Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008668.1 Hibiscus syriacus cultivar Beakdansim tig00111671_pilon, 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: 2122653
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 9
Found at i:1171053 original size:2 final size:2
Alignment explanation
Indices: 1171046--1171071 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1171036 CAAATCCAGG
1171046 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1171072 CATGTTGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1178556 original size:19 final size:20
Alignment explanation
Indices: 1178515--1178556 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1178505 TTTTTTTTAA
*
1178515 TATATAAATTTTTTAAATTT
1 TATATAAATTTTTTAAATAT
*
1178535 TATATAATTTTTTTAAA-AT
1 TATATAAATTTTTTAAATAT
1178554 TAT
1 TAT
1178557 CGAATTGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATATAAATTTTTTAAATAT
Found at i:1180002 original size:11 final size:12
Alignment explanation
Indices: 1179947--1180004 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
1179937 TTTCATATTG
1179947 AATATATTTTATT
1 AATATATTTTA-T
1179960 AATATTATATTTAT
1 AATA-TAT-TTTAT
* *
1179974 AATGTATTTAAT
1 AATATATTTTAT
*
1179986 ATTATATTTTA-
1 AATATATTTTAT
1179997 AATATATT
1 AATATATT
1180005 GTTTTAATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 7 0.19
12 12 0.32
13 7 0.19
14 7 0.19
15 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (12 bp):
AATATATTTTAT
Found at i:1180004 original size:23 final size:23
Alignment explanation
Indices: 1179958--1180004 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
1179948 ATATATTTTA
*
1179958 TTAATATTATATTTATAATGTAT
1 TTAATATTATATTTATAATATAT
1179981 TTAATATTATATTT-TAAATATAT
1 TTAATATTATATTTAT-AATATAT
1180004 T
1 T
1180005 GTTTTAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTAATATTATATTTATAATATAT
Found at i:1180284 original size:3 final size:3
Alignment explanation
Indices: 1180276--1180308 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1180266 ATACAACATT
1180276 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1180309 CAAAATATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:1181461 original size:5 final size:5
Alignment explanation
Indices: 1181451--1181505 Score: 74
Period size: 5 Copynumber: 10.6 Consensus size: 5
1181441 TAAAATGCAC
* *
1181451 AAAAT AAAAT AAAAT AAAAT AAACAA ACAAAT AAAAT AAAGT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAA-AT A-AAAT AAAAT AAAAT AAAAT AAAAT
1181503 AAA
1 AAA
1181506 GCACACAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
5 38 0.86
6 4 0.09
7 2 0.05
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:1181487 original size:32 final size:33
Alignment explanation
Indices: 1181451--1181516 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
1181441 TAAAATGCAC
1181451 AAAATAAAATAAAATAAAATAAA-CAAACAAAT
1 AAAATAAAATAAAATAAAATAAAGCAAACAAAT
* *
1181483 AAAATAAAGTAAAATAAAATAAAGCACACAAAT
1 AAAATAAAATAAAATAAAATAAAGCAAACAAAT
1181516 A
1 A
1181517 CGAATTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 22 0.71
33 9 0.29
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (33 bp):
AAAATAAAATAAAATAAAATAAAGCAAACAAAT
Found at i:1182405 original size:12 final size:12
Alignment explanation
Indices: 1182388--1182417 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
1182378 GCCAAAACAA
1182388 CCAAAACCGGAC
1 CCAAAACCGGAC
1182400 CCAAAACCGGAC
1 CCAAAACCGGAC
1182412 CCAAAA
1 CCAAAA
1182418 TTGTTGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.40, G:0.13, T:0.00
Consensus pattern (12 bp):
CCAAAACCGGAC
Found at i:1201058 original size:17 final size:17
Alignment explanation
Indices: 1201038--1201089 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
1201028 TATTTATGTG
1201038 TTAAATAACGTTATATT
1 TTAAATAACGTTATATT
*
1201055 TTAAAAAAC-TTAT-TT
1 TTAAATAACGTTATATT
* *
1201070 TAAATATAATGTTATATT
1 TTAA-ATAACGTTATATT
1201088 TT
1 TT
1201090 GAAAACAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
15 5 0.19
16 7 0.26
17 12 0.44
18 3 0.11
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (17 bp):
TTAAATAACGTTATATT
Found at i:1201352 original size:19 final size:20
Alignment explanation
Indices: 1201320--1201364 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
1201310 GGGGTATGTA
1201320 ATGCGGTCTGATGCGATCCG
1 ATGCGGTCTGATGCGATCCG
* *
1201340 ATGCGGT-TGATGCGGTCTG
1 ATGCGGTCTGATGCGATCCG
1201359 ATGCGG
1 ATGCGG
1201365 ACCGACGCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.13, C:0.20, G:0.40, T:0.27
Consensus pattern (20 bp):
ATGCGGTCTGATGCGATCCG
Found at i:1201360 original size:10 final size:10
Alignment explanation
Indices: 1201320--1201364 Score: 65
Period size: 10 Copynumber: 4.6 Consensus size: 10
1201310 GGGGTATGTA
1201320 ATGCGGTCTG
1 ATGCGGTCTG
* *
1201330 ATGCGATCCG
1 ATGCGGTCTG
1201340 ATGCGGT-TG
1 ATGCGGTCTG
1201349 ATGCGGTCTG
1 ATGCGGTCTG
1201359 ATGCGG
1 ATGCGG
1201365 ACCGACGCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.13, C:0.20, G:0.40, T:0.27
Consensus pattern (10 bp):
ATGCGGTCTG
Found at i:1203355 original size:39 final size:39
Alignment explanation
Indices: 1203294--1203373 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 39
1203284 GAAGACGTTT
*
1203294 AAGGTTTAAAGAGAGAGACTAAGCTTGTATATCGGTATA
1 AAGGTTTAAAGAGAGAGACTAAGCTTGTATATCAGTATA
* * * *
1203333 AAGGTTTGAAGGGA-AGAGCTAAGCTTTTATATTAGTATA
1 AAGGTTTAAAGAGAGAGA-CTAAGCTTGTATATCAGTATA
1203372 AA
1 AA
1203374 TGTTGTAGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 3 0.09
39 32 0.91
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (39 bp):
AAGGTTTAAAGAGAGAGACTAAGCTTGTATATCAGTATA
Found at i:1208854 original size:18 final size:18
Alignment explanation
Indices: 1208831--1208866 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1208821 GACTATTCTG
1208831 GTTGATCATTGTCCACTC
1 GTTGATCATTGTCCACTC
1208849 GTTGATCATTGTCCACTC
1 GTTGATCATTGTCCACTC
1208867 TCACGAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.39
Consensus pattern (18 bp):
GTTGATCATTGTCCACTC
Found at i:1217482 original size:25 final size:25
Alignment explanation
Indices: 1217454--1217503 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1217444 TATTAGCATC
1217454 TGAGATGATTCAATTAAAAAGAACA
1 TGAGATGATTCAATTAAAAAGAACA
1217479 TGAGATGATTCAATTAAAAAGAACA
1 TGAGATGATTCAATTAAAAAGAACA
1217504 CGAAAAACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (25 bp):
TGAGATGATTCAATTAAAAAGAACA
Found at i:1219522 original size:30 final size:30
Alignment explanation
Indices: 1219488--1219574 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
1219478 GCTTTTAGTT
*
1219488 GAAGACGCATTGTCTTCCGACGACTTTTCC
1 GAAGACGCATTGTGTTCCGACGACTTTTCC
* * *
1219518 GAAGACACACTGTGTTCTCGGCGAC-TTTCC
1 GAAGACGCATTGTGTTC-CGACGACTTTTCC
* *
1219548 AAAGACGCATTGTGTTCCCAACGACTT
1 GAAGACGCATTGTGTT-CCGACGACTT
1219575 CCAACAGGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
30 37 0.82
31 8 0.18
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (30 bp):
GAAGACGCATTGTGTTCCGACGACTTTTCC
Found at i:1222934 original size:18 final size:18
Alignment explanation
Indices: 1222911--1222946 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1222901 GACTATTCTG
1222911 GTTGATCATTGTCCACTC
1 GTTGATCATTGTCCACTC
1222929 GTTGATCATTGTCCACTC
1 GTTGATCATTGTCCACTC
1222947 TCACGAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.39
Consensus pattern (18 bp):
GTTGATCATTGTCCACTC
Found at i:1223628 original size:2 final size:2
Alignment explanation
Indices: 1223623--1223653 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1223613 CAATATATCA
1223623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1223654 CAGAGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1229989 original size:34 final size:34
Alignment explanation
Indices: 1229949--1230020 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
1229939 AAAAGAAAAC
*
1229949 ACATAAAATTTGAAATAACCCCAAAGCATTGAAG
1 ACATAAAATTTGAAATAACCCCAAAACATTGAAG
*
1229983 ACATAAATTTTGAAATAACCCCAAAACATTGAAG
1 ACATAAAATTTGAAATAACCCCAAAACATTGAAG
1230017 ACAT
1 ACAT
1230021 TCGTTTCAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.50, C:0.18, G:0.10, T:0.22
Consensus pattern (34 bp):
ACATAAAATTTGAAATAACCCCAAAACATTGAAG
Found at i:1230950 original size:21 final size:22
Alignment explanation
Indices: 1230919--1230964 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
1230909 TTATTTCATG
1230919 TTAATTTACTATTTAAAAATTA
1 TTAATTTACTATTTAAAAATTA
1230941 TTAA-TTACTATTTAAAAATTA
1 TTAATTTACTATTTAAAAATTA
1230962 TTA
1 TTA
1230965 CACATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAATTTACTATTTAAAAATTA
Found at i:1230972 original size:20 final size:21
Alignment explanation
Indices: 1230926--1230976 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1230916 ATGTTAATTT
*
1230926 ACTATTTAAAAATTATTAATT
1 ACTATTTAAAAATTATTAATC
1230947 ACTATTTAAAAATTATT-A-C
1 ACTATTTAAAAATTATTAATC
1230966 ACATATTTAAA
1 AC-TATTTAAA
1230977 TAATAATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 9 0.32
21 17 0.61
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (21 bp):
ACTATTTAAAAATTATTAATC
Found at i:1231051 original size:23 final size:23
Alignment explanation
Indices: 1231005--1231051 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
1230995 TATATTTTTA
*
1231005 TTAATATTATATTTATAATGTAT
1 TTAATATTATATTTATAATATAT
1231028 TTAATATTATATTT-TAAATATAT
1 TTAATATTATATTTAT-AATATAT
1231051 T
1 T
1231052 GTTTTAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTAATATTATATTTATAATATAT
Found at i:1232174 original size:134 final size:134
Alignment explanation
Indices: 1232010--1232276 Score: 516
Period size: 134 Copynumber: 2.0 Consensus size: 134
1232000 GATTCAGCTC
1232010 GTGTTCTGTCCAAGTAAAGCAAAGATTCCGTTCGTGGTGGCAGAATTGGAGGAAAGCAAAGCATG
1 GTGTTCTGTCCAAGTAAAGCAAAGATTCCGTTCGTGGTGGCAGAATTGGAGGAAAGCAAAGCATG
1232075 TCTGCTTTCTTGTTCTCAGATGCTACATAACGGCCGGGTTTTCACTCTGTCTCCTCTTTGAACGA
66 TCTGCTTTCTTGTTCTCAGATGCTACATAACGGCCGGGTTTTCACTCTGTCTCCTCTTTGAACGA
1232140 TTTT
131 TTTT
* *
1232144 GTGTTCTGTTCGAGTAAAGCAAAGATTCCGTTCGTGGTGGCAGAATTGGAGGAAAGCAAAGCATG
1 GTGTTCTGTCCAAGTAAAGCAAAGATTCCGTTCGTGGTGGCAGAATTGGAGGAAAGCAAAGCATG
1232209 TCTGCTTTCTTGTTCTCAGATGCTACATAACGGCCGGGTTTTCACTCTGTCTCCTCTTTGAACGA
66 TCTGCTTTCTTGTTCTCAGATGCTACATAACGGCCGGGTTTTCACTCTGTCTCCTCTTTGAACGA
1232274 TTT
131 TTT
1232277 ATTTGGCTTG
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 131 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (134 bp):
GTGTTCTGTCCAAGTAAAGCAAAGATTCCGTTCGTGGTGGCAGAATTGGAGGAAAGCAAAGCATG
TCTGCTTTCTTGTTCTCAGATGCTACATAACGGCCGGGTTTTCACTCTGTCTCCTCTTTGAACGA
TTTT
Found at i:1242461 original size:13 final size:13
Alignment explanation
Indices: 1242443--1242467 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1242433 TTGTTCCTCA
1242443 ATGATAGTCGATC
1 ATGATAGTCGATC
1242456 ATGATAGTCGAT
1 ATGATAGTCGAT
1242468 AGTGAGCTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (13 bp):
ATGATAGTCGATC
Found at i:1244245 original size:12 final size:12
Alignment explanation
Indices: 1244228--1244260 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1244218 TTTAAAAGAC
1244228 TGGTCGGGTTTT
1 TGGTCGGGTTTT
1244240 TGGTCGGGTTTT
1 TGGTCGGGTTTT
*
1244252 AGGTCGGGT
1 TGGTCGGGT
1244261 GGAGTCACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.09, G:0.45, T:0.42
Consensus pattern (12 bp):
TGGTCGGGTTTT
Found at i:1245056 original size:3 final size:3
Alignment explanation
Indices: 1245048--1245073 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1245038 AATTTCGATT
1245048 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1245074 TCCGAAACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1246651 original size:18 final size:18
Alignment explanation
Indices: 1246628--1246663 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1246618 GACTATTCTG
1246628 GTTGATCATTGTCCACTC
1 GTTGATCATTGTCCACTC
1246646 GTTGATCATTGTCCACTC
1 GTTGATCATTGTCCACTC
1246664 TCACGAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.39
Consensus pattern (18 bp):
GTTGATCATTGTCCACTC
Found at i:1258573 original size:21 final size:21
Alignment explanation
Indices: 1258543--1258582 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1258533 AGTCGTATAT
1258543 AGCCGTTGGGGATG-TTTTGG
1 AGCCGTTGGGGATGATTTTGG
1258563 AGCCGCTTGGGGATGATTTT
1 AGCCG-TTGGGGATGATTTT
1258583 TCTGTAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.12, G:0.40, T:0.35
Consensus pattern (21 bp):
AGCCGTTGGGGATGATTTTGG
Found at i:1258818 original size:21 final size:21
Alignment explanation
Indices: 1258794--1258856 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
1258784 ATGGTACCCA
1258794 GGGTATTGATACCCTTCATAG
1 GGGTATTGATACCCTTCATAG
* *
1258815 GGGTATCGGTA-CC--C--A-
1 GGGTATTGATACCCTTCATAG
1258830 GGGTATTGATACCCTTCATAG
1 GGGTATTGATACCCTTCATAG
1258851 GGGTAT
1 GGGTAT
1258857 CAGCACCCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 9 0.28
16 3 0.09
18 2 0.06
20 3 0.09
21 15 0.47
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (21 bp):
GGGTATTGATACCCTTCATAG
Found at i:1258826 original size:36 final size:36
Alignment explanation
Indices: 1258766--1258937 Score: 283
Period size: 36 Copynumber: 4.8 Consensus size: 36
1258756 AGGGGCATTA
1258766 ATACCCGTTCATAGGGGTAT-GGTACCCAGGGTATTG
1 ATACCC-TTCATAGGGGTATCGGTACCCAGGGTATTG
1258802 ATACCCTTCATAGGGGTATCGGTACCCAGGGTATTG
1 ATACCCTTCATAGGGGTATCGGTACCCAGGGTATTG
* * *
1258838 ATACCCTTCATAGGGGTATCAGCACCCATGGTATTG
1 ATACCCTTCATAGGGGTATCGGTACCCAGGGTATTG
*
1258874 ATACCCTTCATAGGGGTATCGGTACCCAGAGTATTG
1 ATACCCTTCATAGGGGTATCGGTACCCAGGGTATTG
*
1258910 ATATCCTTCATAGGGGTATCGGTACCCA
1 ATACCCTTCATAGGGGTATCGGTACCCA
1258938 TTTGCATTTT
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
35 13 0.10
36 114 0.90
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.28
Consensus pattern (36 bp):
ATACCCTTCATAGGGGTATCGGTACCCAGGGTATTG
Found at i:1259201 original size:18 final size:18
Alignment explanation
Indices: 1259149--1259206 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
1259139 ATGTTTAATG
*
1259149 AAAAAGATGTCAATTGTTT
1 AAAAAGATATCAATTG-TT
*
1259168 ACAAAAGAATACCAATTGTT
1 A-AAAAG-ATATCAATTGTT
1259188 AAAAAGATATCAATTGTT
1 AAAAAGATATCAATTGTT
1259206 A
1 A
1259207 CCAATTGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 12 0.35
19 6 0.18
20 8 0.24
21 8 0.24
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (18 bp):
AAAAAGATATCAATTGTT
Found at i:1262189 original size:20 final size:22
Alignment explanation
Indices: 1262164--1262203 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1262154 AGTCGTATAT
1262164 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
1262184 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
1262204 TCTGCAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:1262328 original size:19 final size:19
Alignment explanation
Indices: 1262304--1262378 Score: 74
Period size: 19 Copynumber: 4.3 Consensus size: 19
1262294 CGTTGGAGCC
1262304 AGGGGGTATGGATACCCAT
1 AGGGGGTATGGATACCCAT
*
1262323 AGGGGGTATCGATACCC--
1 AGGGGGTATGGATACCCAT
*
1262340 A--GGGTATTGATACCCAT
1 AGGGGGTATGGATACCCAT
1262357 A-GGGGTATCGG-TA-CCAT
1 AGGGGGTAT-GGATACCCAT
1262374 AGGGG
1 AGGGG
1262379 TATCGGTACC
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
15 13 0.27
17 7 0.15
18 11 0.23
19 17 0.35
ACGTcount: A:0.25, C:0.17, G:0.36, T:0.21
Consensus pattern (19 bp):
AGGGGGTATGGATACCCAT
Found at i:1262346 original size:15 final size:15
Alignment explanation
Indices: 1262326--1262355 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1262316 TACCCATAGG
1262326 GGGTATCGATACCCA
1 GGGTATCGATACCCA
*
1262341 GGGTATTGATACCCA
1 GGGTATCGATACCCA
1262356 TAGGGGTATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (15 bp):
GGGTATCGATACCCA
Found at i:1262352 original size:34 final size:33
Alignment explanation
Indices: 1262307--1262371 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
1262297 TGGAGCCAGG
1262307 GGGTATGGATACCCATAGGGGGTATCGATACCCA
1 GGGTATGGATACCCATA-GGGGTATCGATACCCA
* *
1262341 GGGTATTGATACCCATAGGGGTATCGGTACC
1 GGGTATGGATACCCATAGGGGTATCGATACC
1262372 ATAGGGGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.45
34 16 0.55
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (33 bp):
GGGTATGGATACCCATAGGGGTATCGATACCCA
Found at i:1262373 original size:17 final size:17
Alignment explanation
Indices: 1262306--1262388 Score: 73
Period size: 17 Copynumber: 4.8 Consensus size: 17
1262296 TTGGAGCCAG
1262306 GGGGTAT-GGATACCCATA
1 GGGGTATCGG-TA-CCATA
* *
1262324 GGGGGTATCGATACC-CA
1 -GGGGTATCGGTACCATA
* *
1262341 -GGGTATTGATACCCATA
1 GGGGTATCGGTA-CCATA
1262358 GGGGTATCGGTACCATA
1 GGGGTATCGGTACCATA
1262375 GGGGTATCGGTACC
1 GGGGTATCGGTACC
1262389 CTTTTTGCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
15 10 0.19
16 2 0.04
17 21 0.39
18 11 0.20
19 9 0.17
20 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (17 bp):
GGGGTATCGGTACCATA
Found at i:1262389 original size:35 final size:34
Alignment explanation
Indices: 1262306--1262389 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 34
1262296 TTGGAGCCAG
1262306 GGGGTATGGATACCCATAGGGGGTATCGATACCCA
1 GGGGTATGG-TACCCATAGGGGGTATCGATACCCA
* * *
1262341 -GGGTATTGATACCCATA-GGGGTATCGGTACCATA
1 GGGGTA-TGGTACCCATAGGGGGTATCGATACC-CA
1262375 GGGGTATCGGTACCC
1 GGGGTAT-GGTACCC
1262390 TTTTTGCATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
33 13 0.32
34 15 0.37
35 13 0.32
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (34 bp):
GGGGTATGGTACCCATAGGGGGTATCGATACCCA
Found at i:1263080 original size:28 final size:28
Alignment explanation
Indices: 1263049--1263104 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
1263039 GATGATTATT
1263049 TTATAACTTTTAATAGTCGAAAGATTCA
1 TTATAACTTTTAATAGTCGAAAGATTCA
* *
1263077 TTATAACTTTTAATAGTTGATAGATTCA
1 TTATAACTTTTAATAGTCGAAAGATTCA
1263105 ACAAAACAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (28 bp):
TTATAACTTTTAATAGTCGAAAGATTCA
Found at i:1263690 original size:25 final size:25
Alignment explanation
Indices: 1263666--1263712 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
1263656 ATTAAGTAGT
* *
1263666 TACTTTGGTCT-TTATATTTTATAG
1 TACTTTGGCCTCTAATATTTTATAG
*
1263690 TATTTTGGCCTCTAATATTTTAT
1 TACTTTGGCCTCTAATATTTTAT
1263713 TTTGGGATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.57
Consensus pattern (25 bp):
TACTTTGGCCTCTAATATTTTATAG
Found at i:1264193 original size:70 final size:70
Alignment explanation
Indices: 1264111--1264250 Score: 244
Period size: 70 Copynumber: 2.0 Consensus size: 70
1264101 TCGATCGACC
* *
1264111 CAATTCAAAAAATAATGTAAGTATACATTATATAGTTAGAGATAATTGCAATAGTATTATTCTCT
1 CAATCCAAAAAATAATGTAAGTATACATTATATAGTTAGAGATAATTGAAATAGTATTATTCTCT
1264176 ATATA
66 ATATA
* *
1264181 CAATCCAAAAAATAATGTTAGTATACATTATATATTTAGAGATAATTGAAATAGTATTATTCTCT
1 CAATCCAAAAAATAATGTAAGTATACATTATATAGTTAGAGATAATTGAAATAGTATTATTCTCT
1264246 ATATA
66 ATATA
1264251 TATTTTTTTC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (70 bp):
CAATCCAAAAAATAATGTAAGTATACATTATATAGTTAGAGATAATTGAAATAGTATTATTCTCT
ATATA
Found at i:1265167 original size:3 final size:3
Alignment explanation
Indices: 1265159--1265184 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1265149 AATTTCGATT
1265159 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1265185 TCCGAAACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1266760 original size:18 final size:18
Alignment explanation
Indices: 1266737--1266772 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1266727 GACTATTCTG
1266737 GTTGATCATTGTCCACTC
1 GTTGATCATTGTCCACTC
1266755 GTTGATCATTGTCCACTC
1 GTTGATCATTGTCCACTC
1266773 TCACGAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.39
Consensus pattern (18 bp):
GTTGATCATTGTCCACTC
Found at i:1269110 original size:2 final size:2
Alignment explanation
Indices: 1269103--1269135 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1269093 ATTCAGAAAG
1269103 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1269136 TTGTATGACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1273298 original size:31 final size:29
Alignment explanation
Indices: 1273245--1273322 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 29
1273235 GCTTTTAGTT
*
1273245 GAAGACGCATTGTCTTCCGGCGACTTTTCC
1 GAAGACGCATTGTGTTCCGGCGAC-TTTCC
* *
1273275 GAAGACACACTGTGTTCTCGGCGACTTTCC
1 GAAGACGCATTGTGTTC-CGGCGACTTTCC
*
1273305 AAAGACGCATTGTGTTCC
1 GAAGACGCATTGTGTTCC
1273323 CAACGACTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.02
30 33 0.80
31 7 0.17
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (29 bp):
GAAGACGCATTGTGTTCCGGCGACTTTCC
Found at i:1275565 original size:2 final size:2
Alignment explanation
Indices: 1275558--1275592 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1275548 CGATACACGC
1275558 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1275593 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1275612 original size:13 final size:13
Alignment explanation
Indices: 1275594--1275621 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1275584 ATATATATAG
1275594 AGAGAGAGAGAAA
1 AGAGAGAGAGAAA
1275607 AGAGAGAGAGAAA
1 AGAGAGAGAGAAA
1275620 AG
1 AG
1275622 TCTTAATACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (13 bp):
AGAGAGAGAGAAA
Found at i:1276250 original size:34 final size:34
Alignment explanation
Indices: 1276212--1276283 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
1276202 AAAAGAAAAC
*
1276212 ACATAAAATTTGAAATAACCCCAAAACATTGAAG
1 ACATAAAATTTGAAATAACCCCAAAACATTAAAG
* *
1276246 ACATAAATTTTGAAATAACCCTAAAACATTAAAG
1 ACATAAAATTTGAAATAACCCCAAAACATTAAAG
1276280 ACAT
1 ACAT
1276284 TCGTTTCAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.24
Consensus pattern (34 bp):
ACATAAAATTTGAAATAACCCCAAAACATTAAAG
Found at i:1277224 original size:21 final size:22
Alignment explanation
Indices: 1277193--1277238 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
1277183 TTATTTCATG
1277193 TTAATTTACTATTTAAAAATTA
1 TTAATTTACTATTTAAAAATTA
1277215 TTAA-TTACTATTTAAAAATTA
1 TTAATTTACTATTTAAAAATTA
1277236 TTA
1 TTA
1277239 CACATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAATTTACTATTTAAAAATTA
Found at i:1277246 original size:20 final size:21
Alignment explanation
Indices: 1277200--1277250 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1277190 ATGTTAATTT
*
1277200 ACTATTTAAAAATTATTAATT
1 ACTATTTAAAAATTATTAATC
1277221 ACTATTTAAAAATTATT-A-C
1 ACTATTTAAAAATTATTAATC
1277240 ACATATTTAAA
1 AC-TATTTAAA
1277251 TAATAATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 9 0.32
21 17 0.61
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (21 bp):
ACTATTTAAAAATTATTAATC
Found at i:1277325 original size:23 final size:23
Alignment explanation
Indices: 1277279--1277325 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
1277269 TATATTTTTA
*
1277279 TTAATATTATATTTATAATGTAT
1 TTAATATTATATTTATAATATAT
1277302 TTAATATTATATTT-TAAATATAT
1 TTAATATTATATTTAT-AATATAT
1277325 T
1 T
1277326 GTTTTAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTAATATTATATTTATAATATAT
Found at i:1280937 original size:18 final size:18
Alignment explanation
Indices: 1280914--1280949 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1280904 GACTATTCTG
1280914 GTTGATCATTGTCCACTC
1 GTTGATCATTGTCCACTC
1280932 GTTGATCATTGTCCACTC
1 GTTGATCATTGTCCACTC
1280950 TCACGAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.39
Consensus pattern (18 bp):
GTTGATCATTGTCCACTC
Found at i:1281643 original size:2 final size:2
Alignment explanation
Indices: 1281638--1281694 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
1281628 ACACACACAC
1281638 AT AT AT AT AT AT 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
1281680 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
1281695 GAGAGAGAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1282300 original size:2 final size:2
Alignment explanation
Indices: 1282295--1282320 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1282285 ATAAAAAATA
1282295 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
1282321 TTAAAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1283300 original size:21 final size:22
Alignment explanation
Indices: 1283269--1283314 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
1283259 TTATTTCATG
1283269 TTAATTTACTATTTAAAAATTA
1 TTAATTTACTATTTAAAAATTA
1283291 TTAA-TTACTATTTAAAAATTA
1 TTAATTTACTATTTAAAAATTA
1283312 TTA
1 TTA
1283315 CACATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAATTTACTATTTAAAAATTA
Found at i:1283322 original size:20 final size:21
Alignment explanation
Indices: 1283276--1283326 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1283266 ATGTTAATTT
*
1283276 ACTATTTAAAAATTATTAATT
1 ACTATTTAAAAATTATTAATC
1283297 ACTATTTAAAAATTATT-A-C
1 ACTATTTAAAAATTATTAATC
1283316 ACATATTTAAA
1 AC-TATTTAAA
1283327 TAATAATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 9 0.32
21 17 0.61
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (21 bp):
ACTATTTAAAAATTATTAATC
Found at i:1284528 original size:134 final size:135
Alignment explanation
Indices: 1284360--1284627 Score: 484
Period size: 135 Copynumber: 2.0 Consensus size: 135
1284350 GATTCAGCTC
1284360 GTGTTCTGTCCAAGTAAAGCAAAGATTCCGTTCGTGGTGGCAGAATTGGA-GGAAAGCAAAGCAT
1 GTGTTCTGTCCAAGTAAAGCAAAGATTCCGTTCGTGGTGGCAGAATTGGAGGGAAAGCAAAGCAT
1284424 GTATGCTTTCTTGTTCTCAGATGCTACATAACGGCCGGCTTTTCACTCTGTCTCCTCTTTGAACG
66 GTATGCTTTCTTGTTCTCAGATGCTACATAACGGCCGGCTTTTCACTCTGTCTCCTCTTTGAACG
1284489 ATTTT
131 ATTTT
** *
1284494 GTGTTCTGTCTGAGTAAAGCAAAGATTCCTTTCGTGGTGGCAGAATTGGAGGGAAAGCAAAGCAT
1 GTGTTCTGTCCAAGTAAAGCAAAGATTCCGTTCGTGGTGGCAGAATTGGAGGGAAAGCAAAGCAT
* *
1284559 GTCTGCTTTCTTGTTCTCAGATGCTACATAACGGCCGGGTTTTCACTCTGTCTCCTCTTTGAACG
66 GTATGCTTTCTTGTTCTCAGATGCTACATAACGGCCGGCTTTTCACTCTGTCTCCTCTTTGAACG
1284624 ATTT
131 ATTT
1284628 ATTTGGCTTG
Statistics
Matches: 128, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
134 47 0.37
135 81 0.63
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (135 bp):
GTGTTCTGTCCAAGTAAAGCAAAGATTCCGTTCGTGGTGGCAGAATTGGAGGGAAAGCAAAGCAT
GTATGCTTTCTTGTTCTCAGATGCTACATAACGGCCGGCTTTTCACTCTGTCTCCTCTTTGAACG
ATTTT
Found at i:1290496 original size:41 final size:41
Alignment explanation
Indices: 1290449--1290533 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
1290439 TGAACAATGA
* *
1290449 TATGTTTACTTATAGTCTTTTTATAATTAATCTTCTTTCTT
1 TATGTTTACTTATAATCTTTTTATAATAAATCTTCTTTCTT
1290490 TATGTTTACTTATAATCTTTTTATAATAAATCTTCTTTCTT
1 TATGTTTACTTATAATCTTTTTATAATAAATCTTCTTTCTT
1290531 TAT
1 TAT
1290534 ATAGGTTACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.60
Consensus pattern (41 bp):
TATGTTTACTTATAATCTTTTTATAATAAATCTTCTTTCTT
Found at i:1290931 original size:23 final size:23
Alignment explanation
Indices: 1290905--1290955 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
1290895 TATAAGGTTT
1290905 TAACATAATTATATAGTTTATTC
1 TAACATAATTATATAGTTTATTC
*
1290928 TAACATAGTTATATAGTTTATTC
1 TAACATAATTATATAGTTTATTC
1290951 TAACA
1 TAACA
1290956 AAAAAAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (23 bp):
TAACATAATTATATAGTTTATTC
Found at i:1291612 original size:24 final size:25
Alignment explanation
Indices: 1291580--1291630 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
1291570 TTAGAATAGC
1291580 TAATATTTTGCA-TTGTTAACCATG
1 TAATATTTTGCATTTGTTAACCATG
1291604 TAATATTTTGCATTTGTTAACCATG
1 TAATATTTTGCATTTGTTAACCATG
1291629 TA
1 TA
1291631 TAATATAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (25 bp):
TAATATTTTGCATTTGTTAACCATG
Found at i:1297271 original size:13 final size:13
Alignment explanation
Indices: 1297253--1297277 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1297243 TTGTTCCTCA
1297253 ATGATAGTTGATC
1 ATGATAGTTGATC
1297266 ATGATAGTTGAT
1 ATGATAGTTGAT
1297278 AGTGAGCTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
ATGATAGTTGATC
Found at i:1299040 original size:12 final size:12
Alignment explanation
Indices: 1299023--1299055 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1299013 TTTAAAAGAC
1299023 TGGTCGGGTTTT
1 TGGTCGGGTTTT
1299035 TGGTCGGGTTTT
1 TGGTCGGGTTTT
*
1299047 AGGTCGGGT
1 TGGTCGGGT
1299056 GGAGTCACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.09, G:0.45, T:0.42
Consensus pattern (12 bp):
TGGTCGGGTTTT
Found at i:1308063 original size:21 final size:20
Alignment explanation
Indices: 1308035--1308091 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
1308025 AAGTTAAAAA
1308035 TTAAGGTTTAAGGTTAGGGT
1 TTAAGGTTTAAGGTTAGGGT
* *
1308055 TTAAAGG-TTATGGGTTATGGT
1 TT-AAGGTTTA-AGGTTAGGGT
*
1308076 TTAAGGTTTAAAGTTA
1 TTAAGGTTTAAGGTTA
1308092 TTAATTTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (20 bp):
TTAAGGTTTAAGGTTAGGGT
Found at i:1309408 original size:35 final size:35
Alignment explanation
Indices: 1309368--1309436 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
1309358 ATTTATTTTC
1309368 ATGATGCATGATTTCTTCGTTCGTTTATACCTAAT
1 ATGATGCATGATTTCTTCGTTCGTTTATACCTAAT
*
1309403 ATGATGCATGATTTCTTTGTTCGTTTATACCTAA
1 ATGATGCATGATTTCTTCGTTCGTTTATACCTAA
1309437 CATTCCGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.46
Consensus pattern (35 bp):
ATGATGCATGATTTCTTCGTTCGTTTATACCTAAT
Found at i:1311718 original size:102 final size:105
Alignment explanation
Indices: 1311534--1311739 Score: 391
Period size: 102 Copynumber: 2.0 Consensus size: 105
1311524 CTACTAAAAT
1311534 AAAAAACAAGGCAAATGTCACAGTAGAAAGAGATATTTGAACATACCAAAAGGTTTTGAGGTTTG
1 AAAAAACAAGGCAAATGTCACAGTAGAAAGAGATATTTGAACATACCAAAAGGTTTTGAGGTTTG
1311599 ATGTCCCGATGACACACACCAATGCTGCGATGGATGTAAG
66 ATGTCCCGATGACACACACCAATGCTGCGATGGATGTAAG
1311639 AAAAAACAAGGC-AATGTCACAGTAG-AAGAGATATTTGAACATACCAAAAGG-TTTGAGGTTTG
1 AAAAAACAAGGCAAATGTCACAGTAGAAAGAGATATTTGAACATACCAAAAGGTTTTGAGGTTTG
1311701 ATGTCCCGATGACACACACCAATGCTGCGATGGATGTAA
66 ATGTCCCGATGACACACACCAATGCTGCGATGGATGTAA
1311740 CAAAGCCCTA
Statistics
Matches: 101, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
102 50 0.50
103 26 0.26
104 13 0.13
105 12 0.12
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.22
Consensus pattern (105 bp):
AAAAAACAAGGCAAATGTCACAGTAGAAAGAGATATTTGAACATACCAAAAGGTTTTGAGGTTTG
ATGTCCCGATGACACACACCAATGCTGCGATGGATGTAAG
Found at i:1313826 original size:31 final size:29
Alignment explanation
Indices: 1313773--1313850 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
1313763 GCTTTTAGTT
*
1313773 GAAGACGCAATGTCTTCCGGCGACTTTTCC
1 GAAGACGCAATGTGTTCCGGCGAC-TTTCC
* *
1313803 GAAGACACACTGTGTTCTCGGCGACTTTCC
1 GAAGACGCAATGTGTTC-CGGCGACTTTCC
* *
1313833 AAAGACGCATTGTGTTCC
1 GAAGACGCAATGTGTTCC
1313851 CAACGACTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.02
30 33 0.80
31 7 0.17
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (29 bp):
GAAGACGCAATGTGTTCCGGCGACTTTCC
Found at i:1318325 original size:16 final size:16
Alignment explanation
Indices: 1318288--1318328 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
1318278 AAAATTTCAA
*
1318288 AAAAATCATAAACTCT
1 AAAAATCATAAACCCT
1318304 --AAATCATAAACCCT
1 AAAAATCATAAACCCT
1318318 AAAAATCATAA
1 AAAAATCATAA
1318329 TTGCATGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 13 0.59
16 9 0.41
ACGTcount: A:0.59, C:0.20, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATCATAAACCCT
Found at i:1324470 original size:2 final size:2
Alignment explanation
Indices: 1324463--1324495 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1324453 TTACTTAATG
1324463 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1324496 TAACAATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1325112 original size:54 final size:54
Alignment explanation
Indices: 1324703--1325410 Score: 575
Period size: 54 Copynumber: 13.0 Consensus size: 54
1324693 GAAAAGAATC
* * * *
1324703 TTCTACAAACGGGTTCGTTCCCTCTTTCTCTAGGGAGTATAGAACTTG-A-ATA
1 TTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATA
* * * *
1324755 ATCTTCTAGGGATGGGTTCGCTCCCTCTTTCTTTCAGTGAGTATAGAACTC-AA-ATA
1 TTCTTC-A--AACGGGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAACATA
* ** * * * *
1324811 -TCTTTAACAATCATGTTTGCTCCCTATTCCTTTAGAGAGTATA-AGACTCGAACA-A
1 TTC-TT--CAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA-ACTCGAACATA
* * * * * * *
1324866 -TCTTCAACAATCGTGTTCGCTCCCTATTTCTTCAGAGAGTACAAAACTCAAACA-A
1 TTCTTC-A-AA-CGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATA
* * * *
1324921 -TCTTCCACAATCGTG-TCTGCTCCCTATTTCTTCAGAGAGTATA-AGACTCGAACA-A
1 TTCTT-CA-AA-CGGGTTC-GCTCCCTCTTTCTTTAGGGAGTATAGA-ACTCGAACATA
** * * * *
1324976 -TCTTCAACAATCATG-TCTGCTCCCTATTTCTTCAGAGAGTATA-AGACTCGAACAATC
1 TTCTTC-A-AA-CGGGTTC-GCTCCCTCTTTCTTTAGGGAGTATAGA-ACTCGAAC-ATA
* * * *
1325033 TTCTTTAAACGTGTTCGCTCTCTCTTTCTTTAGGGAGTATAGAACTCGAACGTA
1 TTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATA
* * *
1325087 TTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATC
1 TTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATA
* * * * *
1325141 TTCTTCAAACGGGTTCGCTCCTTCTTTCTCTAAGGAGTATAGAACTCGGATATA
1 TTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATA
* * * * *
1325195 TTCTTCAAATGGGTTCGCTCCCTCTTTATCTAAGGAGTATAGAACTCGAACATC
1 TTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATA
* * * *
1325249 TTCTTCAAACGAGTTCGTTCCCTCTTTCTTCTAGGGAGTATAGAACTCGGACATG
1 TTCTTCAAACGGGTTCGCTCCCTCTTTCTT-TAGGGAGTATAGAACTCGAACATA
* * *
1325304 TTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATC
1 TTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATA
* *
1325358 TTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACAT
1 TTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAT
1325411 CTTCATTTGC
Statistics
Matches: 566, Mismatches: 65, Indels: 48
0.83 0.10 0.07
Matches are distributed among these distances:
52 5 0.01
53 3 0.01
54 267 0.47
55 255 0.45
56 29 0.05
57 2 0.00
58 5 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (54 bp):
TTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATA
Found at i:1325245 original size:217 final size:217
Alignment explanation
Indices: 1325012--1325407 Score: 679
Period size: 217 Copynumber: 1.8 Consensus size: 217
1325002 TTTCTTCAGA
* * *
1325012 GAGTATAAGACTCGAACAATCTTCTTTAAACGTGTTCGCTCTCTCTTTCTT-TAGGGAGTATAGA
1 GAGTATAAGACTCGAAC-ATCTTCTTCAAACGAGTTCGCTCCCTCTTTCTTCTAGGGAGTATAGA
*
1325076 ACTCGAACGTATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATC
65 ACTCGAACATATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATC
*
1325141 TTCTTCAAACGGGTTCGCTCCTTCTTTCTCTAAGGAGTATAGAACTCGGATATATTCTTCAAATG
130 TTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGGATATATTCTTCAAATG
1325206 GGTTCGCTCCCTCTTTATCTAAG
195 GGTTCGCTCCCTCTTTATCTAAG
*
1325229 GAGTAT-AGAACTCGAACATCTTCTTCAAACGAGTTCGTTCCCTCTTTCTTCTAGGGAGTATAGA
1 GAGTATAAG-ACTCGAACATCTTCTTCAAACGAGTTCGCTCCCTCTTTCTTCTAGGGAGTATAGA
* *
1325293 ACTCGGACATGTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATC
65 ACTCGAACATATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATC
*
1325358 TTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGA
130 TTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGGA
1325408 CATCTTCATT
Statistics
Matches: 168, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
216 31 0.18
217 137 0.82
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (217 bp):
GAGTATAAGACTCGAACATCTTCTTCAAACGAGTTCGCTCCCTCTTTCTTCTAGGGAGTATAGAA
CTCGAACATATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCT
TCTTCAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGGATATATTCTTCAAATGG
GTTCGCTCCCTCTTTATCTAAG
Found at i:1325411 original size:54 final size:54
Alignment explanation
Indices: 1324700--1325414 Score: 638
Period size: 55 Copynumber: 13.1 Consensus size: 54
1324690 TTTGAAAAGA
* * * *
1324700 ATCTTCTACAAACGGGTTCGTTCCCTCTTTCTCTAGGGAGTATAGAACTTGAATA
1 ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAA-C
**** * * * * *
1324755 ATCTTCTAGGGATGGGTTCGCTCCCTCTTTCTTTCAGTGAGTATAGAACTCAAAT
1 ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATAGAACTCGAAC
* * ** * * * * *
1324810 ATCTT-TAACAATCATGTTTGCTCCCTATTCCTTTAGAGAGTATA-AGACTCGAAC
1 ATCTTCT-TCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGA-ACTCGAAC
** * * * * * * *
1324864 AATCTTCAACAATCGTGTTCGCTCCCTATTTCT-TCAGAGAGTACAAAACTCAAAC
1 -ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATAGAACTCGAAC
** * * * *
1324919 AATCTTCCACAATCGTG-TCTGCTCCCTATTTCT-TCAGAGAGTATA-AGACTCGAAC
1 -ATCTTCTTCAAACGGGTTC-GCTCCCTCTTTCTCT-AGGGAGTATAGA-ACTCGAAC
** * ** * *
1324974 AATCTTCAACAATCATG-TCTGCTCCCTATTTCT-TCAGAGAGTATA-AGACTCGAAC
1 -ATCTTCTTCAAACGGGTTC-GCTCCCTCTTTCTCT-AGGGAGTATAGA-ACTCGAAC
* * * *
1325029 AATCTTCTTTAAACGTGTTCGCTCTCTCTTTCTTTAGGGAGTATAGAACTCGAAC
1 -ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAC
* * *
1325084 GTATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGAC
1 ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAC
* * * *
1325138 ATCTTCTTCAAACGGGTTCGCTCCTTCTTTCTCTAAGGAGTATAGAACTCGGAT
1 ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAC
* * * *
1325192 ATATTCTTCAAATGGGTTCGCTCCCTCTTTATCTAAGGAGTATAGAACTCGAAC
1 ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAC
* * *
1325246 ATCTTCTTCAAACGAGTTCGTTCCCTCTTTCTTCTAGGGAGTATAGAACTCGGAC
1 ATCTTCTTCAAACGGGTTCGCTCCCTCTTTC-TCTAGGGAGTATAGAACTCGAAC
* *
1325301 ATGTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGAC
1 ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAC
*
1325355 ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGAC
1 ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAC
1325409 ATCTTC
1 ATCTTC
1325415 ATTTGCTTCA
Statistics
Matches: 576, Mismatches: 71, Indels: 27
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.00
54 272 0.47
55 282 0.49
56 21 0.04
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (54 bp):
ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAC
Found at i:1326780 original size:15 final size:14
Alignment explanation
Indices: 1326747--1326795 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
1326737 GATCCCTCAT
*
1326747 TTTTTCATTTTTTTA
1 TTTTT-ATTTTTTTC
1326762 TTTTTATTTTTTTCC
1 TTTTTATTTTTTT-C
1326777 TTTTT-TTTTCTTTC
1 TTTTTATTTT-TTTC
1326791 TTTTT
1 TTTTT
1326796 TTCCTTCTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTATTTTTTTC
Found at i:1326796 original size:15 final size:15
Alignment explanation
Indices: 1326762--1326817 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
1326752 CATTTTTTTA
*
1326762 TTTTTATTTT-TTTC
1 TTTTTTTTTTCTTTC
*
1326776 CTTTTTTTTTCTTTC
1 TTTTTTTTTTCTTTC
*
1326791 TTTTTTTCCTTC-TTC
1 TTTTTTT-TTTCTTTC
1326806 TTCTTTTTTTTC
1 TT-TTTTTTTTC
1326818 CATCTTTTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.24
15 18 0.53
16 8 0.24
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTTTTTCTTTC
Found at i:1326799 original size:23 final size:23
Alignment explanation
Indices: 1326746--1326801 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
1326736 TGATCCCTCA
*
1326746 TTTTTTCATTTTTTTATTTTTAT
1 TTTTTTCCTTTTTTTATTTTTAT
*
1326769 TTTTTTCCTTTTTTT-TTCTTTCT
1 TTTTTTCCTTTTTTTATT-TTTAT
1326792 TTTTTTCCTT
1 TTTTTTCCTT
1326802 CTTCTTCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 2 0.07
23 28 0.93
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTTCCTTTTTTTATTTTTAT
Found at i:1326803 original size:12 final size:12
Alignment explanation
Indices: 1326768--1326804 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
1326758 TTTATTTTTA
1326768 TTTTTTTCCTT-
1 TTTTTTTCCTTC
*
1326779 TTTTTTTCTTTC
1 TTTTTTTCCTTC
1326791 TTTTTTTCCTTC
1 TTTTTTTCCTTC
1326803 TT
1 TT
1326805 CTTCTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTTTCCTTC
Found at i:1333312 original size:178 final size:184
Alignment explanation
Indices: 1333005--1333367 Score: 684
Period size: 178 Copynumber: 2.0 Consensus size: 184
1332995 CAAAAACATG
1333005 TTTGTTTCCTCCTCTACCAACGGTGGGTGGACTTGCACTGCTACCTCCCTCCACCTCTGAGCATA
1 TTTGTTTCCTCCTCTACCAACGGTGGGTGGACTTGCACTGCTACCTCCCTCCACCTCTGAGCATA
1333070 TTGTCTGAAACTTTCATTATGCTTTTTCTCCATTGCTTGCAACACCATTTTGTTCGGCCTGACAT
66 TTGTCTGAAACTTTCATTATGCTTTTTCTCCATTGCTTGCAACACCATTTTGTTCGGCCTGACAT
1333135 CCATCACATG-TTGTACTGATC-AGAAATGATTTGGCCAGATCTTTTCATGACA
131 CCATCACATGTTTGTACTGATCAAGAAATGATTTGGCCAGATCTTTTCATGACA
1333187 TTTG-TTCCTCCTCTACCAACGGTGGGTGGACTTGCACTGCTACCT-CCTCCA-C-CTGAGCATA
1 TTTGTTTCCTCCTCTACCAACGGTGGGTGGACTTGCACTGCTACCTCCCTCCACCTCTGAGCATA
1333248 TTGTCTGAAACTTTCATTATGCTTTTTCTCCATTGCTTGCAACACCATTTTGTTCGGCCTGACAT
66 TTGTCTGAAACTTTCATTATGCTTTTTCTCCATTGCTTGCAACACCATTTTGTTCGGCCTGACAT
1333313 CCATCACATGTTTGTACTGATCAAGAAATGATTTGGCCAGATCTTTTCATGACA
131 CCATCACATGTTTGTACTGATCAAGAAATGATTTGGCCAGATCTTTTCATGACA
1333367 T
1 T
1333368 AAAATTAGCT
Statistics
Matches: 179, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
178 84 0.47
179 12 0.07
180 38 0.21
181 41 0.23
182 4 0.02
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.36
Consensus pattern (184 bp):
TTTGTTTCCTCCTCTACCAACGGTGGGTGGACTTGCACTGCTACCTCCCTCCACCTCTGAGCATA
TTGTCTGAAACTTTCATTATGCTTTTTCTCCATTGCTTGCAACACCATTTTGTTCGGCCTGACAT
CCATCACATGTTTGTACTGATCAAGAAATGATTTGGCCAGATCTTTTCATGACA
Found at i:1334153 original size:22 final size:23
Alignment explanation
Indices: 1334119--1334172 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 23
1334109 TAAAGTGCGG
1334119 TGCAAGAAAAATAAAA-ATGCAT-
1 TGCAA-AAAAATAAAAGATGCATA
1334141 TGCAAAAATAATAAAATGATGCATA
1 TGCAAAAA-AATAAAA-GATGCATA
1334166 TGCAAAA
1 TGCAAAA
1334173 TGCAGGGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.11
22 12 0.43
24 6 0.21
25 7 0.25
ACGTcount: A:0.57, C:0.09, G:0.13, T:0.20
Consensus pattern (23 bp):
TGCAAAAAAATAAAAGATGCATA
Found at i:1336746 original size:20 final size:21
Alignment explanation
Indices: 1336709--1336748 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1336699 AAATTAAGTT
1336709 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
1336730 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
1336749 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:1337142 original size:64 final size:65
Alignment explanation
Indices: 1336965--1337127 Score: 204
Period size: 65 Copynumber: 2.5 Consensus size: 65
1336955 GAATTAATTG
* ** *
1336965 AACATCGAATGC-TTTCCATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCA
1 AACATCGAATGCATTT-CATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
1337029 A
65 A
* * ** * **
1337030 AACATAGAATGCATTTGATGCATCGATGCACAAGCCATGCATTGATGCACTCAGGCTATTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
1337094 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
1337128 TGGTGCACCG
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
64 31 0.38
65 48 0.59
66 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:1343373 original size:24 final size:24
Alignment explanation
Indices: 1343345--1343392 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1343335 ACATAATTTT
1343345 TTAAAATTATTTTTAAATTTCGAA
1 TTAAAATTATTTTTAAATTTCGAA
* * * *
1343369 TTAAATTTTTTTTTGATTTTCGAA
1 TTAAAATTATTTTTAAATTTCGAA
1343393 AATTAGTGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.56
Consensus pattern (24 bp):
TTAAAATTATTTTTAAATTTCGAA
Found at i:1343684 original size:21 final size:21
Alignment explanation
Indices: 1343660--1343723 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
1343650 AAAACCGTCC
1343660 TCCCGTTCCTCAACATCCTAA
1 TCCCGTTCCTCAACATCCTAA
**
1343681 TCCCGTTCCTCCTCCA-CCTAA
1 TCCCGTTCCT-CAACATCCTAA
*
1343702 TCCCGATCCTCAAGC-TCCTAA
1 TCCCGTTCCTCAA-CATCCTAA
1343723 T
1 T
1343724 GACTTATTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 1 0.03
21 31 0.89
22 3 0.09
ACGTcount: A:0.20, C:0.45, G:0.06, T:0.28
Consensus pattern (21 bp):
TCCCGTTCCTCAACATCCTAA
Found at i:1344549 original size:21 final size:21
Alignment explanation
Indices: 1344523--1344566 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1344513 ACTCCGGGAG
*
1344523 CTAGTTCTTCTCGAGCTGCTC
1 CTAGTTCTTCTCGAGCTCCTC
* *
1344544 CTAGTTCTTTTCGTGCTCCTC
1 CTAGTTCTTCTCGAGCTCCTC
1344565 CT
1 CT
1344567 CTTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.34, G:0.16, T:0.43
Consensus pattern (21 bp):
CTAGTTCTTCTCGAGCTCCTC
Found at i:1345373 original size:20 final size:21
Alignment explanation
Indices: 1345336--1345375 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1345326 AAATTAAGTT
1345336 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
1345357 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
1345376 TATTCAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:1345606 original size:28 final size:27
Alignment explanation
Indices: 1345567--1345662 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 27
1345557 ATCAACCATG
1345567 CATCGATGCATTAGTGAATTAATTGAA
1 CATCGATGCATTAGTGAATTAATTGAA
* * ** *
1345594 CATCGAATGCATTCCA-TGCATT-CTCCATG
1 CATCG-ATGCATT--AGTGAATTAATTGA-A
1345623 CATCGATGCATTAGTGAATTAATTGAA
1 CATCGATGCATTAGTGAATTAATTGAA
1345650 CATCGAATGCATT
1 CATCG-ATGCATT
1345663 TGATGCATCG
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
26 1 0.02
27 15 0.29
28 25 0.48
29 10 0.19
30 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (27 bp):
CATCGATGCATTAGTGAATTAATTGAA
Found at i:1345613 original size:56 final size:55
Alignment explanation
Indices: 1345553--1345671 Score: 193
Period size: 56 Copynumber: 2.1 Consensus size: 55
1345543 TGATGCACCG
1345553 ATGCATCAACCATGCATCGATGCATTAGTGAATTAATTGAACATCGAATGCATTCC
1 ATGCATC-ACCATGCATCGATGCATTAGTGAATTAATTGAACATCGAATGCATTCC
* **
1345609 ATGCATTCTCCATGCATCGATGCATTAGTGAATTAATTGAACATCGAATGCATTTG
1 ATGCA-TCACCATGCATCGATGCATTAGTGAATTAATTGAACATCGAATGCATTCC
1345665 ATGCATC
1 ATGCATC
1345672 GATGCACAAG
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
55 2 0.03
56 55 0.93
57 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (55 bp):
ATGCATCACCATGCATCGATGCATTAGTGAATTAATTGAACATCGAATGCATTCC
Found at i:1350484 original size:24 final size:24
Alignment explanation
Indices: 1350457--1350592 Score: 209
Period size: 24 Copynumber: 5.7 Consensus size: 24
1350447 ATCAAAACCT
* *
1350457 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCCGATCAG
* *
1350481 AATCTAGGTCAAGTATTCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
*
1350505 AATCCAAGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
1350529 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
* *
1350553 AATCCAGGTCAAGTATCCGATAAT
1 AATCCAGGTCAAGTATCCGATCAG
1350577 AATCCAGGTCAAGTAT
1 AATCCAGGTCAAGTAT
1350593 TATAATAGAA
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 102 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCCGATCAG
Found at i:1352964 original size:13 final size:13
Alignment explanation
Indices: 1352941--1353020 Score: 103
Period size: 13 Copynumber: 6.4 Consensus size: 13
1352931 TATGGTCAAC
1352941 GGTCAACGGGTCG
1 GGTCAACGGGTCG
* *
1352954 AGTCAATGGGTCG
1 GGTCAACGGGTCG
*
1352967 GGTCAAGGGGTCG
1 GGTCAACGGGTCG
1352980 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
1352993 GGTC-A--GGTCT
1 GGTCAACGGGTCG
1353003 GGTCAACGGGTCG
1 GGTCAACGGGTCG
1353016 GGTCA
1 GGTCA
1353021 GGTTGGAACC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
10 8 0.14
11 1 0.02
12 1 0.02
13 47 0.82
ACGTcount: A:0.16, C:0.20, G:0.45, T:0.19
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:1353006 original size:23 final size:23
Alignment explanation
Indices: 1352949--1353023 Score: 96
Period size: 23 Copynumber: 3.1 Consensus size: 23
1352939 ACGGTCAACG
* *
1352949 GGTCGAGTCAATGGGTCGGGTCAA
1 GGTCGGGTCAACGGGTCGGGTC-A
1352973 GGGGTCGGGTCAACGGGTCGGGTCA
1 --GGTCGGGTCAACGGGTCGGGTCA
*
1352998 GGTCTGGTCAACGGGTCGGGTCA
1 GGTCGGGTCAACGGGTCGGGTCA
1353021 GGT
1 GGT
1353024 TGGAACCGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
23 25 0.54
25 1 0.02
26 20 0.43
ACGTcount: A:0.15, C:0.19, G:0.47, T:0.20
Consensus pattern (23 bp):
GGTCGGGTCAACGGGTCGGGTCA
Found at i:1355648 original size:24 final size:24
Alignment explanation
Indices: 1355631--1355790 Score: 266
Period size: 24 Copynumber: 6.7 Consensus size: 24
1355621 ATCAAAACAT
* *
1355631 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCCGATCAG
* *
1355655 AATCCAGGTCAAATATTCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
*
1355679 AATCCAGGTCAAGTATCCGATCAT
1 AATCCAGGTCAAGTATCCGATCAG
1355703 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
1355727 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
*
1355751 AATCCAGGTCAAGTATCCGATTAG
1 AATCCAGGTCAAGTATCCGATCAG
1355775 AATCCAGGTCAAGTAT
1 AATCCAGGTCAAGTAT
1355791 TATAATAGAA
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 127 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCCGATCAG
Found at i:1358251 original size:18 final size:18
Alignment explanation
Indices: 1358197--1358253 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
1358187 TGTGGTCAAC
1358197 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
* *
1358215 AGTCAACAGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
1358233 GGTCAACGGGTCGAGTCG
1 GGTCAACGGGTCGGGTCG
1358251 GGT
1 GGT
1358254 TAGAACCGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.16, C:0.21, G:0.46, T:0.18
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:1359117 original size:2 final size:2
Alignment explanation
Indices: 1359105--1359143 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1359095 TACTTAATGC
1359105 AT AT AT A- AT 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
1359144 TAACAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1361791 original size:2 final size:2
Alignment explanation
Indices: 1361786--1361817 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1361776 ATAAAATAAA
*
1361786 AT AT AT AT AT AA 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
1361818 TTAAAAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1361799 original size:12 final size:12
Alignment explanation
Indices: 1361784--1361822 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1361774 ATATAAAATA
1361784 AAATATATATAT
1 AAATATATATAT
1361796 AAATATATATAT
1 AAATATATATAT
* *
1361808 ATATATATATTT
1 AAATATATATAT
1361820 AAA
1 AAA
1361823 AAGAAAACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATATATATAT
Found at i:1362859 original size:23 final size:23
Alignment explanation
Indices: 1362813--1362859 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
1362803 TATATTTTTA
*
1362813 TTAATATTATATTTATAATGTAT
1 TTAATATTATATTTATAATATAT
1362836 TTAATATTATATTT-TAAATATAT
1 TTAATATTATATTTAT-AATATAT
1362859 T
1 T
1362860 GTTTTAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTAATATTATATTTATAATATAT
Found at i:1364286 original size:5 final size:5
Alignment explanation
Indices: 1364276--1364344 Score: 86
Period size: 5 Copynumber: 13.4 Consensus size: 5
1364266 TAAAATGCAC
* *
1364276 AAAAT AAAAT AAAAT AAAAT AAACAA ACAAAT AAAAT AAAAT AAAA- ATAAGT
1 AAAAT AAAAT AAAAT AAAAT AAA-AT A-AAAT AAAAT AAAAT AAAAT A-AAAT
1364328 AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AA
1364345 GAACACAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
4 1 0.02
5 48 0.86
6 5 0.09
7 2 0.04
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:1364917 original size:163 final size:163
Alignment explanation
Indices: 1364641--1364972 Score: 574
Period size: 163 Copynumber: 2.0 Consensus size: 163
1364631 AACCACTGCA
*
1364641 GGTGACCATAATGCAAAAAATATTAAACTTACGGGAACCTATATGTGATTTTTCCTTAAACAGAT
1 GGTGATCATAATGCAAAAAATATTAAACTTACGGGAACCTATATGTGATTTTTCCTTAAACAGAT
** * *
1364706 GGCTTAAACGAATAACAAACTAAAAAGGAGGACTAAAAACCTAATTAGACACTACTTTAGTTACC
66 GGCTTAAACGAATAACAAACTAAAAAAAAGGACTAAAAACCTAATTAGACACTACTTTACTGACC
* *
1364771 AGACATAAAAAGCCTAAAATACAGGGACCTGTG
131 AGACATAAAAAGCCTAAAATACACGAACCTGTG
* *
1364804 GGTGATCATAATGCAAAAAATATTAAACTTAGGGGAACCTGTATGTGATTTTTCCTTAAACAGAT
1 GGTGATCATAATGCAAAAAATATTAAACTTACGGGAACCTATATGTGATTTTTCCTTAAACAGAT
*
1364869 GGCTTAAACGAATAACATACTAAAAAAAAGGACTAAAAACCTAATTAGACACTACTTTACTGACC
66 GGCTTAAACGAATAACAAACTAAAAAAAAGGACTAAAAACCTAATTAGACACTACTTTACTGACC
1364934 AGACATAAAAAGCCTAAAATACACGAACCTGTG
131 AGACATAAAAAGCCTAAAATACACGAACCTGTG
1364967 GGTGAT
1 GGTGAT
1364973 TAACCTACGA
Statistics
Matches: 159, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
163 159 1.00
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (163 bp):
GGTGATCATAATGCAAAAAATATTAAACTTACGGGAACCTATATGTGATTTTTCCTTAAACAGAT
GGCTTAAACGAATAACAAACTAAAAAAAAGGACTAAAAACCTAATTAGACACTACTTTACTGACC
AGACATAAAAAGCCTAAAATACACGAACCTGTG
Found at i:1376452 original size:17 final size:16
Alignment explanation
Indices: 1376430--1376463 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1376420 GATTCTCTCT
1376430 TGATTCTAGTTGCTTGA
1 TGATTCTAGTTG-TTGA
*
1376447 TGATTCTTGTTGTTGA
1 TGATTCTAGTTGTTGA
1376463 T
1 T
1376464 CAATGTCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.15, C:0.09, G:0.24, T:0.53
Consensus pattern (16 bp):
TGATTCTAGTTGTTGA
Found at i:1376791 original size:64 final size:63
Alignment explanation
Indices: 1376678--1376836 Score: 173
Period size: 64 Copynumber: 2.5 Consensus size: 63
1376668 TGCACTAAGT
* *
1376678 ATGCATCGATGCATAAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGGCTT
1 ATGCATCGATGCATAAAATGCATTCGATGTTTTCAAAAATA-CCAGGTGCATCGATGCATGG--T
1376742 G
63 G
* * * *
1376743 -TGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAT-TCAGAGTGCATTGATGCATGGTG
1 ATGCATCGATGCATAAAATGCATTCGATGTTTTCAAAAATACCAG-GTGCATCGATGCATGGTG
*
1376805 AATGCATC-AGTGCATGAAATGCATTCGATGTT
1 -ATGCATCGA-TGCATAAAATGCATTCGATGTT
1376837 CAATTTATTC
Statistics
Matches: 82, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
62 2 0.02
63 3 0.04
64 69 0.84
65 8 0.10
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (63 bp):
ATGCATCGATGCATAAAATGCATTCGATGTTTTCAAAAATACCAGGTGCATCGATGCATGGTG
Found at i:1378729 original size:21 final size:21
Alignment explanation
Indices: 1378695--1378738 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1378685 CCGGAGGAGG
*
1378695 AGGAGGAGCACGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
*
1378716 AGGAGCAGCTCGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
1378737 AG
1 AG
1378739 CTCCCGGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.36, T:0.07
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAACT
Found at i:1385574 original size:17 final size:16
Alignment explanation
Indices: 1385552--1385585 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1385542 GATTCTCTCT
1385552 TGATTCTAGTTGCTTGA
1 TGATTCTAGTTG-TTGA
*
1385569 TGATTCTTGTTGTTGA
1 TGATTCTAGTTGTTGA
1385585 T
1 T
1385586 CAATGGCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.15, C:0.09, G:0.24, T:0.53
Consensus pattern (16 bp):
TGATTCTAGTTGTTGA
Found at i:1385949 original size:64 final size:64
Alignment explanation
Indices: 1385801--1386009 Score: 187
Period size: 64 Copynumber: 3.2 Consensus size: 64
1385791 TGCACTAAGT
* * * * * *
1385801 ATGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAATAGCCTG-GTGCATCCATGCATGGCT
1 ATGCATCGATGCATGAAATGCATTCGATGTTTTCATAAAT--TCAGAGTGCATCGATGCATGG-T
1385865 TG
63 TG
* * *
1385867 -TGGATCAATGCATCAAATGCATTCGATGTTTTCATAAATTCAGAGTGCATCGATGCATGG-TG
1 ATGCATCGATGCATGAAATGCATTCGATGTTTTCATAAATTCAGAGTGCATCGATGCATGGTTG
* **
1385929 AATGCATCGGTGCATGAAATGCATTCGATG--TTCAATTTATTCATTGA-TGCATCGATGCATGG
1 -ATGCATCGATGCATGAAATGCATTCGATGTTTTC-ATAAATTCA--GAGTGCATCGATGCATGG
1385991 ATTG
62 -TTG
*
1385995 ATGCATCGGTGCATG
1 ATGCATCGATGCATG
1386010 CCTTTGAAAA
Statistics
Matches: 121, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
62 5 0.04
63 9 0.07
64 54 0.45
65 51 0.42
66 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCATGAAATGCATTCGATGTTTTCATAAATTCAGAGTGCATCGATGCATGGTTG
Found at i:1385996 original size:20 final size:20
Alignment explanation
Indices: 1385971--1386009 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1385961 CAATTTATTC
1385971 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
*
1385991 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
1386010 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:1393318 original size:35 final size:36
Alignment explanation
Indices: 1393260--1393334 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 36
1393250 ACTGAATTAA
* * *
1393260 ACGGGGACGGGGGAAAACTGTTTATGCTAAACTGGG
1 ACGGAGACGGGGAAAAACTGTTTATGCTAAACGGGG
*
1393296 ACGGAGACGGGGAAAAAC-GTTTATGTTAAACGGGG
1 ACGGAGACGGGGAAAAACTGTTTATGCTAAACGGGG
1393331 ACGG
1 ACGG
1393335 GTTTAGTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
35 19 0.54
36 16 0.46
ACGTcount: A:0.31, C:0.13, G:0.39, T:0.17
Consensus pattern (36 bp):
ACGGAGACGGGGAAAAACTGTTTATGCTAAACGGGG
Found at i:1393433 original size:38 final size:37
Alignment explanation
Indices: 1393391--1393477 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 37
1393381 TATTAAAAAT
1393391 AATTATTATATATATATAATATTAATAAAATTAATTTA
1 AATTA-TATATATATATAATATTAATAAAATTAATTTA
* * * * *
1393429 AATTAAAAAATATATATAATATTTATATATTTAATTTA
1 AATT-ATATATATATATAATATTAATAAAATTAATTTA
1393467 AA-TATATATAT
1 AATTATATATAT
1393478 TCGGCCCGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
36 6 0.15
37 1 0.02
38 33 0.80
39 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (37 bp):
AATTATATATATATATAATATTAATAAAATTAATTTA
Found at i:1393665 original size:11 final size:11
Alignment explanation
Indices: 1393649--1393680 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
1393639 GGGGACCAAT
1393649 ACCCGGCCCGA
1 ACCCGGCCCGA
1393660 ACCCGGCCCGA
1 ACCCGGCCCGA
1393671 ACCCGGCCCG
1 ACCCGGCCCG
1393681 TTGCCATCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.16, C:0.56, G:0.28, T:0.00
Consensus pattern (11 bp):
ACCCGGCCCGA
Found at i:1396176 original size:24 final size:24
Alignment explanation
Indices: 1396094--1396181 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
1396084 ATTTCTTATT
*
1396094 TGAATTCTGTTTTGACATCTGATC
1 TGAATTCTGTTTTGATATCTGATC
* * *
1396118 TGAAATCTGTTTTGAT-TCCTAACC
1 TGAATTCTGTTTTGATAT-CTGATC
* *
1396142 TGGATTCTGTTCTGATATCTGATC
1 TGAATTCTGTTTTGATATCTGATC
*
1396166 TGAATTATGTTTTGAT
1 TGAATTCTGTTTTGAT
1396182 TTTTGATATC
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 1 0.02
24 48 0.96
25 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.47
Consensus pattern (24 bp):
TGAATTCTGTTTTGATATCTGATC
Found at i:1400941 original size:24 final size:24
Alignment explanation
Indices: 1400842--1400941 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
1400832 ATATTTTATC
* *
1400842 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * *
1400866 TGACATCTGATCTGAAATCTGTTA
1 TGATATCTGATCTGAATTCTGTTT
* * * *
1400890 TGAT-TCCTAACCTGGATTCTGTTC
1 TGATAT-CTGATCTGAATTCTGTTT
*
1400914 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
1400938 TGAT
1 TGAT
1400942 TTTTGATATC
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 56 0.97
25 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:1401220 original size:15 final size:16
Alignment explanation
Indices: 1401200--1401229 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1401190 TGAACCTAAA
1401200 CATCTGAAAT-ATTAC
1 CATCTGAAATGATTAC
1401215 CATCTGAAATGATTA
1 CATCTGAAATGATTA
1401230 TTATCTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (16 bp):
CATCTGAAATGATTAC
Found at i:1410700 original size:23 final size:23
Alignment explanation
Indices: 1410673--1410727 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
