Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 103 of 121
Found at i:17512360 original size:22 final size:21
Alignment explanation
Indices: 17512302--17512377 Score: 72
Period size: 17 Copynumber: 3.7 Consensus size: 21
17512292 GATTTAAAGG
17512302 TTTGGATTTTAGAGGTTTGGAT
1 TTTGGATTTTAG-GGTTTGGAT
*
17512324 TTTAGAGA-TTAAGGGTTTGGGAT
1 TTT-G-GATTTTAGGGTTT-GGAT
17512347 TTTGGATTTTAGGG---GG-T
1 TTTGGATTTTAGGGTTTGGAT
17512364 TTTGGATTTTAGGG
1 TTTGGATTTTAGGG
17512378 GTTTTCGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
17 15 0.31
18 2 0.04
21 2 0.04
22 15 0.31
23 12 0.25
24 2 0.04
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (21 bp):
TTTGGATTTTAGGGTTTGGAT
Found at i:17512465 original size:16 final size:16
Alignment explanation
Indices: 17512302--17512462 Score: 159
Period size: 16 Copynumber: 10.2 Consensus size: 16
17512292 GATTTAAAGG
*
17512302 TTTGGATTTTAGAGG-
1 TTTGGATTTTAGGGGT
* *
17512317 TTTGGATTTTAGAGAT
1 TTTGGATTTTAGGGGT
** * *
17512333 TAAGG-GTTT-GGGAT
1 TTTGGATTTTAGGGGT
17512347 TTTGGATTTTAGGGGGT
1 TTTGGATTTTA-GGGGT
17512364 TTTGGATTTTAGGGGT
1 TTTGGATTTTAGGGGT
* *
17512380 TTTCGATTTTAGGGAT
1 TTTGGATTTTAGGGGT
17512396 TTTGGATTTTAGGGGT
1 TTTGGATTTTAGGGGT
* * *
17512412 TTCGGATCTTA-GGAT
1 TTTGGATTTTAGGGGT
17512427 TTTGGATTTTAGAGGGT
1 TTTGGATTTTAG-GGGT
*
17512444 TTTAGATTTTAGGGGT
1 TTTGGATTTTAGGGGT
17512460 TTT
1 TTT
17512463 AGAAACCTAA
Statistics
Matches: 120, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
14 7 0.06
15 32 0.27
16 52 0.43
17 29 0.24
ACGTcount: A:0.17, C:0.02, G:0.33, T:0.48
Consensus pattern (16 bp):
TTTGGATTTTAGGGGT
Found at i:17512711 original size:3 final size:3
Alignment explanation
Indices: 17512703--17512738 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
17512693 TCTAGGCAAG
17512703 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17512739 TTTTTAAGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17513625 original size:13 final size:13
Alignment explanation
Indices: 17513594--17513627 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17513584 TGTTTGTCTC
*
17513594 TTTTTTTTGTTTC
1 TTTTTTTTGTTTA
*
17513607 TGTTTTTTGTTTA
1 TTTTTTTTGTTTA
17513620 TTTTTTTT
1 TTTTTTTT
17513628 TTATGGTTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.03, C:0.03, G:0.09, T:0.85
Consensus pattern (13 bp):
TTTTTTTTGTTTA
Found at i:17514009 original size:9 final size:9
Alignment explanation
Indices: 17513974--17514023 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
17513964 ATTATTATAT
*
17513974 ATATTTTTA
1 ATATTATTA
17513983 A-ATTATTA
1 ATATTATTA
*
17513991 TTATTATTA
1 ATATTATTA
17514000 ATATTATTA
1 ATATTATTA
* *
17514009 AAATTGTTA
1 ATATTATTA
17514018 ATATTA
1 ATATTA
17514024 AACTGAAATG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
8 6 0.18
9 27 0.82
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (9 bp):
ATATTATTA
Found at i:17514437 original size:22 final size:23
Alignment explanation
Indices: 17514383--17514442 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
17514373 AATCGAATTT
17514383 ATGCTCGGAGGTCTT-AGAAATC
1 ATGCTCGGAGGTCTTAAGAAATC
* *
17514405 AT-ATCCAGAGGTCTTAAG-AATC
1 ATGCT-CGGAGGTCTTAAGAAATC
17514427 ATGCTCGGAGGTCTTA
1 ATGCTCGGAGGTCTTA
17514443 CAAAATCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 1 0.03
22 27 0.87
23 3 0.10
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (23 bp):
ATGCTCGGAGGTCTTAAGAAATC
Found at i:17514471 original size:130 final size:130
Alignment explanation
Indices: 17514198--17514530 Score: 361
Period size: 130 Copynumber: 2.5 Consensus size: 130
17514188 GATTGGGATG
* * *
17514198 ACACCGTAAGTCGAAAAATAATGAATCGAT-TGAGATAACA-TCGCGAATCGAATTTATG-TCCG
1 ACACCATAAGTC--AAAATAATGAATCGATCAG-GATAACACT-GTGAATCGAATTTATGCT-CG
* * * * *
17514260 GATGTCTTAGAAATCATGTCCGGAGGTCTTAAGAATTATGCTCGGAGATCTTACAGAATCGATCA
61 GAGGTCTTAGAAATCATATCCAGAGGTCTTAAGAATCATGCTCGGAGATCTTACAAAATCGATCA
*
17514325 GGATA
126 GGACA
* * *
17514330 ACATCACAAGTCAAAATAATGAATCGATCAGGACAACACTGTGAATCGAATTTATGCTCGGAGGT
1 ACACCATAAGTCAAAATAATGAATCGATCAGGATAACACTGTGAATCGAATTTATGCTCGGAGGT
* * *
17514395 CTTAGAAATCATATCCAGAGGTCTTAAGAATCATGCTCGGAGGTCTTACAAAATCTA-CTGAGAC
66 CTTAGAAATCATATCCAGAGGTCTTAAGAATCATGCTCGGAGATCTTACAAAATCGATCAG-GAC
17514459 A
130 A
* * * * *
17514460 ACACCATAAGTCAAAA-AATAAGAAATCGATCGGGATAACACCGTGAAACGAAATTATGCCCGGA
1 ACACCATAAGTCAAAATAAT--G-AATCGATCAGGATAACACTGTGAATCGAATTTATGCTCGGA
*
17514524 GATCTTA
63 GGTCTTA
17514531 CAGAATTATG
Statistics
Matches: 170, Mismatches: 24, Indels: 14
0.82 0.12 0.07
Matches are distributed among these distances:
129 5 0.03
130 111 0.65
131 4 0.02
132 50 0.29
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (130 bp):
ACACCATAAGTCAAAATAATGAATCGATCAGGATAACACTGTGAATCGAATTTATGCTCGGAGGT
CTTAGAAATCATATCCAGAGGTCTTAAGAATCATGCTCGGAGATCTTACAAAATCGATCAGGACA
Found at i:17514552 original size:23 final size:23
Alignment explanation
Indices: 17514511--17514559 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
17514501 CGTGAAACGA
*
17514511 AATTATGCCCGGAGATCTTACAG
1 AATTATGCCCGAAGATCTTACAG
* *
17514534 AATTATGTCCGAAGGTCTTACAG
1 AATTATGCCCGAAGATCTTACAG
17514557 AAT
1 AAT
17514560 CGACTGGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (23 bp):
AATTATGCCCGAAGATCTTACAG
Found at i:17514641 original size:111 final size:111
Alignment explanation
Indices: 17514435--17514634 Score: 256
Period size: 111 Copynumber: 1.8 Consensus size: 111
17514425 TCATGCTCGG
* * *
17514435 AGGTCTTACAAAATCTACTGAGACAACACCATAAGTCAAAAAATAAGAAATCGATCGGGATAACA
1 AGGTCTTACAAAATCGACTGAGACAACACCACAAGTCAAAAAATAAGAAATCGATCAGGATAACA
* * *
17514500 CCGTGAAACGAAATTATGCCCGGAGATCTTACAGAATTATGTCCGA
66 CCGCGAAACGAAATTACGCCCGAAGATCTTACAGAATTATGTCCGA
* * * * * * * *
17514546 AGGTCTTACAGAATCGACTGGGATAACATCGCAAGTCGAAAGATAAGGAATCGATCAGGATAACA
1 AGGTCTTACAAAATCGACTGAGACAACACCACAAGTCAAAAAATAAGAAATCGATCAGGATAACA
* *
17514611 CCGCGAATCGAAATTACGTCCGAA
66 CCGCGAAACGAAATTACGCCCGAA
17514635 AGTCTTAAAA
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
111 73 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (111 bp):
AGGTCTTACAAAATCGACTGAGACAACACCACAAGTCAAAAAATAAGAAATCGATCAGGATAACA
CCGCGAAACGAAATTACGCCCGAAGATCTTACAGAATTATGTCCGA
Found at i:17514915 original size:41 final size:41
Alignment explanation
Indices: 17514857--17514988 Score: 151
Period size: 41 Copynumber: 3.2 Consensus size: 41
17514847 ATTTTTGAGA
* * *
17514857 CTTTAAAGGTCTTGTTTGAAGAAAGTTCCTCCTAAACAGAAG
1 CTTTAAA-ATCTTGTTTGAAGAAAGTTCCTCTTAAACAGAGG
*
17514899 CTTTAAAATTTTGTTTGAA-AAAGGTTCCTCTTAAACAGAGG
1 CTTTAAAATCTTGTTTGAAGAAA-GTTCCTCTTAAACAGAGG
* ** *
17514940 CTTTGAAATCTTAATTG-AGAACGGTTCCTCTTAAACAGAGG
1 CTTTAAAATCTTGTTTGAAGAA-AGTTCCTCTTAAACAGAGG
17514981 CTTTAAAA
1 CTTTAAAA
17514989 CTTTAAAAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
40 4 0.05
41 66 0.86
42 7 0.09
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (41 bp):
CTTTAAAATCTTGTTTGAAGAAAGTTCCTCTTAAACAGAGG
Found at i:17523275 original size:15 final size:15
Alignment explanation
Indices: 17523255--17523509 Score: 117
Period size: 15 Copynumber: 16.9 Consensus size: 15
17523245 AAGGTTTCAA
17523255 GATTTTGAA-GGTTTG
1 GATTTT-AAGGGTTTG
17523270 GATTTTAAGGGTTTG
1 GATTTTAAGGGTTTG
*
17523285 GA-TTTAA--GTTTC
1 GATTTTAAGGGTTTG
*
17523297 GATGGTTTTAGGGTTTG
1 GAT--TTTAAGGGTTTG
*
17523314 G-TTTTAA-GGTATG
1 GATTTTAAGGGTTTG
* *
17523327 GAAGGTTT-AGGGTTTT
1 G-A-TTTTAAGGGTTTG
17523343 GA-TTTAAGGGTTTG
1 GATTTTAAGGGTTTG
*
17523357 GATTTTAAGGGTTTT
1 GATTTTAAGGGTTTG
*
17523372 GA-TTTAAGAGTTTAAG
1 GATTTTAAGGGTTT--G
*
17523388 G-GTTT--GGGATTTCG
1 GATTTTAAGGG-TTT-G
*
17523402 GATTTTAGGGGGTTTTG
1 GATTTTA-AGGG-TTTG
*
17523419 GATTTT-AGCGGTTTA
1 GATTTTAAG-GGTTTG
*
17523434 GA-TTTAAGGGATTTTA
1 GATTTTAAGGG--TTTG
*
17523450 GATTTTAGGGGTTTCG
1 GATTTTAAGGGTTT-G
*
17523466 GATTTT-AGGATTTTG
1 GATTTTAAGG-GTTTG
**
17523481 GATTTTAAGATTTTG
1 GATTTTAAGGGTTTG
*
17523496 GATTTTAGGGGTTT
1 GATTTTAAGGGTTT
17523510 TAGAAACCTA
Statistics
Matches: 186, Mismatches: 26, Indels: 56
0.69 0.10 0.21
Matches are distributed among these distances:
12 6 0.03
13 9 0.05
14 39 0.21
15 75 0.40
16 32 0.17
17 19 0.10
18 6 0.03
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.47
Consensus pattern (15 bp):
GATTTTAAGGGTTTG
Found at i:17523306 original size:30 final size:28
Alignment explanation
Indices: 17523262--17523406 Score: 93
Period size: 29 Copynumber: 5.0 Consensus size: 28
17523252 CAAGATTTTG
*
17523262 AAGGTTTG-GATTTTAAGGGTTTGGATTT
1 AAGGTTTGAGGTTTT-AGGGTTTGGATTT
*
17523290 AA-GTTTCGATGGTTTTAGGGTTTGGTTTT
1 AAGGTTT-GA-GGTTTTAGGGTTTGGATTT
* *
17523319 AAGGTATGGAAGG-TTTAGGGTTTTGATTT
1 AAGGT-TTG-AGGTTTTAGGGTTTGGATTT
* *
17523348 AAGGGTTTG-GATTTTAAGGGTTTTGATTT
1 AA-GGTTTGAGGTTTT-AGGGTTTGGATTT
* *
17523377 AAGAGTTTAAGGGTTT-GGGATTTCGGATTT
1 AAG-GTTTGAGGTTTTAGGG-TTT-GGATTT
17523407 TAGGGGGTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 24
0.73 0.09 0.19
Matches are distributed among these distances:
27 5 0.05
28 10 0.11
29 54 0.58
30 22 0.24
31 2 0.02
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (28 bp):
AAGGTTTGAGGTTTTAGGGTTTGGATTT
Found at i:17523367 original size:29 final size:28
Alignment explanation
Indices: 17523262--17523384 Score: 115
Period size: 29 Copynumber: 4.2 Consensus size: 28
17523252 CAAGATTTTG
17523262 AAGGTTTGGATTTTAAGGGTTTGGATTT
1 AAGGTTTGGATTTTAAGGGTTTGGATTT
* * *
17523290 AA-GTTTCGATGGTTTTAGGGTTTGGTTTT
1 AAGGTTTGGAT--TTTAAGGGTTTGGATTT
* * *
17523319 AAGGTATGGAAGGTTT-AGGGTTTTGATTT
1 AAGGTTTGG-A-TTTTAAGGGTTTGGATTT
*
17523348 AAGGGTTTGGATTTTAAGGGTTTTGATTT
1 AA-GGTTTGGATTTTAAGGGTTTGGATTT
17523377 AAGAGTTT
1 AAG-GTTT
17523385 AAGGGTTTGG
Statistics
Matches: 77, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
27 7 0.09
28 6 0.08
29 50 0.65
30 13 0.17
31 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (28 bp):
AAGGTTTGGATTTTAAGGGTTTGGATTT
Found at i:17523408 original size:23 final size:22
Alignment explanation
Indices: 17523356--17523423 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
17523346 TTAAGGGTTT
*
17523356 GGATTTTAAGGGTTTTGATTTA
1 GGATTTTAAGGGTTTGGATTTA
* * *
17523378 AGAGTTTAAGGGTTTGGGATTTC
1 GGATTTTAAGGGTTT-GGATTTA
*
17523401 GGATTTTAGGGGGTTTTGGATTT
1 GGATTTTA-AGGG-TTTGGATTT
17523424 TAGCGGTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
22 13 0.36
23 11 0.31
24 9 0.25
25 3 0.08
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (22 bp):
GGATTTTAAGGGTTTGGATTTA
Found at i:17523454 original size:31 final size:32
Alignment explanation
Indices: 17523405--17523487 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 32
17523395 GATTTCGGAT
* *
17523405 TTTAGGGGGTTTTGGATTTTAGCGGTTT-AGA
1 TTTAAGGGATTTTGGATTTTAGCGGTTTCAGA
* * *
17523436 TTTAAGGGATTTTAGATTTTAGGGGTTTCGGA
1 TTTAAGGGATTTTGGATTTTAGCGGTTTCAGA
*
17523468 TTTTA-GGATTTTGGATTTTA
1 TTTAAGGGATTTTGGATTTTA
17523488 AGATTTTGGA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 38 0.86
32 6 0.14
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.48
Consensus pattern (32 bp):
TTTAAGGGATTTTGGATTTTAGCGGTTTCAGA
Found at i:17523468 original size:23 final size:23
Alignment explanation
Indices: 17523357--17523509 Score: 80
Period size: 23 Copynumber: 6.6 Consensus size: 23
17523347 TAAGGGTTTG
* * *
17523357 GATTTTAAGGGTTT-TGATTTAA
1 GATTTTAGGGGTTTAGGATTTTA
* * * **
17523379 GAGTTTAAGGGTTTGGGATTTCG
1 GATTTTAGGGGTTTAGGATTTTA
*
17523402 GATTTTAGGGGGTTTTGGATTTTA
1 GATTTTA-GGGGTTTAGGATTTTA
** *
17523426 GCGGTTTA--GATTTAAGGGATTTTA
1 G-ATTTTAGGGGTTT-A-GGATTTTA
*
17523450 GATTTTAGGGGTTTCGGATTTTA
1 GATTTTAGGGGTTTAGGATTTTA
** * *
17523473 GGATTTT-GGATTTTAAGATTTTG
1 -GATTTTAGGGGTTTAGGATTTTA
17523496 GATTTTAGGGGTTT
1 GATTTTAGGGGTTT
17523510 TAGAAACCTA
Statistics
Matches: 98, Mismatches: 24, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
22 23 0.23
23 39 0.40
24 28 0.29
25 8 0.08
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (23 bp):
GATTTTAGGGGTTTAGGATTTTA
Found at i:17523500 original size:62 final size:60
Alignment explanation
Indices: 17523353--17523513 Score: 162
Period size: 62 Copynumber: 2.6 Consensus size: 60
17523343 GATTTAAGGG
* * * *
17523353 TTTGGATTTTAAGGGTTTTGATTTAAGAGTTTAAGGGTTTGGGATTTCGGATTTTAGGGGGT
1 TTTGGATTTTAA-GGTTTTGATTTAAGGGTTTTAGAGTTTGGGATTTCGGATTTTA-GGGAT
* * * *
17523415 TTTGGATTTTAGCGGTTTAGATTTAAGGGATTTTAGATTTTAGGGGTTTCGGATTTTA-GGAT
1 TTTGGATTTTA-AGGTTTTGATTTAAGGG-TTTTAGAGTTT-GGGATTTCGGATTTTAGGGAT
* *
17523477 TTTGGATTTTAAGATTTTGGATTTTAGGGGTTTTAGA
1 TTTGGATTTTAAGGTTTT-GA-TTTAAGGGTTTTAGA
17523514 AACCTAGGAT
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
61 4 0.05
62 48 0.59
63 15 0.18
64 15 0.18
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.47
Consensus pattern (60 bp):
TTTGGATTTTAAGGTTTTGATTTAAGGGTTTTAGAGTTTGGGATTTCGGATTTTAGGGAT
Found at i:17524968 original size:3 final size:3
Alignment explanation
Indices: 17524960--17525030 Score: 65
Period size: 3 Copynumber: 24.0 Consensus size: 3
17524950 CTGTCTCCTT
**
17524960 TTA TTA TTA TTA TTA TTA TATA TT- TT- TTA AAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
17525004 ATA TTA TTA TTA AAA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
17525031 AACTAAAATG
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
2 4 0.07
3 47 0.87
4 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:17526248 original size:6 final size:6
Alignment explanation
Indices: 17526237--17526277 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
17526227 CTCTACTTTA
*
17526237 ATATTT ATATTT TTATATT ATATTT ATA-TT ATATTT ATATT
1 ATATTT ATATTT ATAT-TT ATATTT ATATTT ATATTT ATATT
17526278 AAATAGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 5 0.16
6 21 0.68
7 5 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATATTT
Found at i:17526264 original size:11 final size:11
Alignment explanation
Indices: 17526237--17526278 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
17526227 CTCTACTTTA
17526237 ATATTTATA-T
1 ATATTTATATT
17526247 -T-TTTATATT
1 ATATTTATATT
17526256 ATATTTATATT
1 ATATTTATATT
17526267 ATATTTATATT
1 ATATTTATATT
17526278 A
1 A
17526279 AATAGATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 6 0.21
9 2 0.07
10 1 0.03
11 20 0.69
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATATTTATATT
Found at i:17527617 original size:37 final size:39
Alignment explanation
Indices: 17527574--17527648 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 39
17527564 TTTAAATTGA
*
17527574 AAAATAATGATAA-ATTATTA-A-AATTATTAATT-TTAAG
1 AAAATAATAATAATA-TATTATATAA-TATTAATTATTAAG
17527611 AAAATAATAATAATATATTATATAATATTAATTATTAA
1 AAAATAATAATAATATATTATATAATATTAATTATTAA
17527649 AATAATGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
37 17 0.52
38 10 0.30
39 6 0.18
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (39 bp):
AAAATAATAATAATATATTATATAATATTAATTATTAAG
Found at i:17527637 original size:18 final size:17
Alignment explanation
Indices: 17527614--17527647 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17527604 TTTTAAGAAA
17527614 ATAATAATAATATATTAT
1 ATAATAATAAT-TATTAT
*
17527632 ATAATATTAATTATTA
1 ATAATAATAATTATTA
17527648 AAATAATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAATAATAATTATTAT
Found at i:17527968 original size:14 final size:14
Alignment explanation
Indices: 17527949--17527976 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17527939 AAGATATTAG
17527949 AATATTTTAATTTT
1 AATATTTTAATTTT
17527963 AATATTTTAATTTT
1 AATATTTTAATTTT
17527977 TTTTACGTAA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AATATTTTAATTTT
Found at i:17528587 original size:24 final size:23
Alignment explanation
Indices: 17528537--17528587 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
17528527 AGTTCGACCT
*
17528537 ATTTTTTAATTATATCATATGTT
1 ATTTTTTAATTATATCATATGTA
*
17528560 ATTTTTATATTTATAT-ATTATGTA
1 ATTTTT-TAATTATATCA-TATGTA
17528584 ATTT
1 ATTT
17528588 ATATCATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (23 bp):
ATTTTTTAATTATATCATATGTA
Found at i:17530030 original size:2 final size:2
Alignment explanation
Indices: 17530023--17530048 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17530013 TTATCACTTC
17530023 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17530049 TCATAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17539254 original size:23 final size:22
Alignment explanation
Indices: 17539228--17539274 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
17539218 TAAGTCTTCA
*
17539228 TTTTT-TTTCTCTTTCTTCTTCT
1 TTTTTCTTTCTATTTCTTCTT-T
*
17539250 TTTTTCTTTCTATTTTTTCTTT
1 TTTTTCTTTCTATTTCTTCTTT
17539272 TTT
1 TTT
17539275 CCACTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTCTATTTCTTCTTT
Found at i:17539282 original size:30 final size:29
Alignment explanation
Indices: 17539249--17539324 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 29
17539239 TTTCTTCTTC
17539249 TTTTTTCTTTCTATTTTTTCTTTTTTCCACT
1 TTTTTTCTTT-T-TTTTTTCTTTTTTCCACT
*
17539280 TTTTTTCTTTTTTTTTCTCTTCTTT---CT
1 TTTTTTCTTTTTTTTT-TCTTTTTTCCACT
*
17539307 TTTTTTCTCTTTTTTTTC
1 TTTTTTCTTTTTTTTTTC
17539325 ATCCATTAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 2 0.05
27 17 0.40
29 5 0.12
30 8 0.19
31 10 0.24
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTTTTCTTTTTTTTTTCTTTTTTCCACT
Found at i:17539294 original size:28 final size:28
Alignment explanation
Indices: 17539228--17539324 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 28
17539218 TAAGTCTTCA
17539228 TTTTTTTTCTCTT-TCTTCTTCTTTTT-TC
1 TTTTTTTTCTCTTCT-TTCTT-TTTTTCTC
* * *
17539256 TTTCTATTTTTTCTTTTTTCCACTTTTTT-TC
1 TTT-T-TTTTCTCTTCTTT-C-TTTTTTTCTC
17539287 TTTTTTTTTCTCTTCTTTCTTTTTTTCTC
1 -TTTTTTTTCTCTTCTTTCTTTTTTTCTC
17539316 TTTTTTTTC
1 TTTTTTTTC
17539325 ATCCATTAGC
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
28 18 0.32
29 4 0.07
30 21 0.37
31 10 0.18
32 4 0.07
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (28 bp):
TTTTTTTTCTCTTCTTTCTTTTTTTCTC
Found at i:17539304 original size:15 final size:14
Alignment explanation
Indices: 17539222--17539323 Score: 59
Period size: 16 Copynumber: 6.9 Consensus size: 14
17539212 GCAATTTAAG
*
17539222 TCTTCATTTTTTTTC
1 TCTTC-TTTTTTTTT
17539237 TCTTTCTTCTTCTTTTT
1 TC-TTCTT-TT-TTTTT
* *
17539254 TCTT-TCTATTTTT
1 TCTTCTTTTTTTTT
*
17539267 TCTT-TTTTCCACTTTT
1 TCTTCTTTT---TTTTT
17539283 T-TTCTTTTTTTTT
1 TCTTCTTTTTTTTT
17539296 CTCTTCTTTCTTTTTT
1 -TCTTCTTT-TTTTTT
17539312 TC-TCTTTTTTTT
1 TCTTCTTTTTTTT
17539324 CATCCATTAG
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
13 20 0.29
14 7 0.10
15 15 0.21
16 22 0.31
17 6 0.09
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTCTTTTTTTTT
Found at i:17539306 original size:37 final size:38
Alignment explanation
Indices: 17539246--17539322 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 38
17539236 CTCTTTCTTC
*
17539246 TTCTTTTTTCTTTCTATTTTTTCTTTTTTCCACTTTTT
1 TTCTTTTTTCTTTCTATTCTTTCTTTTTTCCACTTTTT
* * *
17539284 TTCTTTTTT-TTTCTCTTCTTTCTTTTTTTCTCTTTTT
1 TTCTTTTTTCTTTCTATTCTTTCTTTTTTCCACTTTTT
17539321 TT
1 TT
17539323 TCATCCATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
37 26 0.74
38 9 0.26
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (38 bp):
TTCTTTTTTCTTTCTATTCTTTCTTTTTTCCACTTTTT
Found at i:17539324 original size:19 final size:19
Alignment explanation
Indices: 17539229--17539324 Score: 95
Period size: 19 Copynumber: 5.0 Consensus size: 19
17539219 AAGTCTTCAT
*
17539229 TTTTTTTCTCTTTCTTCTTC
1 TTTTTTTCTCTTT-TTTTTC
* *
17539249 TTTTTTCTTTCTATTTTTTC
1 TTTTTT-TCTCTTTTTTTTC
* *
17539269 TTTTTTCCAC-TTTTTTTC
1 TTTTTTTCTCTTTTTTTTC
* * *
17539287 TTTTTTTTTCTCTTCTTTC
1 TTTTTTTCTCTTTTTTTTC
17539306 TTTTTTTCTCTTTTTTTTC
1 TTTTTTTCTCTTTTTTTTC
17539325 ATCCATTAGC
Statistics
Matches: 59, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.24
19 23 0.39
20 17 0.29
21 5 0.08
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTTCTCTTTTTTTTC
Found at i:17543461 original size:164 final size:165
Alignment explanation
Indices: 17543253--17543550 Score: 413
Period size: 164 Copynumber: 1.8 Consensus size: 165
17543243 AAATAATATG
* * * * * *
17543253 ACAATTATTTTTTATTGAAATTTCATTTAAATTCTTCCATCATTTGGGACGAATTT-AAAGAAAT
1 ACAATTATCTTTTATTAAAATTTCATCTAAATTATTCCATCATTTGGAACAAATTTCAAA-AAAT
* *
17543317 TTCTCACCTAGAGATTTCTTA-AGAATTTACCATTTGAAATTTCTAAGAATCTCATTATTGGATA
65 TTCTCACCTACAGATTTCTTAGA-AATTTACCATTTGAAATTTCTAAAAATCTCATTATTGGATA
17543381 ATTTATCAAATATTTTCAACCAAATTTGAAAAAGAAT
129 ATTTATCAAATATTTTCAACCAAATTTGAAAAAGAAT
* *
17543418 ACAATTA-CTTTTATTAAAATTTTATCTAAATTATTCCATCATTTGGAACAAATTTCGAAAAATT
1 ACAATTATCTTTTATTAAAATTTCATCTAAATTATTCCATCATTTGGAACAAATTTCAAAAAATT
* * * * * *
17543482 TTTCACTTACAGATTTCTTAGAAATTTATCGTTTGAAATTTTTAAAAATCTCATTATTGGGTAAT
66 TCTCACCTACAGATTTCTTAGAAATTTACCATTTGAAATTTCTAAAAATCTCATTATTGGATAAT
17543547 TTAT
131 TTAT
17543551 ATTTAATTCT
Statistics
Matches: 115, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
164 105 0.91
165 10 0.09
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (165 bp):
ACAATTATCTTTTATTAAAATTTCATCTAAATTATTCCATCATTTGGAACAAATTTCAAAAAATT
TCTCACCTACAGATTTCTTAGAAATTTACCATTTGAAATTTCTAAAAATCTCATTATTGGATAAT
TTATCAAATATTTTCAACCAAATTTGAAAAAGAAT
Found at i:17552251 original size:24 final size:24
Alignment explanation
Indices: 17552206--17552255 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
17552196 CTATCAAGTT
***
17552206 TTTAAAATAAGAAATTTTGCCCAA
1 TTTAAAATAAGAAATGAAGCCCAA
*
17552230 TTTAAAATCAGAAATGAAGCCCAA
1 TTTAAAATAAGAAATGAAGCCCAA
17552254 TT
1 TT
17552256 CTCAAGCTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (24 bp):
TTTAAAATAAGAAATGAAGCCCAA
Found at i:17555013 original size:24 final size:26
Alignment explanation
Indices: 17554986--17555034 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
17554976 CACCGACACG
17554986 ATATATTAATATT-ATAA-AATATTA
1 ATATATTAATATTAATAATAATATTA
* *
17555010 ATATTTTAATTTTAATAATAATATT
1 ATATATTAATATTAATAATAATATT
17555035 TAAATTACGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
ATATATTAATATTAATAATAATATTA
Found at i:17555031 original size:20 final size:20
Alignment explanation
Indices: 17555003--17555040 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17554993 AATATTATAA
* *
17555003 AATATTAATATTTTAATTTT
1 AATAATAATATTTAAATTTT
17555023 AATAATAATATTTAAATT
1 AATAATAATATTTAAATT
17555041 ACGATAGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATAATAATATTTAAATTTT
Found at i:17556482 original size:23 final size:25
Alignment explanation
Indices: 17556456--17556510 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 25
17556446 AATTTTTTTA
*
17556456 TTTTATTAAATTT-ATTTATAAT-T
1 TTTTATTAAATTTAAATTATAATAT
** *
17556479 TTTTAAAAAATTTAAATTATATTAT
1 TTTTATTAAATTTAAATTATAATAT
17556504 TTTTATT
1 TTTTATT
17556511 TTATTTTATA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 11 0.46
24 7 0.29
25 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTATTAAATTTAAATTATAATAT
Found at i:17560190 original size:2 final size:2
Alignment explanation
Indices: 17560174--17560215 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
17560164 GCCACAAGTC
*
17560174 AT AT -T AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17560215 A
1 A
17560216 GCGTTTAGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17560796 original size:57 final size:54
Alignment explanation
Indices: 17560735--17561020 Score: 268
Period size: 57 Copynumber: 5.0 Consensus size: 54
17560725 TTATATGAGA
* * * *
17560735 AAAATTGATACTTTCAACTTTTTAAGTATTTTTCTTTTGAAACTTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTAA-AAATATT-TTTTGAAATTTTTATTTTTAA-G
** *
17560792 AAAATTGATACTTTCAACTTTTTTAAAAAATATTTTTAAAAATTTTTATTTTGAACG
1 AAAATTGATACTTTCAAC-TTTTT-AAAAATATTTTTTGAAATTTTTATTTTTAA-G
* *
17560849 AAAATTGATACTTTCAACTTTTCCTTAAAATTATTTTTTTGAAATTTTTATTTTCAAG
1 AAAATTGATACTTTCAAC-TTT--TTAAAAATA-TTTTTTGAAATTTTTATTTTTAAG
* *
17560907 AAAGATTGATACTTTCAACTTTTCCTCAAAATATTTTTTGAAA-TTTTATTTTTAAAA
1 AAA-ATTGATACTTTCAACTTTT--TAAAAATATTTTTTGAAATTTTTATTTTT-AAG
* * *
17560964 AAAATCGATACTTTTAACTTTTTGTTAAAAATACTTTTTTTGAAATTTTTACTTTTA
1 AAAATTGATACTTTCAAC--TTT-TTAAAAATA--TTTTTTGAAATTTTTATTTTTA
17561021 TTATTTTTGT
Statistics
Matches: 194, Mismatches: 20, Indels: 28
0.80 0.08 0.12
Matches are distributed among these distances:
56 23 0.12
57 80 0.41
58 31 0.16
59 51 0.26
60 9 0.05
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (54 bp):
AAAATTGATACTTTCAACTTTTTAAAAATATTTTTTGAAATTTTTATTTTTAAG
Found at i:17560915 original size:116 final size:113
Alignment explanation
Indices: 17560734--17561019 Score: 328
Period size: 116 Copynumber: 2.5 Consensus size: 113
17560724 TTTATATGAG
* * *
17560734 AAAAATTGATACTTTCAAC-TTTTTAAGTATT-TTTCTTTTGAAACTTTTATTTTTAAGGAAAAT
1 AAAAATTGATACTTTCAACTTTTTTAA-AATTATTT-TTTTGAAATTTTTATTTTCAAGGAAAAT
* *
17560797 TGATACTTTCAACTTTT-TTAAAAAATATTTTTAAAAATTTTTATTTTGAAC
64 TGATACTTTCAACTTTTCCT-AAAAATATTTTTAAAAA-TTTTATTTTGAAA
*
17560848 GAAAATTGATACTTTCAACTTTTCCTTAAAATTATTTTTTTGAAATTTTTATTTTCAA-GAAAGA
1 AAAAATTGATACTTTCAACTTTT--TTAAAATTATTTTTTTGAAATTTTTATTTTCAAGGAAA-A
* ** *
17560912 TTGATACTTTCAACTTTTCCTCAAAATATTTTTTGAAATTTTATTTTTAAA
63 TTGATACTTTCAACTTTTCCTAAAAATATTTTTAAAAATTTTATTTTGAAA
* * *
17560963 AAAAATCGATACTTTTAACTTTTTGTTAAAAATACTTTTTTTGAAATTTTTACTTTT
1 AAAAATTGATACTTTCAAC-TTTT-TTAAAATTA-TTTTTTTGAAATTTTTA-TTTT
17561020 ATTATTTTTG
Statistics
Matches: 148, Mismatches: 15, Indels: 15
0.83 0.08 0.08
Matches are distributed among these distances:
114 18 0.12
115 42 0.28
116 76 0.51
117 12 0.08
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (113 bp):
AAAAATTGATACTTTCAACTTTTTTAAAATTATTTTTTTGAAATTTTTATTTTCAAGGAAAATTG
ATACTTTCAACTTTTCCTAAAAATATTTTTAAAAATTTTATTTTGAAA
Found at i:17561028 original size:27 final size:28
Alignment explanation
Indices: 17560998--17561053 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
17560988 TTAAAAATAC
* *
17560998 TTTTT-TTGAAATTTTTACTTTT-ATTA
1 TTTTTGTTCAAATTATTACTTTTAATTA
*
17561024 TTTTTGTTCAAATTATTATTTTTAATTA
1 TTTTTGTTCAAATTATTACTTTTAATTA
17561052 TT
1 TT
17561054 ACTATTGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.20
27 14 0.56
28 6 0.24
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (28 bp):
TTTTTGTTCAAATTATTACTTTTAATTA
Found at i:17562240 original size:15 final size:16
Alignment explanation
Indices: 17562215--17562247 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
17562205 TGAAACTCTG
17562215 TTTTTATTTATCTATT
1 TTTTTATTTATCTATT
*
17562231 TTTTTA-TTATTTATT
1 TTTTTATTTATCTATT
17562246 TT
1 TT
17562248 GAAAGCTATC
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:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTATTTATCTATT
Found at i:17562438 original size:2 final size:2
Alignment explanation
Indices: 17562426--17562455 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
17562416 TAGATTTATC
17562426 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17562456 ATCTTACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17562735 original size:10 final size:10
Alignment explanation
Indices: 17562716--17562748 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
17562706 TGTATAAAAC
17562716 TTTTAA-AAA
1 TTTTAATAAA
17562725 TTTTAATAAA
1 TTTTAATAAA
*
17562735 TTTTAATATA
1 TTTTAATAAA
17562745 TTTT
1 TTTT
17562749 TTAGAAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:17563573 original size:20 final size:22
Alignment explanation
Indices: 17563545--17563585 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
17563535 ATAAAATATT
17563545 AAAATTTTAATTTTA-ATAATC
1 AAAATTTTAATTTTAGATAATC
*
17563566 AAAA-TTTATTTTTAGATAAT
1 AAAATTTTAATTTTAGATAAT
17563586 TTTAAATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
AAAATTTTAATTTTAGATAATC
Found at i:17564100 original size:14 final size:14
Alignment explanation
Indices: 17564078--17564110 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
17564068 GAAAGTTCAG
*
17564078 CCAACAATCAATGA
1 CCAATAATCAATGA
17564092 CCAATAATCAATGA
1 CCAATAATCAATGA
17564106 CCAAT
1 CCAAT
17564111 CACATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.18
Consensus pattern (14 bp):
CCAATAATCAATGA
Found at i:17564428 original size:3 final size:3
Alignment explanation
Indices: 17564420--17564466 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
17564410 ATTTCAATTA
17564420 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
17564467 AGAGTAATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:17570549 original size:14 final size:14
Alignment explanation
Indices: 17570532--17570564 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
17570522 ATTTTAAATA
17570532 TTTTATTAAATTAT
1 TTTTATTAAATTAT
17570546 TTTTATTAAATTAT
1 TTTTATTAAATTAT
*
17570560 ATTTA
1 TTTTA
17570565 AAATTTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTATTAAATTAT
Found at i:17571467 original size:23 final size:23
Alignment explanation
Indices: 17571419--17571468 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
17571409 TTTTTAAACA
* *
17571419 TTTAAAATTTTTATTTTTTATAT
1 TTTAAAATTTATATTTTTGATAT
*
17571442 TTTAAAA-TTATATTTTATGATTT
1 TTTAAAATTTATATTTT-TGATAT
17571465 TTTA
1 TTTA
17571469 CTTTTTAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTAAAATTTATATTTTTGATAT
Found at i:17571544 original size:15 final size:15
Alignment explanation
Indices: 17571496--17571547 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
17571486 TCATGAAACT
*
17571496 TTAATTATATAAAAA
1 TTAATTATATTAAAA
** * *
17571511 TTTTTTAATTTTAATA
1 TTAATT-ATATTAAAA
17571527 TTAATTATATTAAAA
1 TTAATTATATTAAAA
17571542 TTAATT
1 TTAATT
17571548 TTTTTAATTT
Statistics
Matches: 27, Mismatches: 9, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
15 17 0.63
16 10 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAATTATATTAAAA
Found at i:17572465 original size:29 final size:30
Alignment explanation
Indices: 17572413--17572471 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
17572403 AATAAACAAA
*
17572413 TTTATAATTCAAATATCATATTAAAAATTT
1 TTTATAATTCAAATATCAAATTAAAAATTT
* * *
17572443 TTTATAATTTAAA-ATTAAATTAAATATTT
1 TTTATAATTCAAATATCAAATTAAAAATTT
17572472 CAATATAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (30 bp):
TTTATAATTCAAATATCAAATTAAAAATTT
Found at i:17575173 original size:27 final size:27
Alignment explanation
Indices: 17575127--17575178 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
17575117 ATTATAAACT
*
17575127 TATATTTTATTTGATAAATTGATTTTA
1 TATATTTTATTTGATAAATTAATTTTA
*
17575154 TATATTTATATTT-ATTAATTAATTT
1 TATATTT-TATTTGATAAATTAATTT
17575179 ATTAAATTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (27 bp):
TATATTTTATTTGATAAATTAATTTTA
Found at i:17578986 original size:12 final size:12
Alignment explanation
Indices: 17578971--17579044 Score: 58
Period size: 12 Copynumber: 6.2 Consensus size: 12
17578961 TGGAGGTGGG
17578971 GCTGGTGGAGGT
1 GCTGGTGGAGGT
*
17578983 GCTGGAGGAGGT
1 GCTGGTGGAGGT
** *
17578995 TTTGGTGGTGGT
1 GCTGGTGGAGGT
* *
17579007 GCTGGGGGCGGT
1 GCTGGTGGAGGT
** *
17579019 TTTGGTGGAGGA
1 GCTGGTGGAGGT
*
17579031 GCTGGTGGTGGT
1 GCTGGTGGAGGT
17579043 GC
1 GC
17579045 CGGCGGAGGG
Statistics
Matches: 44, Mismatches: 18, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
12 44 1.00
ACGTcount: A:0.07, C:0.08, G:0.57, T:0.28
Consensus pattern (12 bp):
GCTGGTGGAGGT
Found at i:17579000 original size:24 final size:24
Alignment explanation
Indices: 17578973--17579035 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
17578963 GAGGTGGGGC
17578973 TGGTGGAGGTGCTGGAGGAGGTTT
1 TGGTGGAGGTGCTGGAGGAGGTTT
* * *
17578997 TGGTGGTGGTGCTGGGGGCGGTTT
1 TGGTGGAGGTGCTGGAGGAGGTTT
*
17579021 TGGTGGAGGAGCTGG
1 TGGTGGAGGTGCTGG
17579036 TGGTGGTGCC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.08, C:0.06, G:0.57, T:0.29
Consensus pattern (24 bp):
TGGTGGAGGTGCTGGAGGAGGTTT
Found at i:17579029 original size:36 final size:36
Alignment explanation
Indices: 17578956--17579062 Score: 97
Period size: 36 Copynumber: 3.0 Consensus size: 36
17578946 AGGTGGGGGT
* * * ** *
17578956 GGTTTTGGAGGTGGGGCTGGTGGAGGTGCTGGAGGA
1 GGTTTTGGTGGTGGTGCTGGCGGAGGTTTTGGTGGA
* *
17578992 GGTTTTGGTGGTGGTGCTGGGGGCGGTTTTGGTGGA
1 GGTTTTGGTGGTGGTGCTGGCGGAGGTTTTGGTGGA
*** * *
17579028 GGAGCTGGTGGTGGTGCCGGCGGAGGGTTTGGTGG
1 GGTTTTGGTGGTGGTGCTGGCGGAGGTTTTGGTGG
17579063 TGGAATTGGG
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.07, C:0.07, G:0.58, T:0.28
Consensus pattern (36 bp):
GGTTTTGGTGGTGGTGCTGGCGGAGGTTTTGGTGGA
Found at i:17579035 original size:60 final size:60
Alignment explanation
Indices: 17578949--17579065 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
17578939 GTGCCAGAGG
* * * * *
17578949 TGGGGGTGGTTTTGGAGGTGGGGCTGGTGGAGGTGCTGGAGGAGGTTTTGGTGGTGGTGC
1 TGGGGGCGGTTTTGGAGGAGGAGCTGGTGGAGGTGCCGGAGGAGGGTTTGGTGGTGGTGC
* * *
17579009 TGGGGGCGGTTTTGGTGGAGGAGCTGGTGGTGGTGCCGGCGGAGGGTTTGGTGGTGG
1 TGGGGGCGGTTTTGGAGGAGGAGCTGGTGGAGGTGCCGGAGGAGGGTTTGGTGGTGG
17579066 AATTGGGAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.06, C:0.07, G:0.59, T:0.28
Consensus pattern (60 bp):
TGGGGGCGGTTTTGGAGGAGGAGCTGGTGGAGGTGCCGGAGGAGGGTTTGGTGGTGGTGC
Found at i:17579091 original size:30 final size:30
Alignment explanation
Indices: 17579056--17579225 Score: 171
Period size: 30 Copynumber: 5.7 Consensus size: 30
17579046 GGCGGAGGGT
* **
17579056 TTGGTGGTGGAATTGGGAAAGGAGGTGGTT
1 TTGGTGGTGGAATTGGCAAAGGAGGTGGAC
* * * *
17579086 TTGGTGGTGGGATTGGTAAGGGTGGTGGAC
1 TTGGTGGTGGAATTGGCAAAGGAGGTGGAC
* * *
17579116 TTGGTGGTGGCATTGGAAAAGGTGGTGGAC
1 TTGGTGGTGGAATTGGCAAAGGAGGTGGAC
* * * * *
17579146 TTGGTGGAGGAATTGGCAAGGGCGGAGGCC
1 TTGGTGGTGGAATTGGCAAAGGAGGTGGAC
* *
17579176 TTGGTGGTGGAATTGGCAAAGGAGGAGGAG
1 TTGGTGGTGGAATTGGCAAAGGAGGTGGAC
*
17579206 TTGGGGGTGGAATTGG-AAAG
1 TTGGTGGTGGAATTGGCAAAG
17579226 TGCTATTAAA
Statistics
Matches: 118, Mismatches: 22, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
29 4 0.03
30 114 0.97
ACGTcount: A:0.21, C:0.05, G:0.50, T:0.25
Consensus pattern (30 bp):
TTGGTGGTGGAATTGGCAAAGGAGGTGGAC
Found at i:17579121 original size:60 final size:60
Alignment explanation
Indices: 17579046--17579221 Score: 190
Period size: 60 Copynumber: 2.9 Consensus size: 60
17579036 TGGTGGTGCC
** * ** * * *
17579046 GGCGGAGGGTTTGGTGGTGGAATTGGGAAAGGAGGTGGTTTTGGTGGTGGGATTGGTAAG
1 GGCGGAGGACTTGGTGGTGGAATTGGAAAAGGAGGTGGACTTGGTGGAGGAATTGGCAAG
* * * *
17579106 GGTGGTGGACTTGGTGGTGGCATTGGAAAAGGTGGTGGACTTGGTGGAGGAATTGGCAAG
1 GGCGGAGGACTTGGTGGTGGAATTGGAAAAGGAGGTGGACTTGGTGGAGGAATTGGCAAG
* * * * * *
17579166 GGCGGAGGCCTTGGTGGTGGAATTGGCAAAGGAGGAGGAGTTGGGGGTGGAATTGG
1 GGCGGAGGACTTGGTGGTGGAATTGGAAAAGGAGGTGGACTTGGTGGAGGAATTGG
17579222 AAAGTGCTAT
Statistics
Matches: 94, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 94 1.00
ACGTcount: A:0.19, C:0.05, G:0.52, T:0.24
Consensus pattern (60 bp):
GGCGGAGGACTTGGTGGTGGAATTGGAAAAGGAGGTGGACTTGGTGGAGGAATTGGCAAG
Found at i:17579881 original size:15 final size:15
Alignment explanation
Indices: 17579861--17579890 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17579851 AATTATAAAA
*
17579861 AAAATAAAATAAATT
1 AAAATAAAAAAAATT
17579876 AAAATAAAAAAAATT
1 AAAATAAAAAAAATT
17579891 CAGCTGTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATAAAAAAAATT
Found at i:17580455 original size:35 final size:34
Alignment explanation
Indices: 17580414--17580505 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 34
17580404 ATAATAAGAT
*
17580414 ATAAAAATAAAAAAATAAAAATGATATGATTTAAA
1 ATAAAAATATAAAAATAAAAATGATAT-ATTTAAA
* * *
17580449 ATAAAAATATAAAGATAAAATAAGATATTTTTAAA
1 ATAAAAATATAAAAATAAAA-ATGATATATTTAAA
*
17580484 A-ATAAGATATAAAAATAAAAAT
1 ATA-AAAATATAAAAATAAAAAT
17580506 ATAAAATATA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
34 2 0.04
35 40 0.83
36 6 0.12
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.27
Consensus pattern (34 bp):
ATAAAAATATAAAAATAAAAATGATATATTTAAA
Found at i:17594304 original size:30 final size:30
Alignment explanation
Indices: 17594238--17594297 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
17594228 TGCTAAATTT
17594238 AACATTTAGAATTTTAGCTATCCCCACCTG
1 AACATTTAGAATTTTAGCTATCCCCACCTG
17594268 AACATTTAGAATTTTAGCTATCCCCACCTG
1 AACATTTAGAATTTTAGCTATCCCCACCTG
17594298 GGCATTTGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (30 bp):
AACATTTAGAATTTTAGCTATCCCCACCTG
Found at i:17599018 original size:16 final size:16
Alignment explanation
Indices: 17598997--17599043 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
17598987 TATTTTTAGT
17598997 TATTTATTTAATTTTA
1 TATTTATTTAATTTTA
* *
17599013 TATTTATATATATTTTT
1 TATTTATTTA-ATTTTA
17599030 TATTT-TTCTAATTT
1 TATTTATT-TAATTT
17599044 GGTTTTCCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTATTTAATTTTA
Found at i:17600205 original size:21 final size:23
Alignment explanation
Indices: 17600170--17600226 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
17600160 TTTCCCTTTG
17600170 TCTTTTTTT-GCTTTTT-TTAAAA
1 TCTTTTTTTAG-TTTTTCTTAAAA
* *
17600192 T-TTTTTTTAGTTTTTCTTTAAT
1 TCTTTTTTTAGTTTTTCTTAAAA
17600214 TCTTTTTTTAGTT
1 TCTTTTTTTAGTT
17600227 AGATAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 12 0.40
22 7 0.23
23 11 0.37
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.74
Consensus pattern (23 bp):
TCTTTTTTTAGTTTTTCTTAAAA
Found at i:17604327 original size:16 final size:16
Alignment explanation
Indices: 17604306--17604336 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17604296 CGGGTTTGTT
*
17604306 TTTTTTTTTTTTTATC
1 TTTTTTTATTTTTATC
17604322 TTTTTTTATTTTTAT
1 TTTTTTTATTTTTAT
17604337 ATATTTAATA
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:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTTATTTTTATC
Found at i:17612100 original size:27 final size:28
Alignment explanation
Indices: 17612050--17612105 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
17612040 ATATTTCTAA
17612050 ATTTTAAAAGTTAAATTAAATCGATTTT
1 ATTTTAAAAGTTAAATTAAATCGATTTT
* *
17612078 ATTTTAAAA-TTGAATTAATTCGATTTT
1 ATTTTAAAAGTTAAATTAAATCGATTTT
17612105 A
1 A
17612106 AATTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (28 bp):
ATTTTAAAAGTTAAATTAAATCGATTTT
Found at i:17612111 original size:27 final size:28
Alignment explanation
Indices: 17612053--17612112 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
17612043 TTTCTAAATT
**
17612053 TTAAAAGTTAAATTAAATCGATTTTATT
1 TTAAAAGTTAAATTAAATCGATTTTAAA
* *
17612081 TTAAAA-TTGAATTAATTCGATTTTAAA
1 TTAAAAGTTAAATTAAATCGATTTTAAA
17612108 TTAAA
1 TTAAA
17612113 TTTTATTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (28 bp):
TTAAAAGTTAAATTAAATCGATTTTAAA
Found at i:17622302 original size:87 final size:87
Alignment explanation
Indices: 17622156--17622331 Score: 334
Period size: 87 Copynumber: 2.0 Consensus size: 87
17622146 CGCACCCAAC
17622156 CTCGTGACGCCCTCATCACGGAGGTTGACCACCCTGCTTGCCTCTCTTTGAGGTACTTGACGTGG
1 CTCGTGACGCCCTCATCACGGAGGTTGACCACCCTGCTTGCCTCTCTTTGAGGTACTTGACGTGG
17622221 ATCGAACGGTTTAGGGTTAGTT
66 ATCGAACGGTTTAGGGTTAGTT
* *
17622243 CTCGTGACGCCCTCGTCATGGAGGTTGACCACCCTGCTTGCCTCTCTTTGAGGTACTTGACGTGG
1 CTCGTGACGCCCTCATCACGGAGGTTGACCACCCTGCTTGCCTCTCTTTGAGGTACTTGACGTGG
17622308 ATCGAACGGTTTAGGGTTAGTT
66 ATCGAACGGTTTAGGGTTAGTT
17622330 CT
1 CT
17622332 GATACCACTT
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.31
Consensus pattern (87 bp):
CTCGTGACGCCCTCATCACGGAGGTTGACCACCCTGCTTGCCTCTCTTTGAGGTACTTGACGTGG
ATCGAACGGTTTAGGGTTAGTT
Found at i:17623410 original size:22 final size:19
Alignment explanation
Indices: 17623385--17623433 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
17623375 AATTTATTAG
*
17623385 TTAATTATTAAGTAATTATAA
1 TTAATTATTAA-T-ATAATAA
17623406 TTTAATTA-TAATATAATAA
1 -TTAATTATTAATATAATAA
17623425 TTAATTATT
1 TTAATTATT
17623434 TGGTTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.28
19 7 0.28
20 1 0.04
21 3 0.12
22 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TTAATTATTAATATAATAA
Found at i:17628515 original size:56 final size:56
Alignment explanation
Indices: 17628425--17628537 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
17628415 AGTTTAATAT
*
17628425 ATATATAGTTACTTTTCAACCAAACACTCGAATATAACAATTTCAATTACTTATAA
1 ATATATAGTTACTTTTCAACCAAACACTCAAATATAACAATTTCAATTACTTATAA
*
17628481 ATATATAGTTACTTTTCAACCAAACACTCAAATATAACAATTTTAATTACTTATAA
1 ATATATAGTTACTTTTCAACCAAACACTCAAATATAACAATTTCAATTACTTATAA
17628537 A
1 A
17628538 ATTAGTAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (56 bp):
ATATATAGTTACTTTTCAACCAAACACTCAAATATAACAATTTCAATTACTTATAA
Found at i:17629379 original size:23 final size:22
Alignment explanation
Indices: 17629363--17629408 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
17629353 TAAATTTGAG
17629363 TAATTATTTTAAATAAATTCATA
1 TAATTATTTTAAATAAATT-ATA
* *
17629386 TAATTATTTTAAAAAAATAATA
1 TAATTATTTTAAATAAATTATA
17629408 T
1 T
17629409 TTAATAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TAATTATTTTAAATAAATTATA
Found at i:17634044 original size:3 final size:3
Alignment explanation
Indices: 17634031--17634070 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
17634021 ATTTTTGAAA
*
17634031 TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
17634071 TTAAAAGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:17634775 original size:16 final size:16
Alignment explanation
Indices: 17634737--17634780 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
17634727 TTCCCTCATC
* *
17634737 TCTTCTTCTCATTTCTT
1 TCTTTTTCTC-TTTCCT
*
17634754 TTTTTTTCTCTTTCCT
1 TCTTTTTCTCTTTCCT
17634770 TCTTTTTCTCT
1 TCTTTTTCTCT
17634781 CTTTCTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.70
Consensus pattern (16 bp):
TCTTTTTCTCTTTCCT
Found at i:17634775 original size:17 final size:17
Alignment explanation
Indices: 17634742--17634785 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
17634732 TCATCTCTTC
*
17634742 TTCTCATTT-CTTTTTTT
1 TTCTC-TTTCCTTCTTTT
17634759 TTCTCTTTCCTTCTTTT
1 TTCTCTTTCCTTCTTTT
17634776 TCTCTCTTTC
1 T-TCTCTTTC
17634786 TTTTTTCCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 13 0.54
18 8 0.33
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.70
Consensus pattern (17 bp):
TTCTCTTTCCTTCTTTT
Found at i:17634788 original size:14 final size:15
Alignment explanation
Indices: 17634749--17634790 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
17634739 TTCTTCTCAT
*
17634749 TTCTTTTTTTTTCTC
1 TTCTTTCTTTTTCTC
*
17634764 TTTCCTTCTTTTTCTC
1 -TTCTTTCTTTTTCTC
17634780 -TCTTTCTTTTT
1 TTCTTTCTTTTT
17634791 TCCCCTACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 10 0.43
16 13 0.57
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTTTCTTTTTCTC
Found at i:17634791 original size:16 final size:16
Alignment explanation
Indices: 17634743--17634791 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 16
17634733 CATCTCTTCT
*
17634743 TCTCATTTCTTTTTTTT
1 TCTC-TTTCTTTTTTTC
17634760 TCTCTTTCCTTCTTTTTC
1 TCTCTTT-CTT-TTTTTC
17634778 TCTCTTTCTTTTTT
1 TCTCTTTCTTTTTT
17634792 CCCCTACCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 7 0.24
17 10 0.34
18 12 0.41
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (16 bp):
TCTCTTTCTTTTTTTC
Found at i:17636506 original size:20 final size:18
Alignment explanation
Indices: 17636481--17636518 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
17636471 TTTTGCATGA
17636481 ATTTGCATGACTAATATTAT
1 ATTTGCATGA-TAAT-TTAT
17636501 ATTTGCATGATAATTTAT
1 ATTTGCATGATAATTTAT
17636519 TTGCCTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (18 bp):
ATTTGCATGATAATTTAT
Found at i:17636535 original size:17 final size:17
Alignment explanation
Indices: 17636494--17636538 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
17636484 TGCATGACTA
*
17636494 ATATTATATTTGCATGAT
1 ATATT-TATTTGCATAAT
*
17636512 A-ATTTATTTGCCTAAT
1 ATATTTATTTGCATAAT
17636528 ATATTTATTTG
1 ATATTTATTTG
17636539 TGTGATTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 11 0.46
17 12 0.50
18 1 0.04
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (17 bp):
ATATTTATTTGCATAAT
Found at i:17636574 original size:24 final size:24
Alignment explanation
Indices: 17636547--17636851 Score: 246
Period size: 24 Copynumber: 13.2 Consensus size: 24
17636537 TGTGTGATTG
17636547 ATTTAATTGCATGATTATTAATAT
1 ATTTAATTGCATGATTATTAATAT
* **
17636571 ATTTATTTGTGTGATTTATTAATAT
1 ATTTAATTGCATGA-TTATTAATAT
*
17636596 A--T--TTGCATGATTACTAATAT
1 ATTTAATTGCATGATTATTAATAT
* * *
17636616 ATTTATTTGTATGATTA-T-ATTT
1 ATTTAATTGCATGATTATTAATAT
* *
17636638 AATTTGATTGCATGATTGTTAATAT
1 -ATTTAATTGCATGATTATTAATAT
* * * *
17636663 ATTTATTTGTATAATTA-T-ATTT
1 ATTTAATTGCATGATTATTAATAT
*
17636685 AATTTGATTGCATGATTATTAATAT
1 -ATTTAATTGCATGATTATTAATAT
* * * *
17636710 ATTTATTTGTATAATTA-T-ATTT
1 ATTTAATTGCATGATTATTAATAT
*
17636732 AATTTGATTGCATGATTATTAATAT
1 -ATTTAATTGCATGATTATTAATAT
*
17636757 ATTTAATTGCTTGATTATTAATAT
1 ATTTAATTGCATGATTATTAATAT
* * *
17636781 ATTTATTTG--T-ATGATTCA-AT
1 ATTTAATTGCATGATTATTAATAT
17636801 -TTT-ATTGCATGATTATTAATAT
1 ATTTAATTGCATGATTATTAATAT
*
17636823 ATTTAATTGCATAATTATTAATAT
1 ATTTAATTGCATGATTATTAATAT
17636847 ATTTA
1 ATTTA
17636852 TCTGTGTGAT
Statistics
Matches: 218, Mismatches: 43, Indels: 40
0.72 0.14 0.13
Matches are distributed among these distances:
18 3 0.01
19 3 0.01
20 13 0.06
21 18 0.08
22 13 0.06
23 46 0.21
24 102 0.47
25 20 0.09
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.54
Consensus pattern (24 bp):
ATTTAATTGCATGATTATTAATAT
Found at i:17636652 original size:23 final size:23
Alignment explanation
Indices: 17636626--17636750 Score: 105
Period size: 23 Copynumber: 5.3 Consensus size: 23
17636616 ATTTATTTGT
17636626 ATGATTATATTTAATTTGATTGC
1 ATGATTATATTTAATTTGATTGC
* * *
17636649 ATGATTGT-TAATATATTT-ATTTGT
1 ATGATTATAT-TTA-ATTTGA-TTGC
*
17636673 ATAATTATATTTAATTTGATTGC
1 ATGATTATATTTAATTTGATTGC
* *
17636696 ATGATTAT-TAATATATTT-ATTTGT
1 ATGATTATAT-TTA-ATTTGA-TTGC
*
17636720 ATAATTATATTTAATTTGATTGC
1 ATGATTATATTTAATTTGATTGC
17636743 ATGATTAT
1 ATGATTAT
17636751 TAATATATTT
Statistics
Matches: 78, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
22 2 0.03
23 41 0.53
24 33 0.42
25 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.54
Consensus pattern (23 bp):
ATGATTATATTTAATTTGATTGC
Found at i:17636661 original size:47 final size:47
Alignment explanation
Indices: 17636547--17636774 Score: 338
Period size: 47 Copynumber: 4.9 Consensus size: 47
17636537 TGTGTGATTG
* *
17636547 ATTTAATTGCATGATTATTAATATATTTATTTGTGTGATT-TA-TTA
1 ATTTGATTGCATGATTATTAATATATTTATTTGTATGATTATATTTA
* *
17636592 ATAT-ATTTGCATGATTACTAATATATTTATTTGTATGATTATATTTA
1 ATTTGA-TTGCATGATTATTAATATATTTATTTGTATGATTATATTTA
* *
17636639 ATTTGATTGCATGATTGTTAATATATTTATTTGTATAATTATATTTA
1 ATTTGATTGCATGATTATTAATATATTTATTTGTATGATTATATTTA
*
17636686 ATTTGATTGCATGATTATTAATATATTTATTTGTATAATTATATTTA
1 ATTTGATTGCATGATTATTAATATATTTATTTGTATGATTATATTTA
*
17636733 ATTTGATTGCATGATTATTAATATATTTAATTGCT-TGATTAT
1 ATTTGATTGCATGATTATTAATATATTTATTTG-TATGATTAT
17636775 TAATATATTT
Statistics
Matches: 168, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
44 1 0.01
45 35 0.21
46 2 0.01
47 128 0.76
48 2 0.01
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.54
Consensus pattern (47 bp):
ATTTGATTGCATGATTATTAATATATTTATTTGTATGATTATATTTA
Found at i:17636892 original size:18 final size:18
Alignment explanation
Indices: 17636858--17636896 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17636848 TTTATCTGTG
*
17636858 TGATTATATTTGATTGCA
1 TGATTATATATGATTGCA
17636876 TGATTATATAT-ATTTGCA
1 TGATTATATATGA-TTGCA
17636894 TGA
1 TGA
17636897 ATGATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (18 bp):
TGATTATATATGATTGCA
Found at i:17636957 original size:51 final size:51
Alignment explanation
Indices: 17636860--17636955 Score: 119
Period size: 49 Copynumber: 1.9 Consensus size: 51
17636850 TATCTGTGTG
* *
17636860 ATTATATTTGATTGCATGATTATATATATTTGCATGAATGATTTTTATAGT
1 ATTATATTTGATTGCATGATCATATATATTTGCATGAATAATTTTTATAGT
17636911 ATTATA-TT-ATTGCATGATCAT-TAATATTATTGCATG-ATAATTTTT
1 ATTATATTTGATTGCATGATCATAT-ATA-T-TTGCATGAATAATTTTT
17636956 TACATGGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
48 1 0.03
49 15 0.38
50 11 0.28
51 13 0.32
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (51 bp):
ATTATATTTGATTGCATGATCATATATATTTGCATGAATAATTTTTATAGT
Found at i:17636993 original size:12 final size:12
Alignment explanation
Indices: 17636976--17637036 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
17636966 GATTTTATAT
17636976 TATTGCATGATA
1 TATTGCATGATA
*
17636988 TATTGCATGGTA
1 TATTGCATGATA
17637000 TGATT-C-T-ATA
1 T-ATTGCATGATA
* *
17637010 TTATTGCACGATT
1 -TATTGCATGATA
17637023 TATTGCATGATA
1 TATTGCATGATA
17637035 TA
1 TA
17637037 ATTCTATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
10 5 0.13
11 3 0.08
12 25 0.66
13 5 0.13
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (12 bp):
TATTGCATGATA
Found at i:17637004 original size:35 final size:35
Alignment explanation
Indices: 17636934--17637092 Score: 169
Period size: 35 Copynumber: 4.4 Consensus size: 35
17636924 ATGATCATTA
* * *
17636934 ATATTATTGCATGATAATTTTTTACATGGTATGATTTT
1 ATATTATTGCATGAT-A--TATTGCATGGTATGATTCT
17636972 ATATTATTGCATGATATATTGCATGGTATGATTCT
1 ATATTATTGCATGATATATTGCATGGTATGATTCT
* * * *
17637007 ATATTATTGCACGATTTATTGCATGATATAATTCT
1 ATATTATTGCATGATATATTGCATGGTATGATTCT
*
17637042 ATATTATTGCATTAGT-TATTGCATGGTATGATT-T
1 ATATTATTGCATGA-TATATTGCATGGTATGATTCT
*
17637076 AATATTTATTACATGAT
1 -ATA-TTATTGCATGAT
17637093 TGTCTGATAT
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
34 1 0.01
35 78 0.74
36 10 0.10
37 1 0.01
38 15 0.14
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (35 bp):
ATATTATTGCATGATATATTGCATGGTATGATTCT
Found at i:17640026 original size:20 final size:20
Alignment explanation
Indices: 17640001--17640058 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
17639991 TGCAAGAATG
17640001 TCATGCAAATATATTAATTA
1 TCATGCAAATATATTAATTA
* *
17640021 TCATGC-AATAATATAAAATA
1 TCATGCAAAT-ATATTAATTA
*
17640041 CCATGCAAATATATTAAT
1 TCATGCAAATATATTAAT
17640059 AACCATTCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.34
Consensus pattern (20 bp):
TCATGCAAATATATTAATTA
Found at i:17640059 original size:26 final size:24
Alignment explanation
Indices: 17640028--17640090 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
17640018 TTATCATGCA
17640028 ATAATATAAAATACCATGCAAATAT
1 ATAATATAAAAT-CCATGCAAATAT
** *
17640053 ATTAATA-ACCATTCATGCAAATAT
1 A-TAATATAAAATCCATGCAAATAT
17640077 ATAATCATAAAATC
1 ATAAT-ATAAAATC
17640091 AAATATAATC
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
23 4 0.14
24 13 0.45
25 7 0.24
26 5 0.17
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.30
Consensus pattern (24 bp):
ATAATATAAAATCCATGCAAATAT
Found at i:17640234 original size:24 final size:23
Alignment explanation
Indices: 17640181--17640236 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 23
17640171 AATATCATTC
*
17640181 AAATATAATACTAATCATGCAAT
1 AAATATAATACTAATCATGAAAT
17640204 AAGATATAATA-TCATATCATGAAAT
1 AA-ATATAATACT-A-ATCATGAAAT
17640229 AAATATAA
1 AAATATAA
17640237 AATTATGCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 3 0.10
24 15 0.52
25 11 0.38
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.30
Consensus pattern (23 bp):
AAATATAATACTAATCATGAAAT
Found at i:17640342 original size:21 final size:23
Alignment explanation
Indices: 17640317--17640375 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
17640307 ATAAATTAAT
* *
17640317 AATCATGC-AATTAACA-ATGTA
1 AATCATGCAAATAAACATATATA
17640338 AATCATGCAAATAAACATATATA
1 AATCATGCAAATAAACATATATA
*
17640361 AATCATACAAATAAA
1 AATCATGCAAATAAA
17640376 TATGCAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 8 0.24
22 7 0.21
23 18 0.55
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (23 bp):
AATCATGCAAATAAACATATATA
Found at i:17640363 original size:55 final size:55
Alignment explanation
Indices: 17640321--17640459 Score: 160
Period size: 55 Copynumber: 2.5 Consensus size: 55
17640311 ATTAATAATC
* *
17640321 ATGCAATTAACA-ATGTAAATCATGCAAATAA-ACATATATAAATCATACAAATAAAT
1 ATGCAATTAA-ATATAT-AATCATGCAAATAATA-ATATATAAATCAAACAAATAAAT
****
17640377 ATGCAATTAAATATATAATCATGCAAATAATAATATATAAATTTTTCAAA-AAA-
1 ATGCAATTAAATATATAATCATGCAAATAATAATATATAAATCAAACAAATAAAT
*
17640430 ATGCAATTAAATTTATAATCATGCAAATAA
1 ATGCAATTAAATATATAATCATGCAAATAA
17640460 ATATATTAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
53 29 0.38
54 3 0.04
55 30 0.39
56 14 0.18
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (55 bp):
ATGCAATTAAATATATAATCATGCAAATAATAATATATAAATCAAACAAATAAAT
Found at i:17640381 original size:35 final size:33
Alignment explanation
Indices: 17640336--17640406 Score: 90
Period size: 32 Copynumber: 2.1 Consensus size: 33
17640326 ATTAACAATG
17640336 TAAATCATGCAAATAAACATATATAAATCATACAAA
1 TAAATCATGC-AATAAA-ATATAT-AATCATACAAA
* *
17640372 TAAAT-ATGCAATTAAATATATAATCATGCAAA
1 TAAATCATGCAATAAAATATATAATCATACAAA
17640404 TAA
1 TAA
17640407 TAATATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 13 0.39
33 6 0.18
34 5 0.15
35 4 0.12
36 5 0.15
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.28
Consensus pattern (33 bp):
TAAATCATGCAATAAAATATATAATCATACAAA
Found at i:17640440 original size:53 final size:55
Alignment explanation
Indices: 17640321--17640465 Score: 181
Period size: 53 Copynumber: 2.7 Consensus size: 55
17640311 ATTAATAATC
*
17640321 ATGCAATTAACA-ATGTAAATCATGCAAATAAACATATATAAATCATACAAATAAAT
1 ATGCAATTAA-ATATAT-AATCATGCAAATAAACATATATAAATCATACAAATAAAT
** *
17640377 ATGCAATTAAATATATAATCATGCAAATAATA-ATATATAAATTTTTCAAA-AAA-
1 ATGCAATTAAATATATAATCATGCAAATAA-ACATATATAAATCATACAAATAAAT
* *
17640430 ATGCAATTAAATTTATAATCATGCAAATAAATATAT
1 ATGCAATTAAATATATAATCATGCAAATAAACATAT
17640466 TAATAATCAT
Statistics
Matches: 81, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
52 1 0.01
53 33 0.41
54 3 0.04
55 30 0.37
56 14 0.17
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.32
Consensus pattern (55 bp):
ATGCAATTAAATATATAATCATGCAAATAAACATATATAAATCATACAAATAAAT
Found at i:17640455 original size:20 final size:20
Alignment explanation
Indices: 17640430--17640568 Score: 62
Period size: 21 Copynumber: 6.3 Consensus size: 20
17640420 TTTCAAAAAA
17640430 ATGCAATTAAATTTATAATC
1 ATGCAATTAAATTTATAATC
*
17640450 ATGCAAATAAATATATTAATAATC
1 ATGC-AATTAA-AT-TT-ATAATC
*
17640474 ATGCAATCAAATTAAATATAATC
1 ATGCAATTAAATT---TATAATC
* *
17640497 ATACAAATAAATATATTAATAATC
1 ATGC-AATTAA-AT-TT-ATAATC
* * *
17640521 ATGCAAATATATTAATAAATC
1 ATGCAATTAAATTTAT-AATC
* * * *
17640542 ATACAAATAAATATATTAAAC
1 ATGCAATTAAATTTA-TAATC
17640563 ATGCAA
1 ATGCAA
17640569 ACAAATATAT
Statistics
Matches: 91, Mismatches: 15, Indels: 25
0.69 0.11 0.19
Matches are distributed among these distances:
20 6 0.07
21 30 0.33
22 7 0.08
23 20 0.22
24 25 0.27
25 2 0.02
26 1 0.01
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.32
Consensus pattern (20 bp):
ATGCAATTAAATTTATAATC
Found at i:17640471 original size:24 final size:24
Alignment explanation
Indices: 17640444--17640580 Score: 141
Period size: 24 Copynumber: 6.0 Consensus size: 24
17640434 AATTAAATTT
17640444 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
*
17640468 ATAATCATGC-AATCAAAT-TA-AA
1 ATAATCATGCAAAT-AAATATATTA
*
17640490 TATAATCATACAAATAAATATATTA
1 -ATAATCATGCAAATAAATATATTA
17640515 ATAATCATGC----AAATATATTA
1 ATAATCATGCAAATAAATATATTA
*
17640535 ATAAATCATACAAATAAATATATT-
1 AT-AATCATGCAAATAAATATATTA
*
17640559 A-AA-CATGCAAACAAATATATTA
1 ATAATCATGCAAATAAATATATTA
17640581 GGCAAATAAA
Statistics
Matches: 95, Mismatches: 7, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
20 12 0.13
21 23 0.24
22 3 0.03
23 18 0.19
24 29 0.31
25 10 0.11
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.31
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:17640504 original size:47 final size:47
Alignment explanation
Indices: 17640434--17640560 Score: 188
Period size: 47 Copynumber: 2.7 Consensus size: 47
17640424 AAAAAAATGC
*
17640434 AATTAAATTTATAATCATGCAAATAAATATATTAATAATCATGC-AATCA
1 AATTAAA--TATAATCATACAAATAAATATATTAATAATCATGCAAAT-A
17640483 AATTAAATATAATCATACAAATAAATATATTAATAATCATGCAAATA
1 AATTAAATATAATCATACAAATAAATATATTAATAATCATGCAAATA
*
17640530 TATT-AATA-AATCATACAAATAAATATATTAA
1 AATTAAATATAATCATACAAATAAATATATTAA
17640561 ACATGCAAAC
Statistics
Matches: 75, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
45 23 0.31
46 4 0.05
47 38 0.51
48 3 0.04
49 7 0.09
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (47 bp):
AATTAAATATAATCATACAAATAAATATATTAATAATCATGCAAATA
Found at i:17640543 original size:21 final size:21
Alignment explanation
Indices: 17640505--17640569 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
17640495 TCATACAAAT
17640505 AAATATATTAAT-AATCATGC
1 AAATATATTAATAAATCATGC
*
17640525 AAATATATTAATAAATCATAC
1 AAATATATTAATAAATCATGC
* *
17640546 AAATAAATATATTAAA-CATGC
1 AAATATAT-TAATAAATCATGC
17640567 AAA
1 AAA
17640570 CAAATATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
20 12 0.31
21 21 0.54
22 6 0.15
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (21 bp):
AAATATATTAATAAATCATGC
Found at i:17641185 original size:18 final size:18
Alignment explanation
Indices: 17641164--17641201 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
17641154 ATGCAAAATC
17641164 CCTTTTTTT-TTATTTTTA
1 CCTTTTTTTATT-TTTTTA
17641182 CCTTTTTTTATTTTTTTA
1 CCTTTTTTTATTTTTTTA
17641200 CC
1 CC
17641202 AATTGACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (18 bp):
CCTTTTTTTATTTTTTTA
Found at i:17641887 original size:42 final size:44
Alignment explanation
Indices: 17641802--17641894 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 44
17641792 TAGCAAAAAT
* *
17641802 TTTTCAAATGCAAACCTTTAAATCTTAAATGTGAATCTCTAAGA
1 TTTTCAAATGAAAACCTTTAAATCTTAAATGTGAACCTCTAAGA
** * *
17641846 TTTTCAAATGAAAACC-TT-AATCTTGGATTTGAACCTTTAAGA
1 TTTTCAAATGAAAACCTTTAAATCTTAAATGTGAACCTCTAAGA
*
17641888 GTTTCAA
1 TTTTCAA
17641895 TTGCGAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 25 0.60
43 2 0.05
44 15 0.36
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (44 bp):
TTTTCAAATGAAAACCTTTAAATCTTAAATGTGAACCTCTAAGA
Found at i:17641978 original size:19 final size:18
Alignment explanation
Indices: 17641944--17642031 Score: 79
Period size: 18 Copynumber: 4.7 Consensus size: 18
17641934 TTTCAAATAT
*
17641944 AAATATTTGAAATCTTTCGC
1 AAATCTTTG-AATCTTT-GC
*
17641964 AAATCTTTGAATCTTTGT
1 AAATCTTTGAATCTTTGC
*
17641982 GAATCTTTGAATTCTTTGC
1 AAATCTTTGAA-TCTTTGC
* **
17642001 GAAT-TTAAAATCTTTTGC
1 AAATCTTTGAATC-TTTGC
17642019 AAATCTTTGAATC
1 AAATCTTTGAATC
17642032 ACTTATGAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
17 2 0.04
18 23 0.41
19 23 0.41
20 8 0.14
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (18 bp):
AAATCTTTGAATCTTTGC
Found at i:17641988 original size:18 final size:18
Alignment explanation
Indices: 17641965--17642158 Score: 101
Period size: 18 Copynumber: 10.6 Consensus size: 18
17641955 ATCTTTCGCA
17641965 AATCTTTGAATCTTTGTG
1 AATCTTTGAATCTTTGTG
*
17641983 AATCTTTGAATTCTTTGCG
1 AATCTTTGAA-TCTTTGTG
**
17642002 AAT-TTAAAATCTTT-TG
1 AATCTTTGAATCTTTGTG
* *
17642018 CAAATCTTTGAATCACTTATG
1 --AATCTTTGAATC-TTTGTG
* * *
17642039 AATTTTTGATTTTTTGTG
1 AATCTTTGAATCTTTGTG
* **
17642057 AATC-TTGAATTTTTACG
1 AATCTTTGAATCTTTGTG
* * **
17642074 AATTTTTGAATCACTTGCA
1 AATCTTTGAATC-TTTGTG
* *
17642093 AATATTTGAAATTCTTTATG
1 AATCTTTG-AA-TCTTTGTG
*
17642113 AATC-TTAAATCTTTTGTG
1 AATCTTTGAATC-TTTGTG
* *
17642131 AATTTTTGAATCTTTGAG
1 AATCTTTGAATCTTTGTG
17642149 AATC-TTGAAT
1 AATCTTTGAAT
17642159 TTTTTACAAA
Statistics
Matches: 131, Mismatches: 33, Indels: 25
0.69 0.17 0.13
Matches are distributed among these distances:
16 1 0.01
17 26 0.20
18 48 0.37
19 43 0.33
20 9 0.07
21 4 0.03
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.48
Consensus pattern (18 bp):
AATCTTTGAATCTTTGTG
Found at i:17642021 original size:55 final size:56
Alignment explanation
Indices: 17641953--17642159 Score: 183
Period size: 55 Copynumber: 3.8 Consensus size: 56
17641943 TAAATATTTG
* * *
17641953 AAATCTTTCGCAAATCTTTGAATC-TTTGTGAATCTTTGAATTCTTTGCGAAT-TT
1 AAATCTTTTGCAAATCTTTGAATCACTTGTGAATCTTTGAATTCTTTGTGAATCTT
* * *
17642007 AAAATCTTTTGCAAATCTTTGAATCACTTATGAATTTTTG-ATTTTTTGTGAATCTT
1 -AAATCTTTTGCAAATCTTTGAATCACTTGTGAATCTTTGAATTCTTTGTGAATCTT
* * * * ** * *
17642063 GAAT-TTTTACGAATTTTTGAATCACTTGCAAATATTTGAAATTCTTTATGAATCTT
1 AAATCTTTTGCAAATCTTTGAATCACTTGTGAATCTTTG-AATTCTTTGTGAATCTT
** * * *
17642119 AAATCTTTTGTGAATTTTTGAATC-TTTGAGAATC-TTGAATT
1 AAATCTTTTGCAAATCTTTGAATCACTTGTGAATCTTTGAATT
17642160 TTTTACAAAT
Statistics
Matches: 124, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
54 31 0.25
55 40 0.32
56 36 0.29
57 17 0.14
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (56 bp):
AAATCTTTTGCAAATCTTTGAATCACTTGTGAATCTTTGAATTCTTTGTGAATCTT
Found at i:17642112 original size:74 final size:74
Alignment explanation
Indices: 17641973--17642145 Score: 176
Period size: 74 Copynumber: 2.4 Consensus size: 74
17641963 CAAATCTTTG
* ** *
17641973 AATC-TTTGTGAATCTTTGAATTCTTTGCGAATTTAAAATCTTTTGCAAATCTTTGAATCACTTA
1 AATCTTTTGTGAATCTTTGAATTCTTTACGAATTTAAAATCACTTGCAAATATTTGAATCACTTA
* *
17642037 TGAATTTTT
66 TGAATCTTA
* * ** *
17642046 GATTTTTTGTGAATC-TTGAATT-TTTACGAATTTTTGAATCACTTGCAAATATTTGAAATTC-T
1 AATCTTTTGTGAATCTTTGAATTCTTTACGAA-TTTAAAATCACTTGCAAATATTTG-AA-TCAC
17642108 TTATGAATCTTA
63 TTATGAATCTTA
*
17642120 AATCTTTTGTGAATTTTTGAA-TCTTT
1 AATCTTTTGTGAATCTTTGAATTCTTT
17642146 GAGAATCTTG
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
72 7 0.09
73 28 0.35
74 35 0.44
75 10 0.12
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (74 bp):
AATCTTTTGTGAATCTTTGAATTCTTTACGAATTTAAAATCACTTGCAAATATTTGAATCACTTA
TGAATCTTA
Found at i:17642229 original size:90 final size:91
Alignment explanation
Indices: 17642051--17642230 Score: 222
Period size: 90 Copynumber: 2.0 Consensus size: 91
17642041 TTTTTGATTT
* * * * *
17642051 TTTGTGAATCTTGAATTTTTACGAATTTTTGAATCACTTGCAAATATTTGAAATTCTTTATGAAT
1 TTTGAGAATCTTGAATTTTTACAAATCTTT-AATCAATTGCAAATATTTGAAATTCTTTATAAAT
* **
17642116 CTTAAATCTTTTGTGAATTTTTGAATC
65 CTTAAATCTTTTGCGAACCTTTGAATC
*
17642143 TTTGAGAATCTTGAATTTTTTACAAATCTTT-AT-AATTGCAAA-ACTTTGAAATTCTTTGTAAA
1 TTTGAGAATCTTGAA-TTTTTACAAATCTTTAATCAATTGCAAATA-TTTGAAATTCTTTATAAA
*
17642205 TCTTGAATCTTTTGCGAACCTTTGAA
64 TCTTAAATCTTTTGCGAACCTTTGAA
17642231 ACGTTATCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
89 1 0.01
90 46 0.61
91 2 0.03
92 14 0.18
93 13 0.17
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.47
Consensus pattern (91 bp):
TTTGAGAATCTTGAATTTTTACAAATCTTTAATCAATTGCAAATATTTGAAATTCTTTATAAATC
TTAAATCTTTTGCGAACCTTTGAATC
Found at i:17642277 original size:37 final size:36
Alignment explanation
Indices: 17642236--17642326 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 36
17642226 TTGAAACGTT
* *
17642236 ATCTTGAATCTC-TTGTGAATTTTTGTATTTTTTACGA
1 ATCTTGAATCTCTTTGTGAA-TCTTG-AATTTTTACGA
*
17642273 ATCTTGAAT-TCTTTGTGAATCTTGAATTTTTAGGA
1 ATCTTGAATCTCTTTGTGAATCTTGAATTTTTACGA
*
17642308 ATCTTGAATCT-TTTATGAA
1 ATCTTGAATCTCTTTGTGAA
17642327 CCTTAAACTT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
35 25 0.52
36 7 0.15
37 16 0.33
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.51
Consensus pattern (36 bp):
ATCTTGAATCTCTTTGTGAATCTTGAATTTTTACGA
Found at i:17642294 original size:18 final size:18
Alignment explanation
Indices: 17642271--17642354 Score: 77
Period size: 18 Copynumber: 4.7 Consensus size: 18
17642261 TATTTTTTAC
17642271 GAATCTTGAATTCTTTGT
1 GAATCTTGAATTCTTTGT
17642289 GAATCTTGAATT-TTTAG-
1 GAATCTTGAATTCTTT-GT
*
17642306 GAATCTTGAA-TCTTTTAT
1 GAATCTTGAATTC-TTTGT
* * *
17642324 GAACCTTAAACT-TTTGT
1 GAATCTTGAATTCTTTGT
17642341 GAATCTTTGAATTC
1 GAATC-TTGAATTC
17642355 AATTTATTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
16 1 0.02
17 21 0.40
18 29 0.56
19 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.46
Consensus pattern (18 bp):
GAATCTTGAATTCTTTGT
Found at i:17642345 original size:35 final size:35
Alignment explanation
Indices: 17642265--17642354 Score: 94
Period size: 35 Copynumber: 2.5 Consensus size: 35
17642255 TTTTTGTATT
* * * * *
17642265 TTTTACGAATCTTGAATTCTTTGTGAATCTTGAAT
1 TTTTAGGAATCTTGAATTCTTTATGAACCTTAAAC
17642300 TTTTAGGAATCTTGAA-TCTTTTATGAACCTTAAAC
1 TTTTAGGAATCTTGAATTC-TTTATGAACCTTAAAC
17642335 TTTT-GTGAATCTTTGAATTC
1 TTTTAG-GAATC-TTGAATTC
17642355 AATTTATTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
34 3 0.07
35 36 0.78
36 5 0.11
37 2 0.04
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTAGGAATCTTGAATTCTTTATGAACCTTAAAC
Found at i:17643704 original size:17 final size:18
Alignment explanation
Indices: 17643679--17643712 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17643669 AGTTAAAGGT
*
17643679 TTTTTATTTTTT-TTCTA
1 TTTTAATTTTTTATTCTA
17643696 TTTTAATTTTTTATTCT
1 TTTTAATTTTTTATTCT
17643713 CCTTATACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTAATTTTTTATTCTA
Found at i:17643792 original size:18 final size:17
Alignment explanation
Indices: 17643769--17643803 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
17643759 TTGTACATGA
17643769 TGCATGATTAATTATTAT
1 TGCATGATTAATT-TTAT
17643787 TGCATGATTAATTTTAT
1 TGCATGATTAATTTTAT
17643804 GAGTTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.51
Consensus pattern (17 bp):
TGCATGATTAATTTTAT
Found at i:17643848 original size:16 final size:17
Alignment explanation
Indices: 17643808--17643850 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 17
17643798 TTTTATGAGT
17643808 TTTTATTATTTGCATGAAA
1 TTTTATTATTTGCATG--A
17643827 TATTTATTATTTGCATG-
1 T-TTTATTATTTGCATGA
17643844 TTTTATT
1 TTTTATT
17643851 TATGATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 1 0.04
19 1 0.04
20 15 0.65
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (17 bp):
TTTTATTATTTGCATGA
Found at i:17643849 original size:13 final size:14
Alignment explanation
Indices: 17643833--17643877 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
17643823 GAAATATTTA
17643833 TTATTTGCATG-TT
1 TTATTTGCATGATT
17643846 TTATTT--ATGATT
1 TTATTTGCATGATT
*
17643858 TTATTTGCATGCTT
1 TTATTTGCATGATT
17643872 TTATTT
1 TTATTT
17643878 TGATATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 3 0.11
12 8 0.29
13 6 0.21
14 11 0.39
ACGTcount: A:0.18, C:0.07, G:0.11, T:0.64
Consensus pattern (14 bp):
TTATTTGCATGATT
Found at i:17643864 original size:25 final size:25
Alignment explanation
Indices: 17643831--17643891 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
17643821 ATGAAATATT
17643831 TATTATTTGCATG-TTTTATTTATGA
1 TATTATTTGCATGCTTTTATTT-TGA
*
17643856 TTTTATTTGCATGCTTTTATTTTGA
1 TATTATTTGCATGCTTTTATTTTGA
17643881 TATT-TTTGCAT
1 TATTATTTGCAT
17643892 TAATATATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 7 0.21
25 18 0.55
26 8 0.24
ACGTcount: A:0.20, C:0.07, G:0.11, T:0.62
Consensus pattern (25 bp):
TATTATTTGCATGCTTTTATTTTGA
Found at i:17646502 original size:3 final size:3
Alignment explanation
Indices: 17646496--17646545 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
17646486 TTTGTATAGG
17646496 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17646544 TA
1 TA
17646546 TTATTATTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:17646550 original size:3 final size:3
Alignment explanation
Indices: 17646544--17646597 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
17646534 ATAATAATAA
17646544 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17646592 TAT TAT
1 TAT TAT
17646598 AGCTTTATCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17647535 original size:19 final size:19
Alignment explanation
Indices: 17647473--17647536 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
17647463 ATCAAAACCA
17647473 AAAAATAATAAA-AAAATAGG
1 AAAAATAA-AAATAAAAT-GG
**
17647493 TTAAAAAT-AAAATAAAATCA
1 --AAAAATAAAAATAAAATGG
17647513 AAAAATAAAAATAAAATGG
1 AAAAATAAAAATAAAATGG
17647532 AAAAA
1 AAAAA
17647537 GGAAAACCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 6 0.17
19 15 0.42
20 3 0.08
21 6 0.17
22 6 0.17
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (19 bp):
AAAAATAAAAATAAAATGG
Found at i:17647971 original size:21 final size:22
Alignment explanation
Indices: 17647947--17647996 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
17647937 AAAAAAAAAC
*
17647947 CCCAAATTTCCTCAAAATTT-T
1 CCCAAATTTCCTCAAAATTTCA
* *
17647968 CCCAGA-TTCCTCCAAATTTCA
1 CCCAAATTTCCTCAAAATTTCA
17647989 CCCAAATT
1 CCCAAATT
17647997 ACTCATAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 12 0.52
21 10 0.43
22 1 0.04
ACGTcount: A:0.32, C:0.34, G:0.02, T:0.32
Consensus pattern (22 bp):
CCCAAATTTCCTCAAAATTTCA
Found at i:17648391 original size:12 final size:12
Alignment explanation
Indices: 17648360--17648397 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
17648350 ATGTAGATTT
17648360 AAACAAAAAAGA
1 AAACAAAAAAGA
*
17648372 ATACAAAAAAGA
1 AAACAAAAAAGA
*
17648384 AAA-GAAAAAGA
1 AAACAAAAAAGA
17648395 AAA
1 AAA
17648398 AAATGAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.82, C:0.05, G:0.11, T:0.03
Consensus pattern (12 bp):
AAACAAAAAAGA
Found at i:17648426 original size:10 final size:10
Alignment explanation
Indices: 17648411--17648440 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
17648401 TGAAAATAGA
17648411 AATAATTAAT
1 AATAATTAAT
17648421 AATAATTAAT
1 AATAATTAAT
17648431 AATAA-TAAT
1 AATAATTAAT
17648440 A
1 A
17648441 TTATTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.25
10 15 0.75
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AATAATTAAT
Found at i:17648508 original size:3 final size:3
Alignment explanation
Indices: 17648500--17648542 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
17648490 AAAAGGAAAG
17648500 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
17648543 AGCAATGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17648694 original size:26 final size:26
Alignment explanation
Indices: 17648650--17648740 Score: 87
Period size: 26 Copynumber: 3.5 Consensus size: 26
17648640 AGATGTCTAT
*
17648650 GGCCTAATTGGGC-CTGAACATCAATG
1 GGCCTAATCGGGCTC-GAACATCAATG
* * *
17648676 GGCCTAATTGGGCTCGAACGTTAATG
1 GGCCTAATCGGGCTCGAACATCAATG
* **
17648702 AAG-CTAATCGAACTCGAACATCAATG
1 -GGCCTAATCGGGCTCGAACATCAATG
17648728 GGCCTAATCGGGC
1 GGCCTAATCGGGC
17648741 CTAGACGTCA
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
25 1 0.02
26 48 0.94
27 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (26 bp):
GGCCTAATCGGGCTCGAACATCAATG
Found at i:17660866 original size:22 final size:22
Alignment explanation
Indices: 17660836--17660885 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
17660826 TGTACAAATT
* *
17660836 TGAACAGAAAAGGAAACAAAGAA
1 TGAAAAGAAAAAGAAA-AAAGAA
17660859 -GAAAAGAAAAAGAAAAAAGAA
1 TGAAAAGAAAAAGAAAAAAGAA
17660880 TGAAAA
1 TGAAAA
17660886 TAATAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (22 bp):
TGAAAAGAAAAAGAAAAAAGAA
Found at i:17660970 original size:3 final size:3
Alignment explanation
Indices: 17660962--17661009 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
17660952 AATAAAAAGG
* *
17660962 TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA CAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17661009 T
1 T
17661010 TTATAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17661002 original size:23 final size:23
Alignment explanation
Indices: 17660962--17661007 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
17660952 AATAAAAAGG
*
17660962 TAATAATAATAATAATAATAATA
1 TAATAATAACAATAATAATAATA
*
17660985 TAATAATAACAATGATAATAATA
1 TAATAATAACAATAATAATAATA
17661008 ATTTATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
TAATAATAACAATAATAATAATA
Done.