Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 44 of 125
Found at i:8780690 original size:63 final size:63
Alignment explanation
Indices: 8780586--8780764 Score: 227
Period size: 63 Copynumber: 2.8 Consensus size: 63
8780576 GCTTCTCGAT
* * * * * *
8780586 ACAAATTTTGTCCTTTATCACTTGATTATCATTCATAGGCTTCTAAGCACCAGCCATTTCAGA
1 ACAAATTTTCTCCTTTGTCACTTGGTCATCGTTCATGGGCTTCTAAGCACCAGCCATTTCAGA
* * *
8780649 ATAAATTTTCTCCTCTGTCACTTGGTCATCGTTCATGGGCTTCTCAA-CACTAGCCATTTCAGA
1 ACAAATTTTCTCCTTTGTCACTTGGTCATCGTTCATGGGCTTCT-AAGCACCAGCCATTTCAGA
* *
8780712 ACAAA-TTTCATCCTTTGTCACTTGGTCATCGTTCATGGACTTCTTAGCACCAG
1 ACAAATTTTC-TCCTTTGTCACTTGGTCATCGTTCATGGGCTTCTAAGCACCAG
8780765 TTTCATCTAT
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
62 5 0.05
63 92 0.93
64 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (63 bp):
ACAAATTTTCTCCTTTGTCACTTGGTCATCGTTCATGGGCTTCTAAGCACCAGCCATTTCAGA
Found at i:8781519 original size:19 final size:18
Alignment explanation
Indices: 8781495--8781541 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 18
8781485 GTCCCCATAT
8781495 TCTTTTCTTTCCATTTTTC
1 TCTTTT-TTTCCATTTTTC
8781514 TCTTTTTCTTCCATTTTTC
1 TCTTTTT-TTCCATTTTTC
8781533 TCTTTTTTT
1 TCTTTTTTT
8781542 TTTCCATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.11
19 24 0.89
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.72
Consensus pattern (18 bp):
TCTTTTTTTCCATTTTTC
Found at i:8781546 original size:21 final size:20
Alignment explanation
Indices: 8781497--8781566 Score: 79
Period size: 21 Copynumber: 3.5 Consensus size: 20
8781487 CCCCATATTC
*
8781497 TTTTCTTTCCATTTTTCTC-
1 TTTTTTTTCCATTTTTCTCT
*
8781516 TTTTTCTTCCATTTTTCTCTT
1 TTTTTTTTCCATTTTTCTC-T
*
8781537 TTTTTTTTCCATTTTTTTCAT
1 TTTTTTTTCCATTTTTCTC-T
*
8781558 TCTTTTTTC
1 TTTTTTTTC
8781567 TTTTCTTTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.40
21 26 0.60
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTTTTCCATTTTTCTCT
Found at i:8787202 original size:14 final size:14
Alignment explanation
Indices: 8787183--8787212 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8787173 CATAATAGGT
8787183 TCAGGAGTCGGGAG
1 TCAGGAGTCGGGAG
8787197 TCAGGAGTCGGGAG
1 TCAGGAGTCGGGAG
8787211 TC
1 TC
8787213 GGTTACATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.47, T:0.17
Consensus pattern (14 bp):
TCAGGAGTCGGGAG
Found at i:8787967 original size:17 final size:17
Alignment explanation
Indices: 8787928--8787966 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
8787918 AATTCCAAAA
8787928 TTTTTTATATTTTTATG
1 TTTTTTATATTTTTATG
* *
8787945 CTTTTTATGTTTTTAT-
1 TTTTTTATATTTTTATG
8787961 TTTTTT
1 TTTTTT
8787967 TGCTTTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTTTATATTTTTATG
Found at i:8788991 original size:6 final size:6
Alignment explanation
Indices: 8788972--8789077 Score: 53
Period size: 6 Copynumber: 17.7 Consensus size: 6
8788962 ATTAATCAAG
* * * *
8788972 AAAA-A AAAAGA AAAAT- AAAATA ATAATA ATAATA ATAATA AACAA-A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA
* * *
8789018 AAAA-A GAAAATA ATAATA ATGCTAATA ATAATA ATAAATA AAAAT- AAAAT-
1 AAAATA -AAAATA AAAATA A---AAATA AAAATA A-AAATA AAAATA AAAATA
8789068 AAAATA AAAA
1 AAAATA AAAA
8789078 ATATGGATCT
Statistics
Matches: 86, Mismatches: 5, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
5 22 0.26
6 50 0.58
7 8 0.09
9 6 0.07
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:8788996 original size:3 final size:3
Alignment explanation
Indices: 8788985--8789074 Score: 71
Period size: 3 Copynumber: 30.7 Consensus size: 3
8788975 AAAAAAGAAA
* * * *
8788985 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAAC AAA AAA AAG AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
** *
8789029 AAT AAT AAT GCT AAT AAT AAT AAT AAAT AAA AAT AA- AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
8789073 AA
1 AA
8789075 AAAATATGGA
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
2 8 0.11
3 59 0.82
4 5 0.07
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:8789028 original size:36 final size:37
Alignment explanation
Indices: 8788977--8789074 Score: 121
Period size: 39 Copynumber: 2.6 Consensus size: 37
8788967 TCAAGAAAAA
8788977 AAAAGAAAAATAAAATAATAATAA-TAATAATAATAA-
1 AAAA-AAAAATAAAATAATAATAACTAATAATAATAAT
*
8789013 ACAAAAAAAAGAAAATAATAATAATGCTAATAATAATAAT