1410663 GAGCGTTCAT
*
1410673 TATCAGATAGATGAGTGTCTTTC
1 TATCAAATAGATGAGTGTCTTTC
1410696 TATCAAATAGATGAGTGTCTTTC
1 TATCAAATAGATGAGTGTCTTTC
* *
1410719 GAACAAATA
1 TATCAAATA
1410728 TTATCTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (23 bp):
TATCAAATAGATGAGTGTCTTTC
Found at i:1411396 original size:3 final size:3
Alignment explanation
Indices: 1411382--1411417 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
1411372 GGTCAAAAAA
*
1411382 TAT TAT TAAT TAT TAT TAT TAT TAT TAC TAT TAT TA
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA
1411418 ACTAATTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1411552 original size:22 final size:22
Alignment explanation
Indices: 1411524--1411578 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
1411514 GGGATTCGAA
1411524 CCGACCCGAACCAGGCCTGGAT
1 CCGACCCGAACCAGGCCTGGAT
* *
1411546 CCGACCCGACCCAGTCCTGGAT
1 CCGACCCGAACCAGGCCTGGAT
1411568 CCGACCC-AACC
1 CCGACCCGAACC
1411579 CAGTGTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.22, C:0.47, G:0.22, T:0.09
Consensus pattern (22 bp):
CCGACCCGAACCAGGCCTGGAT
Found at i:1412004 original size:27 final size:27
Alignment explanation
Indices: 1411966--1412020 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
1411956 ATTATAGGGG
*
1411966 TGATCCGGGGGTTTTCTAGAAAAAAGA
1 TGATCCGGGGGTTTTCCAGAAAAAAGA
*
1411993 TGATTCGGGGGTTTTCCAGAAAAAAGA
1 TGATCCGGGGGTTTTCCAGAAAAAAGA
1412020 T
1 T
1412021 ATCAGAGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (27 bp):
TGATCCGGGGGTTTTCCAGAAAAAAGA
Found at i:1417086 original size:24 final size:24
Alignment explanation
Indices: 1416994--1417086 Score: 89
Period size: 24 Copynumber: 3.9 Consensus size: 24
1416984 ATCTGATTTT
* *
1416994 TGATTTGAATTCTGTTTTGACATC
1 TGATCTGAATTCTGTTTTGATATC
* *
1417018 TGATCTGAAATCTGTTCTGAT-TCC
1 TGATCTGAATTCTGTTTTGATAT-C
* * * *
1417042 TAACCTGGATTCTGTTATGATATC
1 TGATCTGAATTCTGTTTTGATATC
*
1417066 TGATCTGAATTATGTTTTGAT
1 TGATCTGAATTCTGTTTTGAT
1417087 TTTTGATATC
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
23 1 0.02
24 51 0.96
25 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (24 bp):
TGATCTGAATTCTGTTTTGATATC
Found at i:1417093 original size:24 final size:24
Alignment explanation
Indices: 1416987--1417093 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
1416977 ATATTTTATC
* *
1416987 TGATTTTTGATTTGAATTCTGTTT
1 TGATTTCTGATCTGAATTCTGTTT
** * *
1417011 TGACATCTGATCTGAAATCTGTTC
1 TGATTTCTGATCTGAATTCTGTTT
* * * * *
1417035 TGATTCCTAACCTGGATTCTGTTA
1 TGATTTCTGATCTGAATTCTGTTT
* *
1417059 TGATATCTGATCTGAATTATGTTT
1 TGATTTCTGATCTGAATTCTGTTT
*
1417083 TGATTTTTGAT
1 TGATTTCTGAT
1417094 ATCTCTGTTT
Statistics
Matches: 60, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTCTGTTT
Found at i:1422172 original size:29 final size:29
Alignment explanation
Indices: 1422139--1422345 Score: 127
Period size: 29 Copynumber: 7.0 Consensus size: 29
1422129 TATGAATTTG
*
1422139 GGGATGAAATTAGAATAGTCAAGAGTTTA
1 GGGATGAAATTAGAATAGTCAAAAGTTTA
* * * *
1422168 GGGATCAATTTAGAAAGAGGATC-ATAGTTTA
1 GGGATGAAATTAG-AATA-G-TCAAAAGTTTA
*
1422199 GGTATGAAATTAGAATAGTCAAAAGTTTA
1 GGGATGAAATTAGAATAGTCAAAAGTTTA
* * **
1422228 GGGATCAATTTAGAA-AGAGGAACATAGTTTA
1 GGGATGAAATTAGAATAG-TCAA-A-AGTTTA
* *
1422259 GGTATGAAATTAGAATAATCAAAAGTTTA
1 GGGATGAAATTAGAATAGTCAAAAGTTTA
* * * * * *
1422288 AGAACT-AATTTAGAACGAGTC-ATAGTTTG
1 GGGA-TGAAATTAGAA-TAGTCAAAAGTTTA
*
1422317 GGGATGAAATT-GAAATATTCAAAAGTTTA
1 GGGATGAAATTAG-AATAGTCAAAAGTTTA
1422346 AGGACCAATT
Statistics
Matches: 131, Mismatches: 34, Indels: 26
0.69 0.18 0.14
Matches are distributed among these distances:
28 9 0.07
29 69 0.53
30 12 0.09
31 38 0.29
32 3 0.02
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.29
Consensus pattern (29 bp):
GGGATGAAATTAGAATAGTCAAAAGTTTA
Found at i:1422200 original size:31 final size:31
Alignment explanation
Indices: 1422162--1422260 Score: 114
Period size: 31 Copynumber: 3.3 Consensus size: 31
1422152 AATAGTCAAG
1422162 AGTTTAGGGATCAATTTAGAAAGAGGATCAT
1 AGTTTAGGGATCAATTTAGAAAGAGGATCAT
* * * * *
1422193 AGTTTAGGTATGAAATTAG-AATA-G-TCAAA
1 AGTTTAGGGATCAATTTAGAAAGAGGATC-AT
*
1422222 AGTTTAGGGATCAATTTAGAAAGAGGAACAT
1 AGTTTAGGGATCAATTTAGAAAGAGGATCAT
1422253 AGTTTAGG
1 AGTTTAGG
1422261 TATGAAATTA
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
28 2 0.04
29 18 0.34
30 6 0.11
31 26 0.49
32 1 0.02
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.29
Consensus pattern (31 bp):
AGTTTAGGGATCAATTTAGAAAGAGGATCAT
Found at i:1422235 original size:60 final size:60
Alignment explanation
Indices: 1422142--1422357 Score: 287
Period size: 60 Copynumber: 3.6 Consensus size: 60
1422132 GAATTTGGGG
*
1422142 ATGAAATTAGAATAGTCAAGAGTTTAGGGATCAATTTAGAAAGAGGATCATAGTTTAGGT
1 ATGAAATTAGAATAGTCAAAAGTTTAGGGATCAATTTAGAAAGAGGATCATAGTTTAGGT
*
1422202 ATGAAATTAGAATAGTCAAAAGTTTAGGGATCAATTTAGAAAGAGGAACATAGTTTAGGT
1 ATGAAATTAGAATAGTCAAAAGTTTAGGGATCAATTTAGAAAGAGGATCATAGTTTAGGT
* * * * * *
1422262 ATGAAATTAGAATAATCAAAAGTTTA-AGAACTAATTTAGAACGA-G-TCATAGTTTGGGG
1 ATGAAATTAGAATAGTCAAAAGTTTAGGGATC-AATTTAGAAAGAGGATCATAGTTTAGGT
* * *
1422320 ATGAAATT-GAAATATTCAAAAGTTTAAGGACCAATTTA
1 ATGAAATTAG-AATAGTCAAAAGTTTAGGGATCAATTTA
1422358 AAATGAAAGT
Statistics
Matches: 141, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
57 1 0.01
58 39 0.28
59 7 0.05
60 94 0.67
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (60 bp):
ATGAAATTAGAATAGTCAAAAGTTTAGGGATCAATTTAGAAAGAGGATCATAGTTTAGGT
Found at i:1422272 original size:31 final size:31
Alignment explanation
Indices: 1422162--1422273 Score: 113
Period size: 31 Copynumber: 3.7 Consensus size: 31
1422152 AATAGTCAAG
* *
1422162 AGTTTAGGGATCAATTTAGAAAGAGGATCAT
1 AGTTTAGGGATCAAATTAGAAAGAGGAACAT
* * **
1422193 AGTTTAGGTATGAAATTAGAATAG-TCAA-A-
1 AGTTTAGGGATCAAATTAGAA-AGAGGAACAT
*
1422222 AGTTTAGGGATCAATTTAGAAAGAGGAACAT
1 AGTTTAGGGATCAAATTAGAAAGAGGAACAT
* *
1422253 AGTTTAGGTATGAAATTAGAA
1 AGTTTAGGGATCAAATTAGAA
1422274 TAATCAAAAG
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
28 2 0.03
29 20 0.32
30 2 0.03
31 37 0.59
32 2 0.03
ACGTcount: A:0.42, C:0.04, G:0.24, T:0.29
Consensus pattern (31 bp):
AGTTTAGGGATCAAATTAGAAAGAGGAACAT
Found at i:1422355 original size:118 final size:120
Alignment explanation
Indices: 1422142--1422357 Score: 296
Period size: 118 Copynumber: 1.8 Consensus size: 120
1422132 GAATTTGGGG
* * * * *
1422142 ATGAAATTAGAATAGTCAAGAGTTTAGGGATCAATTTAGAAAGAGGATCATAGTTTAGGTATGAA
1 ATGAAATTAGAATAATCAAAAGTTTAAGAATCAATTTAGAAAGAGGATCATAGTTTAGGGATGAA
* *
1422207 ATTAGAATAGTCAAAAGTTTAGGGATCAATTTAGAAAGAGGAACATAGTTTAGGT
66 ATTAGAATAGTCAAAAGTTTAAGGACCAATTTAGAAAGAGGAACATAGTTTAGGT
* *
1422262 ATGAAATTAGAATAATCAAAAGTTTAAGAA-CTAATTTAGAACGA-G-TCATAGTTTGGGGATGA
1 ATGAAATTAGAATAATCAAAAGTTTAAGAATC-AATTTAGAAAGAGGATCATAGTTTAGGGATGA
*
1422324 AATT-GAAATATTCAAAAGTTTAAGGACCAATTTA
65 AATTAG-AATAGTCAAAAGTTTAAGGACCAATTTA
1422358 AAATGAAAGT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
117 1 0.01
118 44 0.52
119 2 0.02
120 37 0.44
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (120 bp):
ATGAAATTAGAATAATCAAAAGTTTAAGAATCAATTTAGAAAGAGGATCATAGTTTAGGGATGAA
ATTAGAATAGTCAAAAGTTTAAGGACCAATTTAGAAAGAGGAACATAGTTTAGGT
Found at i:1426697 original size:3 final size:3
Alignment explanation
Indices: 1426679--1426725 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
1426669 CATCAAAAAA
1426679 TAT TAT TAAT TA- TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1426723 TAT
1 TAT
1426726 CTAATTACAT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1426711 original size:14 final size:14
Alignment explanation
Indices: 1426678--1426722 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 14
1426668 CCATCAAAAA
1426678 ATATTATTAATTA-T
1 ATATTATT-ATTATT
1426692 ATTATTATTATTATT
1 A-TATTATTATTATT
1426707 ATATTATTATTATT
1 ATATTATTATTATT
1426721 AT
1 AT
1426723 TATCTAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 20 0.69
15 9 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATTATTATTATT
Found at i:1426732 original size:17 final size:17
Alignment explanation
Indices: 1426679--1426725 Score: 85
Period size: 17 Copynumber: 2.7 Consensus size: 17
1426669 CATCAAAAAA
1426679 TATTATTAATTATATTAT
1 TATTATT-ATTATATTAT
1426697 TATTATTATTATATTAT
1 TATTATTATTATATTAT
1426714 TATTATTATTAT
1 TATTATTATTAT
1426726 CTAATTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 22 0.76
18 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTATTATTATATTAT
Done.