Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 5 of 133
Found at i:1055699 original size:16 final size:16
Alignment explanation
Indices: 1055662--1055704 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 16
1055652 ATATGTGATG
*
1055662 AATATGATTTAAAAAT
1 AATATAATTTAAAAAT
1055678 -A-A-AATTTAAAAAT
1 AATATAATTTAAAAAT
1055691 AATATAATTTAAAA
1 AATATAATTTAAAA
1055705 TTATAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
13 10 0.43
14 2 0.09
15 2 0.09
16 9 0.39
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
AATATAATTTAAAAAT
Found at i:1055713 original size:16 final size:15
Alignment explanation
Indices: 1055668--1055716 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
1055658 GATGAATATG
1055668 ATTTAAAA-ATAA-A
1 ATTTAAAATATAATA
1055681 ATTTAAAA-ATAATATA
1 ATTTAAAATAT-A-ATA
1055697 ATTTAAAATTATAATA
1 ATTTAAAA-TATAATA
1055713 ATTT
1 ATTT
1055717 TTATTTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 10 0.32
14 1 0.03
15 1 0.03
16 16 0.52
17 1 0.03
18 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTAAAATATAATA
Found at i:1056960 original size:71 final size:71
Alignment explanation
Indices: 1056844--1056979 Score: 200
Period size: 71 Copynumber: 1.9 Consensus size: 71
1056834 TTTTCGCTAA
* * **
1056844 TTTTGTGCCCCATACGTCGCCGTTTACTTCCTTTTCATGGCCCCTATATTCTCCAAACAACGGAA
1 TTTTGTACCCCATACGTCGCCGTTTACTTCCTTCTCAAAGCCCCTATATTCTCCAAACAACGGAA
1056909 CCCTAC
66 CCCTAC
* * * *
1056915 TTTTGTACGCCATACGTCGTCGTTTACTTCCTTCTCAAAGCCCCTATGTTCTCCAAACGACGGAA
1 TTTTGTACCCCATACGTCGCCGTTTACTTCCTTCTCAAAGCCCCTATATTCTCCAAACAACGGAA
1056980 GGCAAAAGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.32
Consensus pattern (71 bp):
TTTTGTACCCCATACGTCGCCGTTTACTTCCTTCTCAAAGCCCCTATATTCTCCAAACAACGGAA
CCCTAC
Found at i:1057371 original size:5 final size:5
Alignment explanation
Indices: 1057361--1057387 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
1057351 TGTTTCTCGC
1057361 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
1057388 TTGGATCATG
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:1075023 original size:22 final size:22
Alignment explanation
Indices: 1074998--1075042 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1074988 TCCCTCGAGG
1074998 CGTTTGATGTGGGTCGAATGGT
1 CGTTTGATGTGGGTCGAATGGT
1075020 CGTTTGATGTGGGTCGAATGGT
1 CGTTTGATGTGGGTCGAATGGT
1075042 C
1 C
1075043 TAGGGCCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.11, G:0.40, T:0.36
Consensus pattern (22 bp):
CGTTTGATGTGGGTCGAATGGT
Found at i:1075167 original size:21 final size:21
Alignment explanation
Indices: 1075141--1075184 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1075131 TGTTCCAGAT
1075141 CAACCTAACTGTCACTGTTCA
1 CAACCTAACTGTCACTGTTCA
1075162 CAACCTAACTGTCACTGTTCA
1 CAACCTAACTGTCACTGTTCA
1075183 CA
1 CA
1075185 CCCTTGTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.27
Consensus pattern (21 bp):
CAACCTAACTGTCACTGTTCA
Found at i:1079501 original size:3 final size:3
Alignment explanation
Indices: 1079493--1079526 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1079483 TCCCTTTATG
1079493 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1079527 CTATATTGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1080015 original size:2 final size:2
Alignment explanation
Indices: 1079967--1079997 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1079957 TTTCAACTGG
*
1079967 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1079998 CATTTCAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1083183 original size:12 final size:12
Alignment explanation
Indices: 1083166--1083191 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1083156 GCAAGATAAA
1083166 GAATCTGCAAAG
1 GAATCTGCAAAG
1083178 GAATCTGCAAAG
1 GAATCTGCAAAG
1083190 GA
1 GA
1083192 TGGCAGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.15
Consensus pattern (12 bp):
GAATCTGCAAAG
Found at i:1087163 original size:30 final size:29
Alignment explanation
Indices: 1087105--1087170 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
1087095 ATCAATATGT
* *
1087105 AATTCAATTAAAAAAAGTAAACATTTAAA
1 AATTTAATTAAAAAAAATAAACATTTAAA
*
1087134 AATTTAATTAAATAAAAATAAATATTTAAA
1 AATTTAATTAAA-AAAAATAAACATTTAAA
*
1087164 AACTTAA
1 AATTTAA
1087171 ATAATTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (29 bp):
AATTTAATTAAAAAAAATAAACATTTAAA
Found at i:1091118 original size:30 final size:29
Alignment explanation
Indices: 1091042--1091126 Score: 95
Period size: 28 Copynumber: 3.0 Consensus size: 29
1091032 TATATTCGTA
*
1091042 TTATTTT-TTAAATTATATATTATAATTT
1 TTATTTTATTAAATTATATATAATAATTT
* * *
1091070 TTATTATTA-TAAA-AATATAAAATATTTT
1 TTATT-TTATTAAATTATATATAATAATTT
1091098 TTATTTTATTAAATTTATATATAATAATT
1 TTATTTTATTAAA-TTATATATAATAATT
1091127 ATTAAAATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
27 3 0.07
28 25 0.56
29 6 0.13
30 11 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
TTATTTTATTAAATTATATATAATAATTT
Found at i:1091119 original size:25 final size:25
Alignment explanation
Indices: 1091020--1091119 Score: 67
Period size: 28 Copynumber: 3.6 Consensus size: 25
1091010 TGATATAAAA
*
1091020 TATTAAAATTTATATATTCGTATTATTT
1 TATT-AAATTTATATATT--TTTTATTT
1091048 T-TTAAATTATATATTATAATTTTTATTAT
1 TATTAAATT-TATA-TAT--TTTTTATT-T
* * *
1091077 TATAAAAATATAAAATATTTTTTATTT
1 TAT-TAAAT-TTATATATTTTTTATTT
1091104 TATTAAATTTATATAT
1 TATTAAATTTATATAT
1091120 AATAATTATT
Statistics
Matches: 57, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
25 6 0.11
26 9 0.16
27 10 0.18
28 18 0.32
29 2 0.04
30 5 0.09
31 6 0.11
32 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (25 bp):
TATTAAATTTATATATTTTTTATTT
Found at i:1093805 original size:20 final size:20
Alignment explanation
Indices: 1093780--1093817 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1093770 AAAAGCCTTT
* *
1093780 TATAATTTTTTTTTATTTTC
1 TATAATTATTTTTAATTTTC
1093800 TATAATTATTTTTAATTT
1 TATAATTATTTTTAATTT
1093818 CTTTTTAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (20 bp):
TATAATTATTTTTAATTTTC
Found at i:1096076 original size:27 final size:27
Alignment explanation
Indices: 1096034--1096097 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
1096024 AGGTGGGGCA
* * *
1096034 GAAGAGAATGGGGAAGAAGAAGATGAT
1 GAAGAGGATGGGGAAGAACAAGAGGAT
* * *
1096061 GAAGAGGATGGTGAAGACCCAGAGGAT
1 GAAGAGGATGGGGAAGAACAAGAGGAT
1096088 GAAGAGGATG
1 GAAGAGGATG
1096098 ACGATGACGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.42, T:0.11
Consensus pattern (27 bp):
GAAGAGGATGGGGAAGAACAAGAGGAT
Found at i:1096103 original size:15 final size:15
Alignment explanation
Indices: 1096085--1096134 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
1096075 AGACCCAGAG
*
1096085 GATGAAGAGGATGAC
1 GATGAAGAGGATGAA
*
1096100 GATGACGAGGATGAA
1 GATGAAGAGGATGAA
* *
1096115 GATGAAGATGAGGAA
1 GATGAAGAGGATGAA
1096130 GATGA
1 GATGA
1096135 TGGTGGAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.42, C:0.04, G:0.40, T:0.14
Consensus pattern (15 bp):
GATGAAGAGGATGAA
Found at i:1097256 original size:62 final size:64
Alignment explanation
Indices: 1097190--1097326 Score: 169
Period size: 62 Copynumber: 2.2 Consensus size: 64
1097180 AACTTGAAAG
* *
1097190 AGAATTTTTTAAAAATATTTTTCGA-CAAAAATAC-CTTAAATAATTTTATT-T-TATTTTTTAA
1 AGAATTATTTAAAAATACTTTT-GATCAAAAA-ACACTTAAATAATTTTATTATATATTTTTTAA
1097251 A
64 A
* *
1097252 AGAATTATTT-AAAATACTTTTGATTAAAAAACATCTTAAATAATTTTGTTATATATTTTTTAAA
1 AGAATTATTTAAAAATACTTTTGATCAAAAAACA-CTTAAATAATTTTATTATATATTTTTTAAA
1097316 A-AATTATTTAA
1 AGAATTATTTAA
1097327 TCCTAATCAA
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
60 4 0.06
61 15 0.23
62 24 0.37
63 9 0.14
64 13 0.20
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (64 bp):
AGAATTATTTAAAAATACTTTTGATCAAAAAACACTTAAATAATTTTATTATATATTTTTTAAA
Found at i:1098423 original size:2 final size:2
Alignment explanation
Indices: 1098416--1098446 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1098406 TGAGAAAAGG
1098416 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1098447 GAGGGAACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1102039 original size:24 final size:24
Alignment explanation
Indices: 1101979--1102044 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
1101969 CACTCAGGTA
1101979 TATATAAAA-TATATTTTTATTATT
1 TATATAAAATTATA-TTTTATTATT
* **
1102003 TATTTAATTTTATATTTTATTATAT
1 TATATAAAATTATATTTTATTAT-T
1102028 TA-ATAAAATTATTATTT
1 TATATAAAATTA-TATTT
1102045 AATATTTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
24 21 0.64
25 12 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TATATAAAATTATATTTTATTATT
Found at i:1102065 original size:37 final size:38
Alignment explanation
Indices: 1101997--1102068 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
1101987 ATATATTTTT
* **
1101997 ATTATTTATTTAATTTTATATTTTATTATATTAATAAA
1 ATTATTTATTTAATTTTATAATTTAAAATATTAATAAA
1102035 ATTA-TTATTTAATATTT-TAATTTAAAATATTAAT
1 ATTATTTATTTAAT-TTTATAATTTAAAATATTAAT
1102069 GTAATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 23 0.77
38 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (38 bp):
ATTATTTATTTAATTTTATAATTTAAAATATTAATAAA
Found at i:1102105 original size:16 final size:16
Alignment explanation
Indices: 1102045--1102105 Score: 52
Period size: 18 Copynumber: 3.7 Consensus size: 16
1102035 ATTATTATTT
*
1102045 AATATTTTA-ATTTAA
1 AATATTTTATATTAAA
* * *
1102060 AATATTAATGTAATAAA
1 AATATT-TTATATTAAA
1102077 AATATAGTTTATATTAAA
1 AATAT--TTTATATTAAA
1102095 AATATTTTATA
1 AATATTTTATA
1102106 AATATTATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
15 6 0.17
16 7 0.20
17 9 0.26
18 12 0.34
19 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
AATATTTTATATTAAA
Found at i:1102136 original size:19 final size:19
Alignment explanation
Indices: 1102108--1102157 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
1102098 ATTTTATAAA
*
1102108 TATTATATTAAATTAAACT
1 TATTAAATTAAATTAAACT
* *
1102127 TATTAAATTAATTTTAACT
1 TATTAAATTAAATTAAACT
*
1102146 TAATCAAATTAA
1 T-ATTAAATTAA
1102158 TTACAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTAAATTAAATTAAACT
Found at i:1102655 original size:28 final size:27
Alignment explanation
Indices: 1102621--1102677 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
1102611 CTATGTTTGG
* *
1102621 TTTAAAAAATATTTTTTATTTT-TATTT
1 TTTAAAAAACAATTTTTATTTTCT-TTT
1102648 TTTAAAAAACAATTTTTATTTTCTTTT
1 TTTAAAAAACAATTTTTATTTTCTTTT
1102675 TTT
1 TTT
1102678 GTTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTAAAAAACAATTTTTATTTTCTTTT
Found at i:1102998 original size:18 final size:17
Alignment explanation
Indices: 1102966--1103001 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1102956 TCATTCTTAA
*
1102966 ATTTTTATATTATATTT
1 ATTTTGATATTATATTT
1102983 ATTTTGATATTTATATTT
1 ATTTTGATA-TTATATTT
1103001 A
1 A
1103002 ATAGATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
ATTTTGATATTATATTT
Found at i:1103176 original size:27 final size:27
Alignment explanation
Indices: 1103146--1103255 Score: 84
Period size: 27 Copynumber: 4.0 Consensus size: 27
1103136 TTTAGATTAT
1103146 TTTTATATAAATATATATTAATATATA
1 TTTTATATAAATATATATTAATATATA
* *
1103173 TTTTCA-ATAAAAATATATTAAT-TTTA
1 TTTT-ATATAAATATATATTAATATATA
* *
1103199 ATTTATATAAA-ATAATAATTTATAT-TA
1 TTTTATATAAATAT-AT-ATTAATATATA
* *
1103226 TTTAATAAAAATTTATATATTAAATATATA
1 TTTTATATAAA--TATATATT-AATATATA
1103256 AAAATATATA
Statistics
Matches: 65, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
25 3 0.05
26 13 0.20
27 34 0.52
28 5 0.08
29 6 0.09
30 4 0.06
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (27 bp):
TTTTATATAAATATATATTAATATATA
Found at i:1103232 original size:20 final size:19
Alignment explanation
Indices: 1103197--1103256 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
1103187 ATATTAATTT
1103197 TAATTTATATA--AAATAA
1 TAATTTATATATTAAATAA
*
1103214 TAATTTATATTATTTAATAA
1 TAATTTATA-TATTAAATAA
*
1103234 AAATTTATATATTAAATATA
1 TAATTTATATATTAAATA-A
1103254 TAA
1 TAA
1103257 AAATATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 9 0.26
18 2 0.06
19 8 0.23
20 16 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATTTATATATTAAATAA
Found at i:1103273 original size:23 final size:23
Alignment explanation
Indices: 1103230--1103274 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1103220 ATATTATTTA
* *
1103230 ATAAAAATTTATATATTAAATAT
1 ATAAAAATATATATATAAAATAT
*
1103253 ATAAAAATATATATGTAAAATA
1 ATAAAAATATATATATAAAATA
1103275 CGGGCATGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
ATAAAAATATATATATAAAATAT
Found at i:1106298 original size:3 final size:3
Alignment explanation
Indices: 1106292--1106321 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1106282 AAAAATGTGA
1106292 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1106322 CTACTGCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1109585 original size:24 final size:24
Alignment explanation
Indices: 1109558--1109616 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
1109548 CAAAGGTGGT
*
1109558 TGCTGAGTTAAGGGCAGCAATTGC
1 TGCTGAGTCAAGGGCAGCAATTGC
1109582 TGCTGAGTCAAGGGCAGCAATTGC
1 TGCTGAGTCAAGGGCAGCAATTGC
1109606 TGCTGAGTCAA
1 TGCTGAGTCAA
1109617 AGGGGCCGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (24 bp):
TGCTGAGTCAAGGGCAGCAATTGC
Found at i:1114265 original size:13 final size:13
Alignment explanation
Indices: 1114240--1114285 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
1114230 AATCATATCA
1114240 ATTTTT-TATTAT
1 ATTTTTATATTAT
*
1114252 ATTTTTATACTAT
1 ATTTTTATATTAT
*
1114265 A--TTCATATTAT
1 ATTTTTATATTAT
1114276 ATTTTTATAT
1 ATTTTTATAT
1114286 CGTATTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
11 9 0.33
12 6 0.22
13 12 0.44
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTTTTATATTAT
Found at i:1124563 original size:54 final size:54
Alignment explanation
Indices: 1124505--1124699 Score: 185
Period size: 54 Copynumber: 3.6 Consensus size: 54
1124495 ATCCTCAATG
* * *
1124505 TCCAGCTGGGGCTTTGGATCATCATTCTCCAGCTGAGGCTTTGAACCCACACTC
1 TCCAGCTGGGGCTTGGGATCATCATTCTCCACCTCAGGCTTTGAACCCACACTC
** * * *
1124559 TCCAGCAAGGCCTTGGGGTCATCATTCTCCACCTCAGGCTTTGGACCCACACTC
1 TCCAGCTGGGGCTTGGGATCATCATTCTCCACCTCAGGCTTTGAACCCACACTC
** * * * * ** *
1124613 TCCAAAT-GGGCAGTGGGATCATCATTCCCCACCTCAGGCTTAGGATGCTCACTC
1 TCCAGCTGGGGC-TTGGGATCATCATTCTCCACCTCAGGCTTTGAACCCACACTC
* * * *
1124667 TCCACCTGGGGCTTTGGAACCTCATTCTCCACC
1 TCCAGCTGGGGCTTGGGATCATCATTCTCCACC
1124700 CGGGTATTTG
Statistics
Matches: 113, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
53 3 0.03
54 106 0.94
55 4 0.04
ACGTcount: A:0.19, C:0.34, G:0.21, T:0.26
Consensus pattern (54 bp):
TCCAGCTGGGGCTTGGGATCATCATTCTCCACCTCAGGCTTTGAACCCACACTC
Found at i:1124679 original size:27 final size:27
Alignment explanation
Indices: 1124468--1124734 Score: 158
Period size: 27 Copynumber: 9.9 Consensus size: 27
1124458 GAGCCTTTAA
* * *
1124468 ATCCTCATTCTCCAGCTGGGCCTTTGA
1 ATCCTCATTCTCCACCTGGGGCTTTGG
* * *
1124495 ATCCTCAATGTCCAGCTGGGGCTTTGG
1 ATCCTCATTCTCCACCTGGGGCTTTGG
* * * *
1124522 ATCATCATTCTCCAGCTGAGGCTTTGA
1 ATCCTCATTCTCCACCTGGGGCTTTGG
* * * * ** * *
1124549 ACCCACACTCTCCAGCAAGGCCTTGGG
1 ATCCTCATTCTCCACCTGGGGCTTTGG
* * **
1124576 GTCATCATTCTCCACCTCAGGCTTTGG
1 ATCCTCATTCTCCACCTGGGGCTTTGG
* * * ** * *
1124603 ACCCACACTCTCCAAAT-GGGCAGTGGG
1 ATCCTCATTCTCCACCTGGGGC-TTTGG
* * ** *
1124630 ATCATCATTCCCCACCTCAGGCTTAGG
1 ATCCTCATTCTCCACCTGGGGCTTTGG
* *
1124657 ATGCTCACTCTCCACCTGGGGCTTTGG
1 ATCCTCATTCTCCACCTGGGGCTTTGG
* * **
1124684 AACCTCATTCTCCACCCGGGTATTTGG
1 ATCCTCATTCTCCACCTGGGGCTTTGG
1124711 ATCCTCATTCTCCACCTGGGGCTT
1 ATCCTCATTCTCCACCTGGGGCTT
1124735 CTGATTGTCA
Statistics
Matches: 171, Mismatches: 67, Indels: 4
0.71 0.28 0.02
Matches are distributed among these distances:
26 3 0.02
27 165 0.96
28 3 0.02
ACGTcount: A:0.18, C:0.33, G:0.21, T:0.28
Consensus pattern (27 bp):
ATCCTCATTCTCCACCTGGGGCTTTGG
Found at i:1125998 original size:14 final size:14
Alignment explanation
Indices: 1125940--1126007 Score: 52
Period size: 14 Copynumber: 5.1 Consensus size: 14
1125930 ATTTGAGGAA
1125940 ATTTTTTATTTT-T
1 ATTTTTTATTTTCT
*
1125953 -TATTTTATTTTC-
1 ATTTTTTATTTTCT
*** *
1125965 ATTTTTTAGAATAT
1 ATTTTTTATTTTCT
*
1125979 AGTTTTTATTTTCT
1 ATTTTTTATTTTCT
*
1125993 ATTTTTTGTTTTCT
1 ATTTTTTATTTTCT
1126007 A
1 A
1126008 AAAATGTATT
Statistics
Matches: 39, Mismatches: 13, Indels: 5
0.68 0.23 0.09
Matches are distributed among these distances:
12 10 0.26
13 7 0.18
14 22 0.56
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (14 bp):
ATTTTTTATTTTCT
Found at i:1136981 original size:2 final size:2
Alignment explanation
Indices: 1136974--1137000 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1136964 AGCTTCTTCA
1136974 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1137001 TTTTGTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1138402 original size:44 final size:42
Alignment explanation
Indices: 1138357--1138437 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
1138347 TCTTACAATC
*
1138357 ATCAT-ATATATCATGTTTTTATTGTTTTCACATGGCTACCA
1 ATCATCATATATCATGTTTTCATTGTTTTCACATGGCTACCA
1138398 ATCATCATATATCATGTTTTCATTGTTTTCACATGGCTAC
1 ATCATCATATATCATGTTTTCATTGTTTTCACATGGCTAC
1138438 TTCATTCACC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 5 0.13
42 33 0.87
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.46
Consensus pattern (42 bp):
ATCATCATATATCATGTTTTCATTGTTTTCACATGGCTACCA
Found at i:1154868 original size:16 final size:17
Alignment explanation
Indices: 1154844--1154881 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
1154834 ATTTTTATTT
*
1154844 TATACAAATT-TAAAAA
1 TATAAAAATTATAAAAA
1154860 TATAAAAATTAATAAAAA
1 TATAAAAATT-ATAAAAA
1154878 TATA
1 TATA
1154882 TAATTTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
18 10 0.53
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
TATAAAAATTATAAAAA
Found at i:1158695 original size:12 final size:12
Alignment explanation
Indices: 1158668--1158704 Score: 56
Period size: 12 Copynumber: 2.9 Consensus size: 12
1158658 CAAGCATTAC
1158668 AGAAAAGGAAAAAA
1 AGAAAAGG--AAAA
1158682 AGAAAAGGAAAA
1 AGAAAAGGAAAA
1158694 AGAAAAGGAAA
1 AGAAAAGGAAA
1158705 CAAGCTCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 15 0.65
14 8 0.35
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAAGGAAAA
Found at i:1163723 original size:17 final size:17
Alignment explanation
Indices: 1163700--1163736 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
1163690 TTTTTCCATT
*
1163700 TCTTTTTTGTTTTTTAAG
1 TCTTTTTT-TTTTTCAAG
1163718 TCTTTTTTTTTTTCAAG
1 TCTTTTTTTTTTTCAAG
1163735 TC
1 TC
1163737 ATTCATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.11, C:0.11, G:0.08, T:0.70
Consensus pattern (17 bp):
TCTTTTTTTTTTTCAAG
Found at i:1168479 original size:2 final size:2
Alignment explanation
Indices: 1168462--1168496 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1168452 TAAATTGTGT
*
1168462 TA TA TA TT TA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1168497 AAGTAGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1176279 original size:2 final size:2
Alignment explanation
Indices: 1176262--1176303 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
1176252 GTCTTGGTCA
* *
1176262 AT AT AT AA AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1176304 CTCATTCGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1201479 original size:14 final size:14
Alignment explanation
Indices: 1201454--1201491 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
1201444 AATTTTTAAT
1201454 ATAAATATAAAATTAA
1 ATAAATA-AAAA-TAA
1201470 ATAAATAAAAATAA
1 ATAAATAAAAATAA
1201484 ATAAATAA
1 ATAAATAA
1201492 TTAAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 11 0.50
15 4 0.18
16 7 0.32
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAA
Found at i:1217279 original size:25 final size:23
Alignment explanation
Indices: 1217226--1217279 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
1217216 GTATCATATA
*
1217226 TAAATTTTTTTTAAATATGTATG
1 TAAATTTTTTTTAAAAATGTATG
*
1217249 TTAATTTTTTTTACAAAAAT-TATCG
1 TAAATTTTTTTT--AAAAATGTAT-G
1217274 TAAATT
1 TAAATT
1217280 GAAAATAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 11 0.44
24 3 0.12
25 11 0.44
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (23 bp):
TAAATTTTTTTTAAAAATGTATG
Found at i:1222569 original size:100 final size:101
Alignment explanation
Indices: 1222459--1222654 Score: 249
Period size: 100 Copynumber: 2.0 Consensus size: 101
1222449 AAATATATCT
* *
1222459 AATTATTCCATCATTTGGATCAAATTAAAAATATTTTTTCTTTTTG-AATTTTT-AAATTTTTCA
1 AATTATTCCATAATTTGGATCAAATTAAAAATA-TTTTT-TTTCTGAAATTTTTAAAATTTTTCA
1222522 CCATTTG-GTCCTACTTAGAAAATTT-TTTTTTATCTCTA
64 CCATTTGAG-CCTACTTAG-AAATTTATTTTTTATCTCTA
* * * **
1222560 AATT-TTCCATAATTTGGGTCAATTTATAAATATTTTTTTTCTGAAATTTTTAAAATTTTTCATT
1 AATTATTCCATAATTTGGATCAAATTAAAAATATTTTTTTTCTGAAATTTTTAAAATTTTTCACC
*
1222624 ATTTGAGCCTATTTAGAAATTTATTTTTTAT
66 ATTTGAGCCTACTTAGAAATTTATTTTTTAT
1222655 TATTTTTGGA
Statistics
Matches: 83, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
98 5 0.06
99 18 0.22
100 55 0.66
101 5 0.06
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (101 bp):
AATTATTCCATAATTTGGATCAAATTAAAAATATTTTTTTTCTGAAATTTTTAAAATTTTTCACC
ATTTGAGCCTACTTAGAAATTTATTTTTTATCTCTA
Found at i:1223087 original size:171 final size:172
Alignment explanation
Indices: 1222681--1223152 Score: 838
Period size: 171 Copynumber: 2.8 Consensus size: 172
1222671 ATAATATGAA
* * * * *
1222681 AATTATTTTTATTGAAATTTCATCTAAATTATTCTACAATTTGGAACAAATTTAGAGAAAATTTC
1 AATTACTTTTATTGAAATTTCATCTAAATTATTCCACAATTTGGAATAAATTTGGATAAAATTTC
* * *
1222746 TCACCTAGAGATTTCTTAGGAATTTACCATTTGAAATTTTTAGGAATCTCATCCTTGGATAATTA
66 TCACCTAAAGATTTCTTAGGAATTTACCATTTGAAATTTCTAAGAATCTCATCCTTGGATAATTA
1222811 TCAAATATTTTCAAACCAAAATTTTTATTTGAAAAAGAATAC
131 TCAAATATTTTCAAACCAAAATTTTTATTTGAAAAAGAATAC
*
1222853 AATTACTTTTATTGAAATTTCATCTAAATTATTCCACCATTTGGAATAAATTTGGATAAAATTTC
1 AATTACTTTTATTGAAATTTCATCTAAATTATTCCACAATTTGGAATAAATTTGGATAAAATTTC
1222918 TCACCTAAAGATTTCTTAGGAATTTACCATTTGAAATTTCTAAGAATCTCATCCTTGGATAATTA
66 TCACCTAAAGATTTCTTAGGAATTTACCATTTGAAATTTCTAAGAATCTCATCCTTGGATAATTA
*
1222983 TCAAATATTTTC-AATCAAAATTTTTATTTGAAAAAGAATAC
131 TCAAATATTTTCAAACCAAAATTTTTATTTGAAAAAGAATAC
*
1223024 AATTACTTTTATTGAAATTTCATCTAAATTATTCCACAATTTGGGATAAATTTGGATAAAATTTC
1 AATTACTTTTATTGAAATTTCATCTAAATTATTCCACAATTTGGAATAAATTTGGATAAAATTTC
1223089 TCACCTAAAGATTTCTTAGGAATTTACCATTTGAAATTTCTAAGAATCTCATCCTTGGATAATT
66 TCACCTAAAGATTTCTTAGGAATTTACCATTTGAAATTTCTAAGAATCTCATCCTTGGATAATT
1223153 TGTATTTAAT
Statistics
Matches: 288, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
171 155 0.54
172 133 0.46
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.40
Consensus pattern (172 bp):
AATTACTTTTATTGAAATTTCATCTAAATTATTCCACAATTTGGAATAAATTTGGATAAAATTTC
TCACCTAAAGATTTCTTAGGAATTTACCATTTGAAATTTCTAAGAATCTCATCCTTGGATAATTA
TCAAATATTTTCAAACCAAAATTTTTATTTGAAAAAGAATAC
Found at i:1223352 original size:182 final size:182
Alignment explanation
Indices: 1223024--1223366 Score: 466
Period size: 182 Copynumber: 1.9 Consensus size: 182
1223014 AAAAGAATAC
* *
1223024 AATTACTTTTATTGAAATTTCATCTAAATTATTCCACAATTTGGGATAAATTTGGATAAAATTTC
1 AATTACTTTTATTGAAATTTCATCTAAATTATTCCACAATTTGAGATAAATTTAGATAAAATTTC
* * * *
1223089 TCACCTAAAGATTTCTTAGGAATTTACCATTTGAAATTTCTAAGAATCTCATCCTTGGATAATTT
66 TCACCTAAAGATTTCTTAGAAATTTACCATTTGAAATTTCTAAGAATCTCATCATTGAATAATTA
*
1223154 GTATTTAATTTCAAAATTTAATTTT-TATTTTTTTGGTTTGAGAATAAATATA
131 ATATTTAATTTCAAAATTT-ATTTTATATTTTTTTGGTTTGAGAATAAATATA
* * * *
1223206 AATTA-TTGTTATTGAAACTTT-ATTTAAATTATTTCACCATTTGAGATAAATTTAGATAGAATT
1 AATTACTT-TTATTGAAA-TTTCATCTAAATTATTCCACAATTTGAGATAAATTTAGATAAAATT
*
1223269 TCTCACCT-AAGAATTT-TATAGAAATTTACCATTTGAAATTTCTATA-AATTTCATCATTGAAT
64 TCTCACCTAAAG-ATTTCT-TAGAAATTTACCATTTGAAATTTCTA-AGAATCTCATCATTGAAT
1223331 AATTAATATTT-ATTCTCAAAATTTATTTTATATTTT
126 AATTAATATTTAATT-TCAAAATTTATTTTATATTTT
1223367 ATATTTTTTT
Statistics
Matches: 142, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
181 14 0.10
182 124 0.87
183 4 0.03
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (182 bp):
AATTACTTTTATTGAAATTTCATCTAAATTATTCCACAATTTGAGATAAATTTAGATAAAATTTC
TCACCTAAAGATTTCTTAGAAATTTACCATTTGAAATTTCTAAGAATCTCATCATTGAATAATTA
ATATTTAATTTCAAAATTTATTTTATATTTTTTTGGTTTGAGAATAAATATA
Found at i:1223431 original size:23 final size:23
Alignment explanation
Indices: 1223402--1223467 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 23
1223392 AAAGAAAAAG
1223402 AAAAAAAATACTAAGAAAA-AATT
1 AAAAAAAATACTAA-AAAATAATT
1223425 AATAAAAAATACTAAATAAAATAATT
1 AA-AAAAAATACT-AA-AAAATAATT
1223451 -AAAAAAA-ACTAAAAAAT
1 AAAAAAAATACTAAAAAAT
1223468 GGCTTGACTG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
21 5 0.13
22 2 0.05
23 5 0.13
24 16 0.41
25 7 0.18
26 4 0.10
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.20
Consensus pattern (23 bp):
AAAAAAAATACTAAAAAATAATT
Found at i:1223436 original size:24 final size:23
Alignment explanation
Indices: 1223404--1223466 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
1223394 AGAAAAAGAA
1223404 AAAAAATACTAAGAAAAAATTAA-T
1 AAAAAATACTAA-AAAAAA-TAATT
*
1223428 AAAAAATACTAAATAAAATAATT
1 AAAAAATACTAAAAAAAATAATT
*
1223451 AAAAAAAACTAAAAAA
1 AAAAAATACTAAAAAA
1223467 TGGCTTGACT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
22 3 0.09
23 20 0.57
24 12 0.34
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.19
Consensus pattern (23 bp):
AAAAAATACTAAAAAAAATAATT
Found at i:1223444 original size:14 final size:13
Alignment explanation
Indices: 1223404--1223445 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
1223394 AGAAAAAGAA
*
1223404 AAAAAATACTAAG
1 AAAAAATACTAAT
1223417 AAAAAAT--TAAT
1 AAAAAATACTAAT
1223428 AAAAAATACTAAAT
1 AAAAAATACT-AAT
1223442 AAAA
1 AAAA
1223446 TAATTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 10 0.40
13 8 0.32
14 7 0.28
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (13 bp):
AAAAAATACTAAT
Found at i:1223467 original size:26 final size:25
Alignment explanation
Indices: 1223417--1223467 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
1223407 AAATACTAAG
**
1223417 AAAAAATTAATAAAAAATACTAAAT
1 AAAAAATTAATAAAAAATAAAAAAT
1223442 AAAATAATTAA-AAAAAACTAAAAAAT
1 AAAA-AATTAATAAAAAA-TAAAAAAT
1223468 GGCTTGACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (25 bp):
AAAAAATTAATAAAAAATAAAAAAT
Found at i:1225463 original size:14 final size:14
Alignment explanation
Indices: 1225446--1225498 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
1225436 TCAAAACCTT
1225446 AACCCTAAAATCCA
1 AACCCTAAAATCCA
* * *
1225460 AACCTTGAAATTCAA
1 AACCCT-AAAATCCA
1225475 AACCCTAAAATCCA
1 AACCCTAAAATCCA
*
1225489 AACCCCAAAA
1 AACCCTAAAA
1225499 CTTTCAAAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.51, C:0.32, G:0.02, T:0.15
Consensus pattern (14 bp):
AACCCTAAAATCCA
Found at i:1225517 original size:22 final size:22
Alignment explanation
Indices: 1225492--1225535 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1225482 AAATCCAAAC
1225492 CCCAAAACTTTCAAAA-CCTAAA
1 CCCAAAA-TTTCAAAACCCTAAA
*
1225514 CCCAAAATTTTAAAACCCTAAA
1 CCCAAAATTTCAAAACCCTAAA
1225536 AACCAGAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (22 bp):
CCCAAAATTTCAAAACCCTAAA
Found at i:1226154 original size:11 final size:11
Alignment explanation
Indices: 1226138--1226163 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1226128 TTATGATGTT
1226138 ATAAAATAAAA
1 ATAAAATAAAA
1226149 ATAAAATAAAA
1 ATAAAATAAAA
1226160 ATAA
1 ATAA
1226164 CATTTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:1228109 original size:20 final size:19
Alignment explanation
Indices: 1228086--1228139 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
1228076 TCCGACGAAA
*
1228086 TTTTTCAATGATATTTAAG
1 TTTTTCAACGATATTTAAG
*
1228105 TTTTTCGACGATATTTAAG
1 TTTTTCAACGATATTTAAG
*
1228124 TTTTTCGACGAGTATT
1 TTTTTCAACGA-TATT
1228140 CTAGCCAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 28 0.88
20 4 0.12
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (19 bp):
TTTTTCAACGATATTTAAG
Found at i:1230497 original size:19 final size:19
Alignment explanation
Indices: 1230464--1230544 Score: 74
Period size: 19 Copynumber: 4.2 Consensus size: 19
1230454 AGATATTAAA
*
1230464 TTTTATATA-TTTTTCTTT
1 TTTTATACATTTTTTCTTT
1230482 TTTTATACATTTTTTCGTTAT
1 TTTTATACATTTTTTC-TT-T
* **
1230503 TTATTTTTTATTTTTTCTTT
1 TT-TTATACATTTTTTCTTT
* *
1230523 TTTTAAACACTTTTTCTTT
1 TTTTATACATTTTTTCTTT
1230542 TTT
1 TTT
1230545 AAAAAAACAT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
18 8 0.16
19 21 0.42
20 5 0.10
21 5 0.10
22 11 0.22
ACGTcount: A:0.16, C:0.09, G:0.01, T:0.74
Consensus pattern (19 bp):
TTTTATACATTTTTTCTTT
Found at i:1231446 original size:14 final size:14
Alignment explanation
Indices: 1231405--1231446 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
1231395 GATTGAGTAG
* *
1231405 AAAAGGAAACAAAA
1 AAAAAGAAATAAAA
1231419 AAAAAGAAAT-AAA
1 AAAAAGAAATAAAA
*
1231432 AAATAGAAATAAAA
1 AAAAAGAAATAAAA
1231446 A
1 A
1231447 TATAATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.81, C:0.02, G:0.10, T:0.07
Consensus pattern (14 bp):
AAAAAGAAATAAAA
Found at i:1231448 original size:12 final size:13
Alignment explanation
Indices: 1231416--1231446 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1231406 AAAGGAAACA
*
1231416 AAAAAAAAGAAAT
1 AAAAAATAGAAAT
1231429 AAAAAATAGAAAT
1 AAAAAATAGAAAT
1231442 AAAAA
1 AAAAA
1231447 TATAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (13 bp):
AAAAAATAGAAAT
Found at i:1231456 original size:3 final size:3
Alignment explanation
Indices: 1231439--1231552 Score: 151
Period size: 3 Copynumber: 38.3 Consensus size: 3
1231429 AAAAAATAGA
* * * * *
1231439 AAT AAA AAT -AT AAT AAT AAT AAT AAT AGT AAT AGT AAG GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1231486 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
1231534 AA- AAGT AGT AAT AAT AAT A
1 AAT AA-T AAT AAT AAT AAT A
1231553 TTATTATTAA
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
2 4 0.04
3 91 0.95
4 1 0.01
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1232128 original size:89 final size:90
Alignment explanation
Indices: 1232025--1232630 Score: 523
Period size: 89 Copynumber: 6.8 Consensus size: 90
1232015 AGGATCAAAC
* * * * *
1232025 CACGAGTCAAAAATAAAATGATCAGGATCGAGTCAAGGCT-GAAAATAAATGATCGGGATAG-AA
1 CACGAGTC-AAAATAAAGTGACCAAGATCGAGTCGAGG-TAAAAAATAAATGATCGGGATAGAAA
* * *
1232088 CCACGAATCATGTGACCGGGATGAAAC
64 CCACGAATCATGTGATCGAGATGAAAT
* * * * * * ** *
1232115 CACAAGTCGAAATAAAGTGACCACGATCAAGTTGAGATAAAAAATAAATGATCAAGATA-AAATC
1 CACGAGTCAAAATAAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGATCGGGATAGAAACC
* *
1232179 ACAAATCATGTGATCGAGATGAAAC
66 ACGAATCATGTGATCGAGATGAAAT
* * * * * * **
1232204 CATGAGTCAAAACAAAGTAACCAAGATCGAGTCAAAGTCAAAAATAAATGATTAGGAT-GAAACC
1 CACGAGTCAAAATAAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGATCGGGATAGAAACC
* *
1232268 ATG-ATGCATGTAATCGAGATGAAAT
66 ACGAAT-CATGTGATCGAGATGAAAT
* * * * *
1232293 CACGAGTTAAAATAAAGTAACCAAGATCGGGTTGAGGTAAAAAATAAATGATCGAGAT-GAAACC
1 CACGAGTCAAAATAAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGATCGGGATAGAAACC
1232357 ACGAATCATGTGATCG-GATGAAAT
66 ACGAATCATGTGATCGAGATGAAAT
* * ** * * ** * *
1232381 CACAAGTCAAAATAACGCAACCAA-AACTGAGTCGAGATTGAAAATAAATGATCAGGA-CGAAAC
1 CACGAGTCAAAATAAAGTGACCAAGATC-GAGTCGAGGTAAAAAATAAATGATCGGGATAGAAAC
** * * *
1232444 CATAAATCATGTGACCGAAACGAAAT
65 CACGAATCATGTGATCGAGATGAAAT
* * * * * *
1232470 CACAAGTTAAAATAAAGTGACCAGGATTGAGTCGAGGTCAAAAATAGATGATCGGGATA-AAACC
1 CACGAGTCAAAATAAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGATCGGGATAGAAACC
* **
1232534 AAGAATCATGTGATCGAGAAAAAAT
66 ACGAATCATGTGATCGAGATGAAAT
** * * *
1232559 CACGAGTCAAAATAAAACGACCAAGATTGAGTCGAGGTTAAAAATAAATGATCGGGATA-AAATC
1 CACGAGTCAAAATAAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGATCGGGATAGAAACC
*
1232623 ACAAATCA
66 ACGAATCA
1232631 CAAGAAATGG
Statistics
Matches: 412, Mismatches: 94, Indels: 21
0.78 0.18 0.04
Matches are distributed among these distances:
87 2 0.00
88 72 0.17
89 328 0.80
90 10 0.02
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (90 bp):
CACGAGTCAAAATAAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGATCGGGATAGAAACC
ACGAATCATGTGATCGAGATGAAAT
Found at i:1232512 original size:266 final size:266
Alignment explanation
Indices: 1232025--1232619 Score: 631
Period size: 266 Copynumber: 2.2 Consensus size: 266
1232015 AGGATCAAAC
** * * * *
1232025 CACGAGTCAAAAATAAAATGATCAGGATCGAGTCAAGGCT-GAAAATAAATGATCGGGATAGAAC
1 CACGAGTC-AAAATAAAACAACCAAGATCGAGTCGAGG-TAAAAAATAAATGATCGGGATA-AAC
* ** ** *
1232089 CACGAATCATGTGACCGGGATGAAACCACAAGTCGAAATAAAGTGACCACGATCAAGTTGAGATA
63 CACGAATCATGTGACCGGGATGAAACCACAAGTCAAAATAAAGCAACCAAAATCAAGTCGAGATA
* * * * * **
1232154 AAAAATAAATGATCAAGATAAAATCACAAATCATGTGATCGAGATGAAACCATGAGTCAAAACAA
128 AAAAATAAATGATCAAGACAAAACCACAAATCATGTGACCGAAACGAAACCACAAGTCAAAACAA
* * *
1232219 AGTAACCAAGATCGAGTCAAAGTCAAAAATAAATGATTAGGATGAAACCATG-ATGCATGTAATC
193 AGTAACCAAGATCGAGTCAAAGTCAAAAATAAATGATCAGGATAAAACCAAGAAT-CATGTAATC
**
1232283 GAGATGAAAT
257 GAGAAAAAAT
* ** * * *
1232293 CACGAGTTAAAATAAAGTAACCAAGATCGGGTTGAGGTAAAAAATAAATGATCGAGATGAAACCA
1 CACGAGTCAAAATAAAACAACCAAGATCGAGTCGAGGTAAAAAATAAATGATCGGGAT-AAACCA
* * * * **
1232358 CGAATCATGTGATC-GGATGAAATCACAAGTCAAAATAACGCAACCAAAA-CTGAGTCGAGATTG
65 CGAATCATGTGACCGGGATGAAACCACAAGTCAAAATAAAGCAACCAAAATC-AAGTCGAGATAA
* * * * * *
1232421 AAAATAAATGATCAGGACGAAACCATAAATCATGTGACCGAAACGAAATCACAAGTTAAAATAAA
129 AAAATAAATGATCAAGACAAAACCACAAATCATGTGACCGAAACGAAACCACAAGTCAAAACAAA
* * * * * * * *
1232486 GTGACCAGGATTGAGTCGAGGTCAAAAATAGATGATCGGGATAAAACCAAGAATCATGTGATCGA
194 GTAACCAAGATCGAGTCAAAGTCAAAAATAAATGATCAGGATAAAACCAAGAATCATGTAATCGA
1232551 GAAAAAAT
259 GAAAAAAT
* * *
1232559 CACGAGTCAAAATAAAACGACCAAGATTGAGTCGAGGTTAAAAATAAATGATCGGGATAAA
1 CACGAGTCAAAATAAAACAACCAAGATCGAGTCGAGGTAAAAAATAAATGATCGGGATAAA
1232620 ATCACAAATC
Statistics
Matches: 266, Mismatches: 57, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
265 4 0.02
266 195 0.73
267 59 0.22
268 8 0.03
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (266 bp):
CACGAGTCAAAATAAAACAACCAAGATCGAGTCGAGGTAAAAAATAAATGATCGGGATAAACCAC
GAATCATGTGACCGGGATGAAACCACAAGTCAAAATAAAGCAACCAAAATCAAGTCGAGATAAAA
AATAAATGATCAAGACAAAACCACAAATCATGTGACCGAAACGAAACCACAAGTCAAAACAAAGT
AACCAAGATCGAGTCAAAGTCAAAAATAAATGATCAGGATAAAACCAAGAATCATGTAATCGAGA
AAAAAT
Found at i:1242677 original size:8 final size:8
Alignment explanation
Indices: 1242664--1242741 Score: 50
Period size: 8 Copynumber: 9.2 Consensus size: 8
1242654 AATTTTATAC
1242664 TTCTTTTT
1 TTCTTTTT
1242672 TTCTTTTTT
1 TTC-TTTTT
1242681 TTCTTTTTT
1 TTC-TTTTT
*
1242690 TATACGTTTT
1 T-T-CTTTTT
* *
1242700 TCCTTTAT
1 TTCTTTTT
*
1242708 TTATTTTT
1 TTCTTTTT
* *
1242716 TTATTTGCT
1 TTCTTT-TT
1242725 TT-TTTTT
1 TTCTTTTT
1242732 TTCTTTTT
1 TTCTTTTT
1242740 TT
1 TT
1242742 GAACCTTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
7 3 0.05
8 28 0.50
9 18 0.32
10 6 0.11
11 1 0.02
ACGTcount: A:0.06, C:0.10, G:0.03, T:0.81
Consensus pattern (8 bp):
TTCTTTTT
Found at i:1245853 original size:16 final size:16
Alignment explanation
Indices: 1245831--1245869 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1245821 TTTAATGCTC
*
1245831 AAAATTTAAATCTTAA
1 AAAATTTAAATATTAA
*
1245847 CAAATTTAAATATTAA
1 AAAATTTAAATATTAA
1245863 AAAATTT
1 AAAATTT
1245870 TCGATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTTAAATATTAA
Found at i:1249061 original size:23 final size:24
Alignment explanation
Indices: 1249006--1249070 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
1248996 TCATGTCATA
* *
1249006 TAATCATATTATTAGATAAATTAAT
1 TAATC-TATTATAAAATAAATTAAT
*
1249031 T-ATTTATTATAAAAT-AATTAAT
1 TAATCTATTATAAAATAAATTAAT
1249053 TAATCTA-T-TAAAATAAAT
1 TAATCTATTATAAAATAAAT
1249071 ACTTATCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 6 0.18
22 12 0.35
23 13 0.38
24 2 0.06
25 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (24 bp):
TAATCTATTATAAAATAAATTAAT
Found at i:1249362 original size:2 final size:2
Alignment explanation
Indices: 1249273--1249345 Score: 57
Period size: 2 Copynumber: 37.5 Consensus size: 2
1249263 GCTGCTCTTT
* *
1249273 TA TA TA TA TA TA TA TA TA TA TA GTA TT TA GTA T- TA TT TGA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA T-A TA
*
1249315 TA TA TA T- TA T- TA -A TA TA TA AA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1249346 TGTCAGTAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
1 5 0.09
2 47 0.82
3 5 0.09
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1249637 original size:16 final size:17
Alignment explanation
Indices: 1249602--1249639 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1249592 ACAAAAAGAA
1249602 GAAAACTAATAAATTAT
1 GAAAACTAATAAATTAT
* *
1249619 GAAAATTAATATA-TAT
1 GAAAACTAATAAATTAT
1249635 GAAAA
1 GAAAA
1249640 AAATAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (17 bp):
GAAAACTAATAAATTAT
Found at i:1252232 original size:16 final size:17
Alignment explanation
Indices: 1252200--1252232 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1252190 AGGAAAAAGA
*
1252200 ATTTATATATAATATTT
1 ATTTATATATAAAATTT
1252217 ATTTAT-TATAAAATTT
1 ATTTATATATAAAATTT
1252233 TAATTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTATATATAAAATTT
Found at i:1252870 original size:24 final size:24
Alignment explanation
Indices: 1252824--1252874 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
1252814 TAACGATTTA
* *
1252824 AAATTTAATATAATTATATAATAT
1 AAATTTAATATAATAATAAAATAT
1252848 AAATTTAATATGAA-AATAAAATAT
1 AAATTTAATAT-AATAATAAAATAT
1252872 AAA
1 AAA
1252875 AATAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATTTAATATAATAATAAAATAT
Found at i:1252970 original size:31 final size:31
Alignment explanation
Indices: 1252916--1253007 Score: 97
Period size: 31 Copynumber: 3.1 Consensus size: 31
1252906 ATATATAAAT
1252916 TTAATA-AAATTA-AATATAT--TTTTTATA
1 TTAATATAAATTATAATATATAATTTTTATA
1252943 TTAATATAAATTATAATATATAATTTTTATA
1 TTAATATAAATTATAATATATAATTTTTATA
* *
1252974 -TAAAATACAA-TATAAATATATAAATTTTAATA
1 TTAATATA-AATTAT-AATATAT-AATTTTTATA
1253006 TT
1 TT
1253008 TTATATAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
27 6 0.11
28 6 0.11
29 7 0.13
30 9 0.16
31 17 0.31
32 9 0.16
33 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (31 bp):
TTAATATAAATTATAATATATAATTTTTATA
Found at i:1253038 original size:40 final size:38
Alignment explanation
Indices: 1252945--1253025 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 38
1252935 TTTTTATATT
*
1252945 AATATAAAT-TAT-AATATATAATTTTTATATAAAATAC
1 AATATAAATATATAAAT-TTTAATTTTTATATAAAATAC
*
1252982 AATATAAATATATAAATTTTAATATTTTATATAATATA-
1 AATATAAATATATAAATTTTAAT-TTTTATATAAAATAC
1253020 AATATA
1 AATATA
1253026 CAAATAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
37 9 0.23
38 14 0.36
39 16 0.41
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (38 bp):
AATATAAATATATAAATTTTAATTTTTATATAAAATAC
Found at i:1262206 original size:22 final size:20
Alignment explanation
Indices: 1262161--1262209 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 20
1262151 TAAAAAAAAA
1262161 TATTTTTTAAATTTTTTGATT
1 TATTTTTTAAATTTTTTGA-T
1262182 TATTTTTTAATATTATTTTTG-T
1 TATTTTTTAA-A-T-TTTTTGAT
1262204 TATTTT
1 TATTTT
1262210 AAATTTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 10 0.40
22 8 0.32
23 1 0.04
24 6 0.24
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (20 bp):
TATTTTTTAAATTTTTTGAT
Found at i:1262394 original size:3 final size:3
Alignment explanation
Indices: 1262386--1262439 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
1262376 AAAAAATGAT
1262386 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1262434 CAA TAA
1 TAA TAA
1262440 AATGGTTTCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1262509 original size:24 final size:21
Alignment explanation
Indices: 1262481--1262532 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
1262471 AAAAAAAAGG
1262481 AAAAATAACCCAAAAATAATTAAT
1 AAAAATAA--CAAAAA-AATTAAT
* *
1262505 AAAAATAATAAAAAAATTAGT
1 AAAAATAACAAAAAAATTAAT
1262526 AAAAATA
1 AAAAATA
1262533 TAAGAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 13 0.50
22 5 0.19
24 8 0.31
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAAATAACAAAAAAATTAAT
Found at i:1262510 original size:13 final size:11
Alignment explanation
Indices: 1262492--1262544 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
1262482 AAAATAACCC
1262492 AAAAATAATTAA
1 AAAAATAA-TAA
1262504 TAAAAATAATAA
1 -AAAAATAATAA
*
1262516 AAAAATTAGTAA
1 AAAAA-TAATAA
* *
1262528 AAATATAAGAA
1 AAAAATAATAA
1262539 AAAAAT
1 AAAAAT
1262545 TTTATCCGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
11 14 0.41
12 12 0.35
13 8 0.24
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:1262522 original size:21 final size:20
Alignment explanation
Indices: 1262492--1262541 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
1262482 AAAATAACCC
1262492 AAAAATAATTAATAAAAATAAT
1 AAAAA-AATTAATAAAAAT-AT
*
1262514 AAAAAAATTAGTAAAAATAT
1 AAAAAAATTAATAAAAATAT
1262534 AAGAAAAA
1 AA-AAAAA
1262542 AATTTTATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 17 0.65
22 5 0.19
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (20 bp):
AAAAAAATTAATAAAAATAT
Found at i:1262542 original size:23 final size:21
Alignment explanation
Indices: 1262492--1262545 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
1262482 AAAATAACCC
*
1262492 AAAAATAATTAATAAAAATAAT
1 AAAAA-AATTAATAAAAATAAG
*
1262514 AAAAAAATTAGTAAAAATATAAG
1 AAAAAAATTAAT-AAAA-ATAAG
1262537 AAAAAAATT
1 AAAAAAATT
1262546 TTATCCGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 6 0.21
22 9 0.32
23 13 0.46
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (21 bp):
AAAAAAATTAATAAAAATAAG
Found at i:1265263 original size:14 final size:15
Alignment explanation
Indices: 1265246--1265276 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1265236 TTATCTACAT
1265246 TAAATAT-TATTTTA
1 TAAATATCTATTTTA
1265260 TAAATATCTATTTTA
1 TAAATATCTATTTTA
1265275 TA
1 TA
1265277 CTGAACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TAAATATCTATTTTA
Found at i:1272862 original size:19 final size:19
Alignment explanation
Indices: 1272838--1272874 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1272828 TTTTATTTTA
*
1272838 TAAAAATTTAAAATATATG
1 TAAAAATTAAAAATATATG
1272857 TAAAAATTAAAAATATAT
1 TAAAAATTAAAAATATAT
1272875 ATAATTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
TAAAAATTAAAAATATATG
Found at i:1274985 original size:13 final size:13
Alignment explanation
Indices: 1274959--1275007 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
1274949 GCTTTTAAAT
* *
1274959 TTTTAATTTTTTA
1 TTTTAATATATTA
*
1274972 TTTTTATATATTA
1 TTTTAATATATTA
**
1274985 TTTTAATATAAAA
1 TTTTAATATATTA
1274998 TTTTAATATA
1 TTTTAATATA
1275008 ATTTGATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTAATATATTA
Found at i:1275044 original size:24 final size:23
Alignment explanation
Indices: 1274973--1275044 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
1274963 AATTTTTTAT
1274973 TTTTATATATTATTTTAATATAAAA
1 TTTTA-ATATTATTTT-ATATAAAA
* *
1274998 TTTTAATATAATTTGATATAAAA
1 TTTTAATATTATTTTATATAAAA
* * *
1275021 TTATTATTTTTATTTTATAAAAAA
1 TT-TTAATATTATTTTATATAAAA
1275045 ATTAAAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
23 10 0.26
24 24 0.62
25 5 0.13
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (23 bp):
TTTTAATATTATTTTATATAAAA
Found at i:1275062 original size:18 final size:18
Alignment explanation
Indices: 1275036--1275078 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
1275026 ATTTTTATTT
* *
1275036 TATAAAAAAATTAAAATA
1 TATATAAAAATAAAAATA
1275054 TATATAAAAATAAAAATA
1 TATATAAAAATAAAAATA
1275072 TATATAA
1 TATATAA
1275079 TTTAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
TATATAAAAATAAAAATA
Found at i:1275971 original size:35 final size:35
Alignment explanation
Indices: 1275930--1275998 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
1275920 ATTGAAATAC
*
1275930 TTATAAACTTTGATTTGAAAAAATAAATTATAAAT
1 TTATAAACTTTGATTTGAAAAAATAAAGTATAAAT
*
1275965 TTATAAACTTTGATTTTAAAAAATAAAGTATAAA
1 TTATAAACTTTGATTTGAAAAAATAAAGTATAAA
1275999 AAAAGTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (35 bp):
TTATAAACTTTGATTTGAAAAAATAAAGTATAAAT
Found at i:1277462 original size:16 final size:16
Alignment explanation
Indices: 1277441--1277471 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1277431 CCCGATAAAT
1277441 TGATATAATATAAAAA
1 TGATATAATATAAAAA
*
1277457 TGATATAATTTAAAA
1 TGATATAATATAAAA
1277472 TTTTAATAAA
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:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
TGATATAATATAAAAA
Found at i:1278639 original size:13 final size:13
Alignment explanation
Indices: 1278618--1278648 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1278608 TTTTTCTTCC
*
1278618 TCAACTTCAAGGT
1 TCAAGTTCAAGGT
1278631 TCAAGTTCAAGGT
1 TCAAGTTCAAGGT
1278644 TCAAG
1 TCAAG
1278649 CAGCAGCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (13 bp):
TCAAGTTCAAGGT
Found at i:1278947 original size:2 final size:2
Alignment explanation
Indices: 1278942--1278971 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1278932 TGTGTGTGTG
*
1278942 TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1278972 GTATTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1280467 original size:4 final size:4
Alignment explanation
Indices: 1280431--1280521 Score: 57
Period size: 4 Copynumber: 22.8 Consensus size: 4
1280421 ATATTTTGTA
* *
1280431 ATTT -TTT ATTT -TTT ATTT -TTC ATTT ACTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* * *
1280476 TTCTT CTTT -TTA AGTTTT ATTT ATTT A-TT ATTTT ATTTT ATTT ATT
1 AT-TT ATTT ATTT A--TTT ATTT ATTT ATTT A-TTT A-TTT ATTT ATT
1280522 CTCAAGTTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
3 13 0.19
4 43 0.61
5 11 0.16
6 3 0.04
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:1280467 original size:12 final size:11
Alignment explanation
Indices: 1280431--1280521 Score: 50
Period size: 11 Copynumber: 8.3 Consensus size: 11
1280421 ATATTTTGTA
*
1280431 ATTTTTTATTT
1 ATTTATTATTT
1280442 -TTTATT-TTT
1 ATTTATTATTT
1280451 CATTTACTTATTT
1 -ATTTA-TTATTT
1280464 ATTTATTTATTT
1 ATTTA-TTATTT
* *
1280476 TTCTTCTT-TTT
1 AT-TTATTATTT
*
1280487 AAGTT-TTATTT
1 -ATTTATTATTT
1280498 ATTTATTATTT
1 ATTTATTATTT
1280509 -TATT-TTATTT
1 AT-TTATTATTT
1280519 ATT
1 ATT
1280522 CTCAAGTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 21
0.69 0.08 0.23
Matches are distributed among these distances:
9 3 0.05
10 18 0.29
11 21 0.33
12 16 0.25
13 5 0.08
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (11 bp):
ATTTATTATTT
Found at i:1280517 original size:17 final size:16
Alignment explanation
Indices: 1280458--1280521 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 16
1280448 TTTCATTTAC
1280458 TTATTTATTTATTTATT
1 TTATTTATTTA-TTATT
*
1280475 TT-TCTTCTTT-TTAAGTT
1 TTAT-TTATTTATT-A-TT
1280492 TTATTTATTTATTATT
1 TTATTTATTTATTATT
1280508 TTATTTTATTTATT
1 TTA-TTTATTTATT
1280522 CTCAAGTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
15 2 0.05
16 7 0.18
17 27 0.69
18 3 0.08
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (16 bp):
TTATTTATTTATTATT
Found at i:1280529 original size:38 final size:38
Alignment explanation
Indices: 1280453--1280531 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
1280443 TTATTTTTCA
* * *
1280453 TTTACTTATTTATTTATTTATTTTTCTTCTTTTTAAGT
1 TTTACTTATTTATTTATTTATTTTTCTTATTCTCAAGT
*
1280491 TTTATTTATTTA-TTATTTTATTTTAT-TTATTCTCAAGT
1 TTTACTTATTTATTTA-TTTATTTT-TCTTATTCTCAAGT
1280529 TTT
1 TTT
1280532 TCAAGTGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
37 3 0.09
38 31 0.89
39 1 0.03
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.71
Consensus pattern (38 bp):
TTTACTTATTTATTTATTTATTTTTCTTATTCTCAAGT
Found at i:1280566 original size:13 final size:13
Alignment explanation
Indices: 1280548--1280574 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1280538 GATAACGATG
1280548 ATAATAAAAAATA
1 ATAATAAAAAATA
1280561 ATAATAAAAAATA
1 ATAATAAAAAATA
1280574 A
1 A
1280575 AATGAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAATAAAAAATA
Found at i:1281482 original size:59 final size:60
Alignment explanation
Indices: 1281428--1281722 Score: 407
Period size: 61 Copynumber: 4.9 Consensus size: 60
1281418 TAATTTTTTA
1281428 AAAATAAAATTTCAAAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAATTTCAAAAAAAA-ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* ** * * * *
1281489 AAAATCAAATTT-TTAAAAAAATATTTTTAAGAAAAAGTTAAAAATATAAATTTTTCTTG
1 AAAATAAAATTTCAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * * *
1281548 AAAATCAAATTT-AAAAAATAATGTTTTTAAGG-AAAGTTGAAAATATCAATTTTTCTTG
1 AAAATAAAATTTCAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
*
1281606 AAAATAAAATTTTCAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTG
1 AAAATAAAA-TTTCAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * *
1281667 AAAATAAAATTTTCAAAAAAATATATTTTTAAGAAAAATTTGAAAGTATCAATTTT
1 AAAATAAAA-TTTCAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
1281723 CGTTGAATAA
Statistics
Matches: 208, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
58 32 0.15
59 65 0.31
60 24 0.12
61 87 0.42
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (60 bp):
AAAATAAAATTTCAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:1285653 original size:8 final size:8
Alignment explanation
Indices: 1285610--1285726 Score: 93
Period size: 7 Copynumber: 14.6 Consensus size: 8
1285600 AGAGAAAAAT
*
1285610 AAAAATAA
1 AAAAATGA
*
1285618 AAAAATAAA
1 AAAAAT-GA
*
1285627 AAAAAGGA
1 AAAAATGA
1285635 AAAATGGATGA
1 AAAA---ATGA
1285646 AAAAATGAA
1 AAAAATG-A
1285655 AAAAATG-
1 AAAAATGA
1285662 AAAAATG-
1 AAAAATGA
1285669 AAAAATG-
1 AAAAATGA
1285676 AAAAATG-
1 AAAAATGA
1285683 AAAAATG-
1 AAAAATGA
1285690 AAAAATG-
1 AAAAATGA
1285697 AAAAATGA
1 AAAAATGA
*
1285705 AAGAAAAGA
1 AA-AAATGA
*
1285714 AAAAAAGA
1 AAAAATGA
1285722 AAAAA
1 AAAAA
1285727 AATGAAAGAA
Statistics
Matches: 98, Mismatches: 4, Indels: 14
0.84 0.03 0.12
Matches are distributed among these distances:
7 42 0.43
8 27 0.28
9 22 0.22
11 7 0.07
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (8 bp):
AAAAATGA
Found at i:1285656 original size:7 final size:7
Alignment explanation
Indices: 1285655--1285706 Score: 104
Period size: 7 Copynumber: 7.4 Consensus size: 7
1285645 AAAAAATGAA
1285655 AAAAATG
1 AAAAATG
1285662 AAAAATG
1 AAAAATG
1285669 AAAAATG
1 AAAAATG
1285676 AAAAATG
1 AAAAATG
1285683 AAAAATG
1 AAAAATG
1285690 AAAAATG
1 AAAAATG
1285697 AAAAATG
1 AAAAATG
1285704 AAA
1 AAA
1285707 GAAAAGAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:1285718 original size:7 final size:7
Alignment explanation
Indices: 1285644--1285748 Score: 70
Period size: 7 Copynumber: 14.3 Consensus size: 7
1285634 AAAAATGGAT
1285644 GAAAAAA
1 GAAAAAA
1285651 TGAAAAAAA
1 -G-AAAAAA
*
1285660 TGAAAAAT
1 -GAAAAAA
*
1285668 GAAAAAT
1 GAAAAAA
*
1285675 GAAAAAT
1 GAAAAAA
*
1285682 GAAAAAT
1 GAAAAAA
*
1285689 GAAAAAT
1 GAAAAAA
*
1285696 GAAAAAT
1 GAAAAAA
1285703 GAAAGAAAA
1 G-AA-AAAA
1285712 GAAAAAAA
1 G-AAAAAA
1285720 GAAAAAA
1 GAAAAAA
*
1285727 -AATGAAA
1 GAA-AAAA
1285734 GAAAAAA
1 GAAAAAA
1285741 -AAAAAA
1 GAAAAAA
1285747 GA
1 GA
1285749 CTCAAATTGA
Statistics
Matches: 87, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
6 8 0.09
7 49 0.56
8 15 0.17
9 15 0.17
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (7 bp):
GAAAAAA
Found at i:1285728 original size:17 final size:17
Alignment explanation
Indices: 1285697--1285748 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
1285687 ATGAAAAATG
* *
1285697 AAAAATGAAAGAAAAGA
1 AAAAAAGAAAAAAAAGA
1285714 AAAAAAGAAAAAAAATGA
1 AAAAAAGAAAAAAAA-GA
1285732 AAGAAAA-AAAAAAAAGA
1 AA-AAAAGAAAAAAAAGA
1285749 CTCAAATTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 15 0.48
18 12 0.39
19 4 0.13
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (17 bp):
AAAAAAGAAAAAAAAGA
Found at i:1285742 original size:18 final size:17
Alignment explanation
Indices: 1285593--1285746 Score: 69
Period size: 18 Copynumber: 8.3 Consensus size: 17
1285583 ATAATGGGTC
* * *
1285593 AAAAATGAGAGAAAAAT
1 AAAAATGAAAAAAAAAA
1285610 AAAAAT-AAAAAAATAAA
1 AAAAATGAAAAAAA-AAA
* * **
1285627 AAAAAGGAAAAATGGATGA
1 AAAAATGAAAAA--AAAAA
**
1285646 AAAAATG-AAAAAAATG
1 AAAAATGAAAAAAAAAA
1285662 AAAAATGAAAAATGAAAAA
1 AAAAATGAAAAA--AAAAA
1285681 TGAAAAATGAAAAATGAAAAATGA
1 --AAAAATG-AAAA--AAAAA--A
*
1285705 AAGAAAAGAAAAAAAGAAA
1 AA-AAATGAAAAAAA-AAA
1285724 AAAAATGAAAGAAAAAAA
1 AAAAATGAAA-AAAAAAA
1285742 AAAAA
1 AAAAA
1285747 GACTCAAATT
Statistics
Matches: 104, Mismatches: 16, Indels: 33
0.68 0.10 0.22
Matches are distributed among these distances:
16 13 0.12
17 17 0.16
18 24 0.23
19 17 0.16
20 4 0.04
21 9 0.09
22 14 0.13
23 4 0.04
24 2 0.02
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.10
Consensus pattern (17 bp):
AAAAATGAAAAAAAAAA
Found at i:1285747 original size:13 final size:13
Alignment explanation
Indices: 1285704--1285748 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
1285694 ATGAAAAATG
*
1285704 AAAGAAAAGAAAA
1 AAAGAAAAAAAAA
*
1285717 AAAGAAAAAAAATG
1 AAAGAAAAAAAA-A
1285731 AAAGAAAAAAAAA
1 AAAGAAAAAAAAA
1285744 AAAGA
1 AAAGA
1285749 CTCAAATTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.02
Consensus pattern (13 bp):
AAAGAAAAAAAAA
Found at i:1285760 original size:27 final size:27
Alignment explanation
Indices: 1285697--1285748 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
1285687 ATGAAAAATG
*
1285697 AAAAATGAAAGAAAAGAAAAAAAGAAA
1 AAAAATGAAAGAAAAAAAAAAAAGAAA
1285724 AAAAATGAAAGAAAAAAAAAAAAGA
1 AAAAATGAAAGAAAAAAAAAAAAGA
1285749 CTCAAATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (27 bp):
AAAAATGAAAGAAAAAAAAAAAAGAAA
Found at i:1286509 original size:70 final size:71
Alignment explanation
Indices: 1286351--1286520 Score: 182
Period size: 70 Copynumber: 2.4 Consensus size: 71
1286341 TTCTAAGATG
* * * * *
1286351 GCTAGTGCTGAGAAGCCTGTAAATGGTGATGAACATAGTGTAGGTCAATGGATGAAATTTATGCT
1 GCTAGTGCTGAGAAGCCTATAAATGGTGATGAACATAGTATAGGGCAATGGACGAAACTTATGCT
1286416 GAAATT
66 GAAATT
* * * * * *
1286422 GCTAGTACTGAGGAGCCTATAAATGGTGATTAA-AT-GATATGGGGCAATGGACGAAACTTGTGT
1 GCTAGTGCTGAGAAGCCTATAAATGGTGATGAACATAG-TATAGGGCAATGGACGAAACTTATGC
*
1286485 TGCAATT
65 TGAAATT
* **
1286492 GTTAGTGCTGAGAAGCCTATGGATGGTGA
1 GCTAGTGCTGAGAAGCCTATAAATGGTGA
1286521 CCAAGTGATC
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
69 1 0.01
70 51 0.63
71 29 0.36
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.29
Consensus pattern (71 bp):
GCTAGTGCTGAGAAGCCTATAAATGGTGATGAACATAGTATAGGGCAATGGACGAAACTTATGCT
GAAATT
Found at i:1286978 original size:79 final size:79
Alignment explanation
Indices: 1286869--1287052 Score: 289
Period size: 79 Copynumber: 2.3 Consensus size: 79
1286859 GATAAGGATT
* * *
1286869 TTTGAACTCAAATGTGAATATTTAAGTTTCAAATGAGAATCTTTGAGGTGTGAAACCTAAAATTT
1 TTTGAACTCAAATGAGAATATTTGAGTTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTT
1286934 ATCGAATGTGAATC
66 ATCGAATGTGAATC
* * *
1286948 TTCT-AACTCAACTGAGAATCTTTGAGTTTCAAATGAGAATCTTTGATGTGTGAAACCCAAAATT
1 TT-TGAACTCAAATGAGAATATTTGAGTTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATT
1287012 TATCGAATGTGAATC
65 TATCGAATGTGAATC
*
1287027 TTTGAACTCAAATGCGAATATTTGAG
1 TTTGAACTCAAATGAGAATATTTGAG
1287053 GTGTGAAACT
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 92 0.98
80 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (79 bp):
TTTGAACTCAAATGAGAATATTTGAGTTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTT
ATCGAATGTGAATC
Found at i:1287051 original size:58 final size:57
Alignment explanation
Indices: 1286976--1287179 Score: 291
Period size: 58 Copynumber: 3.5 Consensus size: 57
1286966 TCTTTGAGTT
* *
1286976 TCAAATGAGAATCTTTGATGTGTGAAACCCAAAATTTATCGAATGTGAATCTTTGAAC
1 TCAAATGAGAATATTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTT-AAC
* **
1287034 TCAAATGCGAATATTTGAGGTGTGAAACTTAAAATTTATCGAATGTGAATCTTCTAAC
1 TCAAATGAGAATATTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTT-TAAC
* * *
1287092 TCAAATGAGAATATTTGAGGTGTGAAACTCAAAATTTGTCGAATGTGAATCTTCAAAC
1 TCAAATGAGAATATTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTT-TAAC
* *
1287150 TCAAATGAGAATCTTTGAGGTGTAAAACCC
1 TCAAATGAGAATATTTGAGGTGTGAAACCC
1287180 TAATGTTCGT
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
58 132 0.99
59 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (57 bp):
TCAAATGAGAATATTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTTAAC
Found at i:1287745 original size:10 final size:11
Alignment explanation
Indices: 1287730--1287758 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1287720 TGGATATCAC
1287730 AAAAAAAAGA-
1 AAAAAAAAGAG
1287740 AAAAAAAAGAG
1 AAAAAAAAGAG
1287751 AAAAAAAA
1 AAAAAAAA
1287759 TAGATGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:1287955 original size:4 final size:4
Alignment explanation
Indices: 1287946--1288037 Score: 52
Period size: 4 Copynumber: 22.5 Consensus size: 4
1287936 TTCATTTTTC
1287946 ATTT ATTT ATTT ATTT ATTGT -TCTT -TTT -TTT AGTTTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATT-T AT-TT ATTT ATTT A--TTT ATTT ATTT
* *
1287991 ATTT A-TT ATTT -TGATT GTTT ATCT -TTT ATTTT ATTT ATTT GATTT
1 ATTT ATTT ATTT AT--TT ATTT ATTT ATTT A-TTT ATTT ATTT -ATTT
1288036 AT
1 AT
1288038 CCTCAGGTTT
Statistics
Matches: 73, Mismatches: 3, Indels: 24
0.73 0.03 0.24
Matches are distributed among these distances:
3 11 0.15
4 45 0.62
5 12 0.16
6 5 0.07
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:1288010 original size:29 final size:30
Alignment explanation
Indices: 1287951--1288029 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 30
1287941 TTTTCATTTA
* * **
1287951 TTTATTTATTTA-TTGTTCTTTTTTTTAGT
1 TTTATTTATTTATTTATTATTTTGATTAGT
1287980 TTTATTTATTTATTTATTATTTTGATT-GT
1 TTTATTTATTTATTTATTATTTTGATTAGT
*
1288009 TTATCTTTTATTTTATTTATT
1 TT-T-ATTTA-TTTATTTATT
1288030 TGATTTATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 16 0.39
30 11 0.27
31 4 0.10
32 10 0.24
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.75
Consensus pattern (30 bp):
TTTATTTATTTATTTATTATTTTGATTAGT
Found at i:1288892 original size:3 final size:3
Alignment explanation
Indices: 1288884--1288931 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
1288874 TTTATATATA
1288884 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1288932 CTTTGTCTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1289094 original size:60 final size:59
Alignment explanation
Indices: 1288985--1289483 Score: 484
Period size: 60 Copynumber: 8.1 Consensus size: 59
1288975 ATTTTTTAAT
* * *
1288985 AATTTT-CTTAAAAATAAAATTTTATCAAAAAATATATATTTTTAAGAAAAAGTTAAAAATATC
1 AATTTTCCTTGAAAATAAAA-TTT-T-AAAAAA-A-ATATTTTTAAGAAAAAGTTGAAAGTATC
* * *
1289048 AATTTTCCTTGAAAATCAAATTTTAAAAAAAATTATTTTTCAGAAAAAGTTGAAAATATC
1 AATTTTCCTTGAAAATAAAATTTTAAAAAAAA-TATTTTTAAGAAAAAGTTGAAAGTATC
* * *
1289108 AATTTTTCTTGAAAATAAAAAAATAAAAATTTTAAAAACATATTTTTAAGAAAAAGTTGAAAGTA
1 AATTTTCCTTGAAAAT---AAAAT-----TTTAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTA
1289173 TC
58 TC
* * * ** * *
1289175 AATTTTCCTTGAAAATTAAA-TTTAAAAAAAATGTTTTAAAGGGAAAGTTGAAAATATT
1 AATTTTCCTTGAAAATAAAATTTTAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATC
* * * *
1289233 AATTTTCCTTGAAAA-AAAATTTTAAGGAAAAAACATTGTTAAGGAAAAGTTGAAAGTATT
1 AATTTTCCTTGAAAATAAAATTTTAA--AAAAAATATTTTTAAGAAAAAGTTGAAAGTATC
** * * *
1289293 AATTTTTATTGAAAATAAAATTTTCAAAAAAAAATATTTTTGAGAAAAAGTTAAAAGTATA
1 AATTTTCCTTGAAAATAAAATTTT--AAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATC
* *
1289354 AATTTTCCTTGAAAAATAAAATTTCAATAAAAAAAGATATTTTTGAGGAAAAGTTGAAAGTATC
1 AATTTTCCTTG-AAAATAAAATTT---TAAAAAAA-ATATTTTTAAGAAAAAGTTGAAAGTATC
* *
1289418 AATTTTTCTTGAAAATAAAATTTTTAAAAAATATATTTTTTAAGAAAAA-TTGAAAGTATC
1 AATTTTCCTTGAAAATAAAA-TTTTAAAAAAAATA-TTTTTAAGAAAAAGTTGAAAGTATC
1289478 AATTTT
1 AATTTT
1289484 TCTTAAATAA
Statistics
Matches: 369, Mismatches: 44, Indels: 49
0.80 0.10 0.11
Matches are distributed among these distances:
57 3 0.01
58 50 0.14
59 1 0.00
60 101 0.27
61 68 0.18
62 13 0.04
63 31 0.08
64 52 0.14
65 1 0.00
67 40 0.11
68 9 0.02
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (59 bp):
AATTTTCCTTGAAAATAAAATTTTAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATC
Found at i:1289264 original size:17 final size:17
Alignment explanation
Indices: 1289243--1289280 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
1289233 AATTTTCCTT
1289243 GAAAAAAAATT-TTAAG
1 GAAAAAAAATTGTTAAG
*
1289259 GAAAAAACATTGTTAAG
1 GAAAAAAAATTGTTAAG
1289276 GAAAA
1 GAAAA
1289281 GTTGAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.61, C:0.03, G:0.16, T:0.21
Consensus pattern (17 bp):
GAAAAAAAATTGTTAAG
Found at i:1289283 original size:185 final size:183
Alignment explanation
Indices: 1289073--1289494 Score: 457
Period size: 185 Copynumber: 2.3 Consensus size: 183
1289063 TCAAATTTTA
* * * *
1289073 AAAAAAATTATTTTTCAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAAAATAAAAAT
1 AAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAAAATAAAAA-
* * *
1289138 TTTAAAAACATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTG-AAAATTAAA-TT-TAA
65 ---AAAAA-ATATTTTTAAGAAAAAGTTAAAAGTATAAATTTTCCTTGAAAAATAAAATTTATAA
* * *
1289200 AAAAA-ATGTTTTAAAGGGAAAGTTGAAAATATTAATTTTCCTTGAAAA-AAAATTTT
126 AAAAAGATATTTTAAAGGAAAAGTTGAAAATATCAATTTTCCTTGAAAATAAAATTTT
* * * * ** **
1289256 AAGGAAAAAACATTGTTAAGGAAAAGTTGAAAGTATTAATTTTTATTGAAAAT-AAAATTTTCAA
1 AA--AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAAAATAAAA
*
1289320 AAAAAAATATTTTTGAGAAAAAGTTAAAAGTATAAATTTTCCTTGAAAAATAAAATTTCAATAAA
64 AAAAAAATATTTTTAAGAAAAAGTTAAAAGTATAAATTTTCCTTGAAAAATAAAATTT--ATAAA
** * *
1289385 AAAAGATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTT
127 AAAAGATATTTTAAAGGAAAAGTTGAAAATATCAATTTTCCTTGAAAATAAAA-TTTT
* *
1289443 AAAAAATATATTTTTTAA-GAAAAATTGAAAGTATCAATTTTTCTT--AAATAAA
1 AAAAAAAATA-TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAA
1289495 GTCATTAATT
Statistics
Matches: 198, Mismatches: 29, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
179 36 0.18
180 13 0.07
181 2 0.01
183 6 0.03
184 18 0.09
185 107 0.54
186 10 0.05
187 6 0.03
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.36
Consensus pattern (183 bp):
AAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAAAATAAAAAA
AAAAATATTTTTAAGAAAAAGTTAAAAGTATAAATTTTCCTTGAAAAATAAAATTTATAAAAAAA
GATATTTTAAAGGAAAAGTTGAAAATATCAATTTTCCTTGAAAATAAAATTTT
Found at i:1289450 original size:16 final size:17
Alignment explanation
Indices: 1289428--1289465 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1289418 AATTTTTCTT
1289428 GAAAATAAAATTTTTAA
1 GAAAATAAAATTTTTAA
* *
1289445 -AAAATATATTTTTTAA
1 GAAAATAAAATTTTTAA
1289461 GAAAA
1 GAAAA
1289466 ATTGAAAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (17 bp):
GAAAATAAAATTTTTAA
Found at i:1290621 original size:12 final size:13
Alignment explanation
Indices: 1290604--1290636 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1290594 ATCTTTTATA
1290604 TTTAAAT-CATTT
1 TTTAAATACATTT
*
1290616 TTTAAATATATTT
1 TTTAAATACATTT
1290629 TTTAAATA
1 TTTAAATA
1290637 TAAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTAAATACATTT
Found at i:1290630 original size:13 final size:13
Alignment explanation
Indices: 1290612--1290638 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1290602 TATTTAAATC
1290612 ATTTTTTAAATAT
1 ATTTTTTAAATAT
1290625 ATTTTTTAAATAT
1 ATTTTTTAAATAT
1290638 A
1 A
1290639 AATATATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTTTAAATAT
Found at i:1290687 original size:19 final size:19
Alignment explanation
Indices: 1290663--1290705 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1290653 AATTAATTTA
*
1290663 AAAT-AAAAATTATATTATT
1 AAATAAAAAATAAT-TTATT
1290682 AAATAAAAAATAATTTATT
1 AAATAAAAAATAATTTATT
1290701 AAATA
1 AAATA
1290706 TATATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATAAAAAATAATTTATT
Found at i:1297126 original size:15 final size:15
Alignment explanation
Indices: 1297103--1297141 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1297093 AATGAGGAAG
1297103 TTTTA-AAAAAATAA
1 TTTTATAAAAAATAA
*
1297117 TTTTATAAAAACTAA
1 TTTTATAAAAAATAA
*
1297132 TTTAATAAAA
1 TTTTATAAAA
1297142 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTTATAAAAAATAA
Found at i:1298335 original size:28 final size:28
Alignment explanation
Indices: 1298265--1298335 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 28
1298255 ATGATTAAAC
* *
1298265 TAAAA-TTAAAATTAAAAATTAAATTCAG
1 TAAAATTTAAAAATATAAATTAAATT-AG
**
1298293 TAAAATTT-ATTATATAAATTAAATGT-G
1 TAAAATTTAAAAATATAAATTAAAT-TAG
1298320 TAAAATTTAAAAATAT
1 TAAAATTTAAAAATAT
1298336 TTTAATAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
27 9 0.26
28 22 0.65
29 3 0.09
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (28 bp):
TAAAATTTAAAAATATAAATTAAATTAG
Found at i:1298449 original size:12 final size:12
Alignment explanation
Indices: 1298432--1298467 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1298422 ATTTAAATTA
1298432 TAAATAATATTT
1 TAAATAATATTT
1298444 TAAATAATATTT
1 TAAATAATATTT
* *
1298456 TATATATTATTT
1 TAAATAATATTT
1298468 ATATTTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TAAATAATATTT
Found at i:1298618 original size:19 final size:20
Alignment explanation
Indices: 1298594--1298633 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1298584 TGAGTGTTAT
1298594 TTTTTG-TTGGAATTTGAAA
1 TTTTTGATTGGAATTTGAAA
* *
1298613 TTTTTGATTTGATTTTGAAA
1 TTTTTGATTGGAATTTGAAA
1298633 T
1 T
1298634 GAATCATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.57
Consensus pattern (20 bp):
TTTTTGATTGGAATTTGAAA
Found at i:1302663 original size:6 final size:6
Alignment explanation
Indices: 1302654--1302683 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
1302644 AGAATTCGAT
1302654 GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG
1 GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG
1302684 TATGAATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
GAAGAG
Found at i:1304897 original size:5 final size:5
Alignment explanation
Indices: 1304889--1304913 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1304879 AAATGATATT
1304889 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
1304914 TAATAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:1305633 original size:21 final size:21
Alignment explanation
Indices: 1305607--1305647 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
1305597 TAATTTTTAT
1305607 TAAATTATT-TTAAAAAATTCA
1 TAAATT-TTATTAAAAAATTCA
1305628 TAAATTTTACTTAAAAAATT
1 TAAATTTTA-TTAAAAAATT
1305648 TCGCATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 6 0.33
22 10 0.56
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAATTTTATTAAAAAATTCA
Found at i:1316892 original size:30 final size:30
Alignment explanation
Indices: 1316856--1316912 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
1316846 GAATATTCAG
*
1316856 TAATGAGCTATTCTTTAGTAAAACCAACGC
1 TAATGAGATATTCTTTAGTAAAACCAACGC
1316886 TAATGAGATATTCTTTAGTAAAACCAA
1 TAATGAGATATTCTTTAGTAAAACCAA
1316913 AGCCCACTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (30 bp):
TAATGAGATATTCTTTAGTAAAACCAACGC
Found at i:1318346 original size:22 final size:22
Alignment explanation
Indices: 1318319--1318364 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
1318309 TTCCTCGCTT
1318319 TGTTGTAACTCTTCTGCCTTTG
1 TGTTGTAACTCTTCTGCCTTTG
*
1318341 TGTTGTAACTCTTCTGCTTTTG
1 TGTTGTAACTCTTCTGCCTTTG
1318363 TG
1 TG
1318365 CCTGAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.09, C:0.20, G:0.20, T:0.52
Consensus pattern (22 bp):
TGTTGTAACTCTTCTGCCTTTG
Found at i:1319908 original size:34 final size:34
Alignment explanation
Indices: 1319865--1319929 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
1319855 TTCTGTCTTC
1319865 TGTATCTATCCTGCGGGCTGGAACAATAAGTTTT
1 TGTATCTATCCTGCGGGCTGGAACAATAAGTTTT
*
1319899 TGTATCTATCCTGTGGGCTGGAACAATAAGT
1 TGTATCTATCCTGCGGGCTGGAACAATAAGT
1319930 CAATTTTCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (34 bp):
TGTATCTATCCTGCGGGCTGGAACAATAAGTTTT
Found at i:1323699 original size:15 final size:15
Alignment explanation
Indices: 1323679--1323709 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1323669 ATAATTCGAT
*
1323679 TAATTTAATTTTAAA
1 TAATTTAATTTAAAA
1323694 TAATTTAATTTAAAA
1 TAATTTAATTTAAAA
1323709 T
1 T
1323710 TAATCAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATTTAATTTAAAA
Done.