1 A-AAAAAAAATAAAATAATAATAA--CTAATAATAATAAT
*
8789053 AAATAAAAATAAAATAA-AATAA
1 AAAAAAAAATAAAATAATAATAA
8789075 AAAATATGGA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
36 19 0.35
37 3 0.06
38 5 0.09
39 26 0.48
40 1 0.02
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.21
Consensus pattern (37 bp):
AAAAAAAAATAAAATAATAATAACTAATAATAATAAT
Found at i:8789036 original size:42 final size:42
Alignment explanation
Indices: 8788973--8789080 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
8788963 TTAATCAAGA
8788973 AAAAAAAAGAAAAATAAAATAATAATAATAATAATAATAAAC
1 AAAAAAAAGAAAAATAAAATAATAATAATAATAATAATAAAC
** *
8789015 AAAAAAAAG-AAAATAATAATAATGCTAATAATAATAATAAAT
1 AAAAAAAAGAAAAATAA-AATAATAATAATAATAATAATAAAC
8789057 AAAAATAAA-ATAAAATAAAA-AATA
1 AAAAA-AAAGA-AAAATAAAATAATA
8789081 TGGATCTATC
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
41 7 0.12
42 39 0.67
43 5 0.09
44 7 0.12
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (42 bp):
AAAAAAAAGAAAAATAAAATAATAATAATAATAATAATAAAC
Found at i:8789875 original size:19 final size:19
Alignment explanation
Indices: 8789836--8789873 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
8789826 ACTATAAGCG
*
8789836 ATATTATATTTATAATCAA
1 ATATTATATTTATAATAAA
8789855 ATATTATATTTAT-ATAAA
1 ATATTATATTTATAATAAA
8789873 A
1 A
8789874 ATTTATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATTATATTTATAATAAA
Found at i:8790633 original size:20 final size:22
Alignment explanation
Indices: 8790595--8790636 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
8790585 AATTAAATAT
8790595 TATTTTTATAATAATATATTAA
1 TATTTTTATAATAATATATTAA
8790617 TATTTTTA-AAT-ATATATTAA
1 TATTTTTATAATAATATATTAA
8790637 AATTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTTATAATAATATATTAA
Found at i:8791016 original size:24 final size:24
Alignment explanation
Indices: 8790988--8791038 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
8790978 CTTTGACATT
8790988 TAAAATATATTTTTA-AATT-AATAA
1 TAAAAT-T-TTTTTATAATTAAATAA
8791012 TAAAATTTTTTTATTAATTAAATAA
1 TAAAATTTTTTTA-TAATTAAATAA
8791037 TA
1 TA
8791039 TCTCAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
24 10 0.42
25 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TAAAATTTTTTTATAATTAAATAA
Found at i:8794963 original size:16 final size:16
Alignment explanation
Indices: 8794944--8794977 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8794934 TATAAAAATT
8794944 ATATAAAAATAATAAA
1 ATATAAAAATAATAAA
* *
8794960 ATATAAAATTGATAAA
1 ATATAAAAATAATAAA
8794976 AT
1 AT
8794978 CAATATATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
ATATAAAAATAATAAA
Found at i:8807489 original size:26 final size:27
Alignment explanation
Indices: 8807440--8807490 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
8807430 CACTACTAAT
** *
8807440 AAAAATAGAATTGGACGTTGTTTAAAA
1 AAAAATAGAATCCGACGTTATTTAAAA
8807467 AAAAATAGAATCCGACG-TATTTAA
1 AAAAATAGAATCCGACGTTATTTAA
8807491 TTTATTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAAATAGAATCCGACGTTATTTAAAA
Found at i:8818567 original size:28 final size:28
Alignment explanation
Indices: 8818532--8818591 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
8818522 ATAAAAAGGA
* *
8818532 GAAAAACTAGAAATATGTTAATAAGGTT
1 GAAAAACTAGAAATATGTAAATAAGGGT
8818560 GAAAAACTAGAAATATGTAAATAAGGGT
1 GAAAAACTAGAAATATGTAAATAAGGGT
8818588 GAAA
1 GAAA
8818592 TATTATGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.53, C:0.03, G:0.20, T:0.23
Consensus pattern (28 bp):
GAAAAACTAGAAATATGTAAATAAGGGT
Found at i:8825652 original size:15 final size:16
Alignment explanation
Indices: 8825624--8825658 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
8825614 TTAAGGTAAT
*
8825624 GAAAAAGAATAAAAAA
1 GAAAAAGAAAAAAAAA
8825640 GAAAAA-AAAAAAAAA
1 GAAAAAGAAAAAAAAA
8825655 GAAA
1 GAAA
8825659 GTATTGCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (16 bp):
GAAAAAGAAAAAAAAA
Found at i:8826376 original size:19 final size:19
Alignment explanation
Indices: 8826342--8826400 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
8826332 ATGTATCTAA
8826342 TAAAAATTT-T-AAATTAT
1 TAAAAATTTATAAAATTAT
*
8826359 TTAAAATTTATAAAATTAT
1 TAAAAATTTATAAAATTAT
8826378 TAAATAATTTA-AAAATTAT
1 TAAA-AATTTATAAAATTAT
8826397 TAAA
1 TAAA
8826401 TTATTTTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.22
