Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 83 of 213
Found at i:22820624 original size:148 final size:148
Alignment explanation
Indices: 22820443--22820737 Score: 493
Period size: 148 Copynumber: 2.0 Consensus size: 148
22820433 TGATTAATTT
22820443 ATTATTTAACTGAGTGCTTAATTATCGACCATTCAGTGTTTCTCCAAGTATGCTAAGTTCTCAGT
1 ATTATTTAACTGAGTGCTTAATTATCGACCATTCAGTGTTTCTCCAAGTATGCTAAGTTCTCAGT
* *
22820508 ATACTAGGATTGACAACCCTAGTAGAATAATTAGATAGATGAGCTCGAAAGGGTATTCTGTTGT-
66 ATACTAGGATTGACAACCCTAGTAGAATAATTAGATAGATGAGATCGAAAGGGTATACTGTTGTG
22820572 TGAAGTATTTGGTAAACTG
131 T-AAGTATTTGGTAAACTG
* * * * * *
22820591 ATTATTTAATTGAGTGCTTATTTATCGGCCATTCAGTGTTTGTTCAAGTGTGCTAAGTTCTCAGT
1 ATTATTTAACTGAGTGCTTAATTATCGACCATTCAGTGTTTCTCCAAGTATGCTAAGTTCTCAGT
22820656 ATACTAGGATTGACAACCCTAGTAGAATAATTAGATAGATGAGATCGAAAGGGTATACTGTTGTG
66 ATACTAGGATTGACAACCCTAGTAGAATAATTAGATAGATGAGATCGAAAGGGTATACTGTTGTG
*
22820721 TAAGTCTTTGGTAAACT
131 TAAGTATTTGGTAAACT
22820738 TATGCTGAGT
Statistics
Matches: 137, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
148 136 0.99
149 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (148 bp):
ATTATTTAACTGAGTGCTTAATTATCGACCATTCAGTGTTTCTCCAAGTATGCTAAGTTCTCAGT
ATACTAGGATTGACAACCCTAGTAGAATAATTAGATAGATGAGATCGAAAGGGTATACTGTTGTG
TAAGTATTTGGTAAACTG
Found at i:22826117 original size:21 final size:21
Alignment explanation
Indices: 22826066--22826117 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
22826056 AAAAAATTGA
*
22826066 TAAAATTATTATTTTACCAATT
1 TAAAATT-TTATTTAACCAATT
*
22826088 AAAATATTTTA-TTAACCAAATT
1 TAAA-ATTTTATTTAACC-AATT
22826110 TAAAATTT
1 TAAAATTT
22826118 AACCAAGGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 9 0.36
22 13 0.52
23 3 0.12
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAAATTTTATTTAACCAATT
Found at i:22827212 original size:92 final size:92
Alignment explanation
Indices: 22827055--22827222 Score: 318
Period size: 92 Copynumber: 1.8 Consensus size: 92
22827045 TCTGCAACTG
*
22827055 AACATAAGAGAAACAAAAAGTAACTTAGTTTTCCTCCATGGTCGATCATATTTAGCTAAGGTATT
1 AACATAAGAGAAACAAAAAGTAACTTAGTTTTCCTCCATGGTCGATCACATTTAGCTAAGGTATT
22827120 AGAGCATGTTTAGTTAGGTGTATTGGC
66 AGAGCATGTTTAGTTAGGTGTATTGGC
*
22827147 AACATAAGAGAAACAAAAAGTAACTTAGTTTTCCTCCATGGTCGATCACATTTAGCTCAGGTATT
1 AACATAAGAGAAACAAAAAGTAACTTAGTTTTCCTCCATGGTCGATCACATTTAGCTAAGGTATT
22827212 AGAGCATGTTT
66 AGAGCATGTTT
22827223 GGTTGGATAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (92 bp):
AACATAAGAGAAACAAAAAGTAACTTAGTTTTCCTCCATGGTCGATCACATTTAGCTAAGGTATT
AGAGCATGTTTAGTTAGGTGTATTGGC
Found at i:22830462 original size:15 final size:15
Alignment explanation
Indices: 22830427--22830478 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
22830417 TTAAGAATTT
*
22830427 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22830441 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22830455 TATTTAATAATAAT-
1 TATTTAATTATAATA
22830469 TATGTTAATT
1 TAT-TTAATT
22830479 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22830560 original size:61 final size:61
Alignment explanation
Indices: 22830375--22830562 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
22830365 AATAACAGTC
*
22830375 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
22830436 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
22830495 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
22830556 ATATATT
1 ATATATT
22830563 TTAATTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 25 0.26
61 36 0.38
62 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:22830577 original size:16 final size:16
Alignment explanation
Indices: 22830556--22830597 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22830546 TTATTAAATT
*
22830556 ATATATTTTAATTATA
1 ATATATTTTAATAATA
22830572 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
22830587 AT-TATGTTTAA
1 ATATAT-TTTAA
22830598 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:22830582 original size:15 final size:15
Alignment explanation
Indices: 22830547--22830588 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22830537 TTAAGAATTT
*
22830547 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22830561 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22830575 TATTTAATAATAAT
1 TATTTAATTATAAT
22830589 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22830586 original size:120 final size:120
Alignment explanation
Indices: 22830373--22830594 Score: 435
Period size: 120 Copynumber: 1.9 Consensus size: 120
22830363 GCAATAACAG
22830373 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
1 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
22830438 ATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTA
66 ATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTA
*
22830493 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
1 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
22830558 ATATTTTAATTATAATATATTTAATAATAATTATGTT
66 ATATTTTAATTATAATATATTTAATAATAATTATGTT
22830595 TAAATATGAT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 101 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
TCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
ATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTA
Found at i:22830833 original size:16 final size:16
Alignment explanation
Indices: 22830812--22830865 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
22830802 TTGATTTGCT
*
22830812 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
22830828 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
22830844 ATTACACCTTTAATCC
1 ATTACACCTCTAATCC
*
22830860 AATACA
1 ATTACA
22830866 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:22832600 original size:13 final size:13
Alignment explanation
Indices: 22832582--22832647 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
22832572 TAGATTTTTC
22832582 CTAAATATTATCA
1 CTAAATATTATCA
22832595 CTAAATA--ATC-
1 CTAAATATTATCA
22832605 CTAAATATTATCA
1 CTAAATATTATCA
*
22832618 CTAAATA--AT-T
1 CTAAATATTATCA
*
22832628 CTAAATATTATTA
1 CTAAATATTATCA
22832641 CTAAATA
1 CTAAATA
22832648 ATTCAAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
10 14 0.31
11 5 0.11
12 5 0.11
13 21 0.47
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:22832610 original size:10 final size:11
Alignment explanation
Indices: 22832580--22832635 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 11
22832570 GCTAGATTTT
22832580 TCCTAAATATTA
1 TCCTAAATA-TA
22832592 TCACTAAATA-A
1 TC-CTAAATATA
22832603 TCCTAAATATTA
1 TCCTAAATA-TA
22832615 TCACTAAATA-A
1 TC-CTAAATATA
*
22832626 TTCTAAATAT
1 TCCTAAATAT
22832636 TATTACTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
10 14 0.37
11 5 0.13
12 5 0.13
13 14 0.37
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (11 bp):
TCCTAAATATA
Found at i:22832650 original size:23 final size:23
Alignment explanation
Indices: 22832582--22832656 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
22832572 TAGATTTTTC
*
22832582 CTAAATATTATCACTAAATAATC
1 CTAAATATTATCACTAAATAATT
22832605 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
22832628 CTAAATATTATTACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
22832651 CAAAAT
1 CTAAAT
22832657 TTAAAAATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:22835228 original size:59 final size:58
Alignment explanation
Indices: 22835135--22835394 Score: 208
Period size: 59 Copynumber: 4.5 Consensus size: 58
22835125 GTGAGCTAAA
* *
22835135 CGATGGTCGTAATCGTCCCTTTTCATA-TTCGATGGTCGAAACCATCCCTTTTCATTAAT
1 CGATGGTCGTAACCATCCCTTTTCATAGTT-GATGGTCGAAACCATCCCTTTTCA-TAAT
* * **
22835194 TGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCC-TTTCATAAT
1 CGATGGTCGTAACCATCCCTTTTCATAGTTGATGGTCGAAACCATCCCTTTTCATAAT
* * * * * ** * * * * *
22835251 CGATAGCCG-AAGCTATCCCTTTTTATAATCAATAG-CTGAAGCTATCTCTTTTTCATATT
1 CGATGGTCGTAA-CCATCCCTTTTCATAGTTGATGGTC-GAAACCATC-CCTTTTCATAAT
* * *
22835310 CGATGGTCGTCACCATCCCTTTTCATAGTTGATGCTC-ATCACCATCCCTTTTCATAAT
1 CGATGGTCGTAACCATCCCTTTTCATAGTTGATGGTCGA-AACCATCCCTTTTCATAAT
* *
22835368 CGATAGTCG-AAGCTATCCCTTTTCATA
1 CGATGGTCGTAA-CCATCCCTTTTCATA
22835395 ATCAATGATT
Statistics
Matches: 152, Mismatches: 40, Indels: 19
0.72 0.19 0.09
Matches are distributed among these distances:
56 2 0.01
57 33 0.22
58 39 0.26
59 74 0.49
60 4 0.03
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.37
Consensus pattern (58 bp):
CGATGGTCGTAACCATCCCTTTTCATAGTTGATGGTCGAAACCATCCCTTTTCATAAT
Found at i:22835395 original size:29 final size:28
Alignment explanation
Indices: 22835135--22835397 Score: 181
Period size: 29 Copynumber: 9.0 Consensus size: 28
22835125 GTGAGCTAAA
* * *
22835135 CGATGGTCGTAATCGTCCCTTTTCATATT
1 CGATGGTCG-AACCATCCCTTTTCATAAT
22835164 CGATGGTCGAAACCATCCCTTTTCATTAAT
1 CGATGGTCG-AACCATCCCTTTTCA-TAAT
* * *
22835194 TGATGGTCGTCACCATCCCTTTTCATAGT
1 CGATGGTCG-AACCATCCCTTTTCATAAT
* *
22835223 TGATGGTCGTCACCATCCC-TTTCATAAT
1 CGATGGTCG-AACCATCCCTTTTCATAAT
* * * *
22835251 CGATAGCCGAAGCTATCCCTTTTTATAAT
1 CGATGGTCGAA-CCATCCCTTTTCATAAT
* * * * *
22835280 CAATAG-CTGAAGCTATCTCTTTTTCATATT
1 CGATGGTC-GAA-CCATC-CCTTTTCATAAT
* *
22835310 CGATGGTCGTCACCATCCCTTTTCATAGT
1 CGATGGTCG-AACCATCCCTTTTCATAAT
* *
22835339 TGATGCTC-ATCACCATCCCTTTTCATAAT
1 CGATGGTCGA--ACCATCCCTTTTCATAAT
* *
22835368 CGATAGTCGAAGCTATCCCTTTTCATAAT
1 CGATGGTCGAA-CCATCCCTTTTCATAAT
22835397 C
1 C
22835398 AATGATTGCC
Statistics
Matches: 190, Mismatches: 33, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
27 1 0.01
28 22 0.12
29 121 0.64
30 44 0.23
31 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.37
Consensus pattern (28 bp):
CGATGGTCGAACCATCCCTTTTCATAAT
Found at i:22848041 original size:13 final size:13
Alignment explanation
Indices: 22848023--22848065 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
22848013 TAAATTTTTT
22848023 CTAAATATTATCA
1 CTAAATATTATCA
22848036 CTAAATA--ATC-
1 CTAAATATTATCA
22848046 CTAAATATTATCA
1 CTAAATATTATCA
22848059 CTAAATA
1 CTAAATA
22848066 ATTCAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:22848051 original size:23 final size:23
