Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 7 of 185
Found at i:1957234 original size:50 final size:50
Alignment explanation
Indices: 1957174--1957325 Score: 277
Period size: 50 Copynumber: 3.0 Consensus size: 50
1957164 ATTAGTGACA
*
1957174 AGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
*
1957224 AGTGACAAGTGACAAGTGATCAGTGGTAGCTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
*
1957274 AGTGACAAGTAACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
1957324 AG
1 AG
1957326 AGATAATAGA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (50 bp):
AGTGACAAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
Found at i:1957344 original size:50 final size:51
Alignment explanation
Indices: 1957174--1957348 Score: 268
Period size: 50 Copynumber: 3.5 Consensus size: 51
1957164 ATTAGTGACA
*
1957174 AGTGACAAGT-GATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
1 AGTGACAAGTAGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
*
1957224 AGTGACAAGT-GACAAGTGATCAGTGGTAGCTTAGCTACACTTATCTGATC
1 AGTGACAAGTAGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
1957274 AGTGACAAGTA-ACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
1 AGTGACAAGTAGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
* * * *
1957324 AGAGATAA-TAGATAAATGATAAGTG
1 AGTGACAAGTAGACAAGTGATAAGTG
1957349 ATTCCGTGTA
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
49 2 0.02
50 114 0.98
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTAGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
Found at i:1959998 original size:16 final size:17
Alignment explanation
Indices: 1959977--1960018 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
1959967 AAAGTAAAAG
1959977 AAAGAAACAAAGAAG-A
1 AAAGAAACAAAGAAGCA
*
1959993 AAAGAAACAGAGAAGCA
1 AAAGAAACAAAGAAGCA
*
1960010 AACGAAACA
1 AAAGAAACA
1960019 TCGGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.69, C:0.12, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAGAAACAAAGAAGCA
Found at i:1960691 original size:3 final size:3
Alignment explanation
Indices: 1960683--1960709 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1960673 GTGAGGTAAG
1960683 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1960710 GAGTGAGATT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1961018 original size:36 final size:37
Alignment explanation
Indices: 1960957--1961029 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
1960947 GAATATTGAC
* * *
1960957 TTGAAAATGGAAAAGTGAATTTTGAATCGAATTGTGA
1 TTGAAAATGAAAAAGTGAATATTGAATCGAAATGTGA
* *
1960994 TTGAAAGTGAAAAAGTGAA-ATTGAATTGAAATGTGA
1 TTGAAAATGAAAAAGTGAATATTGAATCGAAATGTGA
1961030 ATTTGGAGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
36 14 0.45
37 17 0.55
ACGTcount: A:0.44, C:0.01, G:0.25, T:0.30
Consensus pattern (37 bp):
TTGAAAATGAAAAAGTGAATATTGAATCGAAATGTGA
Found at i:1963979 original size:24 final size:24
Alignment explanation
Indices: 1963950--1964021 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
1963940 TTCAACTTCG
**
1963950 GCTTTTCATCTTCTTTTCCATCGA
1 GCTTTTCATCTTCTAATCCATCGA
1963974 GCTTTTCATCTTCTAATCCATCGA
1 GCTTTTCATCTTCTAATCCATCGA
* *
1963998 GCTTTTCATCTTCTACTTCATCGA
1 GCTTTTCATCTTCTAATCCATCGA
1964022 CAGCTCCTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.17, C:0.29, G:0.08, T:0.46
Consensus pattern (24 bp):
GCTTTTCATCTTCTAATCCATCGA
Found at i:1969211 original size:23 final size:23
Alignment explanation
Indices: 1969179--1969223 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1969169 CCGATTTGCT
*
1969179 CCCTCCGTTTCTTTTCTTTTCTG
1 CCCTCCGTTTATTTTCTTTTCTG
*
1969202 CCCTCTGTTTATTTTCTTTTCT
1 CCCTCCGTTTATTTTCTTTTCT
1969224 TTTCTTCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.02, C:0.31, G:0.07, T:0.60
Consensus pattern (23 bp):
CCCTCCGTTTATTTTCTTTTCTG
Found at i:1969229 original size:38 final size:38
Alignment explanation
Indices: 1969186--1969332 Score: 95
Period size: 38 Copynumber: 4.1 Consensus size: 38
1969176 GCTCCCTCCG
1969186 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCT
1 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCT
* ** **
1969224 TTTC-TTCCAATT-TGCTCC-C---TTCGTTTC---T--
1 TTTCTTTTCTTTTCTGC-CCTCTGTTTATTTTCTTTTCT
1969252 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCT
1 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCT
* * * *
1969290 TTTC-TGTCGATTTGCT-CCCTTTGTTTCTTTTCTTTTCT
1 TTTCTTTTC--TTTTCTGCCCTCTGTTTATTTTCTTTTCT
1969328 TTTCT
1 TTTCT
1969333 GCCGATTTGC
Statistics
Matches: 80, Mismatches: 14, Indels: 29
0.65 0.11 0.24
Matches are distributed among these distances:
28 4 0.05
29 7 0.09
30 5 0.06
33 12 0.15
36 5 0.06
37 10 0.12
38 32 0.40
39 5 0.06
ACGTcount: A:0.03, C:0.25, G:0.07, T:0.65
Consensus pattern (38 bp):
TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCT
Found at i:1969279 original size:66 final size:66
Alignment explanation
Indices: 1969186--1969335 Score: 266
Period size: 66 Copynumber: 2.3 Consensus size: 66
1969176 GCTCCCTCCG
1969186 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCT-TCCAATTTGCTCCCTTCGTTT
1 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGT-CAATTTGCTCCCTTCGTTT
1969250 CT
65 CT
* *
1969252 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGTCGATTTGCTCCCTTTGTTTC
1 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGTCAATTTGCTCCCTTCGTTTC
1969317 T
66 T
1969318 TTTCTTTTCTTTTCTGCC
1 TTTCTTTTCTTTTCTGCC
1969336 GATTTGCCAG
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
66 80 0.99
67 1 0.01
ACGTcount: A:0.03, C:0.26, G:0.07, T:0.63
Consensus pattern (66 bp):
TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGTCAATTTGCTCCCTTCGTTTC
T
Found at i:1969333 original size:38 final size:38
Alignment explanation
Indices: 1969202--1969342 Score: 142
Period size: 38 Copynumber: 4.0 Consensus size: 38
1969192 TTCTTTTCTG
* *
1969202 CCCTCTGTTTATTTTCTTTTCTTTTCTTCCAATTTGCT
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
*
1969240 CCCT-TCGTTTCTTTTCTTTTC-TTT-T--C----TG--
1 CCCTCT-GTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
*
1969268 CCCTCTGTTTATTTTCTTTTCTTTTCTGTCGATTTGCT
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
* *
1969306 CCCTTTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGC
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGC
1969343 CAGTTTCTGC
Statistics
Matches: 86, Mismatches: 5, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
28 18 0.21
29 4 0.05
30 3 0.03
32 1 0.01
34 1 0.01
36 3 0.03
37 4 0.05
38 52 0.60
ACGTcount: A:0.04, C:0.26, G:0.09, T:0.61
Consensus pattern (38 bp):
CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
Found at i:1972284 original size:17 final size:17
Alignment explanation
Indices: 1972262--1972295 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1972252 ATTATTTTAA
1972262 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAAT-ATAT
1972279 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
1972296 TTAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:1972420 original size:15 final size:15
Alignment explanation
Indices: 1972385--1972436 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
1972375 TTAAGAATTT
*
1972385 TATTAAATTAT-ATA
1 TATTTAATTATAATA
1972399 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
1972413 TATTTAATAATAAT-
1 TATTTAATTATAATA
1972427 TATGTTAATT
1 TAT-TTAATT
1972437 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:1972462 original size:120 final size:120
Alignment explanation
Indices: 1972261--1972669 Score: 702
Period size: 120 Copynumber: 3.4 Consensus size: 120
1972251 AATTATTTTA
* ** *
1972261 AATTTTATTAAATCATATATTTTAATTA-AATATATTTAATTTTAATTAT-TTAAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
* *
1972324 TATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
1972380 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1972445 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
1972500 AATTTTATTAAATTATATATTTTAATTATAATATA-TT--TAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1972562 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
1972617 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1972670 TAAATATGAT
Statistics
Matches: 277, Mismatches: 8, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
117 114 0.41
118 2 0.01
119 29 0.10
120 130 0.47
121 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:1972609 original size:117 final size:117
Alignment explanation
Indices: 1972261--1972657 Score: 672
Period size: 117 Copynumber: 3.4 Consensus size: 117
1972251 AATTATTTTA
* *
1972261 AATTTTATTAAATCATATATTTTAATTA-AATATATTTAATTTTAATTAT-TTAAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAA---TAATTATGTT-AATTTATATTT
* *
1972324 TATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
62 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
1972380 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATA-TT--TAATAATTATGTTAATTTATATTTT
1972445 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
63 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
1972500 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATGTTAATTTATATTTTATA
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATGTTAATTTATATTTTATA
1972565 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
1972617 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAAT
1972658 TATAATTATG
Statistics
Matches: 268, Mismatches: 5, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
117 120 0.45
119 29 0.11
120 112 0.42
121 4 0.01
123 3 0.01
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (117 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATGTTAATTTATATTTTATA
GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:1972646 original size:18 final size:18
Alignment explanation
Indices: 1972618--1972666 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
1972608 ATTATTAAGA
1972618 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
1972635 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
1972651 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
1972667 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:1972652 original size:16 final size:16
Alignment explanation
Indices: 1972618--1972672 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
1972608 ATTATTAAGA
1972618 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
1972635 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
1972651 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
1972665 ATGTTTAA
1 AT-TTTAA
1972673 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:1972882 original size:44 final size:45
Alignment explanation
Indices: 1972818--1972902 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 45
1972808 CCTCTATTCC
* *
1972818 ATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTAT
1 ATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCATTAT
***
1972862 ATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCA
1 ATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCA
1972903 ATACACCTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 18 0.51
45 17 0.49
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.29
Consensus pattern (45 bp):
ATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCATTAT
Found at i:1972909 original size:16 final size:16
Alignment explanation
Indices: 1972888--1972956 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
1972878 GATTAGCTAT
1972888 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
1972904 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
*
1972921 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
1972937 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
1972953 TACA
1 TACA
1972957 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:1972930 original size:33 final size:32
Alignment explanation
Indices: 1972888--1972956 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
1972878 GATTAGCTAT
1972888 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
1972921 TACACCTCTAATCTAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
1972953 TACA
1 TACA
1972957 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:1974489 original size:33 final size:33
Alignment explanation
Indices: 1974437--1974556 Score: 174
Period size: 33 Copynumber: 3.7 Consensus size: 33
1974427 TCATCACCCA
*
1974437 GTAGAAGGTATTTATACCCTTCTTCATTCTCCC
1 GTAGAAGGTATTTATACCCTTCTTCTTTCTCCC
* *
1974470 GTAGAAGGTGTTTAAACCCTTCTTCTTTCTCCC
1 GTAGAAGGTATTTATACCCTTCTTCTTTCTCCC
*
1974503 GT---AGGTGTTTATACCCTTCTTCTTTCTCCC
1 GTAGAAGGTATTTATACCCTTCTTCTTTCTCCC
*
1974533 GTAGAAGGTATTTATACCCATCTT
1 GTAGAAGGTATTTATACCCTTCTT
1974557 TCTAACTTTC
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
30 29 0.37
33 49 0.63
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.41
Consensus pattern (33 bp):
GTAGAAGGTATTTATACCCTTCTTCTTTCTCCC
Found at i:1974511 original size:30 final size:30
Alignment explanation
Indices: 1974442--1974536 Score: 136
Period size: 30 Copynumber: 3.1 Consensus size: 30
1974432 ACCCAGTAGA
* *
1974442 AGGTATTTATACCCTTCTTCATTCTCCCGT
1 AGGTGTTTATACCCTTCTTCTTTCTCCCGT
*
1974472 AGAAGGTGTTTAAACCCTTCTTCTTTCTCCCGT
1 ---AGGTGTTTATACCCTTCTTCTTTCTCCCGT
1974505 AGGTGTTTATACCCTTCTTCTTTCTCCCGT
1 AGGTGTTTATACCCTTCTTCTTTCTCCCGT
1974535 AG
1 AG
1974537 AAGGTATTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
30 31 0.53
33 27 0.47
ACGTcount: A:0.16, C:0.28, G:0.14, T:0.42
Consensus pattern (30 bp):
AGGTGTTTATACCCTTCTTCTTTCTCCCGT
Found at i:1976602 original size:58 final size:58
Alignment explanation
Indices: 1976532--1976641 Score: 220
Period size: 58 Copynumber: 1.9 Consensus size: 58
1976522 TAACCTTTAC
1976532 AAGCAATTCACTTTTGGAACAAGTCATAATAACCATTATCCAAAAACAACTACGTTGA
1 AAGCAATTCACTTTTGGAACAAGTCATAATAACCATTATCCAAAAACAACTACGTTGA
1976590 AAGCAATTCACTTTTGGAACAAGTCATAATAACCATTATCCAAAAACAACTA
1 AAGCAATTCACTTTTGGAACAAGTCATAATAACCATTATCCAAAAACAACTA
1976642 TCATCTTGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.25
Consensus pattern (58 bp):
AAGCAATTCACTTTTGGAACAAGTCATAATAACCATTATCCAAAAACAACTACGTTGA
Found at i:1982794 original size:25 final size:25
Alignment explanation
Indices: 1982761--1982813 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
1982751 TAAAAAACGA
*
1982761 AAAAGTAAAATATTTTATATTAATT
1 AAAAGTAAAATATTATATATTAATT
* * *
1982786 AAAATTAAAATATTATATTTTCATT
1 AAAAGTAAAATATTATATATTAATT
1982811 AAA
1 AAA
1982814 GGCAAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
AAAAGTAAAATATTATATATTAATT
Found at i:1986291 original size:19 final size:20
Alignment explanation
Indices: 1986267--1986307 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1986257 TTTTATAATT
1986267 TTTAAAA-TT-TTACAAAAAA
1 TTTAAAAGTTATTA-AAAAAA
1986286 TTTAAAAGTTATTAAAAAAA
1 TTTAAAAGTTATTAAAAAAA
1986306 TT
1 TT
1986308 AACATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 10 0.50
21 3 0.15
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TTTAAAAGTTATTAAAAAAA
Found at i:1988563 original size:24 final size:23
Alignment explanation
Indices: 1988535--1988583 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
1988525 ATGGAACAAT
* *
1988535 ATTTTATGCACCGTCGGTGTAATA
1 ATTTTATGCACCATCAGTG-AATA
*
1988559 ATTTTATGTACCATCAGTGAATA
1 ATTTTATGCACCATCAGTGAATA
1988582 AT
1 AT
1988584 AACATGTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (23 bp):
ATTTTATGCACCATCAGTGAATA
Found at i:1990216 original size:24 final size:21
Alignment explanation
Indices: 1990172--1990212 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1990162 CAGGGTAAGG
1990172 AGCAGCATAATGTGGAGGTGC
1 AGCAGCATAATGTGGAGGTGC
*
1990193 AGCAGCATACTGTGGAGGTG
1 AGCAGCATAATGTGGAGGTG
1990213 GTGCCATCGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.39, T:0.20
Consensus pattern (21 bp):
AGCAGCATAATGTGGAGGTGC
Found at i:1990235 original size:78 final size:78
Alignment explanation
Indices: 1990106--1990249 Score: 261
Period size: 78 Copynumber: 1.8 Consensus size: 78
1990096 AACCAGGCCT
*
1990106 TGGAGGTGGAGCAGCATACTGTGGAGGTGGTGCCATCACTGGGGGATAACCTTGAGCAGGGTAAG
1 TGGAGGTGCAGCAGCATACTGTGGAGGTGGTGCCATCACTGGGGGATAACCTTGAGCAGGGTAAG
1990171 GAGCAGCATAATG
66 GAGCAGCATAATG
* *
1990184 TGGAGGTGCAGCAGCATACTGTGGAGGTGGTGCCATCGCTGGGGGATAACCTTGAGGAGGGTAAG
1 TGGAGGTGCAGCAGCATACTGTGGAGGTGGTGCCATCACTGGGGGATAACCTTGAGCAGGGTAAG
1990249 G
66 G
1990250 GTCAGGACAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 63 1.00
ACGTcount: A:0.24, C:0.15, G:0.42, T:0.19
Consensus pattern (78 bp):
TGGAGGTGCAGCAGCATACTGTGGAGGTGGTGCCATCACTGGGGGATAACCTTGAGCAGGGTAAG
GAGCAGCATAATG
Found at i:1992119 original size:99 final size:98
Alignment explanation
Indices: 1991974--1992171 Score: 360
Period size: 99 Copynumber: 2.0 Consensus size: 98
1991964 CCGTCACTAT
* *
1991974 TGAAGATTCATAATTGATATATTAGGAAATTATCGTGAGTTTGTTTTATTCTTATGGTTATGAAG
1 TGAAGATTCATAATTGATATATTAGGAAATTATCGTGAATTTGTTTTATTCTTATGGTTATAAAG
1992039 TATCTTTGACTTTTCCCTTTTGCATCTCCAACAA
66 TATCTTTGACTTTTCCCTTTT-CATCTCCAACAA
1992073 TGAAGATTCATAATTGATATATTAGGAAATTATCGTGAATTTGTTTTATTCTTATGGTTATAAAG
1 TGAAGATTCATAATTGATATATTAGGAAATTATCGTGAATTTGTTTTATTCTTATGGTTATAAAG
*
1992138 TATCTTTGACTTTTCTCTTTTCATCTCCAACAA
66 TATCTTTGACTTTTCCCTTTTCATCTCCAACAA
1992171 T
1 T
1992172 CTGCCATCCA
Statistics
Matches: 96, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
98 13 0.14
99 83 0.86
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (98 bp):
TGAAGATTCATAATTGATATATTAGGAAATTATCGTGAATTTGTTTTATTCTTATGGTTATAAAG
TATCTTTGACTTTTCCCTTTTCATCTCCAACAA
Found at i:2007083 original size:49 final size:49
Alignment explanation
Indices: 2006989--2007083 Score: 111
Period size: 49 Copynumber: 1.9 Consensus size: 49
2006979 CAGCTCAAAA
*
2006989 GAGCGTCCCGTTATTAGCTCTTATGAGCATCCTGATATATGGCTCTCTC
1 GAGCGTCCCGTTATTAGCTCTTATGAGCATCCTGATATATAGCTCTCTC
* * * * * *
2007038 GAGCTTCCCGTTATATGGTTCTTGTGAGCTTCCTGTTA-ATAGCTCT
1 GAGCGTCCCGTTAT-TAGCTCTTATGAGCATCCTGATATATAGCTCT
2007084 TCGGAGCATT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
49 20 0.53
50 18 0.47
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (49 bp):
GAGCGTCCCGTTATTAGCTCTTATGAGCATCCTGATATATAGCTCTCTC
Found at i:2007179 original size:25 final size:25
Alignment explanation
Indices: 2007151--2007210 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 25
2007141 ATGAGCGTCT
*
2007151 CGATATATGGCTCT-CTGGAGCTTCC
1 CGATATATGGCT-TGCTGGAACTTCC
*
2007176 CG--ATATGGCTTGCTTGAACTTCC
1 CGATATATGGCTTGCTGGAACTTCC
2007199 CGATATATGGCT
1 CGATATATGGCT
2007211 ATTCGGAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 1 0.03
23 19 0.63
25 10 0.33
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.33
Consensus pattern (25 bp):
CGATATATGGCTTGCTGGAACTTCC
Found at i:2008761 original size:17 final size:18
Alignment explanation
Indices: 2008728--2008762 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2008718 TGTATGGCTG
2008728 GGCCGTGTAACAAACTAA
1 GGCCGTGTAACAAACTAA
*
2008746 GGCCGTGTGA-AAACTAA
1 GGCCGTGTAACAAACTAA
2008763 ATGAACGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (18 bp):
GGCCGTGTAACAAACTAA
Found at i:2010883 original size:33 final size:33
Alignment explanation
Indices: 2010840--2010964 Score: 115
Period size: 33 Copynumber: 3.5 Consensus size: 33
2010830 TCCCCCAAGG
* *
2010840 GGTTGTTAAGTGCTGATTCCCCGAATCCTTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
2010873 GGTTGCTAAGTGCTGATTCCACCGTAACTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-AA--T-CAT-TG---GT
* *
2010915 GGTTGCTAAGTGCTGATTCCCCAAATCATCGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
2010948 GGTTGCTAAGTGCTGAT
1 GGTTGCTAAGTGCTGAT
2010965 CCCACCGTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
33 37 0.49
34 3 0.04
35 2 0.03
36 1 0.01
37 3 0.04
38 2 0.03
39 2 0.03
40 2 0.03
41 2 0.03
42 21 0.28
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:2010932 original size:42 final size:42
Alignment explanation
Indices: 2010873--2010990 Score: 128
Period size: 42 Copynumber: 3.0 Consensus size: 42
2010863 AATCCTTGGT
2010873 GGTTGCTAAGTGCTGATTCCACCGTAACTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTAACTTGAATGTGAAAGG
* * * *
2010915 GGTTGCTAAGTGCTGATTCC-CC--AA-AT-CAT-CG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTAACTTGAATGTGAAAGG
*
2010948 GGTTGCTAAGTGCTGATCCCACCGTAACTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTAACTTGAATGTGAAAGG
2010990 G
1 G
2010991 ATCCCACCGT
Statistics
Matches: 58, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
33 20 0.34
34 2 0.03
36 3 0.05
37 3 0.05
38 3 0.05
39 3 0.05
41 2 0.03
42 22 0.38
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTAACTTGAATGTGAAAGG
Found at i:2010959 original size:75 final size:75
Alignment explanation
Indices: 2010836--2011327 Score: 426
Period size: 75 Copynumber: 6.8 Consensus size: 75
2010826 TGATTCCCCC
* * * *
2010836 AAGGGGTTGTTAAGTGCTGATTCCCCGAATCCTTGGTGGTTGCTAAGTGCTGATTCCACCGTAAC
1 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACCGTAAC
2010901 TTGAATGTGA
66 TTGAATGTGA
*
2010911 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATCCCACCGTAAC
1 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACCGTAAC
2010976 TTGAATGTGA
66 TTGAATGTGA
* * * * * * ***
2010986 AA-GGGATCCCACCGTAACTTGAAT-GTGAAA--A---G-GGTTGCTAAGTGCTGATTCC-CC--
1 AAGGGGTTGCTA-AGT-GC-TGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACCGT
* * *
2011040 AA-AT-CAT-CG-
63 AACTTGAATGTGA
* * * * * * *
2011049 --GTGGTTGCTAAGTGCTGATCCCACCGTAA-C-TTGAAT-G-TG-AAAG-G--GATCCCACCGT
1 AAGGGGTTGCTAAGTGCTGATTCC-CC-AAATCATCG-GTGGTTGCTAAGTGCTGATTCCACCGT
2011104 AACTTGAATGTGA
63 AACTTGAATGTGA
2011117 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGA-TCCTACCGTAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCC-ACCGTAA
2011181 CTTGAATGTGA
65 CTTGAATGTGA
* * * * *
2011192 AAGGGGTTGCTAAGTGCTTATTCCCCGAATCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACCGTAAC
2011257 TTCGAATGTGA
66 TT-GAATGTGA
* * *
2011268 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCA-CTGGTGGTTGCGAAGTGCTGAATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATC-GGTGGTTGCTAAGTGCTGATTCCACC
2011328 AAATAACGGT
Statistics
Matches: 330, Mismatches: 53, Indels: 67
0.73 0.12 0.15
Matches are distributed among these distances:
59 3 0.01
60 1 0.00
61 7 0.02
62 9 0.03
63 1 0.00
64 6 0.02
65 5 0.02
66 4 0.01
67 3 0.01
68 2 0.01
69 6 0.02
70 42 0.13
71 3 0.01
72 3 0.01
73 1 0.00
74 9 0.03
75 152 0.46
76 69 0.21
77 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACCGTAAC
TTGAATGTGA
Found at i:2011002 original size:28 final size:28
Alignment explanation
Indices: 2010962--2011015 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
2010952 GCTAAGTGCT
2010962 GATCCCACCGTAACTTGAATGTGAAAGG
1 GATCCCACCGTAACTTGAATGTGAAAGG
2010990 GATCCCACCGTAACTTGAATGTGAAA
1 GATCCCACCGTAACTTGAATGTGAAA
2011016 AGGGTTGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (28 bp):
GATCCCACCGTAACTTGAATGTGAAAGG
Found at i:2011009 original size:103 final size:103
Alignment explanation
Indices: 2010891--2011196 Score: 594
Period size: 103 Copynumber: 3.0 Consensus size: 103
2010881 AGTGCTGATT
2010891 CCACCGTAACTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTA
1 CCACCGTAACTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTA
2010956 AGTGCTGATCCCACCGTAACTTGAATGTGAAAGGGATC
66 AGTGCTGATCCCACCGTAACTTGAATGTGAAAGGGATC
*
2010994 CCACCGTAACTTGAATGTGAAAAGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTA
1 CCACCGTAACTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTA
2011059 AGTGCTGATCCCACCGTAACTTGAATGTGAAAGGGATC
66 AGTGCTGATCCCACCGTAACTTGAATGTGAAAGGGATC
2011097 CCACCGTAACTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTA
1 CCACCGTAACTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTA
*
2011162 AGTGCTGATCCTACCGTAACTTGAATGTGAAAGGG
66 AGTGCTGATCCCACCGTAACTTGAATGTGAAAGGG
2011197 GTTGCTAAGT
Statistics
Matches: 200, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 200 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (103 bp):
CCACCGTAACTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTA
AGTGCTGATCCCACCGTAACTTGAATGTGAAAGGGATC
Found at i:2011105 original size:28 final size:28
Alignment explanation
Indices: 2011065--2011121 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
2011055 GCTAAGTGCT
2011065 GATCCCACCGTAACTTGAATGTGAAAGG
1 GATCCCACCGTAACTTGAATGTGAAAGG
2011093 GATCCCACCGTAACTTGAATGTGAAAGG
1 GATCCCACCGTAACTTGAATGTGAAAGG
2011121 G
1 G
2011122 GTTGCTAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (28 bp):
GATCCCACCGTAACTTGAATGTGAAAGG
Found at i:2011238 original size:33 final size:33
Alignment explanation
Indices: 2011196--2011318 Score: 95
Period size: 33 Copynumber: 3.4 Consensus size: 33
2011186 ATGTGAAAGG
2011196 GGTTGCTAAGTGCTTATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTTATTCCCCGAATCATTGGT
* *
2011229 GGTTGCTAAGTG-TTGATTCCACCGTATCTTCGAATGTGAAAGG
1 GGTTGCTAAGTGCTT-ATTCC-CCG-A--ATC--AT-TG---GT
* *
2011272 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTTATTCCCCGAATCATTGGT
*
2011305 GGTTGCGAAGTGCT
1 GGTTGCTAAGTGCT
2011319 GAATCCACCA
Statistics
Matches: 71, Mismatches: 7, Indels: 24
0.70 0.07 0.24
Matches are distributed among these distances:
32 2 0.03
33 31 0.44
34 3 0.04
35 1 0.01
36 2 0.03
37 3 0.04
39 4 0.06
40 2 0.03
41 1 0.01
42 3 0.04
43 18 0.25
44 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTTATTCCCCGAATCATTGGT
Found at i:2013575 original size:19 final size:18
Alignment explanation
Indices: 2013545--2013581 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
2013535 TTCATTTGTT
*
2013545 TTTATTTTATTTGTTTAA
1 TTTATTTTATTTCTTTAA
2013563 TTTATTATTATTTCTTTAA
1 TTTATT-TTATTTCTTTAA
2013582 ATTTTTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTATTTTATTTCTTTAA
Found at i:2015637 original size:30 final size:29
Alignment explanation
Indices: 2015596--2015711 Score: 104
Period size: 27 Copynumber: 4.2 Consensus size: 29
2015586 AATAAATACC
*
2015596 AAAAAATTATTTTAAAAATAAAACAAAAATT
1 AAAAAAGTATTTTAAAAAT-AAA-AAAAATT
*
2015627 AAAAAA-TATTTT-AAAATTAAAAAAATT
1 AAAAAAGTATTTTAAAAATAAAAAAAATT
***
2015654 AAAAAAGTATTTT--AAA-AAATTTAA--
1 AAAAAAGTATTTTAAAAATAAAAAAAATT
*
2015678 AAAAAAGTATTTT-AAAATTAAAAAAATT
1 AAAAAAGTATTTTAAAAATAAAAAAAATT
2015706 AAAAAA
1 AAAAAA
2015712 ATTAAAATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
24 13 0.18
25 3 0.04
26 8 0.11
27 16 0.23
28 14 0.20
29 5 0.07
30 6 0.08
31 6 0.08
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (29 bp):
AAAAAAGTATTTTAAAAATAAAAAAAATT
Found at i:2015651 original size:9 final size:9
Alignment explanation
Indices: 2015620--2015718 Score: 65
Period size: 9 Copynumber: 10.2 Consensus size: 9
2015610 AAAATAAAAC
2015620 AAAAATTAA
1 AAAAATTAA
*
2015629 AAAATATT-T
1 AAAA-ATTAA
*
2015638 TAAAATTAA
1 AAAAATTAA
2015647 AAAAATTAA
1 AAAAATTAA
2015656 AAAAGTATTTTAA
1 AAAA--A--TTAA
*
2015669 AAAATTTAAA
1 AAAAATT-AA
**
2015679 AAAAAGTATTT
1 AAAAA-T-TAA
*
2015690 TAAAATTAA
1 AAAAATTAA
2015699 AAAAATTAA
1 AAAAATTAA
2015708 AAAAATTAA
1 AAAAATTAA
2015717 AA
1 AA
2015719 TATTTATTAT
Statistics
Matches: 69, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
8 3 0.04
9 41 0.59
10 10 0.14
11 6 0.09
12 1 0.01
13 8 0.12
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAA
Found at i:2015670 original size:13 final size:13
Alignment explanation
Indices: 2015652--2015694 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
2015642 ATTAAAAAAA
2015652 TTAAAAAAGTATT
1 TTAAAAAAGTATT
2015665 TTAAAAAA-T-TT
1 TTAAAAAAGTATT
**
2015676 AAAAAAAAGTATT
1 TTAAAAAAGTATT
2015689 TTAAAA
1 TTAAAA
2015695 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 8 0.33
12 2 0.08
13 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (13 bp):
TTAAAAAAGTATT
Found at i:2015671 original size:22 final size:23
Alignment explanation
Indices: 2015643--2015694 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 23
2015633 TATTTTAAAA
2015643 TTAAAAAAATT-AAAAAAGTATT
1 TTAAAAAAATTAAAAAAAGTATT
*
2015665 TTAAAAAATTTAAAAAAAAGTATT
1 TTAAAAAAATT-AAAAAAAGTATT
2015689 TTAAAA
1 TTAAAA
2015695 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 10 0.37
24 17 0.63
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
TTAAAAAAATTAAAAAAAGTATT
Found at i:2015695 original size:22 final size:22
Alignment explanation
Indices: 2015647--2015703 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 22
2015637 TTAAAATTAA
2015647 AAAAATT--AAAAAAGTATTTT
1 AAAAATTAAAAAAAAGTATTTT
2015667 AAAAAATTTAAAAAAAAGTATTTT
1 -AAAAA-TTAAAAAAAAGTATTTT
2015691 -AAAATTAAAAAAA
1 AAAAATTAAAAAAA
2015704 TTAAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 14 0.42
22 6 0.18
24 13 0.39
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (22 bp):
AAAAATTAAAAAAAAGTATTTT
Found at i:2018775 original size:18 final size:18
Alignment explanation
Indices: 2018749--2018797 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
2018739 TGTAATTTAT
*
2018749 AATTTAATATTTATAAAA
1 AATTAAATATTTATAAAA
*
2018767 AATTAAATAATTTTATAAAT
1 AATTAAAT-A-TTTATAAAA
2018787 AATTAAA-ATTT
1 AATTAAATATTT
2018798 TATTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 8 0.30
19 1 0.04
20 15 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTAAATATTTATAAAA
Found at i:2018783 original size:20 final size:21
Alignment explanation
Indices: 2018753--2018793 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
2018743 ATTTATAATT
2018753 TAATATTTATAAAAAATTAAA
1 TAATATTTATAAAAAATTAAA
*
2018774 TAAT-TTTATAAATAATTAAA
1 TAATATTTATAAAAAATTAAA
2018794 ATTTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATATTTATAAAAAATTAAA
Found at i:2020344 original size:39 final size:39
Alignment explanation
Indices: 2020301--2020377 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
2020291 AGCAGAAGTT
2020301 ACAAGGCTCCA-CAGAAGCCAAACAAGCTGGGTGAATGTG
1 ACAAGGCT-CAGCAGAAGCCAAACAAGCTGGGTGAATGTG
* * * * *
2020340 ACAAGGGTTAGCAGAAGCTAAACCAGTTGGGTGAATGT
1 ACAAGGCTCAGCAGAAGCCAAACAAGCTGGGTGAATGT
2020378 TAGTGATTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (39 bp):
ACAAGGCTCAGCAGAAGCCAAACAAGCTGGGTGAATGTG
Found at i:2023968 original size:18 final size:17
Alignment explanation
Indices: 2023926--2023962 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
2023916 TGGTTTTTAA
2023926 TTATTTTTAAATATATT
1 TTATTTTTAAATATATT
2023943 TTATTTTT-AATATATT
1 TTATTTTTAAATATATT
2023959 TTAT
1 TTAT
2023963 AATTTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTTTTAAATATATT
Found at i:2031303 original size:59 final size:60
Alignment explanation
Indices: 2031225--2031348 Score: 155
Period size: 59 Copynumber: 2.1 Consensus size: 60
2031215 CAAGTCAGTT
* * * *
2031225 AACTATTTCCCATTTTCTTTTTTGGTCACTCAATTAT-AATTTTTTTAATTTGA-TCACCC
1 AACTATTTCCCACTTTCTTTTTTGGTCACCCAACTATCAATTTTTCTAATTT-ACTCACCC
* *
2031284 AACTATTGTCCC-CTTTCTTTTTTTGTCACCCAACTATCAATTTTTCTAATTTACTCATCC
1 AACTATT-TCCCACTTTCTTTTTTGGTCACCCAACTATCAATTTTTCTAATTTACTCACCC
2031344 AACTA
1 AACTA
2031349 ATCAAGATTG
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 29 0.52
60 27 0.48
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.48
Consensus pattern (60 bp):
AACTATTTCCCACTTTCTTTTTTGGTCACCCAACTATCAATTTTTCTAATTTACTCACCC
Found at i:2031929 original size:29 final size:31
Alignment explanation
Indices: 2031859--2031946 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 31
2031849 AAAAAATGAT
2031859 ATTGATTAGTTGAGTGACGAAAAAAAAAAAAG
1 ATTGA-TAGTTGAGTGACGAAAAAAAAAAAAG
* * **
2031891 AGTTAATAGTTGAGTGA-GCAAATTAAAAAA-
1 A-TTGATAGTTGAGTGACGAAAAAAAAAAAAG
* *
2031921 ATTGATAGTTGAATGA-TAAAAAAAAA
1 ATTGATAGTTGAGTGACGAAAAAAAAA
2031947 TAATAATTGG
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
29 19 0.42
30 1 0.02
31 10 0.22
32 12 0.27
33 3 0.07
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.25
Consensus pattern (31 bp):
ATTGATAGTTGAGTGACGAAAAAAAAAAAAG
Found at i:2032029 original size:19 final size:21
Alignment explanation
Indices: 2032007--2032047 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
2031997 AGTAGTTGAA
2032007 AGAGAAATGGA-AGTG-GTGG
1 AGAGAAATGGAGAGTGAGTGG
*
2032026 AGAGAAGTGGAGAGTGAGTGG
1 AGAGAAATGGAGAGTGAGTGG
2032047 A
1 A
2032048 CTGATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 4 0.21
21 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.49, T:0.15
Consensus pattern (21 bp):
AGAGAAATGGAGAGTGAGTGG
Found at i:2035553 original size:61 final size:60
Alignment explanation
Indices: 2035478--2035598 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 60
2035468 AAGTATCCCC
2035478 CTGAAGATGAGATCTAAAGAAAAGTTGGATTCAAAGAAGGTAGCATCCATTGAAACAATCA
1 CTGAAGATGAGATCTAAAGAAAAGTTGGATTCAAAGAA-GTAGCATCCATTGAAACAATCA
2035539 CTGAAGATGAGATCTAAAGAAAAGTTGGATTCAAAGAAGTAGCATCCATTGAAACAATCA
1 CTGAAGATGAGATCTAAAGAAAAGTTGGATTCAAAGAAGTAGCATCCATTGAAACAATCA
2035599 TTCTTTTTGT
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 22 0.37
61 38 0.63
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (60 bp):
CTGAAGATGAGATCTAAAGAAAAGTTGGATTCAAAGAAGTAGCATCCATTGAAACAATCA
Found at i:2050084 original size:26 final size:26
Alignment explanation
Indices: 2050055--2050106 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
2050045 TAATAAATTT
2050055 GAATTTTCTATTAATATA-CTGAAAAG
1 GAATTTTCTATTAATATATC-GAAAAG
*
2050081 GAATTTTCTGTTAATATATCGAAAAG
1 GAATTTTCTATTAATATATCGAAAAG
2050107 AAAAGAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (26 bp):
GAATTTTCTATTAATATATCGAAAAG
Found at i:2060357 original size:45 final size:45
Alignment explanation
Indices: 2060306--2060413 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
2060296 GATGTGGAAA
* ** *
2060306 AACCACTAATCGGTGCAGATAAAAGCTGTTAATACGAAGTGGATT
1 AACCACTAATCGGTACAGATAAAAGCTACTAATACGAAGTAGATT
* * *
2060351 GACCACTAAAT-GATACAGATAAAAGCTACTAATACGATGTAGATT
1 AACCACT-AATCGGTACAGATAAAAGCTACTAATACGAAGTAGATT
*
2060396 AACCACTAAACGGTACAG
1 AACCACTAATCGGTACAG
2060414 GCAAGCTGCT
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
44 2 0.04
45 46 0.90
46 3 0.06
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.22
Consensus pattern (45 bp):
AACCACTAATCGGTACAGATAAAAGCTACTAATACGAAGTAGATT
Found at i:2062507 original size:15 final size:16
Alignment explanation
Indices: 2062487--2062517 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2062477 ACGTGTCTTT
2062487 TTTTTAATATT-TACA
1 TTTTTAATATTATACA
2062502 TTTTTAATATTATACA
1 TTTTTAATATTATACA
2062518 CCTCTATAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTAATATTATACA
Found at i:2063296 original size:19 final size:19
Alignment explanation
Indices: 2063258--2063297 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2063248 TGTAAAAATA
*
2063258 AAAAAATTATAAAATTATT
1 AAAAAATTATAAAATAATT
2063277 AAAAAATT-TAAAAGTAATT
1 AAAAAATTATAAAA-TAATT
2063296 AA
1 AA
2063298 TTGTCATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAAAATTATAAAATAATT
Found at i:2064450 original size:294 final size:282
Alignment explanation
Indices: 2063823--2064460 Score: 681
Period size: 282 Copynumber: 2.2 Consensus size: 282
2063813 TTTCATTGTG
* * * * * * * * * * * *
2063823 TTTTATATATTTTTATTTCAATATGCACAATTTATTATCTCTACTAGTTATAAATTTATACTTAC
1 TTTTATACATTTTAATTTTATTATGCACACTTTATTACCTCCACCAATTGTATATCTATACTTAC
* * * * * *
2063888 TATTATTTAAGCCCCTGATTGAGTTGGTTTTACAAGTCAACTAGACACCAACTCAATTAGAAAAA
66 TATTATTTAAACCCCTGATTGAGCTGGTATCACAAGTCAACCAGACAACAACTCAATTAGAAAAA
* * * * *
2063953 TTACAAAAAAATCTTTTCATATTTAAAATAAGTTATATTATTCGAGGGTGCCTTAGTCTTTTTAT
131 TTACAAAAAAATCATTTCAAATTTAAAATAAGTTATATTATTCGAGGATACCTTAATCTTTTTAT
* * * *
2064018 TAAAAAAAATACTTATGGTGAGATTTGAACTCACACCAATGCATAAAGCTTTAAATTTACCATTC
196 TAAAAAAAATACTTATGGTGAGATTTGAACCCACACCAACGCATAAAGCTTTAAATTTACCACTA
2064083 AATCAAAGCTTTATTTTAAACT
261 AATCAAAGCTTTATTTTAAACT
* *
2064105 TTTTATACGTTTTAATTTTATTATGTACACTTTATTACCTCCACCAATTGTATATCTATACTTAC
1 TTTTATACATTTTAATTTTATTATGCACACTTTATTACCTCCACCAATTGTATATCTATACTTAC
* * * * *
2064170 TATTATTTAAACCCTTGATTGAGCTGGTATCACGAGTCAACCGGACAACAACTTAGA-TAGGAAA
66 TATTATTTAAACCCCTGATTGAGCTGGTATCACAAGTCAACCAGACAACAACTCA-ATTAGAAAA
* *
2064234 ATTACAAAAATATCATTTCAAATTTAAAATAAGTTATATTATTCGAGGATACTTTAAT-TTTTCT
130 ATTACAAAAAAATCATTTCAAATTTAAAATAAGTTATATTATTCGAGGATACCTTAATCTTTT-T
* * * * *
2064298 ATTAAAAAAAACAAAAACAAAAATGCTTATGGTGGGATTTGAACCCACGCCAACGCGTAAA-ATC
194 ATT-----------AAA-AAAAATACTTATGGTGAGATTTGAACCCACACCAACGCATAAAGCT-
* * *
2064362 TTAAATTTACTACTAAA-CTAAAGCTTTATTTTCAATT
246 TTAAATTTACCACTAAATC-AAAGCTTTATTTTAAACT
* * *
2064399 TTTTATACATTTTAATTTTATTATGCACACTTTATTACTTCCATCAATTGTATATTTATACT
1 TTTTATACATTTTAATTTTATTATGCACACTTTATTACCTCCACCAATTGTATATCTATACT
2064461 ATTTAGAAAA
Statistics
Matches: 291, Mismatches: 49, Indels: 20
0.81 0.14 0.06
Matches are distributed among these distances:
281 4 0.01
282 157 0.54
283 1 0.00
293 5 0.02
294 124 0.43
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (282 bp):
TTTTATACATTTTAATTTTATTATGCACACTTTATTACCTCCACCAATTGTATATCTATACTTAC
TATTATTTAAACCCCTGATTGAGCTGGTATCACAAGTCAACCAGACAACAACTCAATTAGAAAAA
TTACAAAAAAATCATTTCAAATTTAAAATAAGTTATATTATTCGAGGATACCTTAATCTTTTTAT
TAAAAAAAATACTTATGGTGAGATTTGAACCCACACCAACGCATAAAGCTTTAAATTTACCACTA
AATCAAAGCTTTATTTTAAACT
Found at i:2068403 original size:21 final size:22
Alignment explanation
Indices: 2068377--2068423 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
2068367 CTCTGCTCAA
*
2068377 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
2068398 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
2068420 ACTC
1 ACTC
2068424 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:2074597 original size:39 final size:39
Alignment explanation
Indices: 2074553--2074953 Score: 205
Period size: 39 Copynumber: 9.6 Consensus size: 39
2074543 ATCTACTCTG
* * *
2074553 CTGTAACCTCAGAGAGATAAGATCCTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTGATCTGCTCCA
* * * * *
2074592 CTGTAACTTCGGGGAGATAAGATAGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAG--A-T-CCTTTGATCTGCTCCA
* * *
2074635 CTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC-C----TTTGATCTGCTCCA
* * * * *
2074679 CTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATA--AGA-T-CCTTTGATCTGCTCCA
* * *
2074722 CTGTAATCTCAGGGAGATAAGATCTAAATTCTTTGGTCTGTTCCA
1 CTGTAACCTCAGGGAGATAAGATC------CTTTGATCTGCTCCA
* * *
2074767 CTGTAATCTCAGGGAGATAAGA-CCTGATGTGATCTTCTCTA
1 CTGTAACCTCAGGGAGATAAGATCCT--T-TGATCTGCTCCA
* * * *
2074808 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTGATCTGCTCCA
* * * * *
2074847 TTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGA-T-C---CTTTGATCTGCTCCA
* * * *
2074891 CTGTAATCTCA-GGAGAT-AGATTCTGCTTCATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCT--TTGATCTGCTCCA
2074930 CTGTAACCTCAGGGAGATAAGATC
1 CTGTAACCTCAGGGAGATAAGATC
2074954 TGAAATTCTT
Statistics
Matches: 272, Mismatches: 58, Indels: 62
0.69 0.15 0.16
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 64 0.24
40 12 0.04
41 37 0.14
42 6 0.02
43 62 0.23
44 50 0.18
45 33 0.12
46 2 0.01
47 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (39 bp):
CTGTAACCTCAGGGAGATAAGATCCTTTGATCTGCTCCA
Found at i:2074639 original size:43 final size:43
Alignment explanation
Indices: 2074586--2074997 Score: 228
Period size: 43 Copynumber: 9.7 Consensus size: 43
2074576 CCTTTAATCC
*
2074586 GCTCCACTGTAA-CTTCGGGGAGATAAGATAGTGTCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATAGTGTCTTCGATCT
* * * * ** *
2074629 GCTCCGCTGTAATCTCAGGGAGATAAGAT-CTCTTATTTTAATCC
1 GCTCCACTGTAATCTCAGGGAGATAAGATAGT-GT-CTTCGATCT
*
2074673 GCTCCACTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATAGTGTCTTCGATCT
* * * *
2074716 GCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAT-TCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGA--T-AGTGTCTTCGATCT
* ** *
2074761 GTTCCACTGTAATCTCAGGGAGATAAGA-CCTGAT-GT-GATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATAGTG-TCTTCGATCT
* * * * ** *
2074802 TCTCTACTGTAA-CTTCAGAGAGATAAG--A-T-CCTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGATAGTGTCTTCGATCT
* * * * * *
2074841 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGA-TAGTGTCTTCGATCT
* **
2074885 GCTCCGCTGTAATCTCA-GGAGAT-AGATTCTG-CTTC-ATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATAGTGTCTTCGATCT
* * * * *
2074924 GCTCCGCTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATAGTG----TCTTCGATCT
*
2074970 GTTCCACTGTAATCTCAGGGAGATAAGA
1 GCTCCACTGTAATCTCAGGGAGATAAGA
2074998 CCTGTATAAT
Statistics
Matches: 284, Mismatches: 57, Indels: 53
0.72 0.14 0.13
Matches are distributed among these distances:
38 1 0.00
39 43 0.15
40 14 0.05
41 33 0.12
42 5 0.02
43 64 0.23
44 55 0.19
45 39 0.14
46 30 0.11
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (43 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATAGTGTCTTCGATCT
Found at i:2074694 original size:87 final size:84
Alignment explanation
Indices: 2074541--2074997 Score: 366
Period size: 87 Copynumber: 5.4 Consensus size: 84
2074531 AGACTTGATG
* * * * *
2074541 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-C-TTTAATCCGCTCCACTGTAACTTCGG
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTTTAATCCGCTCCACTGTAACTTCAG
*
2074604 GGAGATAAGATAGTGTCTT
66 GGAGATAAGATACTGTCTT
2074623 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTC---TTTTAATCCGCTCCACTGTAACTT
* *
2074688 CAGGGAGATAGGATAGTGTCTT
63 CAGGGAGATAAGATACTGTCTT
* ** * *
2074710 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAATTCTTTGGTCTGTTCCACTGTAA-T
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT---CT-TTTAATCCGCTCCACTGTAACT
* *
2074774 CTCAGGGAGATAAGA-CCTGAT-GT
62 -TCAGGGAGATAAGATACTG-TCTT
* ** * *
2074797 -GATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC-C-TTTAATCCGCTCCATTGTAA-TCTC
1 CGATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATCTCTTTTAATCCGCTCCACTGTAACT-TC
* * *
2074857 AAGGAGATAGGATTACTATCTT
64 AGGGAGATAAGA-TACTGTCTT
* * * * * *
2074879 TGATCTGCTCCGCTGTAATCTCA-GGAGAT-AGAT-TCTGCTTCATCTGCTCCGCTGTAACCTCA
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCT-TTTAATCCGCTCCACTGTAACTTCA
2074941 GGGAGATAAGAT-CTGAAATTCTT
65 GGGAGATAAGATACTG----TCTT
* * * *
2074964 TGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
2074998 CCTGTATAAT
Statistics
Matches: 302, Mismatches: 46, Indels: 49
0.76 0.12 0.12
Matches are distributed among these distances:
80 29 0.10
81 8 0.03
82 41 0.14
83 45 0.15
84 1 0.00
85 25 0.08
86 35 0.12
87 88 0.29
88 30 0.10
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (84 bp):
CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTTTAATCCGCTCCACTGTAACTTCAG
GGAGATAAGATACTGTCTT
Found at i:2074995 original size:168 final size:169
Alignment explanation
Indices: 2074624--2074997 Score: 390
Period size: 168 Copynumber: 2.2 Consensus size: 169
2074614 TAGTGTCTTC
* *
2074624 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCACTGTAACTTC
1 GATCTGTTCCACTGTAATCTCAGGGAGATAAGATCTC---TTTTAATCCGCTCCACTGTAACTTC
* * * *
2074689 AGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAATTCT
63 AAGGAGATAGGATACTATCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-AATGCT
** * *
2074754 TTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGT
127 TTCATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGT
* * *
2074797 GATCT-TCTCTACTGTAA-CTTCAGAGAGATAAGATC-C-TTTAATCCGCTCCATTGTAA-TCTC
1 GATCTGT-TCCACTGTAATC-TCAGGGAGATAAGATCTCTTTTAATCCGCTCCACTGTAACT-TC
* *
2074857 AAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCA-GGAGAT-AGAT-T-CTGC-
63 AAGGAGATAGGA-TACTATCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAATGCT
* * *
2074917 TTCATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTT
127 TTCATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTG--A---TGT
*
2074965 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 GATCTGTTCCACTGTAATCTCAGGGAGATAAGA
2074998 CCTGTATAAT
Statistics
Matches: 169, Mismatches: 21, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
163 33 0.20
164 2 0.01
165 1 0.01
166 1 0.01
167 5 0.03
168 66 0.39
169 31 0.18
172 2 0.01
173 28 0.17
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (169 bp):
GATCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTTTTAATCCGCTCCACTGTAACTTCAAG
GAGATAGGATACTATCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAATGCTTTCA
TCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGT
Found at i:2088512 original size:44 final size:44
Alignment explanation
Indices: 2088410--2088513 Score: 136
Period size: 44 Copynumber: 2.4 Consensus size: 44
2088400 ATATGTTTCG
* * * *
2088410 ATATGAAATCTGATATGCTATCATATGTTGTAAGTTATGCTCCA
1 ATATGAAATCTGATATGCTATAATATGTTGTAAGATAAGCACCA
* *
2088454 TTACGAAATCTGATATGCTATAATATGTTGTAAGATAAGCACCA
1 ATATGAAATCTGATATGCTATAATATGTTGTAAGATAAGCACCA
* *
2088498 ATATGTAATATGATAT
1 ATATGAAATCTGATAT
2088514 ATTTTGACCT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (44 bp):
ATATGAAATCTGATATGCTATAATATGTTGTAAGATAAGCACCA
Found at i:2096515 original size:11 final size:11
Alignment explanation
Indices: 2096499--2096529 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2096489 AAGTATGGGT
2096499 AGGTATGGGAA
1 AGGTATGGGAA
*
2096510 AGGTATGGGCA
1 AGGTATGGGAA
2096521 AGGTATGGG
1 AGGTATGGG
2096530 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:2099526 original size:11 final size:11
Alignment explanation
Indices: 2099510--2099540 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2099500 AAGTATGGGT
2099510 AGGTATGGGAA
1 AGGTATGGGAA
*
2099521 AGGTATGGGCA
1 AGGTATGGGAA
2099532 AGGTATGGG
1 AGGTATGGG
2099541 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:2103610 original size:18 final size:18
Alignment explanation
Indices: 2103587--2103715 Score: 213
Period size: 18 Copynumber: 7.2 Consensus size: 18
2103577 CCCAACTACT
*
2103587 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
2103605 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
2103623 GTATACGTGAATAGTTCC
1 GTATACGTGAATAGTACC
2103641 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
2103659 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
2103677 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
2103695 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
2103713 GTA
1 GTA
2103716 AACGGTCGTA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 106 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:2104276 original size:11 final size:11
Alignment explanation
Indices: 2104260--2104290 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2104250 AAGTATGGGT
2104260 AGGTATGGGAA
1 AGGTATGGGAA
*
2104271 AGGTATGGGCA
1 AGGTATGGGAA
2104282 AGGTATGGG
1 AGGTATGGG
2104291 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:2117086 original size:43 final size:43
Alignment explanation
Indices: 2117003--2117127 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
2116993 GCGTTTTCTC
* * * **
2117003 ACAAACGCCGCTAAAGAA-CATGATCTTTAGCAGCGCTTTTACT-
1 ACAAACGCCGCTAAA-AATTATGTTCTTTAGCGGCATTTTTA-TG
2117046 ACAAACGCCGCTAAAAATTATGTTCTTTAGCGGCATTTTTATG
1 ACAAACGCCGCTAAAAATTATGTTCTTTAGCGGCATTTTTATG
* * * * *
2117089 AGAAGCACCGCTAAAGATTATGTTCTATAGCGGCATTTT
1 ACAAACGCCGCTAAAAATTATGTTCTTTAGCGGCATTTT
2117128 CCCACATAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 3 0.04
43 67 0.96
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (43 bp):
ACAAACGCCGCTAAAAATTATGTTCTTTAGCGGCATTTTTATG
Found at i:2138313 original size:14 final size:15
Alignment explanation
Indices: 2138285--2138317 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2138275 TAATATAAAA
2138285 TATT-ATAATTATTT
1 TATTAATAATTATTT
2138299 TATTAATAATT-TTT
1 TATTAATAATTATTT
2138313 TATTA
1 TATTA
2138318 CGATCATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTAATAATTATTT
Found at i:2139728 original size:31 final size:31
Alignment explanation
Indices: 2139692--2139759 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
2139682 TACAAAATAG
*
2139692 TCACTGAACTATTTGAAAGTTTTCATTTAAA
1 TCACTGAACTATTCGAAAGTTTTCATTTAAA
* *
2139723 TCACTGAACTATTCGAAAGTTTTTATTTAAG
1 TCACTGAACTATTCGAAAGTTTTCATTTAAA
2139754 TCACTG
1 TCACTG
2139760 GGATGTTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (31 bp):
TCACTGAACTATTCGAAAGTTTTCATTTAAA
Found at i:2153444 original size:45 final size:45
Alignment explanation
Indices: 2153380--2153477 Score: 196
Period size: 45 Copynumber: 2.2 Consensus size: 45
2153370 GAGCAGTCTG
2153380 ATTTACCTATTAGTGTCATGTGTTTGGGGGAATAGACACTTCCTC
1 ATTTACCTATTAGTGTCATGTGTTTGGGGGAATAGACACTTCCTC
2153425 ATTTACCTATTAGTGTCATGTGTTTGGGGGAATAGACACTTCCTC
1 ATTTACCTATTAGTGTCATGTGTTTGGGGGAATAGACACTTCCTC
2153470 ATTTACCT
1 ATTTACCT
2153478 TATCAGTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (45 bp):
ATTTACCTATTAGTGTCATGTGTTTGGGGGAATAGACACTTCCTC
Found at i:2161570 original size:34 final size:35
Alignment explanation
Indices: 2161532--2161598 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
2161522 CTAAATTGAA
* * *
2161532 CTGTTATAATCAT-ATTGAATGCTACCGTATTGTT
1 CTGTTAAAAGCATAATTAAATGCTACCGTATTGTT
* *
2161566 CTGTTAAAAGCATAATTAAATGTTACCTTATTG
1 CTGTTAAAAGCATAATTAAATGCTACCGTATTG
2161599 ATCCATTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 11 0.41
35 16 0.59
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (35 bp):
CTGTTAAAAGCATAATTAAATGCTACCGTATTGTT
Found at i:2161729 original size:40 final size:40
Alignment explanation
Indices: 2161673--2161831 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 40
2161663 GCAGTTTAAT
*
2161673 CTGCAAACAGTGTGGTTCAATCACGAACCAAGTGGTAGTAA
1 CTGCAAATA-TGTGGTTCAATCACGAACCAAGTGGTAGTAA
*
2161714 CTGCAAATATGTGGTTCAATCACGAACCGAGTGGTAGTTTGTTTAA
1 CTGCAAATATGTGGTTCAATCACGAACCAAGTGGTA----G--TAA
* * * * ** * *
2161760 TCTGTAAATATGTTGTGCACTCAC-AAAAAAATGGCAGTAA
1 -CTGCAAATATGTGGTTCAATCACGAACCAAGTGGTAGTAA
* *
2161800 CTGCAAATACGTGGTTCAATCATGAACCAAGT
1 CTGCAAATATGTGGTTCAATCACGAACCAAGT
2161832 CGCAGTTTGT
Statistics
Matches: 90, Mismatches: 20, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
39 17 0.19
40 34 0.38
41 8 0.09
42 1 0.01
44 1 0.01
46 10 0.11
47 19 0.21
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (40 bp):
CTGCAAATATGTGGTTCAATCACGAACCAAGTGGTAGTAA
Found at i:2161806 original size:86 final size:80
Alignment explanation
Indices: 2161709--2161947 Score: 281
Period size: 86 Copynumber: 3.0 Consensus size: 80
2161699 ACCAAGTGGT
* * * *
2161709 AGTAACTGCAAATATGTGGTTCAATCACGAACCGAGTGGTAGTTTGTTTAATCTGTAAATATGTT
1 AGTAACTGCAAATATGTGGTTCAATCATGAACCAAGTGGCAGTTTGTTTAATCTGAAAATATGTT
2161774 GTGCACTCACAAAAAAATGGC
66 GTGCACTCAC-----AAT-GC
* * * *
2161795 AGTAACTGCAAATACGTGGTTCAATCATGAACCAAGTCGCAGTTTGTTTAATCTGCAAATATTTT
1 AGTAACTGCAAATATGTGGTTCAATCATGAACCAAGTGGCAGTTTGTTTAATCTGAAAATATGTT
2161860 GTGCACT-----TGC
66 GTGCACTCACAATGC
* *
2161870 AGTAACTGCAAACAATATGGTTCAATCATGAACCAAGTGGCAGTTTGTTTAATCTGAAAATATGT
1 AGTAACTGCAAA-TATGTGGTTCAATCATGAACCAAGTGGCAGTTTGTTTAATCTGAAAATATGT
*
2161935 TGTGCACCCACAA
65 TGTGCACTCACAA
2161948 CAAGTGGCTG
Statistics
Matches: 133, Mismatches: 14, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
75 14 0.11
76 54 0.41
86 65 0.49
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (80 bp):
AGTAACTGCAAATATGTGGTTCAATCATGAACCAAGTGGCAGTTTGTTTAATCTGAAAATATGTT
GTGCACTCACAATGC
Found at i:2161918 original size:76 final size:75
Alignment explanation
Indices: 2161793--2161941 Score: 235
Period size: 76 Copynumber: 2.0 Consensus size: 75
2161783 CAAAAAAATG
* * * *
2161793 GCAGTAACTGCAAATACGTGGTTCAATCATGAACCAAGTCGCAGTTTGTTTAATCTGCAAATATT
1 GCAGTAACTGCAAAAACATGGTTCAATCATGAACCAAGTCGCAGTTTGTTTAATCTGAAAATATG
2161858 TTGTGCACTT
66 TTGTGCACTT
* *
2161868 GCAGTAACTGCAAACAATATGGTTCAATCATGAACCAAGTGGCAGTTTGTTTAATCTGAAAATAT
1 GCAGTAACTGCAAA-AACATGGTTCAATCATGAACCAAGTCGCAGTTTGTTTAATCTGAAAATAT
2161933 GTTGTGCAC
65 GTTGTGCAC
2161942 CCACAACAAG
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 14 0.21
76 53 0.79
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (75 bp):
GCAGTAACTGCAAAAACATGGTTCAATCATGAACCAAGTCGCAGTTTGTTTAATCTGAAAATATG
TTGTGCACTT
Found at i:2163203 original size:9 final size:10
Alignment explanation
Indices: 2163177--2163210 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
2163167 AGTTTTCATA
2163177 ATTTTTATTG
1 ATTTTTATTG
*
2163187 AATTTTATT-
1 ATTTTTATTG
2163196 ATTTTTATTG
1 ATTTTTATTG
2163206 ATTTT
1 ATTTT
2163211 ACGTACACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (10 bp):
ATTTTTATTG
Found at i:2163391 original size:18 final size:18
Alignment explanation
Indices: 2163349--2163391 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
2163339 AATATGAAAT
*
2163349 ATTTTTAAAATAAATTTC
1 ATTTTTAAAATAAATTTA
*
2163367 ATATTTAAAATAAATTTA
1 ATTTTTAAAATAAATTTA
2163385 ATTTTTA
1 ATTTTTA
2163392 TTATTTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTTAAAATAAATTTA
Found at i:2166721 original size:19 final size:20
Alignment explanation
Indices: 2166699--2166750 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
2166689 ATTTTATTTT
*
2166699 AAAACACGAGAA-TTTTTGA
1 AAAACACGAAAATTTTTTGA
2166718 AAAACACGAAAATTTTTTG-
1 AAAACACGAAAATTTTTTGA
2166737 -AAACAC-AAAATTTT
1 AAAACACGAAAATTTT
2166751 GATAAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 8 0.26
18 6 0.19
19 11 0.35
20 6 0.19
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.29
Consensus pattern (20 bp):
AAAACACGAAAATTTTTTGA
Found at i:2166733 original size:18 final size:18
Alignment explanation
Indices: 2166699--2166752 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
2166689 ATTTTATTTT
*
2166699 AAAACACGAGAATTTTTGA
1 AAAACACGA-AAATTTTGA
**
2166718 AAAACACGAAAATTTTTT
1 AAAACACGAAAATTTTGA
*
2166736 GAAACAC-AAAATTTTGA
1 AAAACACGAAAATTTTGA
2166753 TAAATTATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 8 0.28
18 12 0.41
19 9 0.31
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (18 bp):
AAAACACGAAAATTTTGA
Found at i:2166786 original size:125 final size:124
Alignment explanation
Indices: 2166608--2166968 Score: 600
Period size: 123 Copynumber: 2.9 Consensus size: 124
2166598 TATGATCCGA
* *
2166608 TTGAAACACAAAAATTTTGATAAACTACATATTATTATATATCCATTTAAATATAATTTGATAAT
1 TTGAAACAC-AAAATTTTGATAAATTATATATTATTATATATCCATTTAAATATAATTTGATAAT
* **
2166673 TTACAAAAAAATAAACATTTTATTTTAAAACACGAGAATTTTTGAAAAACACGAAAATTTT
65 TTACAAAAAAATAAACATTTTATTTTAAAACAC-AGAATTTTTGAAAAACACAAAAAAATT
2166734 TTGAAACACAAAATTTTGATAAATTATATATTATTATATATCCATTTAAATATAATTTGATAATT
1 TTGAAACACAAAATTTTGATAAATTATATATTATTATATATCCATTTAAATATAATTTGATAATT
* *
2166799 TAC--AAAAATAAAAATTTTATTTTAAAACACAAGAATTTTTAAAAAACACAAAAAAATT
66 TACAAAAAAATAAACATTTTATTTTAAAACAC-AGAATTTTTGAAAAACACAAAAAAATT
2166857 TTGAAACACAAAATTTTGATAAATTATATATTATTATATATCCATTTAAATATAATTTGATAATT
1 TTGAAACACAAAATTTTGATAAATTATATATTATTATATATCCATTTAAATATAATTTGATAATT
2166922 TACAAAAAAAATAAACATTTTATTTTAAAACACACGAATTTTTGAAA
66 TAC-AAAAAAATAAACATTTTATTTTAAAACACA-GAATTTTTGAAA
2166969 TACGAGAATT
Statistics
Matches: 221, Mismatches: 10, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
123 117 0.53
125 58 0.26
126 46 0.21
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (124 bp):
TTGAAACACAAAATTTTGATAAATTATATATTATTATATATCCATTTAAATATAATTTGATAATT
TACAAAAAAATAAACATTTTATTTTAAAACACAGAATTTTTGAAAAACACAAAAAAATT
Found at i:2166987 original size:142 final size:141
Alignment explanation
Indices: 2166855--2167247 Score: 587
Period size: 143 Copynumber: 2.8 Consensus size: 141
2166845 CACAAAAAAA
* *
2166855 TTTTGAAACAC-AAAATTTTGATAAATTATATATTATTATATATCCATTTAAATATAATTTGATA
1 TTTTGAAACACGAAAAATTTGATAAATTACATATTATTATATATCCATTTAAATATAATTTGATA
*
2166919 ATTTACAAAAAAAATAAACATTTTATTTTAAAACAC-ACGAATTTTTGAAATACGAGAATTTTTG
66 ATTTA-AAAAAAAATAAACATTTTATTTTAAAACACGA-GAATTTTTGAAACACGAGAATTTTTG
*
2166983 AAAACACGATTTT
129 AAAACACGAATTT
* *
2166996 TTTTGAAACACGAAAACTTTGATAAATTACATAATATTATATATCCATTTAAATATAATTTGATA
1 TTTTGAAACACGAAAAATTTGATAAATTACATATTATTATATATCCATTTAAATATAATTTGATA
2167061 ATTTAGAAAAAAAAATTAAACATTTTATTTTAAAACACGAGAATTTTTGAAACACGAGAATTTTT
66 ATTT--AAAAAAAAA-TAAACATTTTATTTTAAAACACGAGAATTTTTGAAACACGAGAATTTTT
*
2167126 G-AAACATGAATTT
128 GAAAACACGAATTT
* * *
2167139 TTTTAAAACACGAAAAATTTGATAAATTACATATTATTATATCTCCGTTTAAATATAATTTGATA
1 TTTTGAAACACGAAAAATTTGATAAATTACATATTATTATATATCCATTTAAATATAATTTGATA
* * * *
2167204 ATTT-TAAAAAAATAAACATTTTATTTTAAAGCACTAAAATTTTT
66 ATTTAAAAAAAAATAAACATTTTATTTTAAAACACGAGAATTTTT
2167248 TAATTTTTTA
Statistics
Matches: 232, Mismatches: 15, Indels: 12
0.90 0.06 0.05
Matches are distributed among these distances:
139 29 0.12
140 7 0.03
141 11 0.05
142 54 0.23
143 82 0.35
144 48 0.21
145 1 0.00
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (141 bp):
TTTTGAAACACGAAAAATTTGATAAATTACATATTATTATATATCCATTTAAATATAATTTGATA
ATTTAAAAAAAAATAAACATTTTATTTTAAAACACGAGAATTTTTGAAACACGAGAATTTTTGAA
AACACGAATTT
Found at i:2166991 original size:18 final size:19
Alignment explanation
Indices: 2166944--2166991 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
2166934 AAACATTTTA
2166944 TTTT-AAAACAC-ACGAAT
1 TTTTGAAAACACGACGAAT
*
2166961 TTTTG-AAATACGA-GAAT
1 TTTTGAAAACACGACGAAT
2166978 TTTTGAAAACACGA
1 TTTTGAAAACACGA
2166992 TTTTTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (19 bp):
TTTTGAAAACACGACGAAT
Found at i:2166996 original size:15 final size:17
Alignment explanation
Indices: 2166953--2166996 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
2166943 ATTTTAAAAC
2166953 ACACGAATTTTTGAAAT
1 ACACGAATTTTTGAAAT
2166970 ACGA-GAATTTTTGAAA-
1 AC-ACGAATTTTTGAAAT
2166986 ACACG-ATTTTT
1 ACACGAATTTTT
2166997 TTTGAAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 7 0.28
16 3 0.12
17 14 0.56
18 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (17 bp):
ACACGAATTTTTGAAAT
Found at i:2167124 original size:16 final size:17
Alignment explanation
Indices: 2167088--2167131 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
2167078 AAACATTTTA
*
2167088 TTTTAAAACACGAGAAT
1 TTTTGAAACACGAGAAT
2167105 TTTTGAAACACGAGAAT
1 TTTTGAAACACGAGAAT
2167122 TTTTGAAACA
1 TTTTGAAACA
2167132 TGAATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTGAAACACGAGAAT
Found at i:2167138 original size:15 final size:16
Alignment explanation
Indices: 2167088--2167140 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
2167078 AAACATTTTA
*
2167088 TTTTAAAACACGAGAAT
1 TTTTGAAACAC-AGAAT
2167105 TTTTGAAACACGAGAAT
1 TTTTGAAACAC-AGAAT
*
2167122 TTTTGAAACA-TGAAT
1 TTTTGAAACACAGAAT
2167137 TTTT
1 TTTT
2167141 TTAAAACACG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.24
17 26 0.76
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (16 bp):
TTTTGAAACACAGAAT
Found at i:2167419 original size:12 final size:13
Alignment explanation
Indices: 2167386--2167426 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
2167376 TTAAAAAATT
*
2167386 AAAT-TAAATTAA
1 AAATATAAATAAA
*
2167398 AAATATAAATACA
1 AAATATAAATAAA
2167411 AAATA-AAATAAA
1 AAATATAAATAAA
2167423 AAAT
1 AAAT
2167427 GCGTAAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATATAAATAAA
Found at i:2171573 original size:27 final size:28
Alignment explanation
Indices: 2171502--2171584 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 28
2171492 CCTTGTGTAT
* *
2171502 TCCACCGAGACA-CTAAACACATAGTAG
1 TCCATCGAGACATCTAAACACATGGTAG
*
2171529 TCCATC-AG-GATACTAAACACATGGTAG
1 TCCATCGAGACAT-CTAAACACATGGTAG
*
2171556 TCCATCGAGACATC-AAACACAAGGTAG
1 TCCATCGAGACATCTAAACACATGGTAG
2171583 TC
1 TC
2171585 AACTGAGACT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
25 1 0.02
26 2 0.04
27 39 0.83
28 3 0.06
29 2 0.04
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.18
Consensus pattern (28 bp):
TCCATCGAGACATCTAAACACATGGTAG
Found at i:2183054 original size:43 final size:40
Alignment explanation
Indices: 2183007--2183177 Score: 137
Period size: 40 Copynumber: 4.2 Consensus size: 40
2182997 CTTGGGCAAC
*
2183007 AGTGGAATAGATCGAAGATTACAATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATCG--CATTA-AATCTTATCTCCCTAAGCAGT
* *
2183050 AGTGGAGTAGATCGCATTAAGTCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATCGCATTAAATCTTATCTCCCTAAGCAGT
** *** ** * *
2183090 AGTGGAGCAGATAAAACCACAGATCTTATTTCCCTAAGCAAT
1 AGTGGAATAGATCGCATTA-A-ATCTTATCTCCCTAAGCAGT
* * * *
2183132 AGT-GAAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAGT
1 AGTGGAA-TAGATCGCATTAAATCTTATCTCCCTAAGCAGT
2183172 AGTGGA
1 AGTGGA
2183178 GCAGACTAAA
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
40 52 0.50
41 10 0.10
42 28 0.27
43 13 0.13
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (40 bp):
AGTGGAATAGATCGCATTAAATCTTATCTCCCTAAGCAGT
Found at i:2183083 original size:40 final size:40
Alignment explanation
Indices: 2183031--2183182 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 40
2183021 AAGATTACAA
* *
2183031 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*** *
2183071 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCA-AG
* * *
2183112 ATCTTATTTCCCTAAGCAATAGTGAAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*
2183153 TCTTATCTCCCTAAGTAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
2183183 CTAAAAACAC
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
40 58 0.62
41 4 0.04
42 31 0.33
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
Found at i:2183125 original size:82 final size:83
Alignment explanation
Indices: 2183029--2183198 Score: 261
Period size: 82 Copynumber: 2.1 Consensus size: 83
2183019 CGAAGATTAC
* * * *
2183029 AATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAGTCTTATCTCCCTAAGCAGTAGTG
1 AATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTG
*
2183094 GAGCAGA-TAAAACCACA
66 GAGCAGACTAAAAACACA
* * *
2183111 GATCTTATTTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAGTAGTG
1 AATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTG
2183176 GAGCAGACTAAAAACACA
66 GAGCAGACTAAAAACACA
2183194 AATCT
1 AATCT
2183199 CATCCCCATG
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 65 0.83
83 13 0.17
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (83 bp):
AATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTG
GAGCAGACTAAAAACACA
Found at i:2183135 original size:42 final size:42
Alignment explanation
Indices: 2183030--2183198 Score: 157
Period size: 40 Copynumber: 4.1 Consensus size: 42
2183020 GAAGATTACA
* *** **
2183030 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTA-AG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAACACAG
*
2183071 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAACCACAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAACACAG
* * * *** *
2183112 ATCTTATTTCCCTAAGCAATAGTGAAGCAGATCGCATCA-AG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAACACAG
* *
2183153 -TCTTATCTCCCTAAGTAGTAGTGGAGCAGACTAAAAACACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TAAAAACACAG
2183195 ATCT
1 ATCT
2183199 CATCCCCATG
Statistics
Matches: 101, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
40 58 0.57
41 8 0.08
42 32 0.32
43 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (42 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAACACAG
Found at i:2183550 original size:38 final size:38
Alignment explanation
Indices: 2183496--2183595 Score: 166
Period size: 38 Copynumber: 2.6 Consensus size: 38
2183486 ATAAATAAAA
* *
2183496 ACCTTGGCCACCTACTCCACCACCTTTGTTGGCCACCC
1 ACCTTAGCCACATACTCCACCACCTTTGTTGGCCACCC
2183534 ACCTTAGCCACATACTCCACCACCTTTGTTGGCCACCC
1 ACCTTAGCCACATACTCCACCACCTTTGTTGGCCACCC
2183572 ACCTTAGCCACCA-ACTCCACCACC
1 ACCTTAGCCA-CATACTCCACCACC
2183596 CTTGGCCACC
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
38 57 0.97
39 2 0.03
ACGTcount: A:0.21, C:0.48, G:0.10, T:0.21
Consensus pattern (38 bp):
ACCTTAGCCACATACTCCACCACCTTTGTTGGCCACCC
Found at i:2183747 original size:22 final size:23
Alignment explanation
Indices: 2183679--2183754 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
2183669 TAGAGGTGGG
* *
2183679 TTTTTGGTTTTTTGGAGAAGGATT
1 TTTTTTGTTTTTTGGAGGAGG-TT
*
2183703 GTTCTTTG--TTTTGGAGGAGGTT
1 -TTTTTTGTTTTTTGGAGGAGGTT
*
2183725 TTTTTTGTTTTTTGGAGG-TGTT
1 TTTTTTGTTTTTTGGAGGAGGTT
2183747 TTTTTTGT
1 TTTTTTGT
2183755 AAAAAAGGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 6 0.14
22 13 0.30
23 20 0.45
25 5 0.11
ACGTcount: A:0.09, C:0.01, G:0.29, T:0.61
Consensus pattern (23 bp):
TTTTTTGTTTTTTGGAGGAGGTT
Found at i:2183966 original size:3 final size:3
Alignment explanation
Indices: 2183952--2184034 Score: 54
Period size: 3 Copynumber: 28.3 Consensus size: 3
2183942 GAGCTTTGTT
* *
2183952 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
2183996 TT- TCTCA TGTA TATA TTA TT- TT- TTA -TA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2184035 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 12 0.18
3 45 0.69
4 6 0.09
5 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2184276 original size:18 final size:19
Alignment explanation
Indices: 2184240--2184296 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
2184230 ACTATTACTA
*
2184240 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
2184260 TTATGTATA-TATATA-TT
1 TTATATATAGTATATATTT
2184277 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
2184295 TT
1 TT
2184297 TATTACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:2184398 original size:12 final size:12
Alignment explanation
Indices: 2184381--2184410 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2184371 GTATTTCTAT
2184381 TATATACATATA
1 TATATACATATA
*
2184393 TATATACATTTA
1 TATATACATATA
2184405 TATATA
1 TATATA
2184411 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:2185374 original size:44 final size:44
Alignment explanation
Indices: 2185282--2185510 Score: 174
Period size: 44 Copynumber: 5.1 Consensus size: 44
2185272 GATCCAATAT
* * * *
2185282 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA
1 GCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAGATA
* * *
2185327 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTATATTGGCGCGAAGTAGATCGAAGATA
* * * ** * *
2185371 GCAGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCCAAGAT-
1 GCAGATCTTGTCTTCCTATATTG-GCGCGAAGTAGATCGAAGATA
* * * * * *
2185414 GCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGAAGATT
1 GCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAGATA
* * * * *
2185459 GCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATG
1 GCAGATCTTGTCTTCCTATA-TTGGC-GCGAAGTAGATCGAAGATA
2185505 GCAGAT
1 GCAGAT
2185511 TTTACCTCCC
Statistics
Matches: 142, Mismatches: 36, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
43 19 0.13
44 61 0.43
45 39 0.27
46 23 0.16
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (44 bp):
GCAGATCTTGTCTTCCTATATTGGCGCGAAGTAGATCGAAGATA
Found at i:2185474 original size:88 final size:89
Alignment explanation
Indices: 2185281--2185480 Score: 208
Period size: 88 Copynumber: 2.3 Consensus size: 89
2185271 GGATCCAATA
* * * **
2185281 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGT
1 TGCAGATCTTGTCTTCCTATATTGATAGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCACAT
*
2185346 ATTGGCGTGAAGTAGATCGAAGAT
66 ACTGGCGTGAAGTAGATCGAAGAT
* * * * * * *
2185370 AGCAGGTCCTATCTTCCTATATTGATAG-GAAGTGGATC-CA-AGATGCAGATCTTGTCTTCCCA
1 TGCAGATCTTGTCTTCCTATATTGATAGCGAAGTAGATCGCAGA-AAGCAGATCTTGTCTTCACA
* *
2185432 TACTGGTGGTGAAGTAGATTGAAGAT
65 TACTGG-CGTGAAGTAGATCGAAGAT
* *
2185458 TGCAGATCTTGCCTTCCTGTATT
1 TGCAGATCTTGTCTTCCTATATT
2185481 TGGCAGCGAA
Statistics
Matches: 88, Mismatches: 21, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
86 1 0.01
87 23 0.26
88 43 0.49
89 21 0.24
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (89 bp):
TGCAGATCTTGTCTTCCTATATTGATAGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCACAT
ACTGGCGTGAAGTAGATCGAAGAT
Found at i:2185479 original size:132 final size:134
Alignment explanation
Indices: 2185242--2185508 Score: 403
Period size: 132 Copynumber: 2.0 Consensus size: 134
2185232 TCAACAGCTT
* *
2185242 GGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAATATGCAGATCTTGTCTTCCCATATTGGT
1 GGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATACTGGT
* * * * *
2185307 GGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTA-TTGGC-GTGAAGTAGATCGAAGAT
66 GGCGAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGTATTTGGCAGCGAAGCAGATCAAAGAT
2185370 AGCA
131 AGCA
2185374 GGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATACTGGT
1 GGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATACTGGT
* * ** *
2185439 GGTGAAGTAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGAT
66 GGCGAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGTATTTGGCAGCGAAGCAGATCAAAGAT
*
2185504 GGCA
131 AGCA
2185508 G
1 G
2185509 ATTTTACCTC
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
132 96 0.80
133 5 0.04
134 19 0.16
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (134 bp):
GGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATACTGGT
GGCGAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGTATTTGGCAGCGAAGCAGATCAAAGAT
AGCA
Found at i:2185592 original size:134 final size:135
Alignment explanation
Indices: 2185446--2185750 Score: 522
Period size: 136 Copynumber: 2.3 Consensus size: 135
2185436 GGTGGTGAAG
* *
2185446 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGACAGAT
2185511 TTTACCTCCC-TAACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCACTGTATCTGGCAG
66 TTTACCTCCCGTAACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCACTGTATCTGGCAG
2185575 TGGAA
131 TGGAA
*
2185580 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGACAGAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGACAGAT
* * *
2185645 TTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCA
66 TTTACCTCCC-GTAACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCACTGTATCTGGCA
2185710 GTGGAA
130 GTGGAA
* *
2185716 TAGATTGAAGATTGCAGATCCTGCCTTCCTATATT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATT
2185751 GGTAGGAAGT
Statistics
Matches: 161, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
134 72 0.45
136 89 0.55
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (135 bp):
TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGACAGAT
TTTACCTCCCGTAACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCACTGTATCTGGCAG
TGGAA
Found at i:2185723 original size:45 final size:45
Alignment explanation
Indices: 2185527--2185725 Score: 111
Period size: 45 Copynumber: 4.4 Consensus size: 45
2185517 TCCCTAACCA
* * * *
2185527 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCACTGTATCTGG
1 CAGTGGAATAGATTGAAGCCGATAACTCTACCTCCCTGTATCTGG
** * * * *
2185572 CAGTGGAATAGATTGAAGATTGCAGATCT-TGCCTTCCTGTAT-TAGG
1 CAGTGGAATAGATTGAAG-CCG-ATAACTCTACCTCCCTGTATCT-GG
* * * ** * * * *
2185618 CAG-CGAAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGA-CT-A
1 CAGTGGAA-TAGATTGAAGCCGATA-ACTCTACCTCCCTGT-ATCTGG
* * *
2185663 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGG
1 CAGTGGAATAGATTGAAGCCGATAACTCTACCTCCCTGTATCTGG
2185708 CAGTGGAATAGATTGAAG
1 CAGTGGAATAGATTGAAG
2185726 ATTGCAGATC
Statistics
Matches: 109, Mismatches: 34, Indels: 22
0.66 0.21 0.13
Matches are distributed among these distances:
43 1 0.01
44 16 0.15
45 52 0.48
46 34 0.31
47 6 0.06
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (45 bp):
CAGTGGAATAGATTGAAGCCGATAACTCTACCTCCCTGTATCTGG
Found at i:2185936 original size:43 final size:40
Alignment explanation
Indices: 2185889--2186059 Score: 137
Period size: 40 Copynumber: 4.2 Consensus size: 40
2185879 CTTGGGCAAC
*
2185889 AGTGGAATAGATCGAAGATTACAATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATCG--CATTA-AATCTTATCTCCCTAAGCAGT
* *
2185932 AGTGGAGTAGATCGCATTAAGTCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATCGCATTAAATCTTATCTCCCTAAGCAGT
** *** ** * *
2185972 AGTGGAGCAGATAAAACCACAGATCTTATTTCCCTAAGCAAT
1 AGTGGAATAGATCGCATTA-A-ATCTTATCTCCCTAAGCAGT
* * * *
2186014 AGT-GAAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAGT
1 AGTGGAA-TAGATCGCATTAAATCTTATCTCCCTAAGCAGT
2186054 AGTGGA
1 AGTGGA
2186060 GCAGACTAAA
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
40 52 0.50
41 10 0.10
42 28 0.27
43 13 0.13
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (40 bp):
AGTGGAATAGATCGCATTAAATCTTATCTCCCTAAGCAGT
Found at i:2185965 original size:40 final size:40
Alignment explanation
Indices: 2185913--2186064 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 40
2185903 AAGATTACAA
* *
2185913 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*** *
2185953 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCA-AG
* * *
2185994 ATCTTATTTCCCTAAGCAATAGTGAAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*
2186035 TCTTATCTCCCTAAGTAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
2186065 CTAAAAACAC
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
40 58 0.62
41 4 0.04
42 31 0.33
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
Found at i:2186007 original size:82 final size:83
Alignment explanation
Indices: 2185911--2186080 Score: 261
Period size: 82 Copynumber: 2.1 Consensus size: 83
2185901 CGAAGATTAC
* * * *
2185911 AATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAGTCTTATCTCCCTAAGCAGTAGTG
1 AATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTG
*
2185976 GAGCAGA-TAAAACCACA
66 GAGCAGACTAAAAACACA
* * *
2185993 GATCTTATTTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAGTAGTG
1 AATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTG
2186058 GAGCAGACTAAAAACACA
66 GAGCAGACTAAAAACACA
2186076 AATCT
1 AATCT
2186081 CATCCCCATG
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 65 0.83
83 13 0.17
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (83 bp):
AATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTG
GAGCAGACTAAAAACACA
Found at i:2186017 original size:42 final size:42
Alignment explanation
Indices: 2185912--2186080 Score: 157
Period size: 40 Copynumber: 4.1 Consensus size: 42
2185902 GAAGATTACA
* *** **
2185912 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTA-AG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAACACAG
*
2185953 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAACCACAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAACACAG
* * * *** *
2185994 ATCTTATTTCCCTAAGCAATAGTGAAGCAGATCGCATCA-AG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAACACAG
* *
2186035 -TCTTATCTCCCTAAGTAGTAGTGGAGCAGACTAAAAACACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TAAAAACACAG
2186077 ATCT
1 ATCT
2186081 CATCCCCATG
Statistics
Matches: 101, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
40 58 0.57
41 8 0.08
42 32 0.32
43 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (42 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAACACAG
Found at i:2186430 original size:38 final size:38
Alignment explanation
Indices: 2186379--2186478 Score: 182
Period size: 38 Copynumber: 2.6 Consensus size: 38
2186369 ATAAATAAAA
*
2186379 ACCTTGGCCACCTACTCCACCACCTTTGTTGGCCACCC
1 ACCTTAGCCACCTACTCCACCACCTTTGTTGGCCACCC
2186417 ACCTTAGCCACCTACTCCACCACCTTTGTTGGCCACCC
1 ACCTTAGCCACCTACTCCACCACCTTTGTTGGCCACCC
*
2186455 ACCTTAGCCACCAACTCCACCACC
1 ACCTTAGCCACCTACTCCACCACC
2186479 CTTGGCCACC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.20, C:0.49, G:0.10, T:0.21
Consensus pattern (38 bp):
ACCTTAGCCACCTACTCCACCACCTTTGTTGGCCACCC
Found at i:2186618 original size:22 final size:22
Alignment explanation
Indices: 2186571--2186638 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
2186561 GTTTTTGGTT
* * *
2186571 TTTTGGAGAAGGATTGTTCTTTG
1 TTTTGGAGGAGG-TTTTTTTTTG
2186594 TTTTGGAGGAGGTTTTTTTTTG
1 TTTTGGAGGAGGTTTTTTTTTG
**
2186616 TTTT-TTGGAGGTGTTTTTTTTG
1 TTTTGGAGGAGGT-TTTTTTTTG
2186638 T
1 T
2186639 AAAAAAGGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 6 0.15
22 22 0.56
23 11 0.28
ACGTcount: A:0.10, C:0.01, G:0.29, T:0.59
Consensus pattern (22 bp):
TTTTGGAGGAGGTTTTTTTTTG
Found at i:2186849 original size:3 final size:3
Alignment explanation
Indices: 2186835--2186920 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
2186825 GAGCTTTGTT
* *
2186835 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
2186879 TT- TCTCA TGTA TATA TTA TT- TT- TTA -TA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2186921 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 12 0.18
3 48 0.71
4 6 0.09
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2186877 original size:18 final size:18
Alignment explanation
Indices: 2186835--2186924 Score: 83
Period size: 18 Copynumber: 4.7 Consensus size: 18
2186825 GAGCTTTGTT
*
2186835 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
2186855 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
2186873 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
*
2186894 TTATTTTTTATATTATTA
1 TTATTATTTATATTATTA
2186912 TTA-TATTATATAT
1 TTATTATT-TATAT
2186925 GCCCTCTCCA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
17 3 0.05
18 26 0.44
19 9 0.15
20 10 0.17
21 11 0.19
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:2187284 original size:12 final size:12
Alignment explanation
Indices: 2187267--2187296 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2187257 GTATTTCTAT
2187267 TATATACATATA
1 TATATACATATA
*
2187279 TATATACATTTA
1 TATATACATATA
2187291 TATATA
1 TATATA
2187297 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:2189782 original size:14 final size:13
Alignment explanation
Indices: 2189763--2189801 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
2189753 ATTTGTTAAT
2189763 ATTTTAATATATAA
1 ATTTTAA-ATATAA
*
2189777 ATTTTAAATTTTAA
1 ATTTTAAA-TATAA
2189791 ATTTTAAATAT
1 ATTTTAAATAT
2189802 TTTTAAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTAAATATAA
Found at i:2189786 original size:7 final size:7
Alignment explanation
Indices: 2189774--2189799 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2189764 TTTTAATATA
2189774 TAAATTT
1 TAAATTT
2189781 TAAATTT
1 TAAATTT
2189788 TAAATTT
1 TAAATTT
2189795 TAAAT
1 TAAAT
2189800 ATTTTTAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TAAATTT
Found at i:2189787 original size:21 final size:23
Alignment explanation
Indices: 2189749--2189790 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
2189739 AATAATTTAT
*
2189749 TATAATTTGTTAATATTTTAATA
1 TATAAATTGTTAATATTTTAATA
2189772 TATAAATT-TTAA-ATTTTAA
1 TATAAATTGTTAATATTTTAA
2189791 ATTTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TATAAATTGTTAATATTTTAATA
Found at i:2190988 original size:23 final size:22
Alignment explanation
Indices: 2190953--2191001 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
2190943 ATAAAATCAT
2190953 TAAAAATGTTAAAAAAAACTTA
1 TAAAAATGTTAAAAAAAACTTA
* *
2190975 TAAAAATTTGTAAAAAAAATTTA
1 TAAAAATGT-TAAAAAAAACTTA
2190998 TAAA
1 TAAA
2191002 TATTATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (22 bp):
TAAAAATGTTAAAAAAAACTTA
Found at i:2191010 original size:22 final size:23
Alignment explanation
Indices: 2190953--2191011 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
2190943 ATAAAATCAT
*
2190953 TAAAAATGT-TAAAAAAAACTTA
1 TAAAAATTTATAAAAAAAACTTA
* *
2190975 TAAAAATTTGTAAAAAAAATTTA
1 TAAAAATTTATAAAAAAAACTTA
*
2190998 TAAATA-TTATAAAA
1 TAAAAATTTATAAAA
2191012 CTTTGTTGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (23 bp):
TAAAAATTTATAAAAAAAACTTA
Found at i:2192344 original size:89 final size:89
Alignment explanation
Indices: 2192193--2192373 Score: 362
Period size: 89 Copynumber: 2.0 Consensus size: 89
2192183 AAGAACACCA
2192193 TTTCAAAAGAAACTCTGAAAATGACAGCAAATTGCAATCCATCACAATAACAATGGAAGAGTTGA
1 TTTCAAAAGAAACTCTGAAAATGACAGCAAATTGCAATCCATCACAATAACAATGGAAGAGTTGA
2192258 GAAAAGACTGAAACACTTGATTGG
66 GAAAAGACTGAAACACTTGATTGG
2192282 TTTCAAAAGAAACTCTGAAAATGACAGCAAATTGCAATCCATCACAATAACAATGGAAGAGTTGA
1 TTTCAAAAGAAACTCTGAAAATGACAGCAAATTGCAATCCATCACAATAACAATGGAAGAGTTGA
2192347 GAAAAGACTGAAACACTTGATTGG
66 GAAAAGACTGAAACACTTGATTGG
2192371 TTT
1 TTT
2192374 ACTCAGTTTT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 92 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (89 bp):
TTTCAAAAGAAACTCTGAAAATGACAGCAAATTGCAATCCATCACAATAACAATGGAAGAGTTGA
GAAAAGACTGAAACACTTGATTGG
Found at i:2194169 original size:43 final size:43
Alignment explanation
Indices: 2194103--2194190 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
2194093 CTCAAAAAGA
*
2194103 TTTTAAATTTTCTTTAAGTTGTTCAACTTGCAATTGGATTAAG
1 TTTTAAATTTTCTTTAAGCTGTTCAACTTGCAATTGGATTAAG
*
2194146 TTTTAAATTTTCTTTAAGCTGTTCAACTTGCAATTGGATTGAG
1 TTTTAAATTTTCTTTAAGCTGTTCAACTTGCAATTGGATTAAG
2194189 TT
1 TT
2194191 AACGAAGCGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (43 bp):
TTTTAAATTTTCTTTAAGCTGTTCAACTTGCAATTGGATTAAG
Found at i:2195951 original size:2 final size:2
Alignment explanation
Indices: 2195946--2195973 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2195936 TCAAAATTAC
2195946 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2195974 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2198161 original size:13 final size:13
Alignment explanation
Indices: 2198145--2198174 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2198135 AGTGACGTGG
*
2198145 AAAAGTGTTTTTA
1 AAAAGTATTTTTA
2198158 AAAAGTATTTTTA
1 AAAAGTATTTTTA
2198171 AAAA
1 AAAA
2198175 TTTTGATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (13 bp):
AAAAGTATTTTTA
Found at i:2198377 original size:21 final size:23
Alignment explanation
Indices: 2198339--2198380 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
2198329 AATAATTTAT
*
2198339 TATAATTTGTTAATATTTTAATA
1 TATAAATTGTTAATATTTTAATA
2198362 TATAAATT-TTAA-ATTTTAA
1 TATAAATTGTTAATATTTTAA
2198381 ATAGTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TATAAATTGTTAATATTTTAATA
Done.