646 Score: 212
Period size: 41 Copynumber: 3.9 Consensus size: 41
6863477 CTTTCGTGGA
* *
6863487 TTTAGCGGCGTTTTTGAATAAGCGCTGCTAATGCTCAGAGC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGAGC
* * *
6863528 TTTAGCGGCATTTTTTGAATAAGCACCGCTAATGCTCAGAGC
1 TTTAGCGGC-GTTTTTGAAGAAGCGCCGCTAATGCTCAGAGC
* * *
6863570 TTTAACGGCTTTTTTGAAGAAGCGCCGCTAATGCTCAGAGG
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGAGC
** *
6863611 TTTAGCGGCGAATGTGAAGAAGCGCCGCTAATGCTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
6863647 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:6863662 original size:83 final size:81
Alignment explanation
Indices: 6863487--6863684 Score: 211
Period size: 83 Copynumber: 2.4 Consensus size: 81
6863477 CTTTCGTGGA
* * * * *
6863487 TTTAGCGGCGTTTTTGAATAAGCGCTGCTAATGCTCAGAGCTTTAGCGGCATTTTTTGAATAAGC
1 TTTAGCGGCTTTTTTGAA-AAGCGCCGCTAATGCTCAGAGCTTTAGCGGCA-TATGTGAAGAAGC
6863552 ACCGCTAATGCTCAGAGC
64 ACCGCTAATGCTCAGAGC
* *
6863570 TTTAACGGCTTTTTTGAAGAAGCGCCGCTAATGCTCAGAGGTTTAGCGGCGA-ATGTGAAGAAGC
1 TTTAGCGGCTTTTTTGAA-AAGCGCCGCTAATGCTCAGAGCTTTAGCGGC-ATATGTGAAGAAGC
* * ***
6863634 GCCGCTAATGCTCGGTTTT
64 ACCGCTAATGCTCAG-AGC
6863653 TTTAGCGGCTTTTTTCAGAAAA-CGCCGCTAAT
1 TTTAGCGGCTTTTTT--GAAAAGCGCCGCTAAT
6863685 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:6864322 original size:29 final size:29
Alignment explanation
Indices: 6864282--6864355 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
6864272 TTGGGGTTTA
*
6864282 GGGTTTAAGATTTAGAAATTATGGTTTTG
1 GGGTTTAAGATTTAGAAATTATGATTTTG
*
6864311 GGGTTTAGGATTTAGAAATTATGATTTTG
1 GGGTTTAAGATTTAGAAATTATGATTTTG
*
6864340 GGGTTTTAGAGTTTAG
1 GGGTTTAAGA-TTTAG
6864356 GGTTTAAGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 35 0.88
30 5 0.12
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.45
Consensus pattern (29 bp):
GGGTTTAAGATTTAGAAATTATGATTTTG
Found at i:6869462 original size:81 final size:82
Alignment explanation
Indices: 6869358--6869521 Score: 321
Period size: 81 Copynumber: 2.0 Consensus size: 82
6869348 CTGAGCTATT
6869358 ACATATATATAAAATATTTATCAAATATTTTTATTAACTTTAAACAAAAGATATGAACCCAATCC
1 ACATATATATAAAATATTTATCAAATATTTTTATTAACTTTAAACAAAAGATATGAACCCAATCC
6869423 AATTTAGAATTTTTATA
66 AATTTAGAATTTTTATA
6869440 ACATATATAT-AAATATTTATCAAATATTTTTATTAACTTTAAACAAAAGATATGAACCCAATCC
1 ACATATATATAAAATATTTATCAAATATTTTTATTAACTTTAAACAAAAGATATGAACCCAATCC
6869504 AATTTAGAATTTTTATA
66 AATTTAGAATTTTTATA
6869521 A
1 A
6869522 TGAAAGTAAA
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 72 0.88
82 10 0.12
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (82 bp):
ACATATATATAAAATATTTATCAAATATTTTTATTAACTTTAAACAAAAGATATGAACCCAATCC
AATTTAGAATTTTTATA
Found at i:6871564 original size:40 final size:39
Alignment explanation
Indices: 6871496--6871612 Score: 148
Period size: 40 Copynumber: 3.0 Consensus size: 39
6871486 GGCGTTTGCA
*
6871496 TAAAAAATGCCGCTAAAAATAAGCATTAGCGGCGCTTTT
1 TAAAAAATGCCGCTAAAAATGAGCATTAGCGGCGCTTTT
* * *
6871535 TAAAAAACGCAGCTAAAAATCGAGTATTAG-GAGCGCTTTT
1 TAAAAAATGCCGCTAAAAAT-GAGCATTAGCG-GCGCTTTT
**
6871575 TGCAAAATGCCGCTAAAAATGAGCATTAGCGGCG-TTTT
1 TAAAAAATGCCGCTAAAAATGAGCATTAGCGGCGCTTTT
6871613 CCAAAAAGCG
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
38 4 0.06
39 30 0.45
40 32 0.48
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.26
Consensus pattern (39 bp):
TAAAAAATGCCGCTAAAAATGAGCATTAGCGGCGCTTTT
Found at i:6871626 original size:39 final size:38
Alignment explanation
Indices: 6871498--6871632 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 38
6871488 CGTTTGCATA
* * *
6871498 AAAAATGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTA
1 AAAAACGCCGCTAAAAATGAGCATTAGCGGCGC-TTTTC
* *
6871537 AAAAACGCAGCTAAAAATCGAGTATTAG-GAGCGCTTTTTGC
1 AAAAACGCCGCTAAAAAT-GAGCATTAGCG-GCGC-TTTT-C
*
6871578 -AAAATGCCGCTAAAAATGAGCATTAGCGGCG-TTTTCC
1 AAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTT-C
*
6871615 AAAAAGCGCCGCAAAAAA
1 AAAAA-CGCCGCTAAAAA
6871633 CCTAAGCCCA
Statistics
Matches: 79, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
37 5 0.06
38 4 0.05
39 38 0.48
40 32 0.41
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.21
Consensus pattern (38 bp):
AAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTTC
Found at i:6871723 original size:40 final size:40
Alignment explanation
Indices: 6871661--6871763 Score: 134
Period size: 40 Copynumber: 2.6 Consensus size: 40
6871651 TTCGGGGCTT
* ** *
6871661 TAGCAGCGTTTTTGAAGTAGCGCCGCTATTGCTCTATTTG
1 TAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTATTTG
* * *
6871701 TAGTGTCGTTTTTGAAAAAGCGCCGCTAATGCTCTATTTT
1 TAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTATTTG
*
6871741 TAGCGGCGTTTTTGAAAAGGCGC
1 TAGCGGCGTTTTTGAAAAAGCGC
6871764 TGCAAAAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (40 bp):
TAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTATTTG
Done.