18 1 0.03
19 22 0.59
20 6 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAAATTTATAAAATTAT
Found at i:8826380 original size:27 final size:27
Alignment explanation
Indices: 8826344--8826405 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
8826334 GTATCTAATA
* *
8826344 AAAATT-TTAAATTATTTAAAATTTAT
1 AAAATTATTAAATAATTTAAAAATTAT
8826370 AAAATTATTAAATAATTTAAAAATTAT
1 AAAATTATTAAATAATTTAAAAATTAT
*
8826397 TAAATTATT
1 AAAATTATT
8826406 TTATATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
AAAATTATTAAATAATTTAAAAATTAT
Found at i:8826401 original size:19 final size:20
Alignment explanation
Indices: 8826352--8826406 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
8826342 TAAAAATTTT
*
8826352 AAATTATTTAA-AATTTATA
1 AAATTATTAAATAATTTATA
8826371 AAATTATTAAATAATTTA-A
1 AAATTATTAAATAATTTATA
*
8826390 AAATTATTAAATTATTT
1 AAATTATTAAATAATTT
8826407 TATATTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 27 0.82
20 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATTATTAAATAATTTATA
Found at i:8826806 original size:20 final size:21
Alignment explanation
Indices: 8826770--8826821 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
8826760 TTCGAAATTA
8826770 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
8826792 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
8826813 AT-AAATATT
1 ATAAAATATT
8826822 TAAATATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:8826812 original size:21 final size:22
Alignment explanation
Indices: 8826770--8826821 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
8826760 TTCGAAATTA
8826770 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
8826792 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
8826813 AT-AAATATT
1 ATAAAATATT
8826822 TAAATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:8826814 original size:14 final size:14
Alignment explanation
Indices: 8826806--8826845 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
8826796 AATATTATTT
8826806 TTTAAATATAAATA
1 TTTAAATATAAATA
8826820 TTTAAATATATAATTA
1 TTTAAATATA-AA-TA
*
8826836 TATAAATATA
1 TTTAAATATA
8826846 TTTAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:8826827 original size:8 final size:8
Alignment explanation
Indices: 8826811--8826846 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
8826801 TATTTTTTAA
8826811 ATATAAAT
1 ATATAAAT
*
8826819 ATTTAAAT
1 ATATAAAT
*
8826827 ATATAATT
1 ATATAAAT
8826835 ATATAAAT
1 ATATAAAT
8826843 ATAT
1 ATAT
8826847 TTAATTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
ATATAAAT
Found at i:8839817 original size:18 final size:19
Alignment explanation
Indices: 8839732--8839818 Score: 92
Period size: 18 Copynumber: 4.8 Consensus size: 19
8839722 ATATATTTGA
8839732 GGATGATACATTTG-TGGT
1 GGATGATACATTTGATGGT
**
8839750 GGGGGATACATTT-ATGGT
1 GGATGATACATTTGATGGT
**
8839768 AAATGATACATTT-ATGGT
1 GGATGATACATTTGATGGT
**
8839786 AAATGATACATTTGAT-GT
1 GGATGATACATTTGATGGT
8839804 GGATGATACATTTGA
1 GGATGATACATTTGA
8839819 AGAGGTGAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
18 57 0.97
19 2 0.03
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (19 bp):
GGATGATACATTTGATGGT
Found at i:8839874 original size:18 final size:18
Alignment explanation
Indices: 8839847--8839881 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8839837 TAAGGTGGAT
* *
8839847 AATAATCATATGGAGGTG
1 AATAACCATAAGGAGGTG
8839865 AATAACCATAAGGAGGT
1 AATAACCATAAGGAGGT
8839882 CAAAAATTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.23
Consensus pattern (18 bp):
AATAACCATAAGGAGGTG
Found at i:8840224 original size:6 final size:6
Alignment explanation
Indices: 8840215--8840267 Score: 88
Period size: 6 Copynumber: 8.8 Consensus size: 6
8840205 ATCTTTATTT
*
8840215 CCATCA CCATTA CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA
1 CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA
*
8840263 TCATC
1 CCATC
8840268 TGGACTTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.32, C:0.47, G:0.00, T:0.21
Consensus pattern (6 bp):
CCATCA
Found at i:8846174 original size:3 final size:3
Alignment explanation
Indices: 8846166--8846202 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
8846156 GATCGAAAGA
8846166 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8846203 AAGCTTATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8848102 original size:25 final size:25
