Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 86 of 328
Found at i:23940598 original size:34 final size:33
Alignment explanation
Indices: 23940534--23940598 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
23940524 TTATTTAAGT
*
23940534 ATATTTTTTTAATGTATTTTTAATTTTTTGAGAA
1 ATATTTTTTTAA-GTATTTTTAATTATTTGAGAA
23940568 ATATTTATTTTAA-TATTTTTAATGTATTTGA
1 ATATTT-TTTTAAGTATTTTTAAT-TATTTGA
23940599 TGTATTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 10 0.36
34 12 0.43
35 6 0.21
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (33 bp):
ATATTTTTTTAAGTATTTTTAATTATTTGAGAA
Found at i:23940614 original size:35 final size:34
Alignment explanation
Indices: 23940533--23940615 Score: 80
Period size: 35 Copynumber: 2.4 Consensus size: 34
23940523 GTTATTTAAG
*
23940533 TATATTTTTTTAATGTATTTTTAATTTTTTGAGAAA
1 TATA-TTTTTTAA-GTATTTTTAATTATTTGAGAAA
* *
23940569 TAT-TTATTTTAA-TATTTTTAATGTATTTGATGTAT
1 TATATT-TTTTAAGTATTTTTAAT-TATTTGA-GAAA
23940604 TATATTTTTTAA
1 TATATTTTTTAA
23940616 AATTATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
33 10 0.25
34 8 0.20
35 17 0.43
36 5 0.12
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (34 bp):
TATATTTTTTAAGTATTTTTAATTATTTGAGAAA
Found at i:23942636 original size:25 final size:24
Alignment explanation
Indices: 23942592--23942641 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
23942582 AAAAAAGTAA
*
23942592 TAATTTTTAAAATTTTATATTATT
1 TAATTTTTAAAATTTTATATAATT
23942616 TAATTTTCTAATAA-TTTATATAATT
1 TAATTTT-TAA-AATTTTATATAATT
23942641 T
1 T
23942642 TTTTATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 7 0.30
25 14 0.61
26 2 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TAATTTTTAAAATTTTATATAATT
Found at i:23942639 original size:20 final size:20
Alignment explanation
Indices: 23942611--23942652 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
23942601 AAATTTTATA
*
23942611 TTATTTAATTTTCTAATAAT
1 TTATATAATTTTCTAATAAT
* *
23942631 TTATATAATTTTTTTATAAT
1 TTATATAATTTTCTAATAAT
23942651 TT
1 TT
23942653 TCTAAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATATAATTTTCTAATAAT
Found at i:23942653 original size:9 final size:9
Alignment explanation
Indices: 23942591--23942669 Score: 56
Period size: 8 Copynumber: 8.6 Consensus size: 9
23942581 AAAAAAAGTA
23942591 ATAATTTTT
1 ATAATTTTT
*
23942600 A-AAATTTT
1 ATAATTTTT
*
23942608 AT-ATTATT
1 ATAATTTTT
23942616 -TAATTTTCT
1 ATAATTTT-T
*
23942625 AATAATTTAT
1 -ATAATTTTT
23942635 ATAATTTTTTT
1 ATAA--TTTTT
23942646 ATAATTTTCT
1 ATAATTTT-T
*
23942656 AAAATTTTT
1 ATAATTTTT
23942665 ATAAT
1 ATAAT
23942670 GAGTTAATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
7 1 0.02
8 15 0.28
9 15 0.28
10 9 0.17
11 14 0.26
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (9 bp):
ATAATTTTT
Found at i:23942982 original size:9 final size:9
Alignment explanation
Indices: 23942970--23943065 Score: 54
Period size: 9 Copynumber: 10.4 Consensus size: 9
23942960 CTTTTTATAT
23942970 TTTTAATAA
1 TTTTAATAA
23942979 TTTTTTAATAA
1 --TTTTAATAA
*
23942990 CTTTTAAAAA
1 -TTTTAATAA
*
23943000 CTTTAATAA
1 TTTTAATAA
*
23943009 GTTTAATAA
1 TTTTAATAA
23943018 TTCTTTAATAA
1 -T-TTTAATAA
* * *
23943029 TGTT-GTAT
1 TTTTAATAA
* *
23943037 TTTTTATCA
1 TTTTAATAA
23943046 TTTTAAT-A
1 TTTTAATAA
23943054 TTTTAAT-A
1 TTTTAATAA
23943062 TTTT
1 TTTT
23943066 TTTCTATATA
Statistics
Matches: 68, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
8 18 0.26
9 24 0.35
10 9 0.13
11 17 0.25
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (9 bp):
TTTTAATAA
Found at i:23942983 original size:10 final size:10
Alignment explanation
Indices: 23942968--23943029 Score: 56
Period size: 11 Copynumber: 6.2 Consensus size: 10
23942958 GCCTTTTTAT
23942968 ATTTTTAATA
1 ATTTTTAATA
23942978 ATTTTTTAATA
1 A-TTTTTAATA
*
23942989 ACTTTTAA-A
1 ATTTTTAATA
**
23942998 AACTTTAATA
1 ATTTTTAATA
*
23943008 A-GTTTAATA
1 ATTTTTAATA
23943017 ATTCTTTAATA
1 ATT-TTTAATA
23943028 AT
1 AT
23943030 GTTGTATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 15 0.35
10 9 0.21
11 19 0.44
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:23946312 original size:48 final size:48
Alignment explanation
Indices: 23946256--23946369 Score: 129
Period size: 48 Copynumber: 2.4 Consensus size: 48
23946246 TAATTTAATA
** * *
23946256 GCCCGAAGCCAAATCAATAAAGCTTGCACTCGAAGTGCCGACATCATG
1 GCCCGAAGCCAAATCAATAAAGCTCACACCCGAAGTGCCAACATCATG
* *** * *
23946304 GCCTGAAGCCAAATTGGTAAAGCTCACACCCGAAGTGCTAATATCATG
1 GCCCGAAGCCAAATCAATAAAGCTCACACCCGAAGTGCCAACATCATG
*
23946352 GCCCAAAGCCAAATCAAT
1 GCCCGAAGCCAAATCAAT
23946370 GAATTTCCTA
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (48 bp):
GCCCGAAGCCAAATCAATAAAGCTCACACCCGAAGTGCCAACATCATG
Found at i:23954942 original size:20 final size:20
Alignment explanation
Indices: 23954905--23954944 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23954895 TTTTTCTATA
** *
23954905 ATTTTATATTTTTTAATAAT
1 ATTTTATAAGTTTAAATAAT
23954925 ATTTTATAAGTTTAAATAAT
1 ATTTTATAAGTTTAAATAAT
23954945 TAGAAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
ATTTTATAAGTTTAAATAAT
Found at i:23959583 original size:3 final size:3
Alignment explanation
Indices: 23959577--23959612 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
23959567 AATTTTTTAA
23959577 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
23959613 ATTTAAAAAA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:23962439 original size:6 final size:6
Alignment explanation
Indices: 23962428--23962475 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
23962418 ATGCACTAGG
* * * *
23962428 GCCGGA GCCGGA GCCGGA GTCGGA GTCGGA GCCAGA GCCAGA GCCGGA
1 GCCGGA GCCGGA GCCGGA GCCGGA GCCGGA GCCGGA GCCGGA GCCGGA
23962476 ACTACACTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.21, C:0.29, G:0.46, T:0.04
Consensus pattern (6 bp):
GCCGGA
Found at i:23962624 original size:33 final size:34
Alignment explanation
Indices: 23962579--23962711 Score: 166
Period size: 33 Copynumber: 4.0 Consensus size: 34
23962569 TATCTTCAGC
* *
23962579 CCACCATC-GTACTCCGCTCCTTCCGGCTCGTAT
1 CCACCACCAGTACTCCGCTCCTTCCAGCTCGTAT
* **
23962612 CCACCA-CAGTACTCTGCTTATTCCAGCTCGTAT
1 CCACCACCAGTACTCCGCTCCTTCCAGCTCGTAT
*
23962645 CCACCACCA-TACTCCGCTCCTTCTAGCTCGTAT
1 CCACCACCAGTACTCCGCTCCTTCCAGCTCGTAT
**
23962678 CCACCACC-GTACTCCGCTCCTTCTGGCTCGTAT
1 CCACCACCAGTACTCCGCTCCTTCCAGCTCGTAT
23962711 C
1 C
23962712 TATCGACATT
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.01
33 85 0.97
34 2 0.02
ACGTcount: A:0.16, C:0.44, G:0.13, T:0.28
Consensus pattern (34 bp):
CCACCACCAGTACTCCGCTCCTTCCAGCTCGTAT
Found at i:23962750 original size:99 final size:99
Alignment explanation
Indices: 23962579--23962757 Score: 243
Period size: 99 Copynumber: 1.8 Consensus size: 99
23962569 TATCTTCAGC
* * * *
23962579 CCACCATCGTACTCCGCTCCTTCCGGCTCGTATCCACCACAGTACTCTGCTTATTCCAGCTCGTA
1 CCACCACCGTACTCCGCTCCTTCCGGCTCGTATCCACCACAGTACTCTACTCATCCCAGCTCGTA
*
23962644 TCCACCACCATACTCCGCTCCTTCTAGCTCGTAT
66 CCCACCACCATACTCCGCTCCTTCTAGCTCGTAT
* * * * * *
23962678 CCACCACCGTACTCCGCTCCTTCTGGCTCGTATCTATCGACA-TTCTCTACTCCTCCCAGCTTGT
1 CCACCACCGTACTCCGCTCCTTCCGGCTCGTATCCA-CCACAGTACTCTACTCATCCCAGCTCGT
23962742 ACCCACCACCATACTC
65 ACCCACCACCATACTC
23962758 TACTCCTCCA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 64 0.94
100 4 0.06
ACGTcount: A:0.17, C:0.44, G:0.11, T:0.28
Consensus pattern (99 bp):
CCACCACCGTACTCCGCTCCTTCCGGCTCGTATCCACCACAGTACTCTACTCATCCCAGCTCGTA
CCCACCACCATACTCCGCTCCTTCTAGCTCGTAT
Found at i:23962764 original size:66 final size:66
Alignment explanation
Indices: 23962669--23962806 Score: 152
Period size: 66 Copynumber: 2.1 Consensus size: 66
23962659 CGCTCCTTCT
* * * * * *
23962669 AGCTCGTATCCACCACCGTACTCCGCTCCTTCTG-GCTCGTATCTATCGACATTCTCTACTCCTC
1 AGCTCGTACCCACCACCATACTCCACTCCTCCAGAG-TCGTATCTACCGACATTCTCTACTCCTC
23962733 CC
65 CC
* * * * *
23962735 AGCTTGTACCCACCACCATACTCTACTCCTCCAGAGTCGTATCTACCGTCGTTCTCTATTCCTCC
1 AGCTCGTACCCACCACCATACTCCACTCCTCCAGAGTCGTATCTACCGACATTCTCTACTCCTCC
23962800 C
66 C
*
23962801 AACTCG
1 AGCTCG
23962807 AGTTCATCGA
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
66 57 0.98
67 1 0.02
ACGTcount: A:0.17, C:0.41, G:0.12, T:0.30
Consensus pattern (66 bp):
AGCTCGTACCCACCACCATACTCCACTCCTCCAGAGTCGTATCTACCGACATTCTCTACTCCTCC
C
Found at i:23962775 original size:99 final size:99
Alignment explanation
Indices: 23962579--23962777 Score: 231
Period size: 99 Copynumber: 2.0 Consensus size: 99
23962569 TATCTTCAGC
* * * *
23962579 CCACCATCGTACTCCGCTCCTTCCGGCTCGTATCCACCACAGTACTCTGCTTATTCCAGCTCGTA
1 CCACCACCGTACTCCGCTCCTTCCGGCTCGTATCCACCACAGTACTCTACTCATCCCAGCTCGTA
* * *
23962644 TCCACCACCATACTCCGCTCCTTCTAGCTCGTAT
66 CCCACCACCATACTCCACTCCTTCCAGCTCGTAT
* * * * * *
23962678 CCACCACCGTACTCCGCTCCTTCTGGCTCGTATCTATCGACA-TTCTCTACTCCTCCCAGCTTGT
1 CCACCACCGTACTCCGCTCCTTCCGGCTCGTATCCA-CCACAGTACTCTACTCATCCCAGCTCGT
* *
23962742 ACCCACCACCATACTCTACTCC-TCCAGAGTCGTAT
65 ACCCACCACCATACTCCACTCCTTCCAG-CTCGTAT
23962777 C
1 C
23962778 TACCGTCGTT
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
98 4 0.05
99 75 0.90
100 4 0.05
ACGTcount: A:0.18, C:0.43, G:0.12, T:0.28
Consensus pattern (99 bp):
CCACCACCGTACTCCGCTCCTTCCGGCTCGTATCCACCACAGTACTCTACTCATCCCAGCTCGTA
CCCACCACCATACTCCACTCCTTCCAGCTCGTAT
Found at i:23966195 original size:27 final size:27
Alignment explanation
Indices: 23966138--23966195 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
23966128 CCTACTTGAC
* *
23966138 AGGCGCGACATGTTGAGCCTGTCAGGT
1 AGGCGCGACATGTCGAGCCTCTCAGGT
*
23966165 AGGCGCGACATGTCGTGCCTACTCAGG-
1 AGGCGCGACATGTCGAGCCT-CTCAGGT
23966192 AGGC
1 AGGC
23966196 TCAACCCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.19, C:0.26, G:0.36, T:0.19
Consensus pattern (27 bp):
AGGCGCGACATGTCGAGCCTCTCAGGT
Found at i:23966804 original size:3 final size:3
Alignment explanation
Indices: 23966796--23966850 Score: 65
Period size: 3 Copynumber: 17.7 Consensus size: 3
23966786 TACTAATTTT
* * *
23966796 TTC TTC TTC TTTC TTT TTC TTC TTC TTC TTC TTT TTC TTT TTC TTC
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
23966842 TTC TCTC TT
1 TTC T-TC TT
23966851 TGCTCCTGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
3 38 0.86
4 6 0.14
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:23966827 original size:18 final size:18
Alignment explanation
Indices: 23966792--23966845 Score: 83
Period size: 18 Copynumber: 3.0 Consensus size: 18
23966782 AAATTACTAA
23966792 TTTT-TTCTTCTTCTTTCT
1 TTTTCTTCTTCTTC-TTCT
23966810 TTTTCTTCTTCTTCTTCT
1 TTTTCTTCTTCTTCTTCT
*
23966828 TTTTCTTTTTCTTCTTCT
1 TTTTCTTCTTCTTCTTCT
23966846 CTCTTTGCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 25 0.74
19 9 0.26
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTCTTCTTCTTCTTCT
Found at i:23966966 original size:3 final size:3
Alignment explanation
Indices: 23966960--23966986 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
23966950 TTTTTTAAAT
23966960 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
23966987 TTAAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23967661 original size:32 final size:31
Alignment explanation
Indices: 23967602--23967663 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 31
23967592 CCAAACAATG
23967602 TTTTCTTTTTCTTATATAAATATTTATTGTCA
1 TTTTCTTTTTC-TATATAAATATTTATTGTCA
*
23967634 TTTTCTTTTTC-ATAGTAATTATGTTATTGT
1 TTTTCTTTTTCTATA-TAAATAT-TTATTGT
23967664 TACTGGGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 3 0.11
31 6 0.22
32 18 0.67
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.63
Consensus pattern (31 bp):
TTTTCTTTTTCTATATAAATATTTATTGTCA
Found at i:23969074 original size:21 final size:23
Alignment explanation
Indices: 23969031--23969077 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
23969021 TTTTGTGCAA
*
23969031 TTTAATTTTTTCTTTTATGTTAT
1 TTTAACTTTTTCTTTTATGTTAT
*
23969054 TTTAACTTTTT-TTTTCT-TTAT
1 TTTAACTTTTTCTTTTATGTTAT
23969075 TTT
1 TTT
23969078 TCATTCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 5 0.23
23 10 0.45
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTAACTTTTTCTTTTATGTTAT
Found at i:23970748 original size:3 final size:3
Alignment explanation
Indices: 23970740--23970770 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
23970730 CGTTACCTGC
*
23970740 TCT TCT TCT TCT TCT TCT TCT TCC TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
23970771 TTATTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:23971386 original size:19 final size:20
Alignment explanation
Indices: 23971349--23971386 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
23971339 AAAAAAGAAG
*
23971349 AATGTAAAAATTCAGAGTTC
1 AATGTAAAAATCCAGAGTTC
*
23971369 AATGT-AAAATCCATAGTT
1 AATGTAAAAATCCAGAGTT
23971387 AGATATTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (20 bp):
AATGTAAAAATCCAGAGTTC
Found at i:23974497 original size:158 final size:158
Alignment explanation
Indices: 23974209--23974528 Score: 631
Period size: 158 Copynumber: 2.0 Consensus size: 158
23974199 TTTAAAATCG
23974209 ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAGTGTATAA
1 ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAGTGTATAA
23974274 TCTATATGGTTAATTGTCAATGCTTCCACTTCTTCTGATGCTTTTTATACCATAATATGTGCATG
66 TCTATATGGTTAATTGTCAATGCTTCCACTTCTTCTGATGCTTTTTATACCATAATATGTGCATG
23974339 GTTTGTATTCTGCACATATCAGTTATCA
131 GTTTGTATTCTGCACATATCAGTTATCA
23974367 ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAGTGTATAA
1 ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAGTGTATAA
*
23974432 TCTATATGGTTAATTGTCAATGCTTCCACTTCTTCTGTTGCTTTTTATACCATAATATGTGCATG
66 TCTATATGGTTAATTGTCAATGCTTCCACTTCTTCTGATGCTTTTTATACCATAATATGTGCATG
23974497 GTTTGTATTCTGCACATATCAGTTATCA
131 GTTTGTATTCTGCACATATCAGTTATCA
23974525 ATTT
1 ATTT
23974529 ATTGAAATTA
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 161 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (158 bp):
ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAGTGTATAA
TCTATATGGTTAATTGTCAATGCTTCCACTTCTTCTGATGCTTTTTATACCATAATATGTGCATG
GTTTGTATTCTGCACATATCAGTTATCA
Found at i:23984506 original size:18 final size:20
Alignment explanation
Indices: 23984465--23984507 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
23984455 TTTTATTTGG
*
23984465 TTTTATTTTTATGAGAATAC
1 TTTTATTTTTATGAAAATAC
*
23984485 TTTTA-TTTTAT-AAAATAT
1 TTTTATTTTTATGAAAATAC
23984503 TTTTA
1 TTTTA
23984508 AATTACTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
19 6 0.29
20 5 0.24
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTATTTTTATGAAAATAC
Found at i:23986643 original size:12 final size:12
Alignment explanation
Indices: 23986626--23986651 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23986616 GACTCAACTT
23986626 GATTTATTAACA
1 GATTTATTAACA
23986638 GATTTATTAACA
1 GATTTATTAACA
23986650 GA
1 GA
23986652 AACCTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (12 bp):
GATTTATTAACA
Found at i:23987078 original size:9 final size:9
Alignment explanation
Indices: 23987064--23987103 Score: 80
Period size: 9 Copynumber: 4.4 Consensus size: 9
23987054 CAGATACCAT
23987064 ATGGAAGTA
1 ATGGAAGTA
23987073 ATGGAAGTA
1 ATGGAAGTA
23987082 ATGGAAGTA
1 ATGGAAGTA
23987091 ATGGAAGTA
1 ATGGAAGTA
23987100 ATGG
1 ATGG
23987104 GATGCTTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (9 bp):
ATGGAAGTA
Found at i:23987217 original size:10 final size:10
Alignment explanation
Indices: 23987202--23987231 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
23987192 ATAAAACAAT
23987202 AATTTAAAAC
1 AATTTAAAAC
23987212 AATTTAAAAC
1 AATTTAAAAC
*
23987222 AATTCAAAAC
1 AATTTAAAAC
23987232 TAGGATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (10 bp):
AATTTAAAAC
Found at i:23992520 original size:43 final size:43
Alignment explanation
Indices: 23992472--23992564 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
23992462 ATTCTAGAAA
23992472 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
23992515 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
23992558 TATTTTC
1 TATTTTC
23992565 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:23997093 original size:30 final size:31
Alignment explanation
Indices: 23997033--23997095 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
23997023 ATTATTAAAA
23997033 ATAATTAAAATTTCTTCTCTTTTATCCCGTC
1 ATAATTAAAATTTCTTCTCTTTTATCCCGTC
*
23997064 ATAATTAAAATTTCTTCTC-TTTCTCCCGTC
1 ATAATTAAAATTTCTTCTCTTTTATCCCGTC
23997094 AT
1 AT
23997096 TTCTTTCCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.25, C:0.24, G:0.03, T:0.48
Consensus pattern (31 bp):
ATAATTAAAATTTCTTCTCTTTTATCCCGTC
Found at i:24006479 original size:44 final size:45
Alignment explanation
Indices: 24006384--24006517 Score: 153
Period size: 44 Copynumber: 3.0 Consensus size: 45
24006374 ACAGGACAGA
* *
24006384 ACAGAAATAAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
24006430 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
24006474 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
24006518 CAGGATATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 36 0.49
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:24026799 original size:19 final size:20
Alignment explanation
Indices: 24026775--24026813 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
24026765 TTATTAAACT
*
24026775 TAATGCATATG-ATGAAATG
1 TAATGCAAATGAATGAAATG
24026794 TAATGCAAATGAATGAAATG
1 TAATGCAAATGAATGAAATG
24026814 AAAGTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGAATGAAATG
Found at i:24030596 original size:50 final size:47
Alignment explanation
Indices: 24030535--24030655 Score: 122
Period size: 50 Copynumber: 2.5 Consensus size: 47
24030525 AACTTTAAAG
24030535 TAAATAAAAGGTTTAAAATAAATAATAAATGAAACAAC-TATAAATAAATAA
1 TAAA-AAAAGGTTTAAAATAAATAATAAAT--AA-AACTTA-AAATAAATAA
* * **
24030586 TAAAAAAAGGTTTCAAATGAATAATGTATAAAACTTAAAATAAATAA
1 TAAAAAAAGGTTTAAAATAAATAATAAATAAAACTTAAAATAAATAA
* *
24030633 T-AAAAGA-GCTTAAAATAAATAAT
1 TAAAAAAAGGTTTAAAATAAATAAT
24030656 TTAAAAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
45 13 0.21
46 5 0.08
47 14 0.23
48 4 0.07
50 21 0.34
51 4 0.07
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.26
Consensus pattern (47 bp):
TAAAAAAAGGTTTAAAATAAATAATAAATAAAACTTAAAATAAATAA
Found at i:24030667 original size:22 final size:22
Alignment explanation
Indices: 24030576--24030670 Score: 70
Period size: 22 Copynumber: 4.2 Consensus size: 22
24030566 AAACAACTAT
* * *
24030576 AAATAAATAATAAAAAAAGGTTTC
1 AAATAAATAAT-TAAAAA-GCTTA
*
24030600 AAATGAATAATGTATAAAA-CTTA
1 AAATAAATAAT-TA-AAAAGCTTA
24030623 AAATAAATAA-TAAAAGAGCTTA
1 AAATAAATAATTAAAA-AGCTTA
*
24030645 AAATAAATAATTTAAAAA-TTTA
1 AAATAAATAA-TTAAAAAGCTTA
24030667 AAAT
1 AAAT
24030671 GAATGACATA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.05
21 3 0.05
22 21 0.36
23 12 0.20
24 16 0.27
25 4 0.07
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (22 bp):
AAATAAATAATTAAAAAGCTTA
Found at i:24030668 original size:44 final size:47
Alignment explanation
Indices: 24030535--24030670 Score: 118
Period size: 50 Copynumber: 2.9 Consensus size: 47
24030525 AACTTTAAAG
* **
24030535 TAAATAAAAGGTTTAAAATAAATAATAAATGAAACAAC-TATAAATAAATAA
1 TAAA-AAAAGGCTTAAAATAAATAATGTAT--AA-AACTTA-AAATAAATAA
* * *
24030586 TAAAAAAAGGTTTCAAATGAATAATGTATAAAACTTAAAATAAATAA
1 TAAAAAAAGGCTTAAAATAAATAATGTATAAAACTTAAAATAAATAA
* * *
24030633 T-AAAAGA-GCTTAAAATAAATAATTTA-AAAATTTAAAAT
1 TAAAAAAAGGCTTAAAATAAATAATGTATAAAACTTAAAAT
24030671 GAATGACATA
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
44 11 0.15
45 15 0.20
46 5 0.07
47 14 0.19
48 4 0.05
50 21 0.28
51 4 0.05
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.28
Consensus pattern (47 bp):
TAAAAAAAGGCTTAAAATAAATAATGTATAAAACTTAAAATAAATAA
Found at i:24030759 original size:52 final size:51
Alignment explanation
Indices: 24030620--24030803 Score: 127
Period size: 52 Copynumber: 3.7 Consensus size: 51
24030610 TGTATAAAAC
* * * *
24030620 TTAAAATAAAT-A-ATA-AAAGAGCTTAAAATAAAT--AATTTAAAA-A-T
1 TTAAAATAAATAATATATAAAAAGTTTAAAATAAATGCTATATAAAAGATT
* * * *
24030664 TTAAAATGAATGACATATAAAACAGTTTAAATTAAATGCTATATATGAAA-ATT
1 TTAAAATAAATAATATATAAAA-AGTTTAAAATAAATGCTATATA--AAAGATT
* * *
24030717 TT-GAATAGATAATATATAAAATAGTTTAAAATAAA-GAGTATATAAAAGTATT
1 TTAAAATAAATAATATATAAAA-AGTTTAAAATAAATG-CTATATAAAAG-ATT
* *
24030769 TTAAAATAAATAATATATAGAAAGTTCAAAATAAA
1 TTAAAATAAATAATATATAAAAAGTTTAAAATAAA
24030804 AAAATGAAAA
Statistics
Matches: 109, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
44 10 0.09
45 1 0.01
46 3 0.03
47 3 0.03
48 12 0.11
50 7 0.06
51 1 0.01
52 53 0.49
53 19 0.17
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (51 bp):
TTAAAATAAATAATATATAAAAAGTTTAAAATAAATGCTATATAAAAGATT
Found at i:24030776 original size:27 final size:27
Alignment explanation
Indices: 24030727--24030793 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
24030717 TTGAATAGAT
24030727 AATATATAAAA-TAGTTTAAAATAAAG
1 AATATATAAAAGTAGTTTAAAATAAAG
* * *
24030753 AGTATATAAAAGTATTTTAAAATAAAT
1 AATATATAAAAGTAGTTTAAAATAAAG
24030780 AATATATAGAAAGT
1 AATATATA-AAAGT
24030794 TCAAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 10 0.29
27 20 0.57
28 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (27 bp):
AATATATAAAAGTAGTTTAAAATAAAG
Found at i:24030889 original size:2 final size:2
Alignment explanation
Indices: 24030882--24030906 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24030872 AAAATAGATA
24030882 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 A
24030907 ATAGTTTCAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24031903 original size:2 final size:2
Alignment explanation
Indices: 24031896--24031922 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24031886 TCAATTTTTA
24031896 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
24031923 AATGAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24034393 original size:16 final size:16
Alignment explanation
Indices: 24034372--24034409 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
24034362 ATCCATCATA
24034372 TCCATCGGTTTATCGT
1 TCCATCGGTTTATCGT
24034388 TCCATCGGTTTATCGT
1 TCCATCGGTTTATCGT
24034404 TCCATC
1 TCCATC
24034410 TTCCACTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.13, C:0.29, G:0.16, T:0.42
Consensus pattern (16 bp):
TCCATCGGTTTATCGT
Found at i:24034472 original size:20 final size:20
Alignment explanation
Indices: 24034430--24034475 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
24034420 CTTTAACTTA
* *
24034430 TATTTTCACTATTTAGTTAT
1 TATTTTCAATATTTAGTCAT
24034450 TATTTTCAATATTTA-TCATT
1 TATTTTCAATATTTAGTCA-T
24034470 TATTTT
1 TATTTT
24034476 TTTTGTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (20 bp):
TATTTTCAATATTTAGTCAT
Found at i:24040408 original size:39 final size:39
Alignment explanation
Indices: 24040351--24040430 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
24040341 ATAGTAGCAC
*
24040351 TGAAAATTTATATCTTTGATTTCTTCTGCAATTAAAATT
1 TGAAAATTTATATATTTGATTTCTTCTGCAATTAAAATT
* *
24040390 TGAAAATTTATATATTTGATTTCTTCTGTAATTAAATTT
1 TGAAAATTTATATATTTGATTTCTTCTGCAATTAAAATT
24040429 TG
1 TG
24040431 CAAAGAGAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (39 bp):
TGAAAATTTATATATTTGATTTCTTCTGCAATTAAAATT
Found at i:24043094 original size:19 final size:18
Alignment explanation
Indices: 24043044--24043103 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
24043034 TAAGGTTCCT
24043044 TTTTAATTTTTATATAAA
1 TTTTAATTTTTATATAAA
*
24043062 TTTTAAGATTTTATGA-AAA
1 TTTTAA-TTTTTAT-ATAAA
*
24043081 TTTTAATTTATTAT-TATA
1 TTTTAATTT-TTATATAAA
24043099 TTTTA
1 TTTTA
24043104 TGACTTTTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 15 0.43
19 19 0.54
20 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTAATTTTTATATAAA
Found at i:24043138 original size:18 final size:18
Alignment explanation
Indices: 24043115--24043153 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24043105 GACTTTTGGA
24043115 TTTTTATAAT-TTTTACAT
1 TTTTTA-AATATTTTACAT
*
24043133 TTTTTAAATATTTTATAT
1 TTTTTAAATATTTTACAT
24043151 TTT
1 TTT
24043154 CTTTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTAAATATTTTACAT
Found at i:24043216 original size:33 final size:33
Alignment explanation
Indices: 24043169--24043233 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
24043159 TTAAAATTCA
24043169 ACCAATCATGAACATCGTATTCAATTATCCTTC
1 ACCAATCATGAACATCGTATTCAATTATCCTTC
*
24043202 ACCAGTCATGAACATCGTATTCAATTATCCTT
1 ACCAATCATGAACATCGTATTCAATTATCCTT
24043234 ATTCGCTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (33 bp):
ACCAATCATGAACATCGTATTCAATTATCCTTC
Found at i:24043333 original size:42 final size:42
Alignment explanation
Indices: 24043240--24043325 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 42
24043230 CCTTATTCGC
* *
24043240 TTACTTTAAAATAGTATAAAAAATTAAACTTGTTTGTTCACT
1 TTACTTTAAAATAGTATAAAAAATTAAACTTGATTGTTAACT
*
24043282 TTACTTTAAAATAGTATAAAAGATTAAA-TTGATTGATTAACT
1 TTACTTTAAAATAGTATAAAAAATTAAACTTGATTG-TTAACT
24043324 TT
1 TT
24043326 TTATTAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 6 0.15
42 34 0.85
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (42 bp):
TTACTTTAAAATAGTATAAAAAATTAAACTTGATTGTTAACT
Found at i:24045018 original size:14 final size:14
Alignment explanation
Indices: 24044995--24045024 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24044985 TAAGAGGTAA
24044995 AGACAAGGGCAAGC
1 AGACAAGGGCAAGC
*
24045009 AGACAGGGGCAAGC
1 AGACAAGGGCAAGC
24045023 AG
1 AG
24045025 TGGTCTTGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (14 bp):
AGACAAGGGCAAGC
Found at i:24050634 original size:22 final size:22
Alignment explanation
Indices: 24050536--24050635 Score: 70
Period size: 22 Copynumber: 4.5 Consensus size: 22
24050526 AATCAAAGAA
*
24050536 ATATATAA-AAATTTTCAAAAAATT
1 ATATAAAATAAATTTT--AAAAA-T
24050560 ATATAATAATAAA-TTTAAAAAT
1 ATATAA-AATAAATTTTAAAAAT
*
24050582 A-A-AAAAT-CATTATTAAAAA-
1 ATATAAAATAAATT-TTAAAAAT
24050601 A-ATAATATATAAATTTTAAAAAT
1 ATATAA-A-ATAAATTTTAAAAAT
24050624 ATATAAAATAAA
1 ATATAAAATAAA
24050636 AAAATATTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 22
0.72 0.03 0.25
Matches are distributed among these distances:
18 1 0.02
19 6 0.10
20 11 0.17
21 2 0.03
22 16 0.25
23 10 0.16
24 9 0.14
25 5 0.08
26 3 0.05
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
ATATAAAATAAATTTTAAAAAT
Found at i:24050635 original size:15 final size:15
Alignment explanation
Indices: 24050553--24050642 Score: 51
Period size: 15 Copynumber: 5.7 Consensus size: 15
24050543 AAAATTTTCA
*
24050553 AAAAAT-TATATAAT
1 AAAAATATATAAAAT
*
24050567 AATAAATTTA-AAAAT
1 AA-AAATATATAAAAT
24050582 AAAAAATCATTATTAAAA-
1 -AAAAAT-A-TA-TAAAAT
*
24050600 AAATAATATATAAATTTT
1 AAA-AATATATAAA--AT
24050618 AAAAATATATAAAAT
1 AAAAATATATAAAAT
*
24050633 AAAAAAATAT
1 AAAAATATAT
24050643 TTTAAAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
14 2 0.03
15 26 0.43
16 6 0.10
17 16 0.27
18 6 0.10
19 4 0.07
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAATATATAAAAT
Found at i:24053737 original size:21 final size:22
Alignment explanation
Indices: 24053708--24053755 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
24053698 ATTCATGTAT
* *
24053708 TTTATTATACATGTA-TATATC
1 TTTAATATACATATAGTATATC
*
24053729 TTTAATATATATATAGGTATATC
1 TTTAATATACATATA-GTATATC
24053752 TTTA
1 TTTA
24053756 TATTAGTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 12 0.55
23 10 0.45
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (22 bp):
TTTAATATACATATAGTATATC
Found at i:24054710 original size:22 final size:21
Alignment explanation
Indices: 24054677--24054750 Score: 55
Period size: 22 Copynumber: 3.6 Consensus size: 21
24054667 GTCGCTACAC
*
24054677 TAATAATAAAATAATAACAATA
1 TAATAA-AAAATAATAACAAAA
* *
24054699 TAATAAAGAAATGATAGCAAAA
1 TAATAAA-AAATAATAACAAAA
*
24054721 CAAT-AAAAA-AAT-ACAAAA
1 TAATAAAAAATAATAACAAAA
* *
24054739 CAGTAAAAAATA
1 TAATAAAAAATA
24054751 GCAATAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 8 0.19
19 7 0.17
20 4 0.10
21 3 0.07
22 20 0.48
ACGTcount: A:0.69, C:0.07, G:0.05, T:0.19
Consensus pattern (21 bp):
TAATAAAAAATAATAACAAAA
Found at i:24057582 original size:13 final size:13
Alignment explanation
Indices: 24057564--24057588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24057554 CATCTAGGAA
24057564 TTGTAAATAACAT
1 TTGTAAATAACAT
24057577 TTGTAAATAACA
1 TTGTAAATAACA
24057589 ATTACAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (13 bp):
TTGTAAATAACAT
Found at i:24057943 original size:18 final size:19
Alignment explanation
Indices: 24057890--24057935 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
24057880 ACACAGATTC
*
24057890 ATTATTTTCAGAAAAGTAA
1 ATTATTTTCAGAAAAATAA
24057909 ATTATTTTCAGAAAAATAA
1 ATTATTTTCAGAAAAATAA
24057928 ATTATTTT
1 ATTATTTT
24057936 TTAAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (19 bp):
ATTATTTTCAGAAAAATAA
Found at i:24057945 original size:14 final size:15
Alignment explanation
Indices: 24057926--24057963 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
24057916 TCAGAAAAAT
*
24057926 AAATTATTTTTTA-A
1 AAATTATTTTTCAGA
24057940 AAATTATTTTTCAGA
1 AAATTATTTTTCAGA
24057955 AAA-TATTTT
1 AAATTATTTT
24057964 ATTGGTAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (15 bp):
AAATTATTTTTCAGA
Found at i:24059654 original size:61 final size:62
Alignment explanation
Indices: 24059563--24059684 Score: 165
Period size: 61 Copynumber: 2.0 Consensus size: 62
24059553 ATTGACACAA
* * * ** *
24059563 TAATAAAATTAGCCTTTAGTTATTTACACATTCTTTCAATTTGGTTTTAATTCTAAAAAATT
1 TAATAAAATTAACCTTTAGATATTTACACATTCTATCAATTTAATTTTAATTATAAAAAATT
* *
24059625 TAATAAATTTAACCTTTA-ATATTTGCACATTCTATCAATTTAATTTTAATTATAAAAAAT
1 TAATAAAATTAACCTTTAGATATTTACACATTCTATCAATTTAATTTTAATTATAAAAAAT
24059685 AAAAATTATT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
61 36 0.69
62 16 0.31
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (62 bp):
TAATAAAATTAACCTTTAGATATTTACACATTCTATCAATTTAATTTTAATTATAAAAAATT
Found at i:24061161 original size:2 final size:2
Alignment explanation
Indices: 24061154--24061179 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24061144 TTATTATACC
24061154 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
24061180 TATTAAAACA
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:24068284 original size:57 final size:58
Alignment explanation
Indices: 24068197--24068308 Score: 138
Period size: 57 Copynumber: 1.9 Consensus size: 58
24068187 TCAATTTTCG
* * *
24068197 TTTTCATTTTGGAGAAAACCACATTAATTTCTAAATGATTT-C-ATTTCTTCATTTGCA
1 TTTTCATTTTGGAGAAAACCACAATAATTTCCAAAT-ATTTCCTATTTCTCCATTTGCA
*** *
24068254 TTTTCATTTTGGAGAAAACTTGAATCATTTCCAAATATTTCCTATTTCTCCATTT
1 TTTTCATTTTGGAGAAAACCACAATAATTTCCAAATATTTCCTATTTCTCCATTT
24068309 CATCATTTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
56 4 0.09
57 31 0.67
58 11 0.24
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (58 bp):
TTTTCATTTTGGAGAAAACCACAATAATTTCCAAATATTTCCTATTTCTCCATTTGCA
Found at i:24072030 original size:19 final size:18
Alignment explanation
Indices: 24072008--24072059 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
24071998 AAGTGAATAT
24072008 TTTTTATTATTTATTGTTA
1 TTTTTATT-TTTATTGTTA
* * *
24072027 TTTTTGTTCTTTGTTTTTA
1 TTTTTATT-TTTATTGTTA
24072046 TTTTTATTTTTATT
1 TTTTTATTTTTATT
24072060 AATTTTCTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTTTATTTTTATTGTTA
Found at i:24072055 original size:5 final size:6
Alignment explanation
Indices: 24072008--24072059 Score: 59
Period size: 6 Copynumber: 8.3 Consensus size: 6
24071998 AAGTGAATAT
* * *
24072008 TTTTTA TTATTTA TTGTTA TTTTTG TTCTTTG TTTTTA TTTTTA TTTTTA
1 TTTTTA TT-TTTA TTTTTA TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA
24072058 TT
1 TT
24072060 AATTTTCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
6 28 0.70
7 12 0.30
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:24072068 original size:31 final size:32
Alignment explanation
Indices: 24072008--24072069 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
24071998 AAGTGAATAT
*
24072008 TTTTTATTATTTATTGTTATTTTTGTTCTTTG
1 TTTTTATTATTTATTGTTATTATTGTTCTTTG
*
24072040 TTTTTATT-TTTATTTTTATTAATT-TTCTTT
1 TTTTTATTATTTATTGTTATT-ATTGTTCTTT
24072070 TCTTCTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (32 bp):
TTTTTATTATTTATTGTTATTATTGTTCTTTG
Found at i:24082761 original size:28 final size:28
Alignment explanation
Indices: 24082721--24082780 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
24082711 CAACGAGCTA
24082721 TTGGTGTGTTGGTTGGTTACATGATGTG
1 TTGGTGTGTTGGTTGGTTACATGATGTG
24082749 TTGGTGTGTTGGTTGGTTACATGATGTG
1 TTGGTGTGTTGGTTGGTTACATGATGTG
24082777 TTGG
1 TTGG
24082781 ATGGGTCTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.10, C:0.03, G:0.40, T:0.47
Consensus pattern (28 bp):
TTGGTGTGTTGGTTGGTTACATGATGTG
Found at i:24090257 original size:9 final size:9
Alignment explanation
Indices: 24090243--24090272 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
24090233 ATTCGAGTTG
24090243 ACTCGAATA
1 ACTCGAATA
24090252 ACTCGAATA
1 ACTCGAATA
*
24090261 ACTCAAATA
1 ACTCGAATA
24090270 ACT
1 ACT
24090273 TGATTCGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (9 bp):
ACTCGAATA
Found at i:24090973 original size:6 final size:6
Alignment explanation
Indices: 24090962--24090995 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
24090952 AACACACATG
24090962 TATAGA TATAGA TATAGA TATAGA TATAGA TATA
1 TATAGA TATAGA TATAGA TATAGA TATAGA TATA
24090996 TCATATAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
TATAGA
Found at i:24102570 original size:14 final size:15
Alignment explanation
Indices: 24102541--24102570 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24102531 CAAAATTTAG
24102541 ACATGATACTTTCAC
1 ACATGATACTTTCAC
24102556 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
24102570 A
1 A
24102571 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:24104293 original size:49 final size:48
Alignment explanation
Indices: 24104233--24104325 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
24104223 GTTAGTTTAT
* *
24104233 TACTTTTCATAAGCCTCCCCCCATATGTCTAAGAGCAGGGCCACTCTAC
1 TACTTTCCATAAGCCT-CCCCCATACGTCTAAGAGCAGGGCCACTCTAC
** *
24104282 TACTTTCCATAAGCCTCCCCCATACGTCTGGGAGCAGGGTCACT
1 TACTTTCCATAAGCCTCCCCCATACGTCTAAGAGCAGGGCCACT
24104326 TTCTTAGGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 24 0.62
49 15 0.38
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (48 bp):
TACTTTCCATAAGCCTCCCCCATACGTCTAAGAGCAGGGCCACTCTAC
Found at i:24104343 original size:48 final size:48
Alignment explanation
Indices: 24104228--24104495 Score: 175
Period size: 49 Copynumber: 5.5 Consensus size: 48
24104218 GTAGGGTTAG
* * **
24104228 TTTATTACTTT-TCATAAGCCTCCCCCCATATGTCTAAGAGCAGGGCCAC
1 TTTATTACTTTCT-GTAAGCCT-CCCCCATACGTCTGGGAGCAGGGCCAC
* * ** *
24104277 TCTACTACTTTCCATAAGCCTCCCCCATACGTCTGGGAGCAGGGTCAC
1 TTTATTACTTTCTGTAAGCCTCCCCCATACGTCTGGGAGCAGGGCCAC
* * * * * *
24104325 TTTCTTAGGTTTC-GTAAGCCTTCCCCTTACATTTGGGAGCAGGGCCAC
1 TTTATTA-CTTTCTGTAAGCCTCCCCCATACGTCTGGGAGCAGGGCCAC
* * * * ** *
24104373 TTTATTACTTTCTGTAAGCCTCCTCCCATGCGTCTAGGAACAAGTTCAT
1 TTTATTACTTTCTGTAAGCCTCC-CCCATACGTCTGGGAGCAGGGCCAC
* * * * * * *
24104422 TTTATTACTTT-TCATAAGTCTCCCTCCATGCGTCTAGGAGCATGACCAT
1 TTTATTACTTTCT-GTAAGCCTCCC-CCATACGTCTGGGAGCAGGGCCAC
*
24104471 TTTATTACTTATC-ATAAGCCTCCCC
1 TTTATTACTT-TCTGTAAGCCTCCCC
24104496 ATGTGTTTGG
Statistics
Matches: 174, Mismatches: 37, Indels: 17
0.76 0.16 0.07
Matches are distributed among these distances:
47 4 0.02
48 74 0.43
49 95 0.55
50 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (48 bp):
TTTATTACTTTCTGTAAGCCTCCCCCATACGTCTGGGAGCAGGGCCAC
Found at i:24106264 original size:22 final size:22
Alignment explanation
Indices: 24106233--24106287 Score: 83
Period size: 24 Copynumber: 2.4 Consensus size: 22
24106223 ATATAAACAT
24106233 CAAGAATACATGTACTTTGTGAC
1 CAAG-ATACATGTACTTTGTGAC
24106256 CAAGATACACATGTACTTTGTGAC
1 CAAGAT--ACATGTACTTTGTGAC
24106280 CAAGATAC
1 CAAGATAC
24106288 TAACATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.13
23 4 0.13
24 22 0.73
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (22 bp):
CAAGATACATGTACTTTGTGAC
Found at i:24106268 original size:24 final size:24
Alignment explanation
Indices: 24106240--24106287 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
24106230 CATCAAGAAT
24106240 ACATGTACTTTGTGACCAAGATAC
1 ACATGTACTTTGTGACCAAGATAC
24106264 ACATGTACTTTGTGACCAAGATAC
1 ACATGTACTTTGTGACCAAGATAC
24106288 TAACATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (24 bp):
ACATGTACTTTGTGACCAAGATAC
Found at i:24106597 original size:42 final size:44
Alignment explanation
Indices: 24106503--24106597 Score: 99
Period size: 42 Copynumber: 2.2 Consensus size: 44
24106493 GTCCCGGATG
*
24106503 TGGTCTTAC-ATGTAATCAAACATCGATGCCACTGTCCCAAACA
1 TGGTCTTACAATGAAATCAAACATCGATGCCACTGTCCCAAACA
* * * * *
24106546 GGGTATTACAAT-AAATCAAATA-CGATGCCGA-TGTCTCAGACA
1 TGGTCTTACAATGAAATCAAACATCGATGCC-ACTGTCCCAAACA
24106588 TGGTCTTACA
1 TGGTCTTACA
24106598 CGTAAAATAG
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
42 24 0.57
43 16 0.38
44 2 0.05
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (44 bp):
TGGTCTTACAATGAAATCAAACATCGATGCCACTGTCCCAAACA
Found at i:24112411 original size:14 final size:15
Alignment explanation
Indices: 24112392--24112421 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
24112382 GGCAACCTAT
24112392 ATTTATTT-ATTTTA
1 ATTTATTTGATTTTA
24112406 ATTTATTTGATTTTA
1 ATTTATTTGATTTTA
24112421 A
1 A
24112422 ACTTAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
ATTTATTTGATTTTA
Found at i:24116168 original size:18 final size:18
Alignment explanation
Indices: 24116141--24116185 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
24116131 TATTATAGAC
24116141 CCAATATATTAAATAAGT
1 CCAATATATTAAATAAGT
* *
24116159 CCAATCTATTATATAAGT
1 CCAATATATTAAATAAGT
*
24116177 CCAAAATAT
1 CCAATATAT
24116186 AAAAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (18 bp):
CCAATATATTAAATAAGT
Found at i:24123269 original size:28 final size:28
Alignment explanation
Indices: 24123229--24123284 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
24123219 TGGTTTGAAG
24123229 ATAGAATTTTGGTAGAAGGGGATTTCTC
1 ATAGAATTTTGGTAGAAGGGGATTTCTC
24123257 ATAGAATTTTGGTAGAAGGGGATTTCTC
1 ATAGAATTTTGGTAGAAGGGGATTTCTC
24123285 GGGCTTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (28 bp):
ATAGAATTTTGGTAGAAGGGGATTTCTC
Found at i:24124091 original size:13 final size:13
Alignment explanation
Indices: 24124073--24124098 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24124063 TCCCTGACTG
24124073 GTTTAGGGTTTTT
1 GTTTAGGGTTTTT
24124086 GTTTAGGGTTTTT
1 GTTTAGGGTTTTT
24124099 TTAGATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
GTTTAGGGTTTTT
Found at i:24124109 original size:9 final size:9
Alignment explanation
Indices: 24124095--24124164 Score: 56
Period size: 9 Copynumber: 7.8 Consensus size: 9
24124085 TGTTTAGGGT
*
24124095 TTTTTTAGA
1 TTTTTTATA
24124104 TTTTTTA-A
1 TTTTTTATA
24124112 -TTTTTA-A
1 TTTTTTATA
24124119 CTTTTTTATA
1 -TTTTTTATA
* *
24124129 TTCTTTAGGA
1 TTTTTTA-TA
24124139 TTTTTTTATA
1 -TTTTTTATA
*
24124149 ATTTTTATA
1 TTTTTTATA
24124158 TTTTTTA
1 TTTTTTA
24124165 AAAAATATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
7 7 0.14
8 1 0.02
9 33 0.66
10 3 0.06
11 6 0.12
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.70
Consensus pattern (9 bp):
TTTTTTATA
Found at i:24124161 original size:18 final size:18
Alignment explanation
Indices: 24124104--24124164 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 18
24124094 TTTTTTTAGA
24124104 TTTTT-TAATTTTTAACT
1 TTTTTATAATTTTTAACT
*
24124121 TTTTTAT-ATTCTTTAGGATT
1 TTTTTATAATT-TTTA--ACT
24124141 TTTTTATAATTTTTATA-T
1 TTTTTATAATTTTTA-ACT
24124159 TTTTTA
1 TTTTTA
24124165 AAAAATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 8 0.22
18 12 0.32
19 1 0.03
20 13 0.35
21 3 0.08
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTTATAATTTTTAACT
Found at i:24124190 original size:17 final size:17
Alignment explanation
Indices: 24124170--24124212 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
24124160 TTTTAAAAAA
*
24124170 TATAAATTTTGGATTTT
1 TATAAATTTTGGAATTT
*
24124187 TATAAATATTTTGAATTT
1 TATAAAT-TTTGGAATTT
*
24124205 TAAAAATT
1 TATAAATT
24124213 ATTTTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (17 bp):
TATAAATTTTGGAATTT
Found at i:24124199 original size:19 final size:20
Alignment explanation
Indices: 24124175--24124230 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
24124165 AAAAATATAA
* *
24124175 ATTTTGGATTTTTATAAA-T
1 ATTTTGGAATTTTAAAAATT
24124194 ATTTT-GAATTTTAAAAATT
1 ATTTTGGAATTTTAAAAATT
*
24124213 ATTTTGAAAATTTTAAAA
1 ATTTTG-GAATTTTAAAA
24124231 TTACTTGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 10 0.32
19 11 0.35
21 10 0.32
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (20 bp):
ATTTTGGAATTTTAAAAATT
Found at i:24124226 original size:21 final size:18
Alignment explanation
Indices: 24124184--24124230 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
24124174 AATTTTGGAT
*
24124184 TTTTATAAATATTTTGAA
1 TTTTAAAAATATTTTGAA
24124202 TTTTAAAAATTATTTTGAAAA
1 TTTTAAAAA-TATTTTG--AA
24124223 TTTTAAAA
1 TTTTAAAA
24124231 TTACTTGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 7 0.28
21 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTTAAAAATATTTTGAA
Found at i:24138496 original size:139 final size:139
Alignment explanation
Indices: 24138321--24138599 Score: 558
Period size: 139 Copynumber: 2.0 Consensus size: 139
24138311 TTACTGCAAG
24138321 TCACAAACTCTTCTAGTTGCCTTCTTCCAGTTTTTTGATTCATAATAGTTTAAAATTTAGAATAA
1 TCACAAACTCTTCTAGTTGCCTTCTTCCAGTTTTTTGATTCATAATAGTTTAAAATTTAGAATAA
24138386 GACACTAGGTTTTCCTTTTTATTTTCAGCAACCTCTCTGTTATATGTATATGTGCATTTATGTGT
66 GACACTAGGTTTTCCTTTTTATTTTCAGCAACCTCTCTGTTATATGTATATGTGCATTTATGTGT
24138451 GTGTATGCA
131 GTGTATGCA
24138460 TCACAAACTCTTCTAGTTGCCTTCTTCCAGTTTTTTGATTCATAATAGTTTAAAATTTAGAATAA
1 TCACAAACTCTTCTAGTTGCCTTCTTCCAGTTTTTTGATTCATAATAGTTTAAAATTTAGAATAA
24138525 GACACTAGGTTTTCCTTTTTATTTTCAGCAACCTCTCTGTTATATGTATATGTGCATTTATGTGT
66 GACACTAGGTTTTCCTTTTTATTTTCAGCAACCTCTCTGTTATATGTATATGTGCATTTATGTGT
24138590 GTGTATGCA
131 GTGTATGCA
24138599 T
1 T
24138600 ATATTTAATA
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 140 1.00
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (139 bp):
TCACAAACTCTTCTAGTTGCCTTCTTCCAGTTTTTTGATTCATAATAGTTTAAAATTTAGAATAA
GACACTAGGTTTTCCTTTTTATTTTCAGCAACCTCTCTGTTATATGTATATGTGCATTTATGTGT
GTGTATGCA
Found at i:24144678 original size:5 final size:5
Alignment explanation
Indices: 24144664--24144710 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
24144654 TAACACATAT
* * *
24144664 ATTCA TTTCA ATTCA ATTCA ATTCA A-TCA ACTTTA AATCA ATTCA AT
1 ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA A-TTCA ATTCA ATTCA AT
24144711 AATCAAAGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
4 4 0.12
5 27 0.79
6 3 0.09
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTCA
Found at i:24145384 original size:16 final size:15
Alignment explanation
Indices: 24145363--24145392 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24145353 AAGTCTTGCG
24145363 TCTTTCTTTCTCTTTT
1 TCTTTCTTTC-CTTTT
24145379 TCTTTCTTTCCTTT
1 TCTTTCTTTCCTTT
24145393 CTATTTTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TCTTTCTTTCCTTTT
Found at i:24145400 original size:20 final size:20
Alignment explanation
Indices: 24145363--24145400 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24145353 AAGTCTTGCG
*
24145363 TCTTTCTTTCTCTTTTTCTT
1 TCTTTCTTTCTCATTTTCTT
24145383 TCTTTCCTTTCT-ATTTTC
1 TCTTT-CTTTCTCATTTTC
24145401 GTTTGGCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (20 bp):
TCTTTCTTTCTCATTTTCTT
Found at i:24145453 original size:20 final size:21
Alignment explanation
Indices: 24145428--24145479 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
24145418 TATTCTTTTT
24145428 TTTTATTATTCATT-TAC-TTA
1 TTTTATTATT-ATTATACATTA
24145448 TTTTATT-TTATTATACATTA
1 TTTTATTATTATTATACATTA
*
24145468 GTTTATTATTAT
1 TTTTATTATTAT
24145480 AATATATGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.11
19 5 0.18
20 16 0.57
21 4 0.14
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTATTATTATTATACATTA
Found at i:24150143 original size:29 final size:27
Alignment explanation
Indices: 24150106--24150162 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
24150096 TTTTCTTTTC
* * *
24150106 TTTTATTTTATAATCTCCTTTTACTTTA
1 TTTTATTTTAAAACCACCTTTTA-TTTA
24150134 TTTTAATTTTAAAACCACCTTTTATTTA
1 TTTT-ATTTTAAAACCACCTTTTATTTA
24150162 T
1 T
24150163 ATAAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTATTTTAAAACCACCTTTTATTTA
Found at i:24161457 original size:20 final size:19
Alignment explanation
Indices: 24161432--24161478 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
24161422 TATGAGATGG
24161432 GAAATGAAATATGAATTAAT
1 GAAATGAAATATGAA-TAAT
* * *
24161452 GAAATGAGATGTGAATATT
1 GAAATGAAATATGAATAAT
24161471 GAAATGAA
1 GAAATGAA
24161479 TTCAAGTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (19 bp):
GAAATGAAATATGAATAAT
Found at i:24164425 original size:8 final size:8
Alignment explanation
Indices: 24164412--24164440 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
24164402 TTATGTTTAA
24164412 TATATTAT
1 TATATTAT
24164420 TATATTAT
1 TATATTAT
24164428 TATATTAT
1 TATATTAT
24164436 TATAT
1 TATAT
24164441 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:24164473 original size:5 final size:5
Alignment explanation
Indices: 24164463--24164489 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
24164453 TTATGTTTTA
24164463 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
24164490 AAACTAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:24164486 original size:52 final size:50
Alignment explanation
Indices: 24164400--24164499 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 50
24164390 CTAAGATTTT
24164400 TTTTATGTTTAATATATTATTATATTATTATATTATTATATAA-TAAAGATA
1 TTTTATGTTTAATATATTATTATATTATTATATTA-TATA-AACTAAAGATA
24164451 TTTTATGTTTTAAT-TA-TATTATATTATATTATATTATATAAACTAAAGA
1 TTTTATG-TTTAATATATTATTATA-T-TATTATATTATATAAACTAAAGA
24164500 AACAAAAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
50 9 0.20
51 20 0.44
52 16 0.36
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (50 bp):
TTTTATGTTTAATATATTATTATATTATTATATTATATAAACTAAAGATA
Found at i:24165781 original size:15 final size:15
Alignment explanation
Indices: 24165761--24165817 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
24165751 CGATGAATTT
24165761 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
24165776 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
*
24165791 ATTGAATTTATATTT
1 ATTGAATTTATATTG
24165806 ATTGAA-TTATAT
1 ATTGAATTTATAT
24165818 AATATATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 6 0.16
15 31 0.84
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:24166219 original size:23 final size:23
Alignment explanation
Indices: 24166189--24166275 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
24166179 GCTTTACTGA
*
24166189 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
*
24166212 TCAGGCACCTCATGTGTCGTA--
1 TCAGGCACCTTATGTGTCGTATT
* **
24166233 TCAGGCACCTTGTGTACCGT-TT
1 TCAGGCACCTTATGTGTCGTATT
* *
24166255 T-AAGCACTTTATGTGTCGTAT
1 TCAGGCACCTTATGTGTCGTAT
24166276 ACTGATCAAG
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
21 29 0.58
22 2 0.04
23 19 0.38
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:24166238 original size:21 final size:21
Alignment explanation
Indices: 24166188--24166242 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 21
24166178 GGCTTTACTG
* *
24166188 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
24166209 ATTTCAGGCACCTCATGTGTCGT
1 A--TCAGGCACCTCATGTGTCGT
24166232 ATCAGGCACCT
1 ATCAGGCACCT
24166243 TGTGTACCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 11 0.37
23 19 0.63
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:24169983 original size:2 final size:2
Alignment explanation
Indices: 24169976--24170001 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24169966 TTCGCCCTTA
24169976 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
24170002 GTATTTTTTT
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:24171018 original size:17 final size:18
Alignment explanation
Indices: 24170996--24171029 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
24170986 TTGTTTATAA
24170996 TTTAAAAAA-TTAATTAT
1 TTTAAAAAATTTAATTAT
24171013 TTTAAAAAATTTAATTA
1 TTTAAAAAATTTAATTA
24171030 AAGTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAAAAAATTTAATTAT
Found at i:24173771 original size:16 final size:16
Alignment explanation
Indices: 24173750--24173782 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24173740 TATTCTCAAA
*
24173750 TATTAATTAATTAATT
1 TATTAATTAACTAATT
24173766 TATTAATTAACTAATT
1 TATTAATTAACTAATT
24173782 T
1 T
24173783 TTCCAACACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTAATTAACTAATT
Found at i:24175476 original size:17 final size:17
Alignment explanation
Indices: 24175454--24175487 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24175444 TAGATCCTAG
24175454 ATTCGTTTATGGATTTA
1 ATTCGTTTATGGATTTA
24175471 ATTCGTTTATGGATTTA
1 ATTCGTTTATGGATTTA
24175488 TTCACTTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.53
Consensus pattern (17 bp):
ATTCGTTTATGGATTTA
Found at i:24181288 original size:13 final size:14
Alignment explanation
Indices: 24181262--24181291 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24181252 TCTTAAAAGG
24181262 TTTTGTTTCTTCTT
1 TTTTGTTTCTTCTT
24181276 TTTTGTTTC-TCTT
1 TTTTGTTTCTTCTT
24181289 TTT
1 TTT
24181292 ATTAGTTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (14 bp):
TTTTGTTTCTTCTT
Found at i:24186209 original size:22 final size:24
Alignment explanation
Indices: 24186168--24186212 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
24186158 CATGAAAATT
24186168 ACCAAAAAACAAAGAGAATAAAAA
1 ACCAAAAAACAAAGAGAATAAAAA
*
24186192 ACCAAAAGA-AAAGA-AATAAAA
1 ACCAAAAAACAAAGAGAATAAAA
24186213 CTCTTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 5 0.25
24 8 0.40
ACGTcount: A:0.76, C:0.11, G:0.09, T:0.04
Consensus pattern (24 bp):
ACCAAAAAACAAAGAGAATAAAAA
Found at i:24186953 original size:5 final size:5
Alignment explanation
Indices: 24186891--24186949 Score: 91
Period size: 5 Copynumber: 11.8 Consensus size: 5
24186881 TTCATATTCA
* *
24186891 AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAT AACAT
1 AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC
*
24186941 AACAT AACA
1 AACAC AACA
24186950 TAACCATAGA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.61, C:0.34, G:0.00, T:0.05
Consensus pattern (5 bp):
AACAC
Found at i:24187379 original size:32 final size:32
Alignment explanation
Indices: 24187343--24187407 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
24187333 CAATCTGGTT
24187343 TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
1 TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
24187375 TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
1 TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
24187407 T
1 T
24187408 CATCTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.06, G:0.25, T:0.48
Consensus pattern (32 bp):
TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
Found at i:24188893 original size:15 final size:15
Alignment explanation
Indices: 24188875--24188914 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
24188865 ACTCTATTCC
* *
24188875 CTTTAATCATGGTAA
1 CTTTAGTCATAGTAA
24188890 CTTTAGTCATAGTAA
1 CTTTAGTCATAGTAA
24188905 CTTTAGTCAT
1 CTTTAGTCAT
24188915 TGCTTGAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (15 bp):
CTTTAGTCATAGTAA
Found at i:24190367 original size:14 final size:14
Alignment explanation
Indices: 24190316--24190360 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
24190306 TTAATTATCA
*
24190316 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
24190330 TTATGGTATAGGGT
1 TTATGGTTTAGGGT
*
24190344 GTATGGTTTAGGGT
1 TTATGGTTTAGGGT
24190358 TTA
1 TTA
24190361 AGTTTTAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:24190490 original size:7 final size:7
Alignment explanation
Indices: 24190480--24190511 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
24190470 GGTTTATGGT
24190480 TTTATGA
1 TTTATGA
24190487 TTTATGA
1 TTTATGA
*
24190494 TTTATGT
1 TTTATGA
24190501 TTTATGA
1 TTTATGA
24190508 TTTA
1 TTTA
24190512 GGGTTTATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (7 bp):
TTTATGA
Found at i:24190518 original size:21 final size:22
Alignment explanation
Indices: 24190465--24190519 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
24190455 GGGTTTAAGG
24190465 TTTAAGGTTTATGGTTTTATGA
1 TTTAAGGTTTATGGTTTTATGA
* *
24190487 TTTATGATTTAT-GTTTTATGA
1 TTTAAGGTTTATGGTTTTATGA
*
24190508 TTTAGGGTTTAT
1 TTTAAGGTTTAT
24190520 AGGGATACGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.58
Consensus pattern (22 bp):
TTTAAGGTTTATGGTTTTATGA
Found at i:24191332 original size:24 final size:22
Alignment explanation
Indices: 24191289--24191336 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
24191279 ATCTCAACAC
24191289 AAAAATTGTGAAAGAAAAAATAA
1 AAAAATTGTGAAAGAAAAAA-AA
* *
24191312 AAAAATATGTTAAA-AATAAAAA
1 AAAAAT-TGTGAAAGAAAAAAAA
24191334 AAA
1 AAA
24191337 TTAAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 11 0.50
24 6 0.27
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (22 bp):
AAAAATTGTGAAAGAAAAAAAA
Found at i:24197257 original size:42 final size:42
Alignment explanation
Indices: 24197197--24197348 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
24197187 TAATTTTTTA
*
24197197 AAAGGTTATGATTTTTAGTGGCGTTTGTAGGAAAAGTGCCGCT
1 AAAGGTTGTGATTTTTAGTGGCGTTTGTAGG-AAAGTGCCGCT
* * *
24197240 AAAGGTTGTG-TTTTTAGTGGTGTTTTTAGGGAAGTGCCGCT
1 AAAGGTTGTGATTTTTAGTGGCGTTTGTAGGAAAGTGCCGCT
* * * * *
24197281 AAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAAAGTGCTGCT
1 AAAGGTTGTGATTTTTAGTGGCGTTTGTAGGAAAGTGCCGCT
** ** *
24197323 AAAAATCATGACTTTTAGTGGCGTTT
1 AAAGGTTGTGATTTTTAGTGGCGTTT
24197349 TTTTCATAAA
Statistics
Matches: 90, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
41 19 0.21
42 62 0.69
43 9 0.10
ACGTcount: A:0.22, C:0.11, G:0.31, T:0.36
Consensus pattern (42 bp):
AAAGGTTGTGATTTTTAGTGGCGTTTGTAGGAAAGTGCCGCT
Found at i:24198082 original size:27 final size:27
Alignment explanation
Indices: 24198051--24198137 Score: 77
Period size: 32 Copynumber: 3.0 Consensus size: 27
24198041 TTCTGAAATT
*
24198051 ATTATGTCTTGAA-TTTGTTAGATATTG
1 ATTATGT-TTGAAGCTTGTTAGATATTG
*
24198078 ATTATGTTTTAAGCTTGTTAGATATTG
1 ATTATGTTTGAAGCTTGTTAGATATTG
* *
24198105 AATTTATTATGTTTTAAGCTTGTTGGATATTG
1 -----ATTATGTTTGAAGCTTGTTAGATATTG
24198137 A
1 A
24198138 AATGATTGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
26 4 0.08
27 21 0.41
32 26 0.51
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.52
Consensus pattern (27 bp):
ATTATGTTTGAAGCTTGTTAGATATTG
Found at i:24198117 original size:32 final size:32
Alignment explanation
Indices: 24198078--24198138 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
24198068 TTAGATATTG
24198078 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
24198110 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
24198139 ATGATTGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:24198812 original size:339 final size:339
Alignment explanation
Indices: 24198192--24198869 Score: 1322
Period size: 339 Copynumber: 2.0 Consensus size: 339
24198182 ACAAAGAAGG
24198192 GACCTCCAAGCAATTCAGGTGGACAAAACCGATGGAACATCTTTTTCTTGAAATTTTAGCAGAGG
1 GACCTCCAAGCAATTCAGGTGGACAAAACCGATGGAACATCTTTTTCTTGAAATTTTAGCAGAGG
24198257 AGGCCCATAAAGGAAATGAGCCTTCTAATACTTTCAAAACAGTTTCTATTAATCGAGTTGTCGAA
66 AGGCCCATAAAGGAAATGAGCCTTCTAATACTTTCAAAACAGTTTCTATTAATCGAGTTGTCGAA
*
24198322 GTTATTTCTTAAAAATTTCAAGTCTAATGCGATGCAAAACATGTGGAAAATCATTTGAGGACAAT
131 GTTATTTCTTAAAAATTTCAAGTCTAATGCAATGCAAAACATGTGGAAAATCATTTGAGGACAAT
24198387 AAAAAAATAGTGGCAGATTATATGCATTTTCGGGGTGAAAGTGGTTTTGGATGGGATGATAACAT
196 AAAAAAATAGTGGCAGATTATATGCATTTTCGGGGTGAAAGTGGTTTTGGATGGGATGATAACAT
24198452 GAAAATGATCACATGTGATAGAGCGACATATGATGCAGCAGTAATAATAATATATGTATATATAT
261 GAAAATGATCACATGTGATAGAGCGACATATGATGCAGCAGTAATAATAATATATGTATATATAT
24198517 GTTAAGTATATTTC
326 GTTAAGTATATTTC
*
24198531 GACCTCCAAGCAATTCAGGTGGACAAAATCGATGGAACATCTTTTTCTTGAAATTTTAGCAGAGG
1 GACCTCCAAGCAATTCAGGTGGACAAAACCGATGGAACATCTTTTTCTTGAAATTTTAGCAGAGG
24198596 AGGCCCATAAAGGAAATGAGCCTTCTAATACTTTCAAAACAGTTTCTATTAATCGAGTTGTCGAA
66 AGGCCCATAAAGGAAATGAGCCTTCTAATACTTTCAAAACAGTTTCTATTAATCGAGTTGTCGAA
24198661 GTTATTTCTTAAAAATTTCAAGTCTAATGCAATGCAAAACATGTGGAAAATCATTTGAGGACAAT
131 GTTATTTCTTAAAAATTTCAAGTCTAATGCAATGCAAAACATGTGGAAAATCATTTGAGGACAAT
24198726 AAAAAAATAGTGGCAGATTATATGCATTTTCGGGGTGAAAGTGGTTTTGGATGGGATGATAACAT
196 AAAAAAATAGTGGCAGATTATATGCATTTTCGGGGTGAAAGTGGTTTTGGATGGGATGATAACAT
24198791 GATAAA-GATCACATGTGATAGAGCGACATATGATGCAGCAGTAATAATAATATATGTATATATA
261 GA-AAATGATCACATGTGATAGAGCGACATATGATGCAGCAGTAATAATAATATATGTATATATA
24198855 TGTTAAGTATATTTC
325 TGTTAAGTATATTTC
24198870 AATTATTTTT
Statistics
Matches: 336, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
339 333 0.99
340 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (339 bp):
GACCTCCAAGCAATTCAGGTGGACAAAACCGATGGAACATCTTTTTCTTGAAATTTTAGCAGAGG
AGGCCCATAAAGGAAATGAGCCTTCTAATACTTTCAAAACAGTTTCTATTAATCGAGTTGTCGAA
GTTATTTCTTAAAAATTTCAAGTCTAATGCAATGCAAAACATGTGGAAAATCATTTGAGGACAAT
AAAAAAATAGTGGCAGATTATATGCATTTTCGGGGTGAAAGTGGTTTTGGATGGGATGATAACAT
GAAAATGATCACATGTGATAGAGCGACATATGATGCAGCAGTAATAATAATATATGTATATATAT
GTTAAGTATATTTC
Found at i:24199493 original size:22 final size:22
Alignment explanation
Indices: 24199467--24199550 Score: 93
Period size: 22 Copynumber: 3.9 Consensus size: 22
24199457 CAATGTTGTT
24199467 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTGTAATATTA
24199489 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTGTAATATTA
* * *
24199511 ATTATGCACT-TGG-ATAATGTT-
1 GTTAT-CA-TGTGGTGTAATATTA
*
24199532 GTTATCATGTGGTGCAATA
1 GTTATCATGTGGTGTAATA
24199551 CTAATTATGC
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
19 1 0.02
20 5 0.10
21 7 0.14
22 32 0.63
23 5 0.10
24 1 0.02
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (22 bp):
GTTATCATGTGGTGTAATATTA
Found at i:24199556 original size:43 final size:43
Alignment explanation
Indices: 24199489--24199571 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
24199479 TGTAATATTA
* *
24199489 GTTATCATGTGGTGTAATATTAATTATGCACTTGGATAATGTT
1 GTTATCATGTGGTGCAATACTAATTATGCACTTGGATAATGTT
*
24199532 GTTATCATGTGGTGCAATACTAATTATGCATTTGGATAAT
1 GTTATCATGTGGTGCAATACTAATTATGCACTTGGATAAT
24199572 ATTATTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.42
Consensus pattern (43 bp):
GTTATCATGTGGTGCAATACTAATTATGCACTTGGATAATGTT
Found at i:24199572 original size:65 final size:66
Alignment explanation
Indices: 24199435--24199575 Score: 169
Period size: 65 Copynumber: 2.1 Consensus size: 66
24199425 TAATGTGATG
* * * *
24199435 TAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTGTAATATTAGTTATCATGTG
1 TAATATTAATTATACACTTGGACAA--TTGTTGTTATCATGTGGTGCAATACTAATTATCATGTG
*
24199500 GTG
64 GTA
* * *
24199503 TAATATTAATTATGCACTTGGATAA-TGTTGTTATCATGTGGTGCAATACTAATTATGCATTTGG
1 TAATATTAATTATACACTTGGACAATTGTTGTTATCATGTGGTGCAATACTAATTAT-CATGTGG
24199567 -A
65 TA
24199568 TAATATTA
1 TAATATTA
24199576 TTAATTTTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
65 36 0.56
66 6 0.09
68 22 0.34
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (66 bp):
TAATATTAATTATACACTTGGACAATTGTTGTTATCATGTGGTGCAATACTAATTATCATGTGGT
A
Found at i:24199799 original size:16 final size:16
Alignment explanation
Indices: 24199775--24199832 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 16
24199765 AAAAACAATT
* * *
24199775 TTAAAATATAAATTTA
1 TTAATATATATATATA
24199791 TTAATATATATATATA
1 TTAATATATATATATA
24199807 -T-ATATATATATATA
1 TTAATATATATATATA
*
24199821 TAAATATATATA
1 TTAATATATATA
24199833 AAATAAACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
14 13 0.36
15 1 0.03
16 22 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAATATATATATATA
Found at i:24199801 original size:2 final size:2
Alignment explanation
Indices: 24199794--24199832 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
24199784 AAATTTATTA
*
24199794 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24199833 AAATAAACTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:24199833 original size:10 final size:10
Alignment explanation
Indices: 24199780--24199834 Score: 69
Period size: 10 Copynumber: 5.7 Consensus size: 10
24199770 CAATTTTAAA
24199780 ATATAAAT-T
1 ATATAAATAT
*
24199789 -TATTAATAT
1 ATATAAATAT
*
24199798 ATATATATAT
1 ATATAAATAT
*
24199808 ATATATATAT
1 ATATAAATAT
24199818 ATATAAATAT
1 ATATAAATAT
24199828 ATATAAA
1 ATATAAA
24199835 ATAAACTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
8 6 0.15
9 1 0.03
10 33 0.82
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATATAAATAT
Found at i:24200008 original size:20 final size:19
Alignment explanation
Indices: 24199964--24200009 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
24199954 CATCCAAACA
24199964 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
*
24199983 CTAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCA-TTT
24200003 CCAGAAA
1 CCAGAAA
24200010 TCATTTTCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:24200029 original size:14 final size:14
Alignment explanation
Indices: 24199993--24200030 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
24199983 CTAGAAAAGT
*
24199993 AAATCATTTTCCAG
1 AAATCATTTTCCAA
24200007 AAATCATTTTCCGAA
1 AAATCATTTTCC-AA
24200022 AAAT-ATTTT
1 AAATCATTTT
24200031 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:24200257 original size:28 final size:27
Alignment explanation
Indices: 24200185--24200271 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 27
24200175 AAGGCATCCT
* * *
24200185 TTTAACAAAGTTTGCCATAAGGCATTC
1 TTTAACAAAGATTGCCACAAGGCTTTC
* *
24200212 ATTTAACTGAA-ATAGCCACAAGGGCTTTC
1 -TTTAAC-AAAGATTGCCACAA-GGCTTTC
*
24200241 TTTAACAAAGATTGCCACAAAGGCTTCC
1 TTTAACAAAGATTGCCAC-AAGGCTTTC
24200269 TTT
1 TTT
24200272 TAATAGATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
27 2 0.04
28 35 0.74
29 10 0.21
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (27 bp):
TTTAACAAAGATTGCCACAAGGCTTTC
Found at i:24201935 original size:22 final size:24
Alignment explanation
Indices: 24201892--24201936 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
24201882 ATTTATATTC
*
24201892 ATATATTTTAAAATTTTATAAAAA
1 ATATATTTTAAAACTTTATAAAAA
24201916 ATAT-TTTTAAAACTTT-TAAAA
1 ATATATTTTAAAACTTTATAAAA
24201937 TTATTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
ATATATTTTAAAACTTTATAAAAA
Found at i:24204227 original size:50 final size:50
Alignment explanation
Indices: 24204152--24204251 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
24204142 TTGTTGTAAG
* *
24204152 TTCTTTTAAGAAAGTCTTCTTCTCTTCTTACTTGGGTAAAACTTTCTTGC
1 TTCTTTCAAGAAAGCCTTCTTCTCTTCTTACTTGGGTAAAACTTTCTTGC
24204202 TTCTTTCAAGAAAGCCTTCTTCTCTTCTTACTTGGGTAAAACTTTCTTGC
1 TTCTTTCAAGAAAGCCTTCTTCTCTTCTTACTTGGGTAAAACTTTCTTGC
24204252 ATAAATCTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.46
Consensus pattern (50 bp):
TTCTTTCAAGAAAGCCTTCTTCTCTTCTTACTTGGGTAAAACTTTCTTGC
Found at i:24205884 original size:12 final size:13
Alignment explanation
Indices: 24205869--24205901 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24205859 GTTTATATTT
24205869 AAAATGTTAC-TA
1 AAAATGTTACTTA
*
24205881 AAAATGTTACTTC
1 AAAATGTTACTTA
24205894 AAAATGTT
1 AAAATGTT
24205902 TATATAGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (13 bp):
AAAATGTTACTTA
Done.