Alignment explanation
Indices: 22848023--22848067 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
22848013 TAAATTTTTT
22848023 CTAAATATTATCACTAAATAATC
1 CTAAATATTATCACTAAATAATC
22848046 CTAAATATTATCACTAAATAAT
1 CTAAATATTATCACTAAATAAT
22848068 TCAAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATC
Found at i:22848074 original size:23 final size:23
Alignment explanation
Indices: 22848025--22848074 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
22848015 AATTTTTTCT
*
22848025 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
22848048 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
22848071 AAAT
1 AAAT
22848075 TTAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:22849179 original size:23 final size:23
Alignment explanation
Indices: 22849153--22849196 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
22849143 GTAGCACATC
22849153 GGTGCAATTCATTCTGGCACTAT
1 GGTGCAATTCATTCTGGCACTAT
* *
22849176 GGTGCTATTCATTTTGGCACT
1 GGTGCAATTCATTCTGGCACT
22849197 TTTCTGTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (23 bp):
GGTGCAATTCATTCTGGCACTAT
Found at i:22852148 original size:45 final size:44
Alignment explanation
Indices: 22852097--22852676 Score: 171
Period size: 44 Copynumber: 13.4 Consensus size: 44
22852087 CATTACAATA
* * * *
22852097 TCAGGGAGATAGGATTTGCTTTCTTGGGTCTGCTCCACTGCAACT
1 TCAGGGAGATAAGATTCGCATTCTT-GATCTGCTCCACTGCAACT
** * *
22852142 TCAGGGAGATAAGACCCG-ATGC--GATCTGCT-CTCTGCAACT
1 TCAGGGAGATAAGATTCGCATTCTTGATCTGCTCCACTGCAACT
* * * * * * * * *
22852182 TAAGAGAGATAAGATTCGAGATT-TTAATCCGCTTCACAGTAATT
1 TCAGGGAGATAAGATTCG-CATTCTTGATCTGCTCCACTGCAACT
* * * *
22852226 TCAGGGAGATAGGATTTGCTTTCTTGGGTCTGCTCCACTGCAACT
1 TCAGGGAGATAAGATTCGCATTCTT-GATCTGCTCCACTGCAACT
** * * * *
22852271 TCAGGGAGATAAGACCCG-A-T-GTGATCTACTCTACTACAACT
1 TCAGGGAGATAAGATTCGCATTCTTGATCTGCTCCACTGCAACT
** * * * *
22852312 TCATAGAGATAAGA-TCTGTGATT-TTAATCCGTTCCACTGCAACT
1 TCAGGGAGATAAGATTC-G-CATTCTTGATCTGCTCCACTGCAACT
* * *
22852356 TCAGAGAGATAGGATT---ATTGGCTTTAATCTGCTCCACTGCAACT
1 TCAGGGAGATAAGATTCGCATT--C-TTGATCTGCTCCACTGCAACT
* *
22852400 TCAGCGAGATAAGATTCGCCA-TCTTCAGTCTGC-CTCACTGCAACT
1 TCAGGGAGATAAGATTCG-CATTCTTGA-TCTGCTC-CACTGCAACT
* *
22852445 TTA-GGAGGATAAGACTT-G-ATTACTT-AGTCTGCTCCACTGCAAGT
1 TCAGGGA-GATAAGA-TTCGCATT-CTTGA-TCTGCTCCACTGCAACT
* * * * * **
22852489 TGAAGGAGATAAG-TCTAG-ATGC--GATCTGCT-CTCTATAACT
1 TCAGGGAGATAAGAT-TCGCATTCTTGATCTGCTCCACTGCAACT
* * * * ** *
22852529 TCAGAGAGATAA-AATCTGTGATT-TTAATCCACTCCACTGTAACT
1 TCAGGGAGATAAGATTC-G-CATTCTTGATCTGCTCCACTGCAACT
* * *
22852573 TCAGGGAGATAAGATT---ATTGGCTTTAATCTCCTCCACTGTAACT
1 TCAGGGAGATAAGATTCGCATT--C-TTGATCTGCTCCACTGCAACT
* * * *
22852617 TCAGGGAGATAGGATT---ATTGGCTTCAAACCGCTCCACTGCAACT
1 TCAGGGAGATAAGATTCGCATT--CTT-GATCTGCTCCACTGCAACT
22852661 TCAGGGAGATAAGATT
1 TCAGGGAGATAAGATT
22852677 TGCCATCTTC
Statistics
Matches: 402, Mismatches: 89, Indels: 89
0.69 0.15 0.15
Matches are distributed among these distances:
39 1 0.00
40 46 0.11
41 41 0.10
42 7 0.02
43 20 0.05
44 207 0.51
45 76 0.19
46 2 0.00
47 1 0.00
48 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
TCAGGGAGATAAGATTCGCATTCTTGATCTGCTCCACTGCAACT
Found at i:22852364 original size:44 final size:44
Alignment explanation
Indices: 22852307--22852676 Score: 183
Period size: 44 Copynumber: 8.5 Consensus size: 44
22852297 TACTCTACTA
* * *
22852307 CAACTTCATAGAGATAAGATCT-GTGATTTTAATCCGTTCCACTG
1 CAACTTCAGAGAGATAAGAT-TAGTGACTTTAATCCGCTCCACTG
* * * *
22852351 CAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTG
1 CAACTTCAGAGAGATAAGATTAGTGACTTTAATCCGCTCCACTG
* * ** * * *
22852395 CAACTTCAGCGAGATAAGATTCGCCATCTTCAGTCTGC-CTCACTG
1 CAACTTCAGAGAGATAAGATTAGTGA-CTTTAATCCGCTC-CACTG
* * * *
22852440 CAACTTTAG-GAGGATAAGACTT-GATTAC-TTAGTCTGCTCCACTG
1 CAACTTCAGAGA-GATAAGA-TTAG-TGACTTTAATCCGCTCCACTG
* * * * * *
22852484 CAAGTTGA-AGGAGATAAG-TCTAGATG-C---GATCTGCT-CTCTA
1 CAACTTCAGA-GAGATAAGAT-TAG-TGACTTTAATCCGCTCCACTG
* * * *
22852524 TAACTTCAGAGAGATAAAATCT-GTGATTTTAATCCACTCCACTG
1 CAACTTCAGAGAGATAAGAT-TAGTGACTTTAATCCGCTCCACTG
* * * *
22852568 TAACTTCAGGGAGATAAGATTATTGGCTTTAATCTC-CTCCACTG
1 CAACTTCAGAGAGATAAGATTAGTGACTTTAATC-CGCTCCACTG
* * * * * * *
22852612 TAACTTCAGGGAGATAGGATTATTGGCTTCAAACCGCTCCACTG
1 CAACTTCAGAGAGATAAGATTAGTGACTTTAATCCGCTCCACTG
*
22852656 CAACTTCAGGGAGATAAGATT
1 CAACTTCAGAGAGATAAGATT
22852677 TGCCATCTTC
Statistics
Matches: 258, Mismatches: 47, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
39 2 0.01
40 16 0.06
41 10 0.04
42 1 0.00
43 10 0.04
44 181 0.70
45 35 0.14
46 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
CAACTTCAGAGAGATAAGATTAGTGACTTTAATCCGCTCCACTG
Found at i:22852387 original size:129 final size:128
Alignment explanation
Indices: 22852097--22852413 Score: 370
Period size: 129 Copynumber: 2.5 Consensus size: 128
22852087 CATTACAATA
* ** **
22852097 TCAGGGAGATAGGATTTGCTTTCTTGGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGAT
1 TCAGAGAGATAGGATTT-CTGGCTTGAATCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGAT
* * * *
22852162 GCGATCTGCTCTCTGCAACTTAAGAGAGATAAGATTCGAGATTTTAATCCGCTTCACAGTAATT
65 GCGATCTACTCTCTACAACTTAAGAGAGATAAGATTCGAGATTTTAATCCGCTTCACAGCAACT
* ** **
22852226 TCAGGGAGATAGGATTTGCTTTCTTGGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGAT
1 TCAGAGAGATAGGATTT-CTGGCTTGAATCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGAT
* * * * *
22852291 GTGATCTACTCTACTACAACTTCATAGAGATAAGA-TCTGTGATTTTAATCCG-TTCCACTGCAA
65 GCGATCTACTCT-CTACAACTTAAGAGAGATAAGATTC-GAGATTTTAATCCGCTT-CACAGCAA
22852354 CT
127 CT
* *
22852356 TCAGAGAGATAGGATTAT-TGGCTTTAATCTGCTCCACTGCAACTTCAGCGAGATAAGA
1 TCAGAGAGATAGGATT-TCTGGCTTGAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
22852414 TTCGCCATCT
Statistics
Matches: 168, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
129 113 0.67
130 54 0.32
131 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (128 bp):
TCAGAGAGATAGGATTTCTGGCTTGAATCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATG
CGATCTACTCTCTACAACTTAAGAGAGATAAGATTCGAGATTTTAATCCGCTTCACAGCAACT
Found at i:22853083 original size:44 final size:43
Alignment explanation
Indices: 22853025--22853315 Score: 335
Period size: 44 Copynumber: 6.8 Consensus size: 43
22853015 ATTTGCTATT
* *
22853025 TTCAACCTACTCCACTGCTGACCAGGGAGATAGGACCTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTACAATC
* * *
22853069 TTCAATCTATTCCACTGCTG-CCTAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACC-AGGGAGATAGGATT-ACAATC
*
22853113 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATT-ACAATC
* * *
22853157 TT-AACCTATTCCACTACTGTCTAGGGAGATAGGATT-C--T-
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTACAATC
* *
22853195 TT-AATCTATTCCATTGCTGACCAGGGAGATAGGATTTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTACAATC
* * *
22853238 TTTAACCTATTCCACTGTTGTCCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATT-ACAATC
* *
22853282 TTTAACCTATTCCACTGTTGACCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
22853316 GCTGGGGCCA
Statistics
Matches: 216, Mismatches: 21, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
38 29 0.13
39 3 0.01
40 1 0.00
41 1 0.00
42 1 0.00
43 39 0.18
44 140 0.65
45 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTACAATC
Found at i:22853224 original size:125 final size:126
Alignment explanation
Indices: 22853028--22853315 Score: 366
Period size: 125 Copynumber: 2.2 Consensus size: 126
22853018 TGCTATTTTC
* *
22853028 AACCTACTCCACTGCTGACCAGGGAGATAGGACCTACAATCTTCAATCTATTCCACTGCTGCCTA
1 AACCTATTCCACTACTGACCAGGGAGATAGGA--T----TCTTCAATCTATTCCACTGCTGCCTA
22853093 GGGAGATAGAATTCT-CAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATC
60 GGGAGATAGAATT-TACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATC
22853157 -TT
124 TTT
* * * *
22853159 AACCTATTCCACTACTGTCTAGGGAGATAGGATTCTTTAATCTATTCCATTGCTGACC-AGGGAG
1 AACCTATTCCACTACTGACCAGGGAGATAGGATTCTTCAATCTATTCCACTGCTG-CCTAGGGAG
* * ** *
22853223 ATAGGATTTACAATCTTTAACCTATTCCACTGTTGTCCAGGGAGATAGGATTCACAATCTTT
65 ATAGAATTTACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTT
**
22853285 AACCTATTCCACTGTTGACCAGGGAGATAGG
1 AACCTATTCCACTACTGACCAGGGAGATAGG
22853316 GCTGGGGCCA
Statistics
Matches: 139, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
124 1 0.01
125 78 0.56
126 31 0.22
129 1 0.01
131 28 0.20
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (126 bp):
AACCTATTCCACTACTGACCAGGGAGATAGGATTCTTCAATCTATTCCACTGCTGCCTAGGGAGA
TAGAATTTACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTT
Found at i:22853282 original size:81 final size:81
Alignment explanation
Indices: 22853035--22853282 Score: 259
Period size: 81 Copynumber: 3.0 Consensus size: 81
22853025 TTCAACCTAC
* * * *
22853035 TCCACTGCTGACCAGGGAGATAGGA-CCTACAATCTTCAATCTATTCCACTGCTG-CCTAGGGAG
1 TCCACTACTGACCAGGGAGATAGGATTC-ACAATCTT-AACCTATTCCACTACTGTCC-AGGGAG
* *
22853098 ATAGAATTCTCAATCTTCAACCTAT
63 ATAGGATTCT--A----CAATCTAT
*
22853123 TCCACTACTGACCAGGGAGATAGGATTCACAATCTTAACCTATTCCACTACTGTCTAGGGAGATA
1 TCCACTACTGACCAGGGAGATAGGATTCACAATCTTAACCTATTCCACTACTGTCCAGGGAGATA
**
22853188 GGATTCTTTAATCTAT
66 GGATTCTACAATCTAT
* * * **
22853204 TCCATTGCTGACCAGGGAGATAGGATTTACAATCTTTAACCTATTCCACTGTTGTCCAGGGAGAT
1 TCCACTACTGACCAGGGAGATAGGATTCACAATC-TTAACCTATTCCACTACTGTCCAGGGAGAT
22853269 AGGATTC-ACAATCT
65 AGGATTCTACAATCT
22853283 TTAACCTATT
Statistics
Matches: 140, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
81 42 0.30
82 34 0.24
87 30 0.21
88 33 0.24
89 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (81 bp):
TCCACTACTGACCAGGGAGATAGGATTCACAATCTTAACCTATTCCACTACTGTCCAGGGAGATA
GGATTCTACAATCTAT
Found at i:22853374 original size:88 final size:87
Alignment explanation
Indices: 22853315--22853720 Score: 497
Period size: 88 Copynumber: 4.6 Consensus size: 87
22853305 AGGGAGATAG
* * *
22853315 GGCTGGGGCCATCAATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTG-CATCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
** *
22853380 TCCGTTGCAACCCAGGGAGGCAA
65 TCCACTGTAACCCAGGGAGGCAA
* * * * * *
22853403 GACTGGTGTCTTCGACCTACTTCGTTGTCGGTGTAGGAAGGCAAGATCTACTATTTTTAGCCTGC
1 GGCTGGTG-CATCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
** *
22853468 TCTGCTGCAACCCAGGGAGGCAA
65 TCCACTGTAACCCAGGGAGGCAA
* * * *
22853491 GGCTGGTGTCTTCGATCTGCTTCGTTGTTGGTGCAGGAAGGCAAGATCTACTTTTTTTAGCCTGC
1 GGCTGGTG-CATCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
* *
22853556 TCCGCTGCAACCCAGGGAGGCAA
65 TCCACTGTAACCCAGGGAGGCAA
* * * * *
22853579 CGCTGATGTATTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGCA-TCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
22853644 TCCACTGTAACCCAGGGAGGCAA
65 TCCACTGTAACCCAGGGAGGCAA
* * * *
22853667 GGCTGGTGTATTCGATTTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTAT
1 GGCTGGTGCA-TCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTAT
22853721 CTTCACTGAT
Statistics
Matches: 282, Mismatches: 35, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
88 282 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.28
Consensus pattern (87 bp):
GGCTGGTGCATCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCT
CCACTGTAACCCAGGGAGGCAA
Found at i:22853538 original size:176 final size:176
Alignment explanation
Indices: 22853329--22853720 Score: 588
Period size: 176 Copynumber: 2.2 Consensus size: 176
22853319 GGGGCCATCA
*
22853329 ATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGTTGCAACCCA
1 ATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
* * * * *
22853394 GGGAGGCAA-GACTGGTGTCTTCGACCTACTTCGTTGTCGGTGTAGGAAGGCAAGATCTACTATT
66 GGGAGGCAACG-CTGATGTATTCAACCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTATT
** *
22853458 TTTAGCCTGCTCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCG
130 TTTAGCCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTATTCG
* * * *
22853505 ATCTGCTTCGTTGTTGGTGCAGGAAGGCAAGATCTACTTTTTTTAGCCTGCTCCGCTGCAACCCA
1 ATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
* * *
22853570 GGGAGGCAACGCTGATGTATTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
66 GGGAGGCAACGCTGATGTATTCAACCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTATTT
*
22853635 TTAGCCTGCTCCACTGTAACCCAGGGAGGCAAGGCTGGTGTATTCG
131 TTAGCCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTATTCG
* * *
22853681 ATTTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTAT
1 ATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTAT
22853721 CTTCACTGAT
Statistics
Matches: 192, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
176 191 0.99
177 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (176 bp):
ATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
GGGAGGCAACGCTGATGTATTCAACCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTATTT
TTAGCCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTATTCG
Found at i:22859730 original size:16 final size:16
Alignment explanation
Indices: 22859704--22859737 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
22859694 AATAGCATAG
22859704 AAATAATATAAACAAAT
1 AAATAATATAAA-AAAT
22859721 AAAT-ATATAAAAAAT
1 AAATAATATAAAAAAT
22859736 AA
1 AA
22859738 TATTCCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 7 0.41
17 4 0.24
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAATATAAAAAAT
Found at i:22865482 original size:51 final size:50
Alignment explanation
Indices: 22865413--22865541 Score: 131
Period size: 51 Copynumber: 2.6 Consensus size: 50
22865403 TATTTTTCTT
* * * *
22865413 TAATTAATTTAAGTTAATTAAGAGATAAAGTGATATTTTTTATATTAT-TAC
1 TAATTAAATTAAATTAATTAAGAGATAAAGTGA-AATTATTATATTATCT-C
* * * *
22865464 TAATTAAATTAAAATAATTAAGTGATAATA-TTAAATTATTATTTTATCTC
1 TAATTAAATTAAATTAATTAAGAGATAA-AGTGAAATTATTATATTATCTC
22865514 TAATT-AATTAAATTAA-TAAGAGATAAAG
1 TAATTAAATTAAATTAATTAAGAGATAAAG
22865542 ACTAAATAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
47 1 0.02
48 9 0.14
49 10 0.15
50 17 0.26
51 27 0.42
52 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (50 bp):
TAATTAAATTAAATTAATTAAGAGATAAAGTGAAATTATTATATTATCTC
Found at i:22866331 original size:43 final size:43
Alignment explanation
Indices: 22866274--22866360 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
22866264 TGGTATTTTT
**
22866274 CCAATGGGTGAATTGTAGAAAGTCTGCTTGTGTATAGTATTCG
1 CCAATGGGCAAATTGTAGAAAGTCTGCTTGTGTATAGTATTCG
* *
22866317 CCAATGGGCAAATTGTATAGAGTCTGCTTGTGTATAGTATTCG
1 CCAATGGGCAAATTGTAGAAAGTCTGCTTGTGTATAGTATTCG
22866360 C
1 C
22866361 TAATAGGCGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (43 bp):
CCAATGGGCAAATTGTAGAAAGTCTGCTTGTGTATAGTATTCG
Found at i:22869514 original size:20 final size:20
Alignment explanation
Indices: 22869472--22869514 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
22869462 GAAATCCAAG
* *
22869472 TTGAGAAAATTTTCTACACT
1 TTGAGAAAAATTTCAACACT
22869492 TTGAGAAACAATTTCAACA-T
1 TTGAGAAA-AATTTCAACACT
22869512 TTG
1 TTG
22869515 GTATCAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (20 bp):
TTGAGAAAAATTTCAACACT
Found at i:22871778 original size:25 final size:25
Alignment explanation
Indices: 22871690--22871780 Score: 96
Period size: 25 Copynumber: 3.6 Consensus size: 25
22871680 ATACTCCACC
*
22871690 GCTCGTGAGAGCATACCGATTTATA
1 GCTCGTGAGAGCATACCGATTTACA
* * *
22871715 GCTTGTGAGAGCACACCGATCTACA
1 GCTCGTGAGAGCATACCGATTTACA
**
22871740 GCTC-AAATGAGCATACCGATTTACA
1 GCTCGTGA-GAGCATACCGATTTACA
22871765 GCTCGT-ATGAGCATAC
1 GCTCGTGA-GAGCATAC
22871781 TTGTACATGA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.02
25 53 0.98
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (25 bp):
GCTCGTGAGAGCATACCGATTTACA
Found at i:22872996 original size:22 final size:22
Alignment explanation
Indices: 22872971--22873035 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
22872961 AAATTATAAA
22872971 ATATAAAAATATATATATGTAC
1 ATATAAAAATATATATATGTAC
* *
22872993 ATATAAGAAAAATATATAAGTAC
1 ATATAA-AAATATATATATGTAC
* *
22873016 GTGAATTAAAATATATATAT
1 AT--ATAAAAATATATATAT
22873036 AAATATACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 6 0.18
23 15 0.44
24 10 0.29
25 3 0.09
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (22 bp):
ATATAAAAATATATATATGTAC
Found at i:22880656 original size:12 final size:12
Alignment explanation
Indices: 22880639--22880669 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22880629 ATATTAAGAT
22880639 GGTTAAAAATAA
1 GGTTAAAAATAA
22880651 GGTTAAAAATAA
1 GGTTAAAAATAA
*
22880663 AGTTAAA
1 GGTTAAA
22880670 TAATTACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (12 bp):
GGTTAAAAATAA
Found at i:22881445 original size:42 final size:42
Alignment explanation
Indices: 22881338--22881630 Score: 293
Period size: 42 Copynumber: 6.9 Consensus size: 42
22881328 CGCTTACAGA
* * *
22881338 AAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTGGG
* * * * * *
22881380 AAAGAAACGTCACTAATCA-TCATGTTCTTTAGCAGTGCTTGGG
1 AAA-AAACGCCGCTAA-AAGTAATGTTCTTTAGCGGCGCTTGGG
* * *
22881423 AAAAAACGCCGCT-AAAGATCATGTTCTTTTGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAAG-TAATGTTCTTTAGCGGCGCTTGGG
* *
22881465 AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTGGT
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTGGG
* * *
22881507 AAAAAACACCGCTAAAAGTAATGTTCTATAGCGGCGCTTGGT
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTGGG
* * ***
22881549 AGAAAACGCTGCTAAAAGTAATGTTCTTTAGCGGCGCTTCATC
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTT-GGG
* * * * *
22881592 TACAAACGCCGCTAAAAGTAGTGTTCTTTCGCGGTGCTT
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTT
22881631 ATTTCACAAA
Statistics
Matches: 211, Mismatches: 34, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
40 1 0.00
41 1 0.00
42 139 0.66
43 70 0.33
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTGGG
Found at i:22882082 original size:12 final size:12
Alignment explanation
Indices: 22882065--22882092 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
22882055 TTTTGAACCT
22882065 CTGCTTCTCTCG
1 CTGCTTCTCTCG
22882077 CTGCTTCTCTCG
1 CTGCTTCTCTCG
22882089 CTGC
1 CTGC
22882093 GGCCTCTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.18, T:0.39
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:22882101 original size:21 final size:21
Alignment explanation
Indices: 22882077--22882142 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
22882067 GCTTCTCTCG
*
22882077 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
22882098 CTGCTTCTCTCACTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
22882119 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
22882140 CTG
1 CTG
22882143 TTTTAAGTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.20, T:0.32
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:22887603 original size:9 final size:9
Alignment explanation
Indices: 22887586--22887730 Score: 94
Period size: 9 Copynumber: 17.2 Consensus size: 9
22887576 TAAATATAAT
*
22887586 TAAGCTATG
1 TAAGTTATG
22887595 TAAGTTATG
1 TAAGTTATG
*
22887604 T-A-TTATA
1 TAAGTTATG
22887611 TAAGTTAT-
1 TAAGTTATG
*
22887619 TTA-TTATG
1 TAAGTTATG
* *
22887627 AAAATTATG
1 TAAGTTATG
*
22887636 TAAGTTGTG
1 TAAGTTATG
22887645 T-A-TTATG
1 TAAGTTATG
* *
22887652 AAAATTATG
1 TAAGTTATG
* *
22887661 CAAGTTGTG
1 TAAGTTATG
22887670 T-A-TTATG
1 TAAGTTATG
22887677 TAAGTTATG
1 TAAGTTATG
22887686 TAAGTTATG
1 TAAGTTATG
22887695 TAAGTTAT-
1 TAAGTTATG
*
22887703 TTA-TTATG
1 TAAGTTATG
* * *
22887711 AAAATTAAG
1 TAAGTTATG
22887720 TAAGTTATG
1 TAAGTTATG
22887729 TA
1 TA
22887731 TTATATTAAA
Statistics
Matches: 104, Mismatches: 22, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
7 22 0.21
8 12 0.12
9 70 0.67
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:22887616 original size:16 final size:16
Alignment explanation
Indices: 22887595--22887625 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22887585 TTAAGCTATG
22887595 TAAGTTATGTATTATA
1 TAAGTTATGTATTATA
*
22887611 TAAGTTATTTATTAT
1 TAAGTTATGTATTAT
22887626 GAAAATTATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
TAAGTTATGTATTATA
Found at i:22887633 original size:25 final size:25
Alignment explanation
Indices: 22887605--22887696 Score: 121
Period size: 25 Copynumber: 3.7 Consensus size: 25
22887595 TAAGTTATGT
* *
22887605 ATTATATAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
22887630 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* * *
22887655 ATTATGCAAGTTGTGTATTATGTAA
1 ATTATGTAAGTTATGTATTATGAAA
*
22887680 GTTATGTAAGTTATGTA
1 ATTATGTAAGTTATGTA
22887697 AGTTATTTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.46
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:22887723 original size:34 final size:34
Alignment explanation
Indices: 22887656--22887730 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
22887646 ATTATGAAAA
* * * * *
22887656 TTATGCAAGTTGTGTATTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTATTATGAAAATTAAGTAAG
*
22887690 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTATGTATTATGAAAATTAAGTAAG
22887724 TTATGTA
1 TTATGTA
22887731 TTATATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (34 bp):
TTATGTAAGTTATGTATTATGAAAATTAAGTAAG
Found at i:22887784 original size:18 final size:18
Alignment explanation
Indices: 22887740--22887786 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 18
22887730 ATTATATTAA
*
22887740 AAATATAAATTAAATTTT
1 AAATATATATTAAATTTT
22887758 AAATATATATTAAATTTT
1 AAATATATATTAAATTTT
22887776 AGAAGTATATA
1 A-AA-TATATA
22887787 CACATATATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 18 0.69
19 2 0.08
20 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (18 bp):
AAATATATATTAAATTTT
Found at i:22887890 original size:12 final size:13
Alignment explanation
Indices: 22887873--22887902 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22887863 TAAATTAAAT
22887873 TTAAAAAT-TATA
1 TTAAAAATATATA
22887885 TTAAAAATATATA
1 TTAAAAATATATA
22887898 TTAAA
1 TTAAA
22887903 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAAAAATATATA
Found at i:22887913 original size:21 final size:21
Alignment explanation
Indices: 22887887--22887931 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
22887877 AAATTATATT
22887887 AAAAATA-TATATTAAATTTTA
1 AAAAATATTA-ATTAAATTTTA
22887908 AAAAATATTAATTAAATTTTA
1 AAAAATATTAATTAAATTTTA
22887929 AAA
1 AAA
22887932 GTATATGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATATTAATTAAATTTTA
Found at i:22887915 original size:19 final size:22
Alignment explanation
Indices: 22887885--22888021 Score: 93
Period size: 24 Copynumber: 5.9 Consensus size: 22
22887875 AAAAATTATA
22887885 TTAAAAATATA-T-ATTAAATT
1 TTAAAAATATATTAATTAAATT
22887905 TTAAAAA-ATATTAATTAAATT
1 TTAAAAATATATTAATTAAATT
22887926 TTAAAAGTATATGCATATATATTAAATT
1 TTAAAA--ATAT--AT-TA-ATTAAATT
*
22887954 TTCAAAATATATATAAATTAAA-T
1 TT-AAAA-ATATATTAATTAAATT
* * *
22887977 TTACAAATATATACATATTAAGTT
1 TTAAAAATATAT-TA-ATTAAATT
* *
22888001 TTAAAGATATATATATTTAAA
1 TTAAAAATATAT-TAATTAAA
22888022 ATATATATAT
Statistics
Matches: 95, Mismatches: 9, Indels: 23
0.75 0.07 0.18
Matches are distributed among these distances:
19 3 0.03
20 8 0.08
21 20 0.21
22 4 0.04
23 13 0.14
24 21 0.22
25 1 0.01
26 4 0.04
27 2 0.02
28 15 0.16
29 4 0.04
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (22 bp):
TTAAAAATATATTAATTAAATT
Found at i:22887943 original size:28 final size:25
Alignment explanation
Indices: 22887891--22888016 Score: 101
Period size: 23 Copynumber: 5.2 Consensus size: 25
22887881 TATATTAAAA
22887891 ATATATATTAAATTTTAAAA-A-AT-
1 ATATA-ATTAAATTTTAAAATATATC
22887914 AT-TAATTAAATTTTAAAAGTATATGC
1 ATATAATTAAATTTTAAAA-TATAT-C
22887940 ATATATATTAAATTTTCAAAATATAT-
1 ATATA-ATTAAATTTT-AAAATATATC
22887966 ATA-AATTAAA-TTTACAAATATAT-
1 ATATAATTAAATTTTA-AAATATATC
* *
22887989 ACAT-ATTAAGTTTTAAAGATATAT-
1 ATATAATTAAATTTTAAA-ATATATC
22888013 ATAT
1 ATAT
22888017 TTAAAATATA
Statistics
Matches: 88, Mismatches: 3, Indels: 23
0.77 0.03 0.20
Matches are distributed among these distances:
21 14 0.16
22 3 0.03
23 23 0.26
24 21 0.24
25 1 0.01
26 5 0.06
27 2 0.02
28 15 0.17
29 4 0.05
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (25 bp):
ATATAATTAAATTTTAAAATATATC
Found at i:22887954 original size:49 final size:51
Alignment explanation
Indices: 22887863--22887994 Score: 146
Period size: 52 Copynumber: 2.5 Consensus size: 51
22887853 AAATTTACGT
* *
22887863 TAAATTAAATTTAAAAATTATATTAAAAATATATATTAAATTTT-AAAA-A-ATA
1 TAAATTAAATTTACAAA-TATA-T--ACATATATATTAAATTTTCAAAATATATA
* *
22887915 TTAATTAAATTTTA-AAAGTATATGCATATATATTAAATTTTCAAAATATATA
1 TAAATTAAA-TTTACAAA-TATATACATATATATTAAATTTTCAAAATATATA
22887967 TAAATTAAATTTACAAATATATACATAT
1 TAAATTAAATTTACAAATATATACATAT
22887995 TAAGTTTTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
49 16 0.23
50 4 0.06
51 16 0.23
52 29 0.42
53 4 0.06
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (51 bp):
TAAATTAAATTTACAAATATATACATATATATTAAATTTTCAAAATATATA
Found at i:22887997 original size:47 final size:49
Alignment explanation
Indices: 22887895--22888015 Score: 135
Period size: 47 Copynumber: 2.5 Consensus size: 49
22887885 TTAAAAATAT
* *
22887895 ATATTAAATTTTAAAA-A-ATATTAATTAAATTTTAAAAGTATATGCATAT
1 ATATTAAATTTTAAAATATATATAAATTAAATTTTAAAAG-ATAT-CATAC
*
22887944 ATATTAAATTTTCAAAATATATATAAATTAAA-TTTACAA-ATAT-ATAC
1 ATATTAAATTTT-AAAATATATATAAATTAAATTTTAAAAGATATCATAC
*
22887991 ATATTAAGTTTTAAAGATATATATA
1 ATATTAAATTTTAAA-ATATATATA
22888016 TTTAAAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
46 3 0.05
47 23 0.36
49 16 0.25
50 4 0.06
51 7 0.11
52 11 0.17
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (49 bp):
ATATTAAATTTTAAAATATATATAAATTAAATTTTAAAAGATATCATAC
Found at i:22888027 original size:15 final size:16
Alignment explanation
Indices: 22888000--22888032 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
22887990 CATATTAAGT
22888000 TTTAAAGATATATATA
1 TTTAAAGATATATATA
22888016 TTTAAA-ATATATATA
1 TTTAAAGATATATATA
22888031 TT
1 TT
22888033 AATAAGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTTAAAGATATATATA
Found at i:22888099 original size:9 final size:9
Alignment explanation
Indices: 22888082--22888339 Score: 131
Period size: 9 Copynumber: 29.3 Consensus size: 9
22888072 TAAGTATAAT
*
22888082 TAAGCTATG
1 TAAGTTATG
22888091 TAAGTTATG
1 TAAGTTATG
*
22888100 TAAGTTATA
1 TAAGTTATG
*
22888109 TAAGTTGTG
1 TAAGTTATG
*
22888118 T-A-TAATG
1 TAAGTTATG
*
22888125 TAAGTTACG
1 TAAGTTATG
* *
22888134 AAAGTTATA
1 TAAGTTATG
*
22888143 TGCA-TTATG
1 T-AAGTTATG
22888152 TAAGTTAT-
1 TAAGTTATG
*
22888160 T-A--TAAG
1 TAAGTTATG
22888166 TAAGTTATG
1 TAAGTTATG
22888175 TAAG-T-TG
1 TAAGTTATG
22888182 TAAGTTATG
1 TAAGTTATG
22888191 TAAGTTATG
1 TAAGTTATG
*
22888200 TATA-ATAT-
1 TA-AGTTATG
22888208 TAA-TTAAT-
1 TAAGTT-ATG
22888216 TAAGTTATG
1 TAAGTTATG
*
22888225 TAATTTATG
1 TAAGTTATG
*
22888234 TATAATATTAATG
1 --TAA-GTT-ATG
22888247 TAAGTTATG
1 TAAGTTATG
22888256 TAAG-T-TG
1 TAAGTTATG
22888263 TAAGTTATG
1 TAAGTTATG
22888272 TAAGTTATG
1 TAAGTTATG
*
22888281 TATA-ATAT-
1 TA-AGTTATG
22888289 TAA-TTAAT-
1 TAAGTT-ATG
22888297 TAAGTTATG
1 TAAGTTATG
*
22888306 TAATTTATG
1 TAAGTTATG
*
22888315 TATAATATTAATG
1 --TAA-GTT-ATG
22888328 TAAGTTATG
1 TAAGTTATG
22888337 TAA
1 TAA
22888340 TCTATACCCG
Statistics
Matches: 194, Mismatches: 27, Indels: 56
0.70 0.10 0.20
Matches are distributed among these distances:
5 2 0.01
6 1 0.01
7 22 0.11
8 26 0.13
9 114 0.59
10 7 0.04
11 12 0.06
12 4 0.02
13 6 0.03
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:22888186 original size:16 final size:16
Alignment explanation
Indices: 22888165--22888277 Score: 69
Period size: 16 Copynumber: 7.0 Consensus size: 16
22888155 GTTATTATAA
22888165 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
22888181 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAG-T-T
*
22888199 GTATA-ATAT-TAA-TT
1 GTA-AGTTATGTAAGTT
*
22888213 AATTAAGTTATGTAA-TT
1 --GTAAGTTATGTAAGTT
* *
22888230 -TATGTATAATATTAA--T
1 GTAAGT-T-AT-GTAAGTT
22888246 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
22888262 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
22888278 ATGTATAATA
Statistics
Matches: 77, Mismatches: 7, Indels: 26
0.70 0.06 0.24
Matches are distributed among these distances:
14 8 0.10
15 5 0.06
16 40 0.52
17 16 0.21
18 7 0.09
19 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (16 bp):
GTAAGTTATGTAAGTT
Found at i:22888219 original size:25 final size:26
Alignment explanation
Indices: 22888188--22888307 Score: 115
Period size: 25 Copynumber: 4.5 Consensus size: 26
22888178 GTTGTAAGTT
22888188 ATGTAAGTTATGTATAATATTAATTA
1 ATGTAAGTTATGTATAATATTAATTA
* *
22888214 AT-TAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGT-A--TA-ATATTA-ATTA
*
22888244 ATGTAAGTTATGTA-AGT-TGTAAGTT-
1 ATGTAAGTTATGTATAATAT-TAA-TTA
22888269 ATGTAAGTTATGTATAATATTAATTA
1 ATGTAAGTTATGTATAATATTAATTA
22888295 AT-TAAGTTATGTA
1 ATGTAAGTTATGTA
22888308 ATTTATGTAT
Statistics
Matches: 79, Mismatches: 4, Indels: 23
0.75 0.04 0.22
Matches are distributed among these distances:
25 39 0.49
26 15 0.19
27 2 0.03
28 2 0.03
29 4 0.05
30 7 0.09
31 10 0.13
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTATGTATAATATTAATTA
Found at i:22888225 original size:34 final size:34
Alignment explanation
Indices: 22888182--22888326 Score: 137
Period size: 34 Copynumber: 3.9 Consensus size: 34
22888172 ATGTAAGTTG
22888182 TAAGTTATGTAAGTTATGTATAATATTAATTAAT
1 TAAGTTATGTAAGTTATGTATAATATTAATTAAT
*
22888216 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTAT
1 TAAGTTATGTAAGTTATGTATAATATTAAT-T-A---AT
* *
22888255 GTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAAT
1 -TAAG-T-TATGTAA-----GTTATGTATAATATTAATTAAT
*
22888297 TAAGTTATGTAATTTATGTATAATATTAAT
1 TAAGTTATGTAAGTTATGTATAATATTAAT
22888327 GTAAGTTATG
Statistics
Matches: 91, Mismatches: 7, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
34 46 0.51
35 1 0.01
36 1 0.01
39 7 0.08
40 5 0.05
41 5 0.05
42 7 0.08
45 1 0.01
46 1 0.01
47 17 0.19
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (34 bp):
TAAGTTATGTAAGTTATGTATAATATTAATTAAT
Found at i:22888278 original size:81 final size:81
Alignment explanation
Indices: 22888165--22888339 Score: 350
Period size: 81 Copynumber: 2.2 Consensus size: 81
22888155 GTTATTATAA
22888165 GTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATT
1 GTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATT
22888230 TATGTATAATATTAAT
66 TATGTATAATATTAAT
22888246 GTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATT
1 GTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATT
22888311 TATGTATAATATTAAT
66 TATGTATAATATTAAT
22888327 GTAAGTTATGTAA
1 GTAAGTTATGTAA
22888340 TCTATACCCG
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 94 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (81 bp):
GTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATT
TATGTATAATATTAAT
Found at i:22889025 original size:12 final size:12
Alignment explanation
Indices: 22889005--22889044 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
22888995 CAAACAGTTT
*
22889005 CAAACTTATGAA
1 CAAAATTATGAA
*
22889017 CAAAATTATTAA
1 CAAAATTATGAA
22889029 CAAAATTATGAA
1 CAAAATTATGAA
22889041 CAAA
1 CAAA
22889045 CAGTATTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.25
Consensus pattern (12 bp):
CAAAATTATGAA
Found at i:22889055 original size:24 final size:24
Alignment explanation
Indices: 22888994--22889055 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
22888984 ATCCTGTAAT
*
22888994 ACAAACAGT-TT-CAAACTTATGA
1 ACAAACAGTATTACAAAATTATGA
*
22889016 ACAAA-ATTATTAACAAAATTATGA
1 ACAAACAGTATT-ACAAAATTATGA
22889040 ACAAACAGTATTACAA
1 ACAAACAGTATTACAA
22889056 GCCTGCAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 2 0.06
22 7 0.21
24 19 0.58
25 5 0.15
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (24 bp):
ACAAACAGTATTACAAAATTATGA
Found at i:22889569 original size:24 final size:23
Alignment explanation
Indices: 22889515--22889576 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
22889505 AGAGTTCTAG
*
22889515 AATTGGGGGATTTTTGGGGGAAA
1 AATTGGGGGAATTTTGGGGGAAA
*
22889538 AATCGGGGGCAATTTT-GGGGAGAA
1 AATTGGGGG-AATTTTGGGGGA-AA
*
22889562 ATTTGGGGGGAATTT
1 AATT-GGGGGAATTT
22889577 CGGCTAAGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 13 0.41
24 14 0.44
25 5 0.16
ACGTcount: A:0.26, C:0.03, G:0.42, T:0.29
Consensus pattern (23 bp):
AATTGGGGGAATTTTGGGGGAAA
Found at i:22889932 original size:16 final size:16
Alignment explanation
Indices: 22889911--22889942 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22889901 TATTTATTTC
22889911 TTAATTGTATCTTTTA
1 TTAATTGTATCTTTTA
22889927 TTAATTGTATCTTTTA
1 TTAATTGTATCTTTTA
22889943 ATTACTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (16 bp):
TTAATTGTATCTTTTA
Found at i:22891188 original size:21 final size:21
Alignment explanation
Indices: 22891129--22891189 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
22891119 CTTAAACCCC
* *
22891129 AAACTATAAACCCTTAACCCT
1 AAACTATAAACCCTAAACCAT
* *
22891150 AAACTCTAAA-TCTCAAACCAT
1 AAACTATAAACCCT-AAACCAT
22891171 AAAACT-TAAACCCTAAACC
1 -AAACTATAAACCCTAAACC
22891190 CGTCAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 2 0.06
21 23 0.72
22 7 0.22
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACTATAAACCCTAAACCAT
Found at i:22891400 original size:13 final size:14
Alignment explanation
Indices: 22891365--22891405 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
22891355 CAAACCCCTA
*
22891365 AAGT-ATAAACCGT
1 AAGTCATAAACCAT
22891378 AAGTCATAAACCAT
1 AAGTCATAAACCAT
*
22891392 AA-TCCTAAACCAT
1 AAGTCATAAACCAT
22891405 A
1 A
22891406 TCTTTAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.49, C:0.22, G:0.07, T:0.22
Consensus pattern (14 bp):
AAGTCATAAACCAT
Found at i:22891937 original size:114 final size:113
Alignment explanation
Indices: 22891813--22892151 Score: 275
Period size: 114 Copynumber: 3.0 Consensus size: 113
22891803 TTAGTCAAAT
* *
22891813 TTTTTGCGGCGCTTAAGCAGAAGCGCCACTAAAAGCTGATATATAGCGGCGTTTAT-GGGTAAGC
1 TTTTT-CGGCGATTAAGCA-AAGCGCCACTAAAAGCTGATATATAGCGGCGTTT-TCAGGTAAGC
22891877 GCCACTAAAGGCGCTATAGCTCAAGACGAAACGTTGCGTTTCGGTTTAAAA
63 GCCACTAAAGGCGCTATAGCTCAAGACGAAACGTTGCGTTTCGGTTTAAAA
* * * * * *
22891928 TTTTTCGGCGTTTTTTAGTTAAA-CGCCACTATTTATGC-G--ATATAGCAGCGTTTTCAGGTAA
1 TTTTTCGGCG--ATTAAG-CAAAGCGCCACTA--AAAGCTGATATATAGCGGCGTTTTCAGGTAA
* * ** * * *
22891989 GCGCCACTAATGCCTTTATA-CGTCAA-ACCTG-AACGATGCGTTT-TGTTCAAAA
61 GCGCCACTAAAGGCGCTATAGC-TCAAGA-C-GAAACGTTGCGTTTCGGTTTAAAA
* * * * * *
22892041 TATTTGCAGCGATTCA-CAAATAGCACCACGAAAAGCTGATATATAGCGGCGTTTTCAGCTAAGC
1 T-TTTTCGGCGATTAAGC-AA-AGCGCCACTAAAAGCTGATATATAGCGGCGTTTTCAGGTAAGC
**
22892105 GCGGCTAAAGGCGCTATAGCTCAAGACGAAACGTTGCGTTTCGGTTT
63 GCCACTAAAGGCGCTATAGCTCAAGACGAAACGTTGCGTTTCGGTTT
22892152 CAAAGGTTCC
Statistics
Matches: 170, Mismatches: 34, Indels: 40
0.70 0.14 0.16
Matches are distributed among these distances:
111 5 0.03
112 5 0.03
113 18 0.11
114 112 0.66
115 19 0.11
116 7 0.04
117 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (113 bp):
TTTTTCGGCGATTAAGCAAAGCGCCACTAAAAGCTGATATATAGCGGCGTTTTCAGGTAAGCGCC
ACTAAAGGCGCTATAGCTCAAGACGAAACGTTGCGTTTCGGTTTAAAA
Found at i:22892137 original size:228 final size:228
Alignment explanation
Indices: 22891740--22892170 Score: 573
Period size: 228 Copynumber: 1.9 Consensus size: 228
22891730 AAAATTACTC
* * *
22891740 TATAGCAGCGTTTCCAAATAAGCGCCGCTAATGAATCTATACGTGAAGCCGAAACGATGCGTTTT
1 TATAGCAGCGTTTCCAAATAAGCGCCACTAATGAATCTATACGTCAAACCGAAACGATGCGTTTT
* * * * * * * *
22891805 AGTCAAATTTTTTGCGGCGCTTAAGCAGAAGCGCCACTAAAAGCTGATATATAGCGGCGTTTATG
66 AGTCAAAATATTTGCAGCGATTAAGCAAAAGCACCACGAAAAGCTGATATATAGCGGCGTTTATA
* ** *
22891870 GGTAAGCGCCACTAAAGGCGCTATAGCTCAAGACGAAACGTTGCGTTTCGGTTTAAAATTTTTCG
131 GCTAAGCGCCACTAAAGGCGCTATAGCTCAAGACGAAACGTTGCGTTTCGGTTTAAAAGGTTCCG
22891935 GCGTTTTTTAGTTAAACGCCACTATTTATGCGA
196 GCGTTTTTTAGTTAAACGCCACTATTTATGCGA
* ** ** *
22891968 TATAGCAGCGTTTTCAGGTAAGCGCCACTAATGCCTTTATACGTCAAACCTG-AACGATGCGTTT
1 TATAGCAGCGTTTCCAAATAAGCGCCACTAATGAATCTATACGTCAAACC-GAAACGATGCGTTT
*
22892032 T-GTTCAAAATATTTGCAGCGATTCA-CAAATAGCACCACGAAAAGCTGATATATAGCGGCGTTT
65 TAG-TCAAAATATTTGCAGCGATTAAGCAAA-AGCACCACGAAAAGCTGATATATAGCGGCGTTT
** *
22892095 -TCAGCTAAGCGCGGCTAAAGGCGCTATAGCTCAAGACGAAACGTTGCGTTTCGGTTTCAAAGGT
128 AT-AGCTAAGCGCCACTAAAGGCGCTATAGCTCAAGACGAAACGTTGCGTTTCGGTTTAAAAGGT
22892159 TCCGGCGTTTTT
192 TCCGGCGTTTTT
22892171 CGGTTATGCG
Statistics
Matches: 174, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
227 5 0.03
228 168 0.97
229 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (228 bp):
TATAGCAGCGTTTCCAAATAAGCGCCACTAATGAATCTATACGTCAAACCGAAACGATGCGTTTT
AGTCAAAATATTTGCAGCGATTAAGCAAAAGCACCACGAAAAGCTGATATATAGCGGCGTTTATA
GCTAAGCGCCACTAAAGGCGCTATAGCTCAAGACGAAACGTTGCGTTTCGGTTTAAAAGGTTCCG
GCGTTTTTTAGTTAAACGCCACTATTTATGCGA
Found at i:22893095 original size:23 final size:23
Alignment explanation
Indices: 22893069--22893125 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
22893059 ATGATTTTAA
22893069 AAAATATTTATATTTATATAAT-T
1 AAAATATTTATATTT-TATAATAT
* *
22893092 AAAATATTCATATTTTATACTAT
1 AAAATATTTATATTTTATAATAT
22893115 AAAATATTTAT
1 AAAATATTTAT
22893126 TATTAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 5 0.17
23 25 0.83
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAATATTTATATTTTATAATAT
Found at i:22894953 original size:3 final size:3
Alignment explanation
Indices: 22894945--22894978 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
22894935 TCTACTTTTC
*
22894945 TCT TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
22894979 TGCATTTGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:22900009 original size:21 final size:21
Alignment explanation
Indices: 22899983--22900024 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22899973 TTTATCAGCA
*
22899983 AAAATGGAGAGATGAGAAGAG
1 AAAATGGAAAGATGAGAAGAG
*
22900004 AAAATGGAAAGGTGAGAAGAG
1 AAAATGGAAAGATGAGAAGAG
22900025 GGTGAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.38, T:0.10
Consensus pattern (21 bp):
AAAATGGAAAGATGAGAAGAG
Found at i:22900344 original size:22 final size:22
Alignment explanation
Indices: 22900316--22900364 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
22900306 TCCAGCAACG
22900316 TAGTATAGGAATCAAAAGGTTA
1 TAGTATAGGAATCAAAAGGTTA
22900338 TAGTATAGGAATCAAAAGGTTA
1 TAGTATAGGAATCAAAAGGTTA
22900360 TAGTA
1 TAGTA
22900365 GTACAACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (22 bp):
TAGTATAGGAATCAAAAGGTTA
Found at i:22913212 original size:18 final size:19
Alignment explanation
Indices: 22913173--22913212 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22913163 AAAAATTATG
* *
22913173 AAAAAGGAAAACAGTAGCA
1 AAAAAGAAAAACAGGAGCA
22913192 AAAAAGAAAAACAGGAG-A
1 AAAAAGAAAAACAGGAGCA
22913210 AAA
1 AAA
22913213 GAAAACTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.70, C:0.07, G:0.20, T:0.03
Consensus pattern (19 bp):
AAAAAGAAAAACAGGAGCA
Found at i:22919994 original size:16 final size:17
Alignment explanation
Indices: 22919965--22919996 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
22919955 ATTCCACATG
22919965 CCCGTGTAGGCCCACAC
1 CCCGTGTAGGCCCACAC
22919982 CCCGTGT-GGCCCACA
1 CCCGTGTAGGCCCACA
22919997 TGGCCCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.16, C:0.47, G:0.25, T:0.12
Consensus pattern (17 bp):
CCCGTGTAGGCCCACAC
Found at i:22923575 original size:18 final size:18
Alignment explanation
Indices: 22923549--22923583 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22923539 TAGATGTGCA
*
22923549 CATTAAATGTAGATATGT
1 CATTAAATGGAGATATGT
*
22923567 CATTGAATGGAGATATG
1 CATTAAATGGAGATATG
22923584 ATATGTTGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (18 bp):
CATTAAATGGAGATATGT
Found at i:22926869 original size:62 final size:62
Alignment explanation
Indices: 22926800--22926923 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
22926790 GAATGATTAC
22926800 GGTTTTCACCGAAATGGAGAAATATAATCATTTGGAAATGAATGTAGGTTTCCAAAAATAGA
1 GGTTTTCACCGAAATGGAGAAATATAATCATTTGGAAATGAATGTAGGTTTCCAAAAATAGA
22926862 GGTTTTCACCGAAATGGAGAAATATAATCATTTGGAAATGAATGTAGGTTTCCAAAAATAGA
1 GGTTTTCACCGAAATGGAGAAATATAATCATTTGGAAATGAATGTAGGTTTCCAAAAATAGA
22926924 AATGGAAATG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (62 bp):
GGTTTTCACCGAAATGGAGAAATATAATCATTTGGAAATGAATGTAGGTTTCCAAAAATAGA
Found at i:22927577 original size:18 final size:18
Alignment explanation
Indices: 22927554--22927589 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22927544 GGGCTTAGAC
22927554 CTTTTAAAGAATTGTATT
1 CTTTTAAAGAATTGTATT
* *
22927572 CTTTTAGAGAATTTTATT
1 CTTTTAAAGAATTGTATT
22927590 ATTGTGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (18 bp):
CTTTTAAAGAATTGTATT
Found at i:22930971 original size:27 final size:27
Alignment explanation
Indices: 22930941--22931001 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
22930931 CCGGCAGACA
* *
22930941 ACCCCGCTTTTATTATCCTGACGGACT
1 ACCCCGCGTTTATTATCCCGACGGACT
** *
22930968 ACCCTACGTTTATTATCCCGGCGGACT
1 ACCCCGCGTTTATTATCCCGACGGACT
22930995 ACCCCGC
1 ACCCCGC
22931002 ATATATGCTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.18, C:0.38, G:0.16, T:0.28
Consensus pattern (27 bp):
ACCCCGCGTTTATTATCCCGACGGACT
Found at i:22931103 original size:49 final size:49
Alignment explanation
Indices: 22931014--22931107 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
22931004 ATATGCTTCT
* * *
22931014 ATAGCCAAGCTATGGTCTTACACATCATACCTTATGTTTAATGTCATGC
1 ATAGCCAAGATATGGTATTACACATCATACCCTATGTTTAATGTCATGC
* *
22931063 ATAGTCAAGATATGGTATTACACATCATACCCTATTTTTAATGTC
1 ATAGCCAAGATATGGTATTACACATCATACCCTATGTTTAATGTC
22931108 CTGGAAAACT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (49 bp):
ATAGCCAAGATATGGTATTACACATCATACCCTATGTTTAATGTCATGC
Found at i:22931186 original size:67 final size:67
Alignment explanation
Indices: 22931073--22931429 Score: 355
Period size: 67 Copynumber: 5.3 Consensus size: 67
22931063 ATAGTCAAGA
* * * * * *
22931073 TATGGTATTACACATCATACCCTATTTTTAATGTCCTGGA-AAACTCTCTATATTGTCATAACCA
1 TATGGTCTTACACATCATACCCCATGTTTAATGTCCT-GACAGACTCTCTATGTTGTCATAACCG
22931137 AGC
65 AGC
* *
22931140 TATGGTCTTACACATCATACCCCATGTTTAATGTCCTGACGGACTCTCTATGTTGTCATCACCGA
1 TATGGTCTTACACATCATACCCCATGTTTAATGTCCTGACAGACTCTCTATGTTGTCATAACCGA
22931205 GC
66 GC
* * *** * *
22931207 TGTGGTCTTACACATCATACCCTATGTTTAATGTCCTGGTGGACTCTCTATGTTGCCATAGCCGA
1 TATGGTCTTACACATCATACCCCATGTTTAATGTCCTGACAGACTCTCTATGTTGTCATAACCGA
22931272 GC
66 GC
* * * * * * *
22931274 TATCGTCTTGCACATCATACCTCATGTTTAATGTCCT-AGCAAACTCTCTTTGTTGCCATAGA-T
1 TATGGTCTTACACATCATACCCCATGTTTAATGTCCTGA-CAGACTCTCTATGTTGTCATA-ACC
**
22931337 GATT
64 GAGC
* * * * *
22931341 TATGGTCTTACACATCAAACCCCACGTTTAATATCCT-AGCAGACTCTCTATGTT-TCCATAGCT
1 TATGGTCTTACACATCATACCCCATGTTTAATGTCCTGA-CAGACTCTCTATGTTGT-CATAACC
22931404 GAGC
64 GAGC
* *
22931408 TATAGTCTTACACATTATACCC
1 TATGGTCTTACACATCATACCC
22931430 TATTGCAGCC
Statistics
Matches: 241, Mismatches: 44, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
66 2 0.01
67 239 0.99
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (67 bp):
TATGGTCTTACACATCATACCCCATGTTTAATGTCCTGACAGACTCTCTATGTTGTCATAACCGA
GC
Found at i:22931320 original size:134 final size:134
Alignment explanation
Indices: 22931073--22931429 Score: 403
Period size: 134 Copynumber: 2.7 Consensus size: 134
22931063 ATAGTCAAGA
* * * * * * *
22931073 TATGGTATTACACATCATACCCTATTTTTAATGTCCTGGAAAACTCTCTATATTGTCATAACCAA
1 TATGGTCTTACACATCATACCCTATGTTTAATGTCCTGGAAGACTCTCTATGTTGCCATAGCCGA
* ** * *
22931138 GCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTGACGGACTCTCTATGTTGTCATCA-C
66 GCTATAGTCTTACACATCATACCCCATGTTTAATGTCCTGACAAACTCTCTATGTTGCCAT-AGA
22931202 CGAGC
130 CGAGC
* **
22931207 TGTGGTCTTACACATCATACCCTATGTTTAATGTCCTGGTGGACTCTCTATGTTGCCATAGCCGA
1 TATGGTCTTACACATCATACCCTATGTTTAATGTCCTGGAAGACTCTCTATGTTGCCATAGCCGA
* * * *
22931272 GCTATCGTCTTGCACATCATACCTCATGTTTAATGTCCT-AGCAAACTCTCTTTGTTGCCATAGA
66 GCTATAGTCTTACACATCATACCCCATGTTTAATGTCCTGA-CAAACTCTCTATGTTGCCATAGA
* **
22931336 TGATT
130 CGAGC
* * * * * * * *
22931341 TATGGTCTTACACATCAAACCCCACGTTTAATATCCTAGCAGACTCTCTATGTTTCCATAGCTGA
1 TATGGTCTTACACATCATACCCTATGTTTAATGTCCTGGAAGACTCTCTATGTTGCCATAGCCGA
*
22931406 GCTATAGTCTTACACATTATACCC
66 GCTATAGTCTTACACATCATACCC
22931430 TATTGCAGCC
Statistics
Matches: 186, Mismatches: 35, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
133 2 0.01
134 184 0.99
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (134 bp):
TATGGTCTTACACATCATACCCTATGTTTAATGTCCTGGAAGACTCTCTATGTTGCCATAGCCGA
GCTATAGTCTTACACATCATACCCCATGTTTAATGTCCTGACAAACTCTCTATGTTGCCATAGAC
GAGC
Found at i:22932187 original size:3 final size:3
Alignment explanation
Indices: 22932179--22932204 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22932169 AGAGCTCTTA
22932179 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
22932205 AGAATAACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:22934363 original size:13 final size:13
Alignment explanation
Indices: 22934345--22934370 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22934335 AAATAACTGT
22934345 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
22934358 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
22934371 AGAAAACTCA
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:22935465 original size:21 final size:21
Alignment explanation
Indices: 22935440--22935492 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
22935430 AGCGGTGGCA
* *
22935440 GTGAGATTAGTTACTGCAGCG
1 GTGAGATTAGATACTACAGCG
* * *
22935461 GTGAGATTGGATACTATAGCT
1 GTGAGATTAGATACTACAGCG
22935482 GTGAGATTAGA
1 GTGAGATTAGA
22935493 AACAATGGTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.09, G:0.32, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTACAGCG
Found at i:22935980 original size:32 final size:31
Alignment explanation
Indices: 22935899--22936169 Score: 354
Period size: 31 Copynumber: 9.1 Consensus size: 31
22935889 GAATACGCCG
* *
22935899 AATATACTACATATA-TTTTTTTATTTTTAC
1 AATACACTACATATATTTTTTTTATTTTTAA
22935929 AATACACTACATATATTTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTTATTTTTAA
22935960 AATACACTACATATATTTTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTTTATTTTTAA
* *
22935992 AATACAC-A-ACATA--TTTTTTATTTTTTA
1 AATACACTACATATATTTTTTTTATTTTTAA
22936019 AATACACTACATATATTTTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTTTATTTTTAA
22936051 AATACACTACATATA--TTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTTATTTTTAA
*
22936080 AATACACTACATATA-----TATA-TTTTAA
1 AATACACTACATATATTTTTTTTATTTTTAA
22936105 AATACACTACA-AGTATTTTTTTTATTTTTAA
1 AATACACTACATA-TATTTTTTTTATTTTTAA
* *
22936136 AATCCATTACATATATTTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTTATTTTTAA
22936167 AAT
1 AAT
22936170 TTTAAATACA
Statistics
Matches: 216, Mismatches: 10, Indels: 29
0.85 0.04 0.11
Matches are distributed among these distances:
24 1 0.00
25 19 0.09
26 3 0.01
27 20 0.09
28 1 0.00
29 33 0.15
30 21 0.10
31 66 0.31
32 52 0.24
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (31 bp):
AATACACTACATATATTTTTTTTATTTTTAA
Found at i:22936006 original size:61 final size:60
Alignment explanation
Indices: 22935899--22936169 Score: 335
Period size: 59 Copynumber: 4.6 Consensus size: 60
22935889 GAATACGCCG
* * *
22935899 AATATACTACATATA-TTTTTTTATTTTTACAATACACTACATATATTTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTTATTTTTAAAATACAC-A-ACATATTTTTTTTATTTTTAA
*
22935960 AATACACTACATATATTTTTTTTTATTTTTAAAATACACAACATA--TTTTTTATTTTTTA
1 AATACACTACATATA-TTTTTTTTATTTTTAAAATACACAACATATTTTTTTTATTTTTAA
* *
22936019 AATACACTACATATATTTTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTTTATTTTTAAAATACACAACATATTTTTTTTATTTTTAA
* *
22936080 AATACACTACATATA-----TATA-TTTTAAAATACACTACAAGTATTTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTTATTTTTAAAATACACAAC-A-TATTTTTTTTATTTTTAA
* *
22936136 AATCCATTACATATATTTTTTTTATTTTTAAAAT
1 AATACACTACATATATTTTTTTTATTTTTAAAAT
22936170 TTTAAATACA
Statistics
Matches: 187, Mismatches: 11, Indels: 23
0.85 0.05 0.10
Matches are distributed among these distances:
54 16 0.09
55 4 0.02
56 30 0.16
59 57 0.30
61 49 0.26
62 10 0.05
63 21 0.11
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (60 bp):
AATACACTACATATATTTTTTTTATTTTTAAAATACACAACATATTTTTTTTATTTTTAA
Found at i:22936105 original size:54 final size:56
Alignment explanation
Indices: 22936045--22936151 Score: 173
Period size: 56 Copynumber: 1.9 Consensus size: 56
22936035 TTTTTTTTAT
22936045 TTTTAAAATACACTAC-A-TATATTTTTTATTTTTAAAATACACTACATATATATA
1 TTTTAAAATACACTACAAGTATATTTTTTATTTTTAAAATACACTACATATATATA
* * *
22936099 TTTTAAAATACACTACAAGTATTTTTTTTATTTTTAAAATCCATTACATATAT
1 TTTTAAAATACACTACAAGTATATTTTTTATTTTTAAAATACACTACATATAT
22936152 TTTTTTTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
54 16 0.33
55 1 0.02
56 31 0.65
ACGTcount: A:0.40, C:0.11, G:0.01, T:0.48
Consensus pattern (56 bp):
TTTTAAAATACACTACAAGTATATTTTTTATTTTTAAAATACACTACATATATATA
Found at i:22936335 original size:23 final size:22
Alignment explanation
Indices: 22936276--22936339 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
22936266 ATTTCCCATA
*
22936276 CCACCGTGCCCTCCTCCCATTT
1 CCACCGTTCCCTCCTCCCATTT
* *
22936298 -C-CCATTCCCAT-CTCCCCTCTT
1 CCACCGTTCCC-TCCTCCCAT-TT
22936319 CCACCGTTCCCTCCTCCCATT
1 CCACCGTTCCCTCCTCCCATT
22936340 CCCATTCCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
20 12 0.38
21 4 0.12
22 3 0.09
23 13 0.41
ACGTcount: A:0.09, C:0.56, G:0.05, T:0.30
Consensus pattern (22 bp):
CCACCGTTCCCTCCTCCCATTT
Found at i:22936344 original size:6 final size:6
Alignment explanation
Indices: 22936333--22936370 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
22936323 CGTTCCCTCC
22936333 TCCCAT TCCCAT TCCCATT TCCCAT TCCCAT TCCCAT T
1 TCCCAT TCCCAT TCCCA-T TCCCAT TCCCAT TCCCAT T
22936371 ATCAACAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.16, C:0.47, G:0.00, T:0.37
Consensus pattern (6 bp):
TCCCAT
Found at i:22936355 original size:19 final size:19
Alignment explanation
Indices: 22936333--22936370 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
22936323 CGTTCCCTCC
22936333 TCCCATTCCCATTCCCATT
1 TCCCATTCCCATTCCCATT
22936352 TCCCATTCCCATTCCCATT
1 TCCCATTCCCATTCCCATT
22936371 ATCAACAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.47, G:0.00, T:0.37
Consensus pattern (19 bp):
TCCCATTCCCATTCCCATT
Found at i:22940306 original size:21 final size:19
Alignment explanation
Indices: 22940276--22940314 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
22940266 AATTTGAGCC
*
22940276 AAAAAGTCATCGAAACACTA
1 AAAAAGTCAT-AAAACACTA
22940296 AAAAAGTTCATAAAACACT
1 AAAAAG-TCATAAAACACT
22940315 TATTTTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.56, C:0.18, G:0.08, T:0.18
Consensus pattern (19 bp):
AAAAAGTCATAAAACACTA
Found at i:22943169 original size:25 final size:25
Alignment explanation
Indices: 22943140--22943200 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
22943130 GTAACAAAAT
*
22943140 TAACAATAAAACAAGAGTTATACAA
1 TAACAACAAAACAAGAGTTATACAA
22943165 TAACAACAAAACAAGAGTTATACAA
1 TAACAACAAAACAAGAGTTATACAA
22943190 TAACAACAAAA
1 TAACAACAAAA
22943201 TAGTAACAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.62, C:0.15, G:0.07, T:0.16
Consensus pattern (25 bp):
TAACAACAAAACAAGAGTTATACAA
Found at i:22943254 original size:11 final size:11
Alignment explanation
Indices: 22943240--22943285 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
22943230 AAAATAGTGA
*
22943240 AAAAAAACAAT
1 AAAATAACAAT
*
22943251 AAAATAACAAC
1 AAAATAACAAT
22943262 AAAATAA-AA-
1 AAAATAACAAT
*
22943271 AAAACAACAAT
1 AAAATAACAAT
22943282 AAAA
1 AAAA
22943286 GAAATAACAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 6 0.20
10 4 0.13
11 20 0.67
ACGTcount: A:0.80, C:0.11, G:0.00, T:0.09
Consensus pattern (11 bp):
AAAATAACAAT
Found at i:22943294 original size:15 final size:15
Alignment explanation
Indices: 22943239--22943285 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
22943229 CAAAATAGTG
22943239 AAAAAA-AACAATAA
1 AAAAAACAACAATAA
22943253 AATAACAACAA-AATAA
1 AA-AA-AACAACAATAA
22943269 AAAAAACAACAATAA
1 AAAAAACAACAATAA
22943284 AA
1 AA
22943286 GAAATAACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.24
15 11 0.38
16 9 0.31
17 2 0.07
ACGTcount: A:0.81, C:0.11, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAAAACAACAATAA
Found at i:22945500 original size:27 final size:27
Alignment explanation
Indices: 22945444--22945500 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
22945434 ACCGTTTCTC
* * *
22945444 TCAGTGTTCGCCATACGCACTATTCTT
1 TCAGAGTTCGCCATACGCACTACTCCT
* *
22945471 TCAGAGTTCGCCATATGTACTACTCCT
1 TCAGAGTTCGCCATACGCACTACTCCT
22945498 TCA
1 TCA
22945501 ATGTTTACCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (27 bp):
TCAGAGTTCGCCATACGCACTACTCCT
Found at i:22945713 original size:27 final size:27
Alignment explanation
Indices: 22945678--22945738 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
22945668 CACAAAGTCG
*
22945678 TTCCTTTCCATAGATCGCCACAAATAC
1 TTCCATTCCATAGATCGCCACAAATAC
** * *
22945705 TTCCATTCCATAGATTTCCATAAATGC
1 TTCCATTCCATAGATCGCCACAAATAC
22945732 TTCCATT
1 TTCCATT
22945739 TCTTAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.36
Consensus pattern (27 bp):
TTCCATTCCATAGATCGCCACAAATAC
Found at i:22945748 original size:27 final size:27
Alignment explanation
Indices: 22945699--22945766 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
22945689 AGATCGCCAC
* * * *
22945699 AAATACTTCCATTCCATAGATTTCCAT
1 AAATGCTTCCATTTCATAAATTTCCAA
*
22945726 AAATGCTTCCATTTCTTAAATTTCCAA
1 AAATGCTTCCATTTCATAAATTTCCAA
* *
22945753 AAAGGCTTCTATTT
1 AAATGCTTCCATTT
22945767 TTTCAGCGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (27 bp):
AAATGCTTCCATTTCATAAATTTCCAA
Found at i:22952298 original size:5 final size:5
Alignment explanation
Indices: 22952288--22952314 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
22952278 GTCACATGAG
22952288 TTAAT TTAAT TTAAT TTAAT TTAAT TT
1 TTAAT TTAAT TTAAT TTAAT TTAAT TT
22952315 GACAATTAAA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTAAT
Found at i:22955058 original size:16 final size:17
Alignment explanation
Indices: 22955039--22955073 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
22955029 AAGGAATTTC
22955039 AAAAATAG-CT-AAAGA
1 AAAAATAGTCTAAAAGA
22955054 AAAAATAGTCTAAAAGA
1 AAAAATAGTCTAAAAGA
22955071 AAA
1 AAA
22955074 GCAAACAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 2 0.11
17 8 0.44
ACGTcount: A:0.69, C:0.06, G:0.11, T:0.14
Consensus pattern (17 bp):
AAAAATAGTCTAAAAGA
Found at i:22958627 original size:18 final size:19
Alignment explanation
Indices: 22958592--22958631 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
22958582 AGTTATTTTC
22958592 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
* *
22958611 AAAAATTC-TAATTTTTAT
1 AAAAATTCAAAATATTTAT
22958629 AAA
1 AAA
22958632 TCTTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:22958654 original size:27 final size:28
Alignment explanation
Indices: 22958601--22958654 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
22958591 CAAAAATTCA
** *
22958601 AAATATTTATAAAAATTCTAATTTTTAT
1 AAATATTTATAAAAATTAAAATATTTAT
*
22958629 AAATCTTT-TAAAAATTAAAATATTTA
1 AAATATTTATAAAAATTAAAATATTTA
22958655 AAAAAGAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (28 bp):
AAATATTTATAAAAATTAAAATATTTAT
Found at i:22958658 original size:17 final size:17
Alignment explanation
Indices: 22958638--22958704 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 17
22958628 TAAATCTTTT
22958638 AAAAATTAAAATATTTA
1 AAAAATTAAAATATTTA
**
22958655 AAAAAGAAAAATATATATA
1 AAAAATTAAAATAT-T-TA
* *
22958674 AAAACGTTTAAAT-TTTA
1 AAAA-ATTAAAATATTTA
22958691 AAAAATTCAAAATA
1 AAAAATT-AAAATA
22958705 ATAATTTTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 9
0.69 0.15 0.17
Matches are distributed among these distances:
16 2 0.05
17 22 0.59
18 2 0.05
19 7 0.19
20 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (17 bp):
AAAAATTAAAATATTTA
Found at i:22960587 original size:16 final size:16
Alignment explanation
Indices: 22960566--22960622 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
22960556 TTTGGTTCGC
*
22960566 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
22960582 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
22960598 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
22960614 TGTAATGGA
1 TGTAATGGA
22960623 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:22960889 original size:18 final size:17
Alignment explanation
Indices: 22960868--22960902 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22960858 TTATTATTAA
*
22960868 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
22960886 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22960903 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22961039 original size:16 final size:16
Alignment explanation
Indices: 22961002--22961043 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22960992 TTAATCATAT
*
22961002 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
22961018 TT-AAATATATTATAA
1 TTAAAATATATTATAA
22961033 TTAAAATATAT
1 TTAAAATATAT
22961044 AATTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:22961040 original size:154 final size:156
Alignment explanation
Indices: 22960755--22961052 Score: 537
Period size: 154 Copynumber: 1.9 Consensus size: 156
22960745 TAGAATACCC
22960755 TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
22960820 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
22960885 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* * *
22960912 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
22960975 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
22961040 ATATAATTTAATA
131 ATATAATTTAATA
22961053 TGAATTTACT
Statistics
Matches: 137, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
154 77 0.56
155 1 0.01
157 59 0.43
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:22961050 original size:14 final size:15
Alignment explanation
Indices: 22961011--22961145 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
22961001 TTTAAACATA
*
22961011 ATTATTATTAAATAT
1 ATTATAATTAAATAT
22961026 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
22961040 A-TATAATTTAATAT
1 ATTATAATTAAATAT
*
22961054 GAATTTACTCAAATCATAATAT
1 --A-TTA-T--AATTA-AATAT
* *
22961076 ATGATACTGTAAA-AT
1 ATTATAAT-TAAATAT
22961091 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
22961104 ATTATTATTAAATAT
1 ATTATAATTAAATAT
22961119 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
22961133 A-TATAATTTAATA
1 ATTATAATTAAATA
22961146 AAATTCTTAA
Statistics
Matches: 92, Mismatches: 12, Indels: 33
0.67 0.09 0.24
Matches are distributed among these distances:
12 3 0.03
13 22 0.24
14 16 0.17
15 30 0.33
16 5 0.05
17 1 0.01
18 3 0.03
19 3 0.03
20 1 0.01
21 3 0.03
22 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:22961109 original size:154 final size:155
Alignment explanation
Indices: 22960794--22961109 Score: 401
Period size: 154 Copynumber: 2.0 Consensus size: 155
22960784 ATTGTTATTG
22960794 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTA-TATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
* *
22960859 TATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCATAAATT
65 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA-TAGCATAAATA
** * * *** **
22960924 TGTTTTGGTAAATTATTATTGTTATTG
129 TGTACTGGTAAAATATAATTAACATAA
22960951 TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAACATAATT
1 TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
* * *
22961014 ATTATTAAATATATTATAATTAAAATATATAATTTAATATGAA-T-TTACTCAA-ATCATAATAT
66 ATTATTAAATATATTATAATTAAAATATATAATTTAATA-AAATTCTTAAT-AATAGCATAA-AT
22961076 ATGATACT-GTAAAATATAAATTAACATAA
128 ATG-TACTGGTAAAATAT-AATTAACATAA
22961105 TTATT
1 TTATT
22961110 ATTAAATATA
Statistics
Matches: 140, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
152 6 0.04
153 16 0.11
154 92 0.66
155 3 0.02
157 23 0.16
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (155 bp):
TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAGCATAAATATG
TACTGGTAAAATATAATTAACATAA
Found at i:22961160 original size:44 final size:43
Alignment explanation
Indices: 22961071--22961161 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
22961061 CTCAAATCAT
* * *
22961071 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
22961114 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
22961158 AATA
1 AATA
22961162 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:22961186 original size:120 final size:119
Alignment explanation
Indices: 22961051--22961269 Score: 345
Period size: 120 Copynumber: 1.8 Consensus size: 119
22961041 TATAATTTAA
* * *
22961051 TATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-AACATAATTATTATTA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTCAA-ATAATTAATATTA
22961114 AATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
64 AATATGATT-TAATT-AAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
22961171 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAA
*
22961236 TATGATTTAATTAAATATATGATTTAATAAAATT
66 TATGATTTAATTAAATATATAATTTAATAAAATT
22961270 TAAAATTATT
Statistics
Matches: 92, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
119 24 0.26
120 63 0.68
121 5 0.05
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (119 bp):
TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAA
TATGATTTAATTAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
Found at i:22961250 original size:15 final size:15
Alignment explanation
Indices: 22961230--22961268 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
22961220 AATAATTAAT
22961230 ATTAAATATGATTTA
1 ATTAAATATGATTTA
22961245 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
22961262 ATAAAAT
1 ATTAAAT
22961269 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:22961255 original size:17 final size:17
Alignment explanation
Indices: 22961235--22961268 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22961225 TTAATATTAA
*
22961235 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
22961252 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
22961269 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:22961411 original size:93 final size:92
Alignment explanation
Indices: 22961301--22961495 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
22961291 GATTATAGTT
* * *
22961301 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
22961364 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
22961394 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
22961459 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
22961486 TATGAATTTA
1 TATGAATTTA
22961496 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:22962355 original size:15 final size:15
Alignment explanation
Indices: 22962335--22962365 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22962325 ATATTATGTA
22962335 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
22962350 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
22962365 T
1 T
22962366 TGAAGGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:22968387 original size:27 final size:27
Alignment explanation
Indices: 22968357--22968415 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
22968347 AAAGATTGTT
*
22968357 AGAACTCTTCTAAAAG-AAAACTCAAAG
1 AGAACTCTT-GAAAAGAAAAACTCAAAG
* *
22968384 AGAAATTCTTGAAGAGAAAAACTCAAAG
1 AG-AACTCTTGAAAAGAAAAACTCAAAG
22968412 AGAA
1 AGAA
22968416 TTTTATTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (27 bp):
AGAACTCTTGAAAAGAAAAACTCAAAG
Found at i:22968412 original size:14 final size:14
Alignment explanation
Indices: 22968373--22968415 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
22968363 CTTCTAAAAG
22968373 AAAACTCAAAGAGA
1 AAAACTCAAAGAGA
** **
22968387 AATTCTTGAAGAGA
1 AAAACTCAAAGAGA
22968401 AAAACTCAAAGAGA
1 AAAACTCAAAGAGA
22968415 A
1 A
22968416 TTTTATTAAC
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.58, C:0.12, G:0.16, T:0.14
Consensus pattern (14 bp):
AAAACTCAAAGAGA
Found at i:22970093 original size:26 final size:24
Alignment explanation
Indices: 22970046--22970093 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
22970036 ATTTGTACAA
*
22970046 AAAATAGACAGCATTAATATGCTC
1 AAAATAGACAGCATTAACATGCTC
*
22970070 AAAATGGACAGCATTTATACATGC
1 AAAATAGACAGCA-TTA-ACATGC
22970094 AAAGCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 3 0.15
26 5 0.25
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.25
Consensus pattern (24 bp):
AAAATAGACAGCATTAACATGCTC
Found at i:22970126 original size:34 final size:32
Alignment explanation
Indices: 22970074--22970174 Score: 103
Period size: 35 Copynumber: 2.9 Consensus size: 32
22970064 ATGCTCAAAA
*
22970074 TGGACAGCATTTATACATGCAAAGCAACCACATT
1 TGGACAACATTTA-ACATGCAAA-CAACCACATT
*
22970108 TGGACAACATTATAACATGTAAAAACAACCACATT
1 TGGACAACATT-TAACATG--CAAACAACCACATT
* *
22970143 TGGACATCATTGTAATATGCGAAACAACCACA
1 TGGACAACATT-TAACATGC-AAACAACCACA
22970175 CTTTAATACC
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
34 26 0.46
35 28 0.49
36 3 0.05
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.23
Consensus pattern (32 bp):
TGGACAACATTTAACATGCAAACAACCACATT
Found at i:22970686 original size:31 final size:31
Alignment explanation
Indices: 22970651--22970723 Score: 128
Period size: 31 Copynumber: 2.3 Consensus size: 31
22970641 AAATATACTC
22970651 AACAATTAATAAAACACAAATCATCAATTTG
1 AACAATTAATAAAACACAAATCATCAATTTG
22970682 AACAATTAATAAAACACAAATCATCAATTTG
1 AACAATTAATAAAACACAAATCATCAATTTG
*
22970713 AATAAATTAAT
1 AA-CAATTAAT
22970724 GTATAATTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 33 0.82
32 7 0.17
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (31 bp):
AACAATTAATAAAACACAAATCATCAATTTG
Found at i:22970988 original size:40 final size:41
Alignment explanation
Indices: 22970884--22970989 Score: 112
Period size: 41 Copynumber: 2.6 Consensus size: 41
22970874 ACTCAATATT
* *
22970884 TCGCACACTAAATGCCATCACATAGCCGAAGCTATTATAATC
1 TCGCACACTAAGTGCC-TAACATAGCCGAAGCTATTATAATC
* *
22970926 TCGCACATTAAGTGCCTTACATAGCCGAAGCTATCT-TGAAT-
1 TCGCACACTAAGTGCCTAACATAGCCGAAGCTAT-TAT-AATC
22970967 T-GCACACTAAGTG-CTAAACATAG
1 TCGCACACTAAGTGCCT-AACATAG
22970990 TCGATTTATC
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
39 2 0.04
40 17 0.30
41 19 0.34
42 18 0.32
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (41 bp):
TCGCACACTAAGTGCCTAACATAGCCGAAGCTATTATAATC
Found at i:22975347 original size:13 final size:14
Alignment explanation
Indices: 22975322--22975351 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
22975312 TTATTTTATT
22975322 TTAATTAAACTTAA
1 TTAATTAAACTTAA
22975336 TTAATT-AACTTAA
1 TTAATTAAACTTAA
22975349 TTA
1 TTA
22975352 TAATTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAATTAAACTTAA
Found at i:22977447 original size:21 final size:21
Alignment explanation
Indices: 22977403--22977447 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
22977393 TAATGGATAT
**
22977403 TATATACATATAATACTTTAA
1 TATATACATATAATAAGTTAA
22977424 TATATACATAT-ATAAGTT-A
1 TATATACATATAATAAGTTAA
22977443 TATAT
1 TATAT
22977448 TATGATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 5 0.23
21 11 0.50
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (21 bp):
TATATACATATAATAAGTTAA
Found at i:22986806 original size:38 final size:38
Alignment explanation
Indices: 22986755--22986830 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
22986745 TTAGGGCTTG
22986755 GTACAACAAATTGATTGTAAAACTTTAAGTACTTGTAT
1 GTACAACAAATTGATTGTAAAACTTTAAGTACTTGTAT
*
22986793 GTACAACAAATTGATTTTAAAACTTTAAGTACTTGTAT
1 GTACAACAAATTGATTGTAAAACTTTAAGTACTTGTAT
22986831 AATAGGAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (38 bp):
GTACAACAAATTGATTGTAAAACTTTAAGTACTTGTAT
Found at i:22989373 original size:74 final size:74
Alignment explanation
Indices: 22989287--22989431 Score: 175
Period size: 74 Copynumber: 2.0 Consensus size: 74
22989277 AAACTTCTTA
* * * *
22989287 TTTATCATATAAATTCATTTAATAAAAACCTTTTAATAGAATCAAAATTCTT-ATTTATAAATAT
1 TTTATCAAATAAATTAATTTAATAAAAACATTTTAATAAAATCAAAATT-TTGATTTATAAATAT
22989351 GATAAATATT
65 GATAAATATT
* * ** * * *
22989361 TTTATCAAATAAATTAATTTCATCAAATTATTTTATTAAAATTAAAATTTTGATTTATACATATG
1 TTTATCAAATAAATTAATTTAATAAAAACATTTTAATAAAATCAAAATTTTGATTTATAAATATG
22989426 ATAAAT
66 ATAAAT
22989432 TTTATAAATA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
73 2 0.03
74 57 0.97
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (74 bp):
TTTATCAAATAAATTAATTTAATAAAAACATTTTAATAAAATCAAAATTTTGATTTATAAATATG
ATAAATATT
Found at i:22989892 original size:26 final size:24
Alignment explanation
Indices: 22989857--22989925 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 24
22989847 TTGAATGTTA
*
22989857 TAATAAAATACTATAAAA-TATAGG
1 TAATAAAATACTATAAAATTAT-CG
22989881 TATCATAAAATACTATAAAATTATCG
1 TA--ATAAAATACTATAAAATTATCG
22989907 TAATTAAAATACTATAAAA
1 TAA-TAAAATACTATAAAA
22989926 AGGCTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
24 3 0.08
25 15 0.38
26 19 0.47
27 3 0.08
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (24 bp):
TAATAAAATACTATAAAATTATCG
Found at i:22991299 original size:30 final size:31
Alignment explanation
Indices: 22991264--22991331 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
22991254 TTAACTAAAA
*
22991264 AAAAGTTACAATTTGA-TCATTGAACTATTC
1 AAAAGTTACAATTTAAGTCATTGAACTATTC
* ***
22991294 GAAAGTTTTTATTTAAGTCATTGAACTATTC
1 AAAAGTTACAATTTAAGTCATTGAACTATTC
22991325 AAAAGTT
1 AAAAGTT
22991332 TTTATTTAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (31 bp):
AAAAGTTACAATTTAAGTCATTGAACTATTC
Found at i:22991318 original size:31 final size:31
Alignment explanation
Indices: 22991280--22991344 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
22991270 TACAATTTGA
*
22991280 TCATTGAACTATTCGAAAGTTTTTATTTAAG
1 TCATTGAACTATTCAAAAGTTTTTATTTAAG
22991311 TCATTGAACTATTCAAAAGTTTTTATTTAAG
1 TCATTGAACTATTCAAAAGTTTTTATTTAAG
22991342 TCA
1 TCA
22991345 ATAGCTTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (31 bp):
TCATTGAACTATTCAAAAGTTTTTATTTAAG
Done.