Alignment explanation
Indices: 8848073--8848136 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
8848063 TAAAAATTGT
*
8848073 AAATTATTTA-ATATT-TATACAATTA
1 AAATTATTTATATATTAAATA-AA-TA
8848098 AAATTTATTTATATATTAAATAAATA
1 AAA-TTATTTATATATTAAATAAATA
8848124 AAATTATTT-TATA
1 AAATTATTTATATA
8848137 AATTTTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
24 4 0.11
25 9 0.26
26 12 0.34
27 7 0.20
28 3 0.09
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
AAATTATTTATATATTAAATAAATA
Found at i:8848650 original size:22 final size:22
Alignment explanation
Indices: 8848604--8848650 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
8848594 AGTTTAAAAT
* *
8848604 TTTAATAAAAATTATATATAAA
1 TTTAATAAAAATTAAAAATAAA
8848626 TTTAATAAAAA-TAAAAATAATA
1 TTTAATAAAAATTAAAAATAA-A
8848648 TTT
1 TTT
8848651 CATATTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAATAAAAATTAAAAATAAA
Found at i:8849950 original size:7 final size:7
Alignment explanation
Indices: 8849935--8849979 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
8849925 AAAAAATTAT
8849935 AAATATTA
1 AAAT-TTA
8849943 AAATTTA
1 AAATTTA
8849950 AAATTTA
1 AAATTTA
8849957 AAATTTA
1 AAATTTA
*
8849964 AAATTATT
1 AAATT-TA
8849972 AAATTTA
1 AAATTTA
8849979 A
1 A
8849980 TTTATTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 24 0.71
8 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:8849984 original size:14 final size:14
Alignment explanation
Indices: 8849957--8850017 Score: 54
Period size: 14 Copynumber: 4.3 Consensus size: 14
8849947 TTAAAATTTA
*
8849957 AAATTTAAAATTATT
1 AAATTT-AATTTATT
8849972 AAATTTAATTTATT
1 AAATTTAATTTATT
**
8849986 AAAAATAATTATATT
1 AAATTTAATT-TATT
8850001 -AA-TTAATTTAATT
1 AAATTTAATTT-ATT
8850014 AAAT
1 AAAT
8850018 ATTGAATTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 1 0.03
13 8 0.21
14 19 0.50
15 10 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTAATTTATT
Found at i:8855441 original size:2 final size:2
Alignment explanation
Indices: 8855434--8855458 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8855424 AAGTTTATGA
8855434 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 T
8855459 TATGTCTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8860002 original size:2 final size:2
Alignment explanation
Indices: 8859997--8860044 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
8859987 TGTGTGTGTG
* * * * *
8859997 TA TA TA TA TA TA TA TA TA TA CA CA CA CA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8860039 TA TA TA
1 TA TA TA
8860045 CATACACACA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (2 bp):
TA
Found at i:8860037 original size:28 final size:28
Alignment explanation
Indices: 8859997--8860052 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
8859987 TGTGTGTGTG
*
8859997 TATATATATATATATATATACACACACA
1 TATATATACATATATATATACACACACA
*
8860025 TATATATACATATATATATACATACACA
1 TATATATACATATATATATACACACACA
8860053 CACACACATA
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:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (28 bp):
TATATATACATATATATATACACACACA
Found at i:8862278 original size:2 final size:2
Alignment explanation
Indices: 8862273--8862308 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8862263 TATATAGTTT
8862273 TA TA TA TA TA 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 TA TA TA TA TA
8862309 GACACACACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8866096 original size:1 final size:1
Alignment explanation
Indices: 8866090--8866122 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
8866080 TCTCAAAGGG
8866090 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8866123 CTGCAAGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8871883 original size:2 final size:2
Alignment explanation
Indices: 8871878--8871928 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
8871868 GTTAATGTTC
* *
8871878 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
8871920 AT AG AT AT A
1 AT AT AT AT A
8871929 CACACACAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (2 bp):
AT
Found at i:8873045 original size:2 final size:2
Alignment explanation
Indices: 8873038--8873069 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8873028 ATCCCTTTAC
8873038 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
8873070 TTGAGTAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8875748 original size:25 final size:25
Alignment explanation
Indices: 8875720--8875768 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
8875710 ACTAGGGCCT
* * *
8875720 TATGCTAACTACTATAACCTGTTAA
1 TATGATAACCACTATAACCCGTTAA
8875745 TATGATAACCACTATAACCCGTTA
1 TATGATAACCACTATAACCCGTTA
8875769 GTCAAGGCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (25 bp):
TATGATAACCACTATAACCCGTTAA
Found at i:8903142 original size:18 final size:18
Alignment explanation
Indices: 8903099--8903143 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
8903089 TATATTATTA
*
8903099 TAAATTATAACATATAATT
1 TAAA-TATAAAATATAATT
**
8903118 TTTATATAAAATATAATT
1 TAAATATAAAATATAATT
8903136 TAAATATA
1 TAAATATA
8903144 TGAATTTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAATATAAAATATAATT
Found at i:8903150 original size:32 final size:31
Alignment explanation
Indices: 8903084--8903150 Score: 73
Period size: 31 Copynumber: 2.1 Consensus size: 31
8903074 CATATTTTAT
* *
8903084 ATTTTTATATTATTATAAATTATAACATATA
1 ATTTTTATATAAATATAAATTATAACATATA
* *
8903115 ATTTTTATATAAAATATAATTTA-AATATATGA
1 ATTTTTATAT-AAATATAAATTATAACATAT-A
8903147 ATTT
1 ATTT
8903151 AAATATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 16 0.53
32 14 0.47
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (31 bp):
ATTTTTATATAAATATAAATTATAACATATA
Found at i:8903151 original size:14 final size:13
Alignment explanation
Indices: 8903124--8903156 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
8903114 AATTTTTATA
8903124 TAAA-ATATAATT
1 TAAATATATAATT
8903136 TAAATATATGAATT
1 TAAATATAT-AATT
8903150 TAAATAT
1 TAAATAT
8903157 TTTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 4 0.21
14 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (13 bp):
TAAATATATAATT
Found at i:8903454 original size:11 final size:11
Alignment explanation
Indices: 8903419--8903457 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
8903409 AATATTTTTT
8903419 AATTTTTATTA
1 AATTTTTATTA
* *
8903430 AATTTATATAA
1 AATTTTTATTA
*
8903441 AATTTTTGTTA
1 AATTTTTATTA
8903452 AATTTT
1 AATTTT
8903458 AAATTTTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (11 bp):
AATTTTTATTA
Found at i:8908142 original size:18 final size:19
Alignment explanation
Indices: 8908110--8908148 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
8908100 ATAGTTAAAA
*
8908110 ATGATCATTTTTTTCTATT
1 ATGATCATTTATTTCTATT
*
8908129 ATGAT-ATTTATTTCTGTT
1 ATGATCATTTATTTCTATT
8908147 AT
1 AT
8908149 AAATTCTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (19 bp):
ATGATCATTTATTTCTATT
Found at i:8919582 original size:144 final size:145
Alignment explanation
Indices: 8919410--8919689 Score: 535
Period size: 144 Copynumber: 1.9 Consensus size: 145
8919400 GAGGGAGAGT
*
8919410 TTTGTAATTTAAAAAAATTTAAAATTTAATCTTTGTACTATAATTTATTAAAATTTAGTATTTTT
1 TTTGTAATTTAAAAAAATTTAAAATTTAATCTTTGTACTATAATTTATAAAAATTTAGTATTTTT
8919475 ATTACTTTAATTTAATAATTTTAATCTAATTATTAACTCTATCAAATTTTTACTAACGTAATATT
66 ATTACTTTAATTTAATAATTTTAATCTAATTATTAACTCTATCAAATTTTTACTAACGTAATATT
8919540 GACTTATTGACAGAA
131 GACTTATTGACAGAA
*
8919555 TTTGTAATTT-AAAAAATTTAGAATTTAATCTTTGTACTATAATTTATAAAAATTTAGTATTTTT
1 TTTGTAATTTAAAAAAATTTAAAATTTAATCTTTGTACTATAATTTATAAAAATTTAGTATTTTT
8919619 ATTACTTTAATTTAATAATTTTAATCTAATTATTAACTCTATCAAATTTTTACTAACGTAATATT
66 ATTACTTTAATTTAATAATTTTAATCTAATTATTAACTCTATCAAATTTTTACTAACGTAATATT
8919684 GACTTA
131 GACTTA
8919690 GTGATATGTC
Statistics
Matches: 133, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
144 123 0.92
145 10 0.08
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (145 bp):
TTTGTAATTTAAAAAAATTTAAAATTTAATCTTTGTACTATAATTTATAAAAATTTAGTATTTTT
ATTACTTTAATTTAATAATTTTAATCTAATTATTAACTCTATCAAATTTTTACTAACGTAATATT
GACTTATTGACAGAA
Found at i:8919856 original size:16 final size:17
Alignment explanation
Indices: 8919828--8919860 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
8919818 TAATTTTTTA
8919828 AATTTTCAAAAATATTT
1 AATTTTCAAAAATATTT
8919845 AATTTT-AAAAATATTT
1 AATTTTCAAAAATATTT
8919861 TTGGTCCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTTCAAAAATATTT
Found at i:8919912 original size:17 final size:19
Alignment explanation
Indices: 8919891--8919932 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
8919881 TATTTTTTGA
*
8919891 AATATATTAATT-TTTATT
1 AATATATTAATTAATTATT
8919909 -ATATA-TAATTAATTATT
1 AATATATTAATTAATTATT
8919926 AATATAT
1 AATATAT
8919933 CATTTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
16 5 0.25
17 10 0.50
18 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATATTAATTAATTATT
Found at i:8919921 original size:20 final size:19
Alignment explanation
Indices: 8919892--8919932 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
8919882 ATTTTTTGAA
* *
8919892 ATATATTAATTTTTATTAT
1 ATATATTAATTATTAATAT
8919911 ATATAATTAATTATTAATAT
1 ATAT-ATTAATTATTAATAT
8919931 AT
1 AT
8919933 CATTTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATATTAATTATTAATAT
Found at i:8920550 original size:18 final size:19
Alignment explanation
Indices: 8920507--8920551 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8920497 TTTAAAATTT
8920507 AATATTTTAAAAAACCAAA
1 AATATTTTAAAAAACCAAA
* **
8920526 AAAATTTTAAAAATTC-AA
1 AATATTTTAAAAAACCAAA
8920544 AATATTTT
1 AATATTTT
8920552 TTGTATTGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATTTTAAAAAACCAAA
Found at i:8931848 original size:19 final size:19
Alignment explanation
Indices: 8931826--8931883 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
8931816 TTAAAAATTC
8931826 AATTTTACTTTAAATATAA
1 AATTTTACTTTAAATATAA
* * *
8931845 AATTTCACTGT-GAT-T--
1 AATTTTACTTTAAATATAA
8931860 AATTTTACTTTAAATATAA
1 AATTTTACTTTAAATATAA
8931879 AATTT
1 AATTT
8931884 CATGGGGATT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
15 9 0.31
16 2 0.07
17 2 0.07
18 2 0.07
19 14 0.48
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.48
Consensus pattern (19 bp):
AATTTTACTTTAAATATAA
Found at i:8933303 original size:20 final size:20
Alignment explanation
Indices: 8933278--8933315 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8933268 TTTTTGAGAG
8933278 GTTCTC-AAATCTCGATGATT
1 GTTCTCAAAAT-TCGATGATT
8933298 GTTCTCAAAATTCGATGA
1 GTTCTCAAAATTCGATGA
8933316 CTAATTCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (20 bp):
GTTCTCAAAATTCGATGATT
Found at i:8933405 original size:2 final size:2
Alignment explanation
Indices: 8933398--8933424 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8933388 AAATAAAAAG
8933398 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 G
8933425 TTAAAGGAAA
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8934107 original size:102 final size:103
Alignment explanation
Indices: 8933846--8934132 Score: 341
Period size: 102 Copynumber: 2.8 Consensus size: 103
8933836 TAAACACACG
* * * * **
8933846 AATCCCGTCAAATGATTGGAGGATTTTAAATCTTGAATTATGAATTTTACTAAATAATT-AGAGA
1 AATCCCATCAAATGATTGAAAGATTTTAAATCTTGAATTATGAATTCTACTAAACGATTGA-AGA
*
8933910 ATTTCATAATGAAATTTTTGTAAAAAAAAAACTTTCTTTT
65 ATTTCATAATG-AATTTTTGTAAAAAAAAAACTTTCTTTA
* * *
8933950 AATCCTATCAAATGATTAGAAAG-TTTTAAATTTTGAATTGTGAATTCTACTAAACGATTGAAGA
1 AATCCCATCAAATGATT-GAAAGATTTTAAATCTTGAATTATGAATTCTACTAAACGATTGAAGA
* * * *
8934014 ATTTTATAATGAATTTTTGTGAAGAATAAA-TTAT-TTTA
65 ATTTCATAATGAATTTTTGTAAAAAAAAAACTT-TCTTTA
* * *
8934052 AATCCCATTAAATGATTGAAAGATTTTAAATCTTAAATTATGAATACTA-TCAAACGATTGAAGA
1 AATCCCATCAAATGATTGAAAGATTTTAAATCTTGAATTATGAATTCTACT-AAACGATTGAAGA
8934116 ATTTCATAATGAATTTT
65 ATTTCATAATGAATTTT
8934133 GAAAAACAAT
Statistics
Matches: 157, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
101 6 0.04
102 71 0.45
103 17 0.11
104 59 0.38
105 4 0.03
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (103 bp):
AATCCCATCAAATGATTGAAAGATTTTAAATCTTGAATTATGAATTCTACTAAACGATTGAAGAA
TTTCATAATGAATTTTTGTAAAAAAAAAACTTTCTTTA
Found at i:8938780 original size:18 final size:17
Alignment explanation
Indices: 8938759--8938793 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
8938749 AAAGAAAAAT
8938759 TGAAAGGAAAAAGTGAAA
1 TGAAAGGAAAAA-TGAAA
8938777 TGAAAGGAAAAATGAAA
1 TGAAAGGAAAAATGAAA
8938794 AAGAGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.63, C:0.00, G:0.26, T:0.11
Consensus pattern (17 bp):
TGAAAGGAAAAATGAAA
Found at i:8949108 original size:57 final size:59
Alignment explanation
Indices: 8949038--8949148 Score: 165
Period size: 59 Copynumber: 1.9 Consensus size: 59
8949028 TAAGCAATCT
* * *
8949038 TGAGTTTCAAGAAAA-ACATG-GA-AGACAGCCATGTGAATTACACGTGGCAATAATGAA
1 TGAGTTACAAGAAAAGACATGAAATAGACAGCCATCTG-ATTACACGTGGCAATAATGAA
8949095 TGAGTTACAAGAAAAGACATGAAATAGACAGCCATCTGATTACACGTGGCAATA
1 TGAGTTACAAGAAAAGACATGAAATAGACAGCCATCTGATTACACGTGGCAATA
8949149 TATGGAATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
57 14 0.29
58 5 0.10
59 17 0.35
60 12 0.25
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (59 bp):
TGAGTTACAAGAAAAGACATGAAATAGACAGCCATCTGATTACACGTGGCAATAATGAA
Found at i:8949707 original size:17 final size:18
Alignment explanation
Indices: 8949685--8949718 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8949675 TTATACATAT
*
8949685 TAAAAT-ATTTTATGTAC
1 TAAAATCATATTATGTAC
8949702 TAAAATCATATTATGTA
1 TAAAATCATATTATGTA
8949719 TGTATTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (18 bp):
TAAAATCATATTATGTAC
Found at i:8957873 original size:30 final size:29
Alignment explanation
Indices: 8957789--8957874 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
8957779 TATTTAAATC
* * *
8957789 ATTAATCTTTAATTTACATTTAAATAAACT
1 ATTAATTTTTAATTTATA-CTAAATAAACT
* * *
8957819 ATCAATTTTTAA-TTATATCCAAATAAATT
1 ATTAATTTTTAATTTATA-CTAAATAAACT
*
8957848 TTTAATTTTTAATTTATACATAAATAA
1 ATTAATTTTTAATTTATAC-TAAATAA
8957875 GCATTTAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
29 24 0.53
30 21 0.47
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTAATTTTTAATTTATACTAAATAAACT
Found at i:8957952 original size:23 final size:24
Alignment explanation
Indices: 8957913--8957957 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
8957903 AAATAAAATT
8957913 TTATTTGGATATAAATAAAAAAAA
1 TTATTTGGATATAAATAAAAAAAA
8957937 TTATTT-GACTAT-AATAAAAAA
1 TTATTTGGA-TATAAATAAAAAA
8957958 TATAGAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (24 bp):
TTATTTGGATATAAATAAAAAAAA
Found at i:8969910 original size:26 final size:26
Alignment explanation
Indices: 8969872--8969927 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
8969862 ACAAGGCATA
8969872 TTTTTAATATTTTTAAACTTATATTT
1 TTTTTAATATTTTTAAACTTATATTT
***
8969898 TTTTTCAAT-TTTTTATTTTTATATTT
1 TTTTT-AATATTTTTAAACTTATATTT
8969924 TTTT
1 TTTT
8969928 CGTATTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTTAATATTTTTAAACTTATATTT
Found at i:8970624 original size:2 final size:2
Alignment explanation
Indices: 8970617--8970646 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8970607 AAAGTAACAC
8970617 TA TA 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 TA TA
8970647 AGAAAACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8971312 original size:10 final size:9
Alignment explanation
Indices: 8971290--8971314 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8971280 ACTTGGTCAA
8971290 TTTTTATGG
1 TTTTTATGG
8971299 TTTTTATGG
1 TTTTTATGG
8971308 TTTTTAT
1 TTTTTAT
8971315 CTATTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (9 bp):
TTTTTATGG
Found at i:8977054 original size:18 final size:18
Alignment explanation
Indices: 8977031--8977074 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
8977021 ATTGATTTAC
8977031 TGCATCAGGGAGCATCAT
1 TGCATCAGGGAGCATCAT
8977049 TGCATCAGGGAGCATCAT
1 TGCATCAGGGAGCATCAT
8977067 TGCATCAG
1 TGCATCAG
8977075 AGTGATTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (18 bp):
TGCATCAGGGAGCATCAT
Found at i:8981633 original size:21 final size:22
Alignment explanation
Indices: 8981603--8981652 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
8981593 TGATAAATTC
8981603 TAAAAATTAAAA-CT-AATTTT
1 TAAAAATTAAAATCTGAATTTT
*
8981623 TAAAAACTTAAAATCTGATTTTT
1 TAAAAA-TTAAAATCTGAATTTT
8981646 TAAAAAT
1 TAAAAAT
8981653 AAAGGAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 6 0.23
21 6 0.23
22 3 0.12
23 11 0.42
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAAAATTAAAATCTGAATTTT
Found at i:8983178 original size:7 final size:7
Alignment explanation
Indices: 8983166--8983202 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
8983156 TTTAGTTTTG
8983166 AATTTAT
1 AATTTAT
8983173 AATTTAT
1 AATTTAT
8983180 AATTT-T
1 AATTTAT
8983186 -ATTTAT
1 AATTTAT
*
8983192 ATTTTAT
1 AATTTAT
8983199 AATT
1 AATT
8983203 ATGTTTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
5 4 0.15
6 2 0.08
7 20 0.77
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
AATTTAT
Found at i:8988100 original size:2 final size:2
Alignment explanation
Indices: 8988093--8988120 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8988083 AAGCTCCATT
8988093 TA 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 TA
8988121 GTTATAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8988219 original size:18 final size:20
Alignment explanation
Indices: 8988183--8988227 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
8988173 AAAAAATAAT
* *
8988183 TAAAAATGCATTTACAAAAC
1 TAAAAATACATTGACAAAAC
8988203 -AAAAATACATTGA-AAAAC
1 TAAAAATACATTGACAAAAC
8988221 TAAAAAT
1 TAAAAAT
8988228 TAGATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.62, C:0.11, G:0.04, T:0.22
Consensus pattern (20 bp):
TAAAAATACATTGACAAAAC
Found at i:9006122 original size:13 final size:13
Alignment explanation
Indices: 9006095--9006136 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
9006085 TTATATATAT
9006095 TATATTAATTTTAA
1 TATATTAA-TTTAA
9006109 TACT-TTAATTTAA
1 TA-TATTAATTTAA
9006122 TATATTAATTTAA
1 TATATTAATTTAA
9006135 TA
1 TA
9006137 AAAATATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 1 0.04
13 18 0.69
14 6 0.23
15 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
TATATTAATTTAA
Found at i:9007533 original size:20 final size:20
Alignment explanation
Indices: 9007505--9007542 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9007495 AGGAAGGAAT
9007505 AAATGGTTT-TTTTATTTATG
1 AAATGGTTTCTTTT-TTTATG
*
9007525 AAATTGTTTCTTTTTTTA
1 AAATGGTTTCTTTTTTTA
9007543 CATTAAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.24, C:0.03, G:0.11, T:0.63
Consensus pattern (20 bp):
AAATGGTTTCTTTTTTTATG
Found at i:9010434 original size:17 final size:18
Alignment explanation
Indices: 9010409--9010444 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
9010399 TAATATTATT
*
9010409 TAATTTTATTTTAT-TTA
1 TAATATTATTTTATCTTA
9010426 TAATATTATTTTATCTTA
1 TAATATTATTTTATCTTA
9010444 T
1 T
9010445 CTTATCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TAATATTATTTTATCTTA
Found at i:9010444 original size:27 final size:27
Alignment explanation
Indices: 9010398--9010449 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
9010388 ATAAAATAAA
* *
9010398 ATAATATTATTTAATTTTATTTTATTT
1 ATAATATTATTTAATCTTATCTTATTT
*
9010425 ATAATATTATTTTATCTTATCTTAT
1 ATAATATTATTTAATCTTATCTTAT
9010450 CATAATCTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (27 bp):
ATAATATTATTTAATCTTATCTTATTT
Found at i:9011139 original size:15 final size:14
Alignment explanation
Indices: 9011099--9011143 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 14
9011089 GTCCTGTCAC
9011099 TTTTATAT-TT-TA
1 TTTTATATATTATA
*
9011111 TTTT-TATATCATA
1 TTTTATATATTATA
9011124 TTTATATATATTATA
1 TTT-TATATATTATA
9011139 TTTTA
1 TTTTA
9011144 AATTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 3 0.11
12 5 0.19
13 5 0.19
14 3 0.11
15 11 0.41
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATATATTATA
Found at i:9011811 original size:29 final size:30
Alignment explanation
Indices: 9011733--9011811 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
9011723 TATGTTACGA
*
9011733 ATAATTTTTAAATTATAATAAAATATTTAAT
1 ATAATATTTAAATTATAA-AAAATATTTAAT
* *
9011764 ATAATATTTAAATTTTAAAAAAT-TTTGAT
1 ATAATATTTAAATTATAAAAAATATTTAAT
* * *
9011793 GTGATATTTAAAATATAAA
1 ATAATATTTAAATTATAAA
9011812 TTTATTAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 20 0.49
30 5 0.12
31 16 0.39
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (30 bp):
ATAATATTTAAATTATAAAAAATATTTAAT
Found at i:9015193 original size:29 final size:29
Alignment explanation
Indices: 9015159--9015215 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
9015149 TATCCTCCAA
*
9015159 TCTCCTGCCTTGTTC-CTTTGGTCCTTCAC
1 TCTCCTGCCCTGTTCGCTTTGG-CCTTCAC
*
9015188 TCTCCTGCCCTGTTCGTTTTGGCCTTCA
1 TCTCCTGCCCTGTTCGCTTTGGCCTTCA
9015216 ATCACCATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.04, C:0.37, G:0.16, T:0.44
Consensus pattern (29 bp):
TCTCCTGCCCTGTTCGCTTTGGCCTTCAC
Found at i:9017630 original size:29 final size:29
Alignment explanation
Indices: 9017591--9017673 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
9017581 CTGAGATAGT
* *
9017591 TATTAAGTTATATTGAATTATGCTTCTTA
1 TATTAAGTTATCTTGAATTATGCTTCGTA
*
9017620 TATTAAGTTATCTTGAATTATGCTTCGTC
1 TATTAAGTTATCTTGAATTATGCTTCGTA
9017649 TATTAAGTTATCTTGAATTATGCTT
1 TATTAAGTTATCTTGAATTATGCTