Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold11
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: 5230303
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 140504 characters in sequence are not A, C, G, or T
File 17 of 29
Found at i:2392572 original size:14 final size:14
Alignment explanation
Indices: 2392553--2392601 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
2392543 AATATTAATT
2392553 AATATTTTATAAAA
1 AATATTTTATAAAA
* *
2392567 AATATTTATATTAAG
1 AATATTT-TATAAAA
* *
2392582 TATATTTTTTAAAA
1 AATATTTTATAAAA
2392596 AATATT
1 AATATT
2392602 ATTAAATAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
AATATTTTATAAAA
Found at i:2392589 original size:29 final size:30
Alignment explanation
Indices: 2392544--2392601 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
2392534 TTTTATCAAA
*
2392544 ATATTAATTAATATTTTATAAAAAATATTT
1 ATATTAAGTAATATTTTATAAAAAATATTT
*
2392574 ATATTAAGT-ATATTTTTTAAAAAATATT
1 ATATTAAGTAATATTTTATAAAAAATATT
2392602 ATTAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
ATATTAAGTAATATTTTATAAAAAATATTT
Found at i:2392623 original size:24 final size:25
Alignment explanation
Indices: 2392587--2392643 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
2392577 TTAAGTATAT
* *
2392587 TTTTTAAAAAATA-TTATTAAATAA
1 TTTTTAATAAATATTTATAAAATAA
*
2392611 TTTTTAATTAATATTTATAAAATAA
1 TTTTTAATAAATATTTATAAAATAA
*
2392636 TTATTAAT
1 TTTTTAAT
2392644 CAAACTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTTAATAAATATTTATAAAATAA
Found at i:2393104 original size:15 final size:14
Alignment explanation
Indices: 2393066--2393107 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
2393056 ATTATTTTTT
*
2393066 ATTATATTTTTAAA
1 ATTATATTTTAAAA
2393080 ATTA-ATTTTAAAA
1 ATTATATTTTAAAA
2393093 ATATATATTTTAAAA
1 AT-TATATTTTAAAA
2393108 TTCATGTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 10 0.40
14 6 0.24
15 9 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTATATTTTAAAA
Found at i:2398444 original size:3 final size:3
Alignment explanation
Indices: 2398436--2398460 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2398426 AAGGATGCTC
2398436 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
2398461 CCACATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:2399429 original size:11 final size:11
Alignment explanation
Indices: 2399388--2399431 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
2399378 ATAATATTTT
*
2399388 AAATATAATTA
1 AAATATAAATA
*
2399399 ATATATAAA-A
1 AAATATAAATA
2399409 ATAATATAAATA
1 A-AATATAAATA
2399421 AAATATAAATA
1 AAATATAAATA
2399432 TATTTTAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 2 0.07
11 24 0.86
12 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATATAAATA
Found at i:2399431 original size:17 final size:17
Alignment explanation
Indices: 2399388--2399433 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
2399378 ATAATATTTT
* *
2399388 AAATATAATTAATATATA
1 AAATATAAAT-ATAAATA
2399406 AAA-AT-AATATAAATA
1 AAATATAAATATAAATA
2399421 AAATATAAATATA
1 AAATATAAATATA
2399434 TTTTAACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 9 0.38
16 4 0.17
17 8 0.33
18 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATAAATATAAATA
Found at i:2399996 original size:16 final size:17
Alignment explanation
Indices: 2399959--2400058 Score: 56
Period size: 15 Copynumber: 6.3 Consensus size: 17
2399949 TTTTTTTTTA
*
2399959 TATATAATTTATATAAT
1 TATATTATTTATATAAT
2399976 T-TATTATTT-TATAAT
1 TATATTATTTATATAAT
* *
2399991 TATA-T-TTAAAAT-AT
1 TATATTATTTATATAAT
*
2400005 TTTA-TATTTATATAA-
1 TATATTATTTATATAAT
* * *
2400020 TATTTTAATTAT-T-TT
1 TATATTATTTATATAAT
2400035 TATATTATATTTATATAAT
1 TATA-T-TATTTATATAAT
2400054 TATAT
1 TATAT
2400059 ATAATATTAT
Statistics
Matches: 60, Mismatches: 13, Indels: 19
0.65 0.14 0.21
Matches are distributed among these distances:
14 8 0.13
15 21 0.35
16 17 0.28
17 7 0.12
18 2 0.03
19 5 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATATTATTTATATAAT
Found at i:2400022 original size:27 final size:27
Alignment explanation
Indices: 2399979--2400044 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
2399969 ATATAATTTA
*
2399979 TTAT-TTTATAATTATATTTAAAATATT
1 TTATATTTAT-ATAATATTTAAAATATT
* *
2400006 TTATATTTATATAATATTTTAATTATT
1 TTATATTTATATAATATTTAAAATATT
2400033 TT-TATATTATAT
1 TTATAT-TTATAT
2400045 TTATATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.09
27 26 0.76
28 5 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TTATATTTATATAATATTTAAAATATT
Found at i:2400060 original size:49 final size:45
Alignment explanation
Indices: 2399959--2400091 Score: 112
Period size: 49 Copynumber: 2.8 Consensus size: 45
2399949 TTTTTTTTTA
2399959 TATATAATTTATATAATTTATTATTTTATAATTATATTTAAAATAT
1 TATAT-ATTTATATAATTTATTATTTTATAATTATATTTAAAATAT
* *
2400005 TTTATATTTATATAATATTTTAATTATTTT-TATATTATATTT-ATATAAT
1 TATATATTTATAT-A-A-TTT-ATTATTTTATA-ATTATATTTAAAAT-AT
* * *
2400054 TATATA-TAATATTATTTATT-TATTTATTATTATTATTT
1 TATATATTTATATAATTTATTAT-TTTATAATTA-TATTT
2400092 TTAATGAGTC
Statistics
Matches: 72, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
43 1 0.01
44 10 0.14
45 17 0.24
46 6 0.08
47 1 0.01
48 13 0.18
49 24 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (45 bp):
TATATATTTATATAATTTATTATTTTATAATTATATTTAAAATAT
Found at i:2400089 original size:21 final size:22
Alignment explanation
Indices: 2400009--2400091 Score: 75
Period size: 21 Copynumber: 3.9 Consensus size: 22
2399999 AAATATTTTA
* *
2400009 TATTTATATAATA-T-TTTAAT
1 TATTTATATATTATTATTTATT
*
2400029 TATTTTTATATTA-TATTTATAT
1 TATTTATATATTATTATTTAT-T
* *
2400051 AATTATATATAATATTATTTATT
1 TATT-TATATATTATTATTTATT
2400074 TATTTAT-TATTATTATTT
1 TATTTATATATTATTATTT
2400092 TTAATGAGTC
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
20 12 0.24
21 14 0.27
22 7 0.14
23 11 0.22
24 7 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTATATATTATTATTTATT
Found at i:2405117 original size:18 final size:19
Alignment explanation
Indices: 2405094--2405133 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2405084 AATTCAAATT
2405094 TAAAAATA-ATATATTAAA
1 TAAAAATATATATATTAAA
* *
2405112 TAAAAATATATTTTTTAAA
1 TAAAAATATATATATTAAA
2405131 TAA
1 TAA
2405134 TATTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAAATATATATATTAAA
Found at i:2405605 original size:22 final size:21
Alignment explanation
Indices: 2405580--2405636 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
2405570 TTTTAAAAAT
2405580 TTTTTTAAAATAATTATGTGTA
1 TTTTTTAAAATAATTAT-TGTA
* *
2405602 TTTTATT-AAATGATTATTTTA
1 TTTT-TTAAAATAATTATTGTA
2405623 -TTTTTAAACATAAT
1 TTTTTTAAA-ATAAT
2405637 ATAAAAGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 2 0.07
20 5 0.17
21 7 0.24
22 13 0.45
23 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTTTAAAATAATTATTGTA
Found at i:2406098 original size:31 final size:32
Alignment explanation
Indices: 2406039--2406107 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
2406029 AAAATTTTTA
*
2406039 ATTAATTTAATTTATTATTAAATAATAAAAAT
1 ATTATTTTAATTTATTATTAAATAATAAAAAT
* * *
2406071 ATTATTTTTATTT-TTATTTAATTATAAAAAT
1 ATTATTTTAATTTATTATTAAATAATAAAAAT
2406102 A-TATTT
1 ATTATTT
2406108 AATAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 5 0.15
31 17 0.52
32 11 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
ATTATTTTAATTTATTATTAAATAATAAAAAT
Found at i:2407562 original size:19 final size:19
Alignment explanation
Indices: 2407535--2407572 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2407525 TTTTTTTATT
*
2407535 TTTTGAAAATAAAAATAAA
1 TTTTAAAAATAAAAATAAA
*
2407554 TTTTAAAAATAAAATTAAA
1 TTTTAAAAATAAAAATAAA
2407573 AGTTTAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
TTTTAAAAATAAAAATAAA
Found at i:2409452 original size:23 final size:25
Alignment explanation
Indices: 2409418--2409466 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 25
2409408 AATCATAATG
2409418 AAAAATTATTT-ATTTAT-TATTAT
1 AAAAATTATTTAATTTATATATTAT
2409441 AAAAA-TATTTTACATTTATATATTAT
1 AAAAATTA-TTTA-ATTTATATATTAT
2409467 TATTATTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
22 2 0.09
23 8 0.36
25 6 0.27
26 6 0.27
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
AAAAATTATTTAATTTATATATTAT
Found at i:2410389 original size:14 final size:14
Alignment explanation
Indices: 2410370--2410441 Score: 60
Period size: 14 Copynumber: 5.2 Consensus size: 14
2410360 ATAAATTCTA
2410370 TATAAATATAATAT
1 TATAAATATAATAT
2410384 TATAAATATAATTAT
1 TATAAATATAA-TAT
* ** *
2410399 AATACGTAAAAATAT
1 TATAAAT-ATAATAT
*
2410414 TATAAATAAAATA-
1 TATAAATATAATAT
2410427 T-TAAATAT-ATAT
1 TATAAATATAATAT
2410439 TAT
1 TAT
2410442 TTTATCTAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
11 3 0.07
12 7 0.15
13 2 0.04
14 17 0.37
15 14 0.30
16 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (14 bp):
TATAAATATAATAT
Found at i:2410462 original size:43 final size:44
Alignment explanation
Indices: 2410369--2410463 Score: 106
Period size: 43 Copynumber: 2.2 Consensus size: 44
2410359 CATAAATTCT
*
2410369 ATATAAATATAATATTATAAATATAATTATAATACGTAAAAATA
1 ATATAAATAAAATATTATAAATATAATTATAATACGTAAAAATA
* ** *
2410413 TTATAAATAAAATA-T-TAAATATATATTATTTTATC-TAAACATA
1 ATATAAATAAAATATTATAAATATA-ATTATAATA-CGTAAAAATA
2410456 ATATAAAT
1 ATATAAAT
2410464 GTTAAAACAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
42 8 0.19
43 22 0.51
44 13 0.30
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (44 bp):
ATATAAATAAAATATTATAAATATAATTATAATACGTAAAAATA
Found at i:2411002 original size:23 final size:24
Alignment explanation
Indices: 2410975--2411022 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
2410965 AAATTTTTTG
*
2410975 ATATAAAAAAATTCTAAA-ATTAA
1 ATATAAAAAAATTATAAATATTAA
2410998 ATATAAAAAAATTATAAATATTAA
1 ATATAAAAAAATTATAAATATTAA
2411022 A
1 A
2411023 ATTTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
ATATAAAAAAATTATAAATATTAA
Found at i:2411435 original size:28 final size:28
Alignment explanation
Indices: 2411372--2411428 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
2411362 AATAGTGAAA
2411372 TTAGTTTAGTACCATATACATATATAGT
1 TTAGTTTAGTACCATATACATATATAGT
* *
2411400 TTAGTTTAGTGCCGTATACATATATAGT
1 TTAGTTTAGTACCATATACATATATAGT
2411428 T
1 T
2411429 ATTTTTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.44
Consensus pattern (28 bp):
TTAGTTTAGTACCATATACATATATAGT
Found at i:2412088 original size:23 final size:23
Alignment explanation
Indices: 2412061--2412104 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2412051 AAAATTATTT
*
2412061 TTAT-ATTAATATTTATATATATG
1 TTATAATTAA-ATTTAAATATATG
2412084 TTATAATTAAATTTAAATATA
1 TTATAATTAAATTTAAATATA
2412105 ATTTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATAATTAAATTTAAATATATG
Found at i:2413407 original size:22 final size:22
Alignment explanation
Indices: 2413382--2413427 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2413372 GTTTAATTCA
*
2413382 ATAAAATAATA-ATATATTAAAT
1 ATAAAAAAATATATA-ATTAAAT
*
2413404 ATAAAAAAATTTATAATTAAAT
1 ATAAAAAAATATATAATTAAAT
2413426 AT
1 AT
2413428 TTTTTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
ATAAAAAAATATATAATTAAAT
Found at i:2413707 original size:23 final size:24
Alignment explanation
Indices: 2413666--2413710 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
2413656 TTTATATTTA
**
2413666 ATATATTAATAATTTATTAAATGT
1 ATATATTAATAATAAATTAAATGT
2413690 ATATATT-ATAATAAATTAAAT
1 ATATATTAATAATAAATTAAAT
2413711 TATTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
ATATATTAATAATAAATTAAATGT
Found at i:2414211 original size:16 final size:16
Alignment explanation
Indices: 2414182--2414228 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
2414172 TTTAATTATA
2414182 TATATATATATAATTTTT
1 TATATA-AT-TAATTTTT
*
2414200 TATATAATTAATATTT
1 TATATAATTAATTTTT
2414216 TA-ATAAATTAATT
1 TATAT-AATTAATT
2414229 ATTAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 2 0.08
16 16 0.62
17 2 0.08
18 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATAATTAATTTTT
Found at i:2414468 original size:27 final size:28
Alignment explanation
Indices: 2414438--2414491 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
2414428 TATGATGATC
2414438 AAATTAAATAAA-TATAAATTATATAAA
1 AAATTAAATAAAGTATAAATTATATAAA
**
2414465 AAATTATTTAAATGTATAAATTATATA
1 AAATTAAATAAA-GTATAAATTATATA
2414492 TATATAGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
29 13 0.57
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (28 bp):
AAATTAAATAAAGTATAAATTATATAAA
Found at i:2415127 original size:3 final size:3
Alignment explanation
Indices: 2415119--2415166 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
2415109 CTTTTATCTT
*
2415119 ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2415167 TCTGCAGAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2415392 original size:44 final size:46
Alignment explanation
Indices: 2415338--2415428 Score: 116
Period size: 44 Copynumber: 2.0 Consensus size: 46
2415328 TATTATTAAT
* **
2415338 AAATTAAATTATTTATTTTA-ATTTAATTAAATA-ATTTTAATAAAA
1 AAATTAAATTATATATGATATATTT-ATTAAATATATTTTAATAAAA
2415383 AAATT-AATTATATATGATATATTTATTAAATATTATTTTAATAAAA
1 AAATTAAATTATATATGATATATTTATTAAATA-TATTTTAATAAAA
2415429 TATAAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
44 19 0.47
45 9 0.22
46 12 0.30
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (46 bp):
AAATTAAATTATATATGATATATTTATTAAATATATTTTAATAAAA
Found at i:2415449 original size:18 final size:18
Alignment explanation
Indices: 2415421--2415465 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
2415411 AATATTATTT
*
2415421 TAATAAAATATAAA-ATA
1 TAATTAAATATAAATATA
*
2415438 TAAATTAAATATACATATA
1 T-AATTAAATATAAATATA
2415457 TAATTAAAT
1 TAATTAAAT
2415466 TTTTTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 19 0.79
19 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATTAAATATAAATATA
Found at i:2427169 original size:2 final size:2
Alignment explanation
Indices: 2427162--2427187 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2427152 GAAGAATGAA
2427162 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
2427188 GCAACTAGAA
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:2427646 original size:2 final size:2
Alignment explanation
Indices: 2427639--2427682 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
2427629 TCAATCTCGG
* *
2427639 TC TC TC TC TC CC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2427681 TC
1 TC
2427683 GAGTTTTGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (2 bp):
TC
Found at i:2430810 original size:17 final size:18
Alignment explanation
Indices: 2430788--2430822 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
2430778 ATTAAAGATG
2430788 TAATTATATT-TTTATTT
1 TAATTATATTATTTATTT
2430805 TAATTATATTATTTATTT
1 TAATTATATTATTTATTT
2430823 ATTTATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TAATTATATTATTTATTT
Found at i:2430823 original size:17 final size:17
Alignment explanation
Indices: 2430788--2430840 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
2430778 ATTAAAGATG
2430788 TAATTATATT-TTTATTT
1 TAATTATATTATTTA-TT
2430805 TAATTATATTATTTATT
1 TAATTATATTATTTATT
*
2430822 T-ATT-TATTA-ATATT
1 TAATTATATTATTTATT
2430836 TAATT
1 TAATT
2430841 TGAAATATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.15
15 8 0.24
16 3 0.09
17 13 0.39
18 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TAATTATATTATTTATT
Found at i:2431396 original size:2 final size:2
Alignment explanation
Indices: 2431389--2431421 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2431379 TTTCACCTTT
2431389 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2431422 TTGAGATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2431622 original size:11 final size:11
Alignment explanation
Indices: 2431575--2431632 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
2431565 AAATAATATA
*
2431575 ATTTTAATAAT
1 ATTTTAAAAAT
2431586 -TTTT-AAAAT
1 ATTTTAAAAAT
2431595 -TTTTAAAATAAT
1 ATTTT-AAA-AAT
*
2431607 TTTTTAAAAAT
1 ATTTTAAAAAT
*
2431618 ATTTTAAAGAT
1 ATTTTAAAAAT
2431629 ATTT
1 ATTT
2431633 ATTATTTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.20
10 4 0.10
11 18 0.45
12 6 0.15
13 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:2431632 original size:24 final size:22
Alignment explanation
Indices: 2431580--2431625 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
2431570 ATATAATTTT
2431580 AATAA-TTTTTAAAATTTTTAA
1 AATAATTTTTTAAAATTTTTAA
2431601 AATAATTTTTTAAAAATATTTTAA
1 AATAATTTTTT-AAAAT-TTTTAA
2431625 A
1 A
2431626 GATATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.23
22 5 0.23
23 5 0.23
24 7 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATAATTTTTTAAAATTTTTAA
Found at i:2436327 original size:18 final size:18
Alignment explanation
Indices: 2436304--2436342 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2436294 AATTTAGAGG
2436304 TTTAAAAATAAATTTGAA
1 TTTAAAAATAAATTTGAA
* **
2436322 TTTAAAATTTTATTTGAA
1 TTTAAAAATAAATTTGAA
2436340 TTT
1 TTT
2436343 TTTAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTAAAAATAAATTTGAA
Found at i:2436373 original size:27 final size:26
Alignment explanation
Indices: 2436312--2436378 Score: 65
Period size: 25 Copynumber: 2.7 Consensus size: 26
2436302 GGTTTAAAAA
2436312 TAAATTTGAATTTAAA---ATTTTATT
1 TAAATTT-AATTTAAATTTATTTTATT
*
2436336 TGAATTT--TTTAAATTTATTATTATT
1 TAAATTTAATTTAAATTTATT-TTATT
2436361 TAAATTTAATTT-AATTTA
1 TAAATTTAATTTAAATTTA
2436379 ATAAAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
21 6 0.17
24 9 0.26
25 11 0.31
26 6 0.17
27 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (26 bp):
TAAATTTAATTTAAATTTATTTTATT
Found at i:2437807 original size:24 final size:22
Alignment explanation
Indices: 2437740--2437808 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 22
2437730 AATTTTTTAA
2437740 TAATAAAAGTTTAATATTATAATT
1 TAATAAAA--TTAATATTATAATT
*
2437764 TAATAAAATTAAAAATTTATAATT
1 TAATAAAATT-AATA-TTATAATT
2437788 TATATAAAAATTAATATTATA
1 TA-AT-AAAATTAATATTATA
2437809 TTCAATGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 2 0.05
23 3 0.08
24 23 0.59
25 5 0.13
26 6 0.15
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (22 bp):
TAATAAAATTAATATTATAATT
Found at i:2438595 original size:30 final size:31
Alignment explanation
Indices: 2438548--2438605 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
2438538 TTATATTTAA
2438548 ATTTAGTTAAATTTTAAAATAT-ATTTTATT
1 ATTTAGTTAAATTTTAAAATATAATTTTATT
*
2438578 ATTTA-TTATATTATTAAAATATAATTTT
1 ATTTAGTTAAATT-TTAAAATATAATTTT
2438606 TATAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 6 0.24
30 14 0.56
31 5 0.20
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (31 bp):
ATTTAGTTAAATTTTAAAATATAATTTTATT
Found at i:2439837 original size:17 final size:17
Alignment explanation
Indices: 2439806--2439849 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
2439796 TATACCTCAG
*
2439806 TAAATATTTATTTTAAA
1 TAAAAATTTATTTTAAA
2439823 TAAAAAATTTA-TTTAAA
1 T-AAAAATTTATTTTAAA
2439840 TAAAAATTTA
1 TAAAAATTTA
2439850 AAATTTATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 9 0.36
17 8 0.32
18 8 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAAATTTATTTTAAA
Found at i:2439870 original size:23 final size:23
Alignment explanation
Indices: 2439820--2439875 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
2439810 TATTTATTTT
*
2439820 AAATAAAAAATTTATTTAAATAA
1 AAATTAAAAATTTATTTAAATAA
* *
2439843 AAATTTAAAATTTATTCT-AATAT
1 AAATTAAAAATTTATT-TAAATAA
*
2439866 TAATTAAAAA
1 AAATTAAAAA
2439876 AATTATGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATTAAAAATTTATTTAAATAA
Found at i:2439906 original size:31 final size:32
Alignment explanation
Indices: 2439836--2439906 Score: 74
Period size: 32 Copynumber: 2.2 Consensus size: 32
2439826 AAAATTTATT
2439836 TAAATAAAAATTTAAAATTTATTCTAATATTAA
1 TAAA-AAAAATTTAAAATTTATTCTAATATTAA
* * * *
2439869 TTAAAAAAATTATGAATTTTA-TCTAA-ATTCA
1 TAAAAAAAATT-TAAAATTTATTCTAATATTAA
2439900 TAAAAAA
1 TAAAAAA
2439907 TATAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
31 10 0.31
32 12 0.38
33 10 0.31
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (32 bp):
TAAAAAAAATTTAAAATTTATTCTAATATTAA
Found at i:2453599 original size:265 final size:265
Alignment explanation
Indices: 2453122--2453653 Score: 904
Period size: 265 Copynumber: 2.0 Consensus size: 265
2453112 ATCTTGAGTT
2453122 GAATCTATGGGATTTCGACACTGAACCCAATGATTGTTTTCTGGGTTTGACACTTGCAGTAAAAC
1 GAATCTATGGGATTTCGACACTGAACCCAATGATTGTTTTCTGGGTTTGACACTTGCAGTAAAAC
* * * *
2453187 CAAGTGTTTCAAGTTTAGGTAATTTTGTTGTGCCTCCTGTGTTTATAGTTCAGTGGACTGCTGTT
66 CAAGTGTTTCAAGCTTAGGTAATATTGTTGTGCCTCCCGTGTTTATAGTTCAGTGGACTGCTGTC
2453252 GTTTTTTAGCCGCTGGTGCCTCTCAAATTTAGTTAAAGAACGGTATAAATACATAGGTGGCATGG
131 GTTTTTTAGCCGCTGGTGCCTCTCAAATTTAGTTAAAGAACGGTATAAATACATAGGTGGCATGG
* * *
2453317 GCAGACATCTTTTTTCAACTTCTGCTGGGTGAGTGTGGAGGAATAGTGGAGTGGTGTCTTTAGAA
196 GCAGACATCTCTTTTCAACTTCTGCTGGGTAACTGTGGAGGAATAGTGGAGTGGTGTCTTTAGAA
2453382 CTTTG
261 CTTTG
* *
2453387 GAATCTATGGGATTTCGACACTGAACCCGATGATTGTTTTCTGGGTTTGACACTTGCTGTAAAAC
1 GAATCTATGGGATTTCGACACTGAACCCAATGATTGTTTTCTGGGTTTGACACTTGCAGTAAAAC
*
2453452 CAAGTGTTTCCAGCTTAGGTAATATTGTTGTGCCTCCCGTGTTTATAGTTCAGTGGACTGCTGTC
66 CAAGTGTTTCAAGCTTAGGTAATATTGTTGTGCCTCCCGTGTTTATAGTTCAGTGGACTGCTGTC
* * * *
2453517 GTTTTTTTGCTGCTGGTGCCTCTCAAATTTAGTTAAAGAACTGTATAAATATATAGGTGGCATGG
131 GTTTTTTAGCCGCTGGTGCCTCTCAAATTTAGTTAAAGAACGGTATAAATACATAGGTGGCATGG
* *
2453582 GCTGACA-CATCTTTTCAACTTCTGCTGGGTAACTGTGGAGGAATAGTGGAGTGGTGTCTTTAGT
196 GCAGACATC-TCTTTTCAACTTCTGCTGGGTAACTGTGGAGGAATAGTGGAGTGGTGTCTTTAGA
2453646 ACTTTG
260 ACTTTG
2453652 GA
1 GA
2453654 TTTGCTGGCT
Statistics
Matches: 250, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
264 1 0.00
265 249 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (265 bp):
GAATCTATGGGATTTCGACACTGAACCCAATGATTGTTTTCTGGGTTTGACACTTGCAGTAAAAC
CAAGTGTTTCAAGCTTAGGTAATATTGTTGTGCCTCCCGTGTTTATAGTTCAGTGGACTGCTGTC
GTTTTTTAGCCGCTGGTGCCTCTCAAATTTAGTTAAAGAACGGTATAAATACATAGGTGGCATGG
GCAGACATCTCTTTTCAACTTCTGCTGGGTAACTGTGGAGGAATAGTGGAGTGGTGTCTTTAGAA
CTTTG
Found at i:2454466 original size:5 final size:5
Alignment explanation
Indices: 2454456--2454486 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
2454446 CGTTGTTTCA
2454456 TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT T
1 TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT T
2454487 CTTTGTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTGT
Found at i:2455798 original size:20 final size:21
Alignment explanation
Indices: 2455773--2455813 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2455763 ATATATATAT
*
2455773 ATAAT-ATTTTAAAAAATAAA
1 ATAATAATTTGAAAAAATAAA
*
2455793 ATAATAATTTGAAAAAGTAAA
1 ATAATAATTTGAAAAAATAAA
2455814 GTTGGGCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (21 bp):
ATAATAATTTGAAAAAATAAA
Found at i:2459200 original size:25 final size:22
Alignment explanation
Indices: 2459167--2459224 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 22
2459157 AATTTTTTAA
*
2459167 AATAATTAAAAATAAAATATATTT
1 AATATTTAAAAATAAAA-AT-TTT
2459191 ACATATTT-AAAATAAAAATTTT
1 A-ATATTTAAAAATAAAAATTTT
2459213 AATATTTAAAAA
1 AATATTTAAAAA
2459225 ACAATAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 6 0.19
22 8 0.26
23 2 0.06
24 10 0.32
25 5 0.16
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AATATTTAAAAATAAAAATTTT
Found at i:2459217 original size:21 final size:24
Alignment explanation
Indices: 2459175--2459223 Score: 77
Period size: 21 Copynumber: 2.2 Consensus size: 24
2459165 AAAATAATTA
2459175 AAAATAAAATATATTTACATATTT
1 AAAATAAAATATATTTACATATTT
2459199 AAAATAAAA-AT-TTTA-ATATTT
1 AAAATAAAATATATTTACATATTT
2459220 AAAA
1 AAAA
2459224 AACAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.40
22 4 0.16
23 2 0.08
24 9 0.36
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
AAAATAAAATATATTTACATATTT
Found at i:2460109 original size:2 final size:2
Alignment explanation
Indices: 2460102--2460138 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2460092 CTGTTAAATA
2460102 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2460139 CTGATGGACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2462225 original size:40 final size:39
Alignment explanation
Indices: 2462135--2462263 Score: 111
Period size: 40 Copynumber: 3.2 Consensus size: 39
2462125 TAATTTTTAC
*
2462135 ATTATTTTTATTATATT-TATATTTAAAATATTATATATTAT
1 ATTATTTTTAATATATTATATATTT---ATATTATATATTAT
* * *
2462176 ATAAATTTTAATATATTCATATATTTATATTATATGTTAT
1 ATTATTTTTAATATATT-ATATATTTATATTATATATTAT
* * *
2462216 GTTATTTTTAATATCA-TATTATATTTTTTATTATATTTTA-
1 ATTATTTTTAATAT-ATTA-TATA-TTTATATTATATATTAT
2462256 ATTATTTT
1 ATTATTTT
2462264 ATTATTGTAT
Statistics
Matches: 73, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
39 1 0.01
40 36 0.49
41 29 0.40
43 7 0.10
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (39 bp):
ATTATTTTTAATATATTATATATTTATATTATATATTAT
Found at i:2462267 original size:31 final size:29
Alignment explanation
Indices: 2462196--2462268 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
2462186 ATATATTCAT
*
2462196 ATATTTATATTATATGTTATGTTATTTTTA
1 ATATTT-TATTATATGTTATATTATTTTTA
** * *
2462226 ATATCATATTATATTTTTTATTATATTTTA
1 ATATTTTATTATATGTTATATTAT-TTTTA
2462256 ATTATTTTATTAT
1 A-TATTTTATTAT
2462269 TGTATTATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
29 15 0.44
30 10 0.29
31 9 0.26
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (29 bp):
ATATTTTATTATATGTTATATTATTTTTA
Found at i:2463695 original size:15 final size:15
Alignment explanation
Indices: 2463659--2463687 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2463649 TTTCTTAAAT
2463659 AAATTAATAAAATTA
1 AAATTAATAAAATTA
2463674 AAATTAA-AAAATTA
1 AAATTAATAAAATTA
2463688 TGAATTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATTAATAAAATTA
Found at i:2465445 original size:2 final size:2
Alignment explanation
Indices: 2465438--2465465 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2465428 TCCATGTTCG
2465438 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
2465466 GTAGCAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2467114 original size:2 final size:2
Alignment explanation
Indices: 2467107--2467135 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2467097 TGATTTTAAA
2467107 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2467136 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2467463 original size:7 final size:7
Alignment explanation
Indices: 2467447--2467513 Score: 53
Period size: 8 Copynumber: 8.7 Consensus size: 7
2467437 AAGAAAGCTG
*
2467447 TAAATAT
1 TAAATTT
2467454 TAAATTT
1 TAAATTT
2467461 TAAATTTT
1 TAAA-TTT
2467469 TAAAAATTT
1 T--AAATTT
2467478 TAAAATTT
1 T-AAATTT
2467486 TAAAATTAT
1 T-AAATT-T
*
2467495 TAAATAT
1 TAAATTT
*
2467502 TATATTT
1 TAAATTT
2467509 TAAAT
1 TAAAT
2467514 ATAATTATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
7 20 0.39
8 22 0.43
9 6 0.12
10 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (7 bp):
TAAATTT
Found at i:2467477 original size:17 final size:16
Alignment explanation
Indices: 2467455--2467499 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
2467445 TGTAAATATT
2467455 AAATTTTAAATTTTTAA
1 AAATTTTAAATTTTT-A
*
2467472 AAATTTTAAAATTTTA
1 AAATTTTAAATTTTTA
2467488 AAATTATTAAAT
1 AAATT-TTAAAT
2467500 ATTATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATTTTAAATTTTTA
Found at i:2467515 original size:9 final size:8
Alignment explanation
Indices: 2467455--2467498 Score: 61
Period size: 8 Copynumber: 5.2 Consensus size: 8
2467445 TGTAAATATT
2467455 AAATTTTA
1 AAATTTTA
*
2467463 AATTTTTAA
1 AAATTTT-A
2467472 AAATTTTA
1 AAATTTTA
2467480 AAATTTTA
1 AAATTTTA
2467488 AAATTATTA
1 AAATT-TTA
2467497 AA
1 AA
2467499 TATTATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
8 20 0.62
9 12 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AAATTTTA
Found at i:2468489 original size:14 final size:14
Alignment explanation
Indices: 2468470--2468499 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2468460 GAACAAGGAT
2468470 ATTTTGACTAGGGC
1 ATTTTGACTAGGGC
2468484 ATTTTGACTAGGGC
1 ATTTTGACTAGGGC
2468498 AT
1 AT
2468500 AGCCCCTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (14 bp):
ATTTTGACTAGGGC
Found at i:2477789 original size:2 final size:2
Alignment explanation
Indices: 2477782--2477847 Score: 64
Period size: 2 Copynumber: 34.0 Consensus size: 2
2477772 ATGAAATGTT
* * *
2477782 TA TA TA TA -A TA TA -A TA TA TA TA TA TA CA TA TG TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
2477822 TT TA TA TA TA TA TA TA CA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2477848 AGTTTCTAAG
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
1 2 0.04
2 48 0.96
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:2481017 original size:24 final size:22
Alignment explanation
Indices: 2480975--2481024 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
2480965 AGATATTTTA
2480975 AAAATTTTATTAATTTAAAAAT
1 AAAATTTTATTAATTTAAAAAT
2480997 AAAATATTT-TTATATTCTAAAAAT
1 AAAAT-TTTATTA-ATT-TAAAAAT
2481021 AAAA
1 AAAA
2481025 ATAAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.32
23 6 0.24
24 11 0.44
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATTTTATTAATTTAAAAAT
Found at i:2481025 original size:25 final size:24
Alignment explanation
Indices: 2480973--2481027 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 24
2480963 TAAGATATTT
2480973 TAAAAAT-TTTATTAATTTAAAAA
1 TAAAAATATTTATTAATTTAAAAA
2480996 T-AAAATATTT-TTATATTCTAAAAA
1 TAAAAATATTTATTA-ATT-TAAAAA
2481020 TAAAAATA
1 TAAAAATA
2481028 AAATTTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 8 0.29
23 7 0.25
24 7 0.25
25 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TAAAAATATTTATTAATTTAAAAA
Found at i:2481092 original size:38 final size:37
Alignment explanation
Indices: 2481044--2481124 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 37
2481034 AATTCTATTT
* **
2481044 AAATATTTATATTTTTAATTTTTAATTAAAAATTAAATC
1 AAAT-TTTATATATTTAATTAATAA-TAAAAATTAAATC
* *
2481083 AAATTTTATATATTTAATTAATAATCAAACTTAAATC
1 AAATTTTATATATTTAATTAATAATAAAAATTAAATC
2481120 AAATT
1 AAATT
2481125 AAATCAAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 16 0.43
38 17 0.46
39 4 0.11
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (37 bp):
AAATTTTATATATTTAATTAATAATAAAAATTAAATC
Found at i:2481128 original size:10 final size:10
Alignment explanation
Indices: 2481105--2481138 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
2481095 TTTAATTAAT
2481105 AATCAAACTTA
1 AATCAAA-TTA
2481116 AATCAAATTA
1 AATCAAATTA
*
2481126 AATCAAATCA
1 AATCAAATTA
2481136 AAT
1 AAT
2481139 TTAATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (10 bp):
AATCAAATTA
Found at i:2485442 original size:11 final size:11
Alignment explanation
Indices: 2485426--2485452 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2485416 TATAAATAAT
2485426 ATTATTACTAA
1 ATTATTACTAA
2485437 ATTATTACTAA
1 ATTATTACTAA
2485448 ATTAT
1 ATTAT
2485453 AACATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTATTACTAA
Found at i:2485979 original size:16 final size:15
Alignment explanation
Indices: 2485953--2485982 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2485943 CATGTCTCTT
2485953 TTTATTATATATATG
1 TTTATTATATATATG
2485968 TTTATATATATATAT
1 TTTAT-TATATATAT
2485983 ATATATCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TTTATTATATATATG
Found at i:2491355 original size:2 final size:2
Alignment explanation
Indices: 2491348--2491379 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2491338 GCATACATTT
2491348 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2491380 ATCCCAGTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2493935 original size:23 final size:23
Alignment explanation
Indices: 2493900--2493953 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
2493890 ATGACCAAAA
2493900 TAAAATATATATTAATTATATTTT
1 TAAAATATATATTAATTA-ATTTT
* * *
2493924 TAAATTAT-TATTATTTAATTTA
1 TAAAATATATATTAATTAATTTT
2493946 TAATAATA
1 TAA-AATA
2493954 ATAATTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 7 0.28
23 11 0.44
24 7 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TAAAATATATATTAATTAATTTT
Found at i:2497524 original size:19 final size:21
Alignment explanation
Indices: 2497502--2497541 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2497492 TTAAATTAAA
2497502 TATTTAA-ATTT-AAAATATT
1 TATTTAATATTTAAAAATATT
2497521 TATTTAATATTTAAAAATATT
1 TATTTAATATTTAAAAATATT
2497542 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTTAATATTTAAAAATATT
Found at i:2497670 original size:23 final size:22
Alignment explanation
Indices: 2497631--2497678 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
2497621 ATTTAAATTA
2497631 ATATATTTTTTAATTATATAAT
1 ATATATTTTTTAATTATATAAT
* *
2497653 ATATATTATTTTATTTATATTAT
1 ATATATT-TTTTAATTATATAAT
2497676 ATA
1 ATA
2497679 AAAATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATATTTTTTAATTATATAAT
Found at i:2497790 original size:24 final size:25
Alignment explanation
Indices: 2497762--2497808 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
2497752 TAATATGAGC
2497762 CTCATATTTTAAAT-AAATTTAAAT
1 CTCATATTTTAAATAAAATTTAAAT
*
2497786 CTCATATTTTAATTAAAATTTAA
1 CTCATATTTTAAATAAAATTTAA
2497809 TTTTCTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.47
Consensus pattern (25 bp):
CTCATATTTTAAATAAAATTTAAAT
Found at i:2498671 original size:23 final size:25
Alignment explanation
Indices: 2498612--2498684 Score: 73
Period size: 23 Copynumber: 3.1 Consensus size: 25
2498602 TATTATCACG
* *
2498612 TATATAATATATTTT-AAAATTTAT
1 TATATTATATATTTTAAAAATATAT
* *
2498636 TATTTTATTTATTTTAAAAATATA-
1 TATATTATATATTTTAAAAATATAT
*
2498660 TA-ATTATATATTTTATAAATA-AT
1 TATATTATATATTTTAAAAATATAT
2498683 TA
1 TA
2498685 AAATTAATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
22 1 0.03
23 18 0.45
24 14 0.35
25 7 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TATATTATATATTTTAAAAATATAT
Found at i:2498689 original size:25 final size:23
Alignment explanation
Indices: 2498640--2498690 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
2498630 ATTTATTATT
* *
2498640 TTATTTATTTTAAAAATATATAA
1 TTATATATTTTAAAAATATAAAA
*
2498663 TTATATATTTTATAAATAATTAAAA
1 TTATATATTTTAAAAAT-A-TAAAA
2498688 TTA
1 TTA
2498691 ATAAATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 15 0.65
24 1 0.04
25 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTATATATTTTAAAAATATAAAA
Found at i:2500608 original size:11 final size:11
Alignment explanation
Indices: 2500553--2500611 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
2500543 ATTTGAATAA
*
2500553 TAATATTTAACT
1 TAAT-TTTAATT
*
2500565 TGATTTTAATT
1 TAATTTTAATT
2500576 TAGATTTT-ATT
1 TA-ATTTTAATT
* *
2500587 AAATTTAAATT
1 TAATTTTAATT
2500598 TAATTTTAATT
1 TAATTTTAATT
2500609 TAA
1 TAA
2500612 ATATTAACTA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
10 4 0.11
11 26 0.68
12 8 0.21
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (11 bp):
TAATTTTAATT
Found at i:2500699 original size:11 final size:11
Alignment explanation
Indices: 2500685--2500709 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2500675 TTAGATTGAT
2500685 TTTAATTTTAA
1 TTTAATTTTAA
2500696 TTTAATTTTAA
1 TTTAATTTTAA
2500707 TTT
1 TTT
2500710 TTGATAATGT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATTTTAA
Found at i:2503769 original size:6 final size:6
Alignment explanation
Indices: 2503758--2503822 Score: 52
Period size: 6 Copynumber: 11.5 Consensus size: 6
2503748 GTCATAATTT
* *
2503758 ATATAA ATATAA A-ATAT AT-TAA ATATAA TTATAA TATGATAA A-AT--
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA -AT-ATAA ATATAA
2503803 ATATAA ATAT-A ATATAA ATA
1 ATATAA ATATAA ATATAA ATA
2503823 CATGAATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 15 0.32
6 23 0.49
7 2 0.04
8 4 0.09
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (6 bp):
ATATAA
Found at i:2503775 original size:15 final size:15
Alignment explanation
Indices: 2503757--2503814 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
2503747 AGTCATAATT
2503757 TATATAAATATAAAA
1 TATATAAATATAAAA
2503772 TATATTAAATAT--AA
1 TATA-TAAATATAAAA
2503786 T-TATAATATGATAAAA
1 TATATAA-AT-ATAAAA
2503802 TATATAAATATAA
1 TATATAAATATAA
2503815 TATAAATACA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 3 0.08
13 4 0.11
14 5 0.14
15 8 0.22
16 12 0.32
17 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
TATATAAATATAAAA
Found at i:2503776 original size:9 final size:9
Alignment explanation
Indices: 2503764--2503820 Score: 51
Period size: 9 Copynumber: 5.8 Consensus size: 9
2503754 ATTTATATAA
2503764 ATATAAAAT
1 ATATAAAAT
*
2503773 ATATTAAAT
1 ATATAAAAT
*
2503782 ATAATTATAAT
1 AT-A-TAAAAT
2503793 ATGATAAAAT
1 AT-ATAAAAT
2503803 ATATAAATAT
1 ATATAAA-AT
2503813 AATATAAA
1 -ATATAAA
2503821 TACATGAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 15 0.38
10 10 0.26
11 14 0.36
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (9 bp):
ATATAAAAT
Found at i:2503833 original size:32 final size:30
Alignment explanation
Indices: 2503759--2503819 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
2503749 TCATAATTTA
2503759 TATAA-AT-ATAAAATATATTAAATATAAT
1 TATAATATGATAAAATATATTAAATATAAT
2503787 TATAATATGATAAAATATA-TAAATATAA-
1 TATAATATGATAAAATATATTAAATATAAT
2503815 TATAA
1 TATAA
2503820 ATACATGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
28 10 0.32
29 11 0.35
30 10 0.32
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
TATAATATGATAAAATATATTAAATATAAT
Found at i:2508271 original size:2 final size:2
Alignment explanation
Indices: 2508264--2508298 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
2508254 AAGAGGAAAT
2508264 TA TA TA TA TA -A T- TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2508299 CTTAGACTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2510489 original size:18 final size:18
Alignment explanation
Indices: 2510447--2510489 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2510437 GTATTTAAAA
*
2510447 AATATAAAAAATCTTGAG
1 AATATAAAAAATCTCGAG
* *
2510465 AAAATAAAAAATCTCGAT
1 AATATAAAAAATCTCGAG
2510483 AATATAA
1 AATATAA
2510490 CATTCTAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (18 bp):
AATATAAAAAATCTCGAG
Found at i:2514238 original size:40 final size:40
Alignment explanation
Indices: 2514183--2514262 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
2514173 TTATAAATAT
2514183 ACGTAAACTGGATCATATTCTTAATCTTAATTGCTACTTC
1 ACGTAAACTGGATCATATTCTTAATCTTAATTGCTACTTC
*
2514223 ACGTAAACTGGATCATATTCTTAATCTTAATTGCTGCTTC
1 ACGTAAACTGGATCATATTCTTAATCTTAATTGCTACTTC
2514263 CTGGCCAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (40 bp):
ACGTAAACTGGATCATATTCTTAATCTTAATTGCTACTTC
Found at i:2514907 original size:18 final size:17
Alignment explanation
Indices: 2514882--2514930 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
2514872 TATAATTAAA
*
2514882 ATTTAATTTAAATTATT
1 ATTTAATTTAAATAATT
2514899 ATTTAAATTATAAA-AATT
1 ATTT-AATT-TAAATAATT
*
2514917 ATTTTATTTAAATA
1 ATTTAATTTAAATA
2514931 CAATTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 4 0.15
17 8 0.30
18 11 0.41
19 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTAATTTAAATAATT
Found at i:2519394 original size:18 final size:18
Alignment explanation
Indices: 2519360--2519414 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
2519350 TATAATTAAA
*
2519360 AATTATATAAACA-ATATT
1 AATTAAATAAA-ATATATT
2519378 AATTAAATAAAATATA-T
1 AATTAAATAAAATATATT
2519395 -ATATAAATAAAAATATATT
1 AAT-TAAAT-AAAATATATT
2519414 A
1 A
2519415 TTTTATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
16 2 0.06
17 7 0.23
18 21 0.68
19 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTAAATAAAATATATT
Found at i:2519546 original size:2 final size:2
Alignment explanation
Indices: 2519539--2519596 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
2519529 GCCATAATTA
2519539 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2519581 CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT
2519597 GTCTATATAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2519696 original size:21 final size:20
Alignment explanation
Indices: 2519669--2519724 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
2519659 TTAAATTTAT
2519669 AAATTATTAAATATATATAAA
1 AAATTATTAAATATA-ATAAA
* **
2519690 TAATTATTTGATATAATAAA
1 AAATTATTAAATATAATAAA
2519710 AAATTTATATAAATA
1 AAA-TTAT-TAAATA
2519725 ATGTTAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 7 0.26
21 16 0.59
22 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
AAATTATTAAATATAATAAA
Found at i:2519756 original size:14 final size:15
Alignment explanation
Indices: 2519719--2519760 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
2519709 AAAATTTATA
* *
2519719 TAAATAATGT-TAAT
1 TAAATAATATATATT
2519733 TAAATAATATATATT
1 TAAATAATATATATT
2519748 TAAAT-ATATATAT
1 TAAATAATATATAT
2519761 CATTTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
TAAATAATATATATT
Found at i:2520814 original size:19 final size:19
Alignment explanation
Indices: 2520789--2520835 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
2520779 TTTATAATTA
*
2520789 AAATTAAATAAAAATTATT
1 AAATTAAATAAAAACTATT
* *
2520808 TAATTAAATAAATACTATT
1 AAATTAAATAAAAACTATT
2520827 AAATTAAAT
1 AAATTAAAT
2520836 TAATTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTAAATAAAAACTATT
Found at i:2524665 original size:45 final size:43
Alignment explanation
Indices: 2524574--2524665 Score: 96
Period size: 45 Copynumber: 2.1 Consensus size: 43
2524564 TATTATATGA
* **
2524574 AAATAAAAAATAAATAACATAATATAAATGTAATATTTTTAAT
1 AAATAAAAAATAAATAACAAAATATAAATGTAATATAATTAAT
* * *
2524617 AAATATAAAAATAATATAATAAAATATAAATTTACATA-AATTATT
1 AAATA-AAAAATAA-ATAACAAAATATAAATGTA-ATATAATTAAT
2524662 AAAT
1 AAAT
2524666 TTAATTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
43 5 0.12
44 8 0.20
45 24 0.60
46 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (43 bp):
AAATAAAAAATAAATAACAAAATATAAATGTAATATAATTAAT
Found at i:2525903 original size:3 final size:3
Alignment explanation
Indices: 2525895--2525932 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
2525885 ATTAAATTTG
2525895 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2525933 GATATAATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2526213 original size:2 final size:2
Alignment explanation
Indices: 2526206--2526235 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2526196 GCCTTCCTTG
2526206 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2526236 GTCACTTGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2529406 original size:39 final size:39
Alignment explanation
Indices: 2529349--2529423 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
2529339 CTCTAACGAT
* *
2529349 GTTGTATAGATTTGGATTGGATTTTTTGGAGAGTTCAAG
1 GTTGTATAGATTTAGATTGGATATTTTGGAGAGTTCAAG
2529388 GTTGTATAGATTTAGATTGGATATTTTGGAGAGTTC
1 GTTGTATAGATTTAGATTGGATATTTTGGAGAGTTC
2529424 CCGGTGAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.29, T:0.44
Consensus pattern (39 bp):
GTTGTATAGATTTAGATTGGATATTTTGGAGAGTTCAAG
Found at i:2533528 original size:4 final size:4
Alignment explanation
Indices: 2533519--2533547 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
2533509 TATTGATACG
2533519 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
2533548 AAGAGTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:2533929 original size:16 final size:16
Alignment explanation
Indices: 2533916--2533947 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2533906 TAATTATATT
2533916 TATATATTAATATAAA
1 TATATATTAATATAAA
*
2533932 TATTTATTAATATAAA
1 TATATATTAATATAAA
2533948 AATAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATATATTAATATAAA
Found at i:2533957 original size:19 final size:18
Alignment explanation
Indices: 2533920--2533964 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 18
2533910 TATATTTATA
2533920 TATTAATAT--AAATATT
1 TATTAATATAAAAATATT
2533936 TATTAATATAAAAATAATT
1 TATTAATATAAAAAT-ATT
2533955 TATTAA-ATAA
1 TATTAATATAA
2533965 TTTATCGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.35
18 8 0.31
19 9 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTAATATAAAAATATT
Found at i:2534421 original size:20 final size:20
Alignment explanation
Indices: 2534379--2534420 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2534369 TTTATATTAA
* *
2534379 TTTATTATATTTTTATTATT
1 TTTATTATATATATATTATT
2534399 TTTATTATATATATATT-TT
1 TTTATTATATATATATTATT
2534418 TTT
1 TTT
2534421 TTTGATCGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTATTATATATATATTATT
Found at i:2537974 original size:23 final size:23
Alignment explanation
Indices: 2537930--2537975 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2537920 ATTATTTATT
*
2537930 TTTTTAATATTTTAAATGATATA
1 TTTTTAATAATTTAAATGATATA
*
2537953 TTTTTAA-AATTTATATGTATATA
1 TTTTTAATAATTTAAATG-ATATA
2537976 ATATAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTTTAATAATTTAAATGATATA
Found at i:2541451 original size:25 final size:25
Alignment explanation
Indices: 2541417--2541465 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
2541407 GAGCTCGGGG
2541417 AGATAAGAATATGAAAGTGAACAGT
1 AGATAAGAATATGAAAGTGAACAGT
*
2541442 AGATAAGAATATGAAAGTGGACAG
1 AGATAAGAATATGAAAGTGAACAG
2541466 AAGTTGGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.27, T:0.18
Consensus pattern (25 bp):
AGATAAGAATATGAAAGTGAACAGT
Found at i:2543306 original size:2 final size:2
Alignment explanation
Indices: 2543263--2543288 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2543253 TCAAAGACAA
2543263 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
2543289 GGAAATATGG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2543662 original size:47 final size:46
Alignment explanation
Indices: 2543592--2543710 Score: 107
Period size: 47 Copynumber: 2.5 Consensus size: 46
2543582 ATTAAATTCC
* * * * *
2543592 ATTTAATTTTGA-TATAAATAATAATAAAATATATTTATTTCTATTCA
1 ATTTAATTTTTATTATAAATAAT-A-AATATATAATTATTTATATTAA
* *
2543639 CTTTAATTTTTAATTTATAAATAA-AAATTTATAATTATTTATATTAA
1 ATTTAATTTTT-A-TTATAAATAATAAATATATAATTATTTATATTAA
* *
2543686 ATTTTATTTTTATTATATATAATAA
1 ATTTAATTTTTATTATAAATAATAA
2543711 GTATTTTATT
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
45 9 0.16
46 3 0.05
47 35 0.60
48 2 0.03
50 9 0.16
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.53
Consensus pattern (46 bp):
ATTTAATTTTTATTATAAATAATAAATATATAATTATTTATATTAA
Found at i:2543826 original size:13 final size:14
Alignment explanation
Indices: 2543808--2543836 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2543798 ATCAATATAA
2543808 TTTAATT-TAAATT
1 TTTAATTATAAATT
2543821 TTTAATTATAAATT
1 TTTAATTATAAATT
2543835 TT
1 TT
2543837 ATTCAATCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTAATTATAAATT
Found at i:2543949 original size:17 final size:17
Alignment explanation
Indices: 2543926--2543963 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2543916 TACCAATTAA
*
2543926 AAATAAAAAAT-AATTT
1 AAATTAAAAATAAATTT
*
2543942 AAATTAAATATAAATTT
1 AAATTAAAAATAAATTT
2543959 AAATT
1 AAATT
2543964 TAAACACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTAAAAATAAATTT
Found at i:2544613 original size:26 final size:28
Alignment explanation
Indices: 2544581--2544633 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
2544571 ATATATATAT
2544581 ATAATAATATCTTATT-TTA-ATTTAAA
1 ATAATAATATCTTATTATTACATTTAAA
* *
2544607 ATAATAATTTTTTATTATTACATTTAA
1 ATAATAATATCTTATTATTACATTTAA
2544634 TACAGTGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 14 0.61
27 3 0.13
28 6 0.26
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (28 bp):
ATAATAATATCTTATTATTACATTTAAA
Found at i:2547146 original size:24 final size:24
Alignment explanation
Indices: 2547092--2547149 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
2547082 TTTTTATTTA
* *
2547092 AATTAGTAAATTTAATTTAAATAAT
1 AATTA-TAAATTAAAATTAAATAAT
* * *
2547117 ATTTATAAATTAAAATTATATATT
1 AATTATAAATTAAAATTAAATAAT
2547141 AATTATAAA
1 AATTATAAA
2547150 ATATATATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
AATTATAAATTAAAATTAAATAAT
Found at i:2547156 original size:18 final size:18
Alignment explanation
Indices: 2547114--2547165 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
2547104 TAATTTAAAT
* *
2547114 AATATTTATAAATTA-AA
1 AATATATATTAATTATAA
*
2547131 ATTATATATTAATTATAA
1 AATATATATTAATTATAA
2547149 AATATATATTAA-TATAA
1 AATATATATTAATTATAA
2547166 TTTTTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATATATTAATTATAA
Found at i:2547254 original size:7 final size:6
Alignment explanation
Indices: 2547221--2547250 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
2547211 TTAAGTGATA
2547221 TTAAAT TTAAAT TTAAAT TTAATAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAA-AT TTAAA
2547251 ATTTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAAAT
Found at i:2547345 original size:2 final size:2
Alignment explanation
Indices: 2547338--2547367 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2547328 CATTCAAATA
2547338 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
2547368 CAATATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2562822 original size:119 final size:120
Alignment explanation
Indices: 2562655--2562879 Score: 337
Period size: 119 Copynumber: 1.9 Consensus size: 120
2562645 ACCCCCCTCC
2562655 CAATCCAAAGTTGACAATGTCAACTTCACTCAGTTCAATTCATCATGCATTGC-AAACCATTGTA
1 CAATCCAAAGTTGACAATGTCAACTTCACTCAGTTCAATTCATCATGCATT-CTAAACCATTGTA
*
2562719 AACAAACCATAGGGATATGCATGCCATTACATAGCAGGTTTTGAACCCTCCCCCTG
65 AACAAACCATAGGGATATCCATGCCATTACATAGCAGGTTTTGAACCCTCCCCCTG
* * * * *
2562775 CAATCCAAAGTTGACAGT-TCAAGTTTACTCAGTTCACTTCATGATGCATTCTAAACCATTGTAA
1 CAATCCAAAGTTGACAATGTCAACTTCACTCAGTTCAATTCATCATGCATTCTAAACCATTGTAA
* * * *
2562839 ACAAGCCCTAGGGTTATCCATGCCATTACATGGCAGGTTTT
66 ACAAACCATAGGGATATCCATGCCATTACATAGCAGGTTTT
2562880 TGGACCCCCC
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
118 1 0.01
119 76 0.81
120 17 0.18
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (120 bp):
CAATCCAAAGTTGACAATGTCAACTTCACTCAGTTCAATTCATCATGCATTCTAAACCATTGTAA
ACAAACCATAGGGATATCCATGCCATTACATAGCAGGTTTTGAACCCTCCCCCTG
Found at i:2565379 original size:17 final size:16
Alignment explanation
Indices: 2565354--2565418 Score: 50
Period size: 18 Copynumber: 4.1 Consensus size: 16
2565344 ATATTATACA
2565354 TTTATATAAATTTAATAT
1 TTTATAT-AATTT-ATAT
2565372 TTTA-ATAATTTATA-
1 TTTATATAATTTATAT
2565386 -TTATA-AATTTTGATAT
1 TTTATATAA-TTT-ATAT
2565402 ATTTATAT-ATTTATAT
1 -TTTATATAATTTATAT
2565418 T
1 T
2565419 ATATTTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 17
0.70 0.00 0.30
Matches are distributed among these distances:
13 5 0.12
14 4 0.10
15 7 0.17
16 9 0.22
17 5 0.12
18 10 0.25
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTTATATAATTTATAT
Found at i:2565390 original size:31 final size:32
Alignment explanation
Indices: 2565355--2565445 Score: 90
Period size: 31 Copynumber: 3.1 Consensus size: 32
2565345 TATTATACAT
2565355 TTATATAAATTTAATAT-TTTA-ATAATTTATA
1 TTATATAAATTTAATATATTTATAT-ATTTATA
* *
2565386 TTATA-AATTTTGATATATTTATATATTTATA
1 TTATATAAATTTAATATATTTATATATTTATA
*
2565417 TTATAT---TTTAAT-TATTTATTTATTT-TA
1 TTATATAAATTTAATATATTTATATATTTATA
2565444 TT
1 TT
2565446 CATACCATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
27 4 0.08
28 12 0.23
29 5 0.09
30 9 0.17
31 21 0.40
32 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (32 bp):
TTATATAAATTTAATATATTTATATATTTATA
Found at i:2569097 original size:12 final size:12
Alignment explanation
Indices: 2569080--2569122 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
2569070 AATCATATAC
*
2569080 TATTATTTAAGA
1 TATTATTTAAAA
2569092 TATTATTTAAAA
1 TATTATTTAAAA
*
2569104 TATAATTATAAATA
1 TATTATT-TAAA-A
2569118 TATTA
1 TATTA
2569123 ATATAGATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 17 0.65
13 4 0.15
14 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
TATTATTTAAAA
Found at i:2569187 original size:11 final size:11
Alignment explanation
Indices: 2569166--2569203 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2569156 AAATAAATTA
2569166 TATAT-TTAAT
1 TATATCTTAAT
2569176 TATATCTTAAT
1 TATATCTTAAT
*
2569187 TATATTTTAAT
1 TATATCTTAAT
*
2569198 CATATC
1 TATATC
2569204 AAAATTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 5 0.21
11 19 0.79
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (11 bp):
TATATCTTAAT
Found at i:2569202 original size:22 final size:23
Alignment explanation
Indices: 2569161--2569203 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
2569151 AAATAAAATA
*
2569161 AATTATATATTTAATTATATCTT
1 AATTATATATTTAATCATATCTT
2569184 AATTATAT-TTTAATCATATC
1 AATTATATATTTAATCATATC
2569204 AAAATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTATATATTTAATCATATCTT
Found at i:2569212 original size:23 final size:23
Alignment explanation
Indices: 2569160--2569213 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
2569150 AAAATAAAAT
* *
2569160 AAATTATATATTTAATTATATCT
1 AAATTATATATTTAATCATATCA
*
2569183 TAATTATAT-TTTAATCATATCA
1 AAATTATATATTTAATCATATCA
2569205 AAATT-TATA
1 AAATTATATA
2569214 ATTCACTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.12
22 15 0.58
23 8 0.31
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATTATATATTTAATCATATCA
Found at i:2572138 original size:2 final size:2
Alignment explanation
Indices: 2572131--2572156 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2572121 GGATTCCTTC
2572131 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
2572157 TTGTTTTTAA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2589339 original size:2 final size:2
Alignment explanation
Indices: 2589334--2589374 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2589324 AAAGAGAGCG
2589334 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2589375 ATATATATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:2589379 original size:2 final size:2
Alignment explanation
Indices: 2589374--2589398 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2589364 TCTCTCTCTC
2589374 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2589399 TCTCATCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2590068 original size:21 final size:19
Alignment explanation
Indices: 2590032--2590095 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 19
2590022 TATTTAATAT
*
2590032 ATATTAAATATTAATATAAA
1 ATATT-AATTTTAATATAAA
2590052 ATATTAATTTTTTAATATATAA
1 ATATTAA--TTTTAATATA-AA
*
2590074 A-AATAATTTTAATA-AAA
1 ATATTAATTTTAATATAAA
2590091 ATATT
1 ATATT
2590096 TACATTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
17 3 0.08
18 3 0.08
19 10 0.27
20 5 0.14
21 13 0.35
22 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATTAATTTTAATATAAA
Found at i:2591041 original size:2 final size:2
Alignment explanation
Indices: 2591034--2591068 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2591024 ACCACTTATC
2591034 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2591069 ATTAATAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2591894 original size:33 final size:32
Alignment explanation
Indices: 2591825--2591916 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 32
2591815 AAATAATTAA
* * *
2591825 AATATAATATAAA-TACATATATTTTTAAATT
1 AATATAATATAAATTAAATATATATTAAAATT
*
2591856 TATATAATATAAATTAAATAATATATTAAAATT
1 AATATAATATAAATTAAAT-ATATATTAAAATT
* *
2591889 AATATAAAATAAATATATTATATATATT
1 AATATAATATAAAT-TA-AATATATATT
2591917 TTTTAAGGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
31 12 0.24
32 4 0.08
33 23 0.46
34 9 0.18
35 2 0.04
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
AATATAATATAAATTAAATATATATTAAAATT
Found at i:2595399 original size:20 final size:19
Alignment explanation
Indices: 2595363--2595402 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
2595353 ACATAACAAA
2595363 ATTTAAATAAATATATAAT
1 ATTTAAATAAATATATAAT
* *
2595382 ATTTAAAATATATTTATAAT
1 ATTT-AAATAAATATATAAT
2595402 A
1 A
2595403 AAAAATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAATATATAAT
Found at i:2605961 original size:24 final size:24
Alignment explanation
Indices: 2605915--2605963 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
2605905 ATTTTTATTT
*
2605915 GGGTTTATGATCTAATGTCGTTCG
1 GGGTTTATGATCTAATGCCGTTCG
2605939 GGGTTTATGATCTAAT-CCAGTTCG
1 GGGTTTATGATCTAATGCC-GTTCG
2605963 G
1 G
2605964 CTATGTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.18, C:0.14, G:0.29, T:0.39
Consensus pattern (24 bp):
GGGTTTATGATCTAATGCCGTTCG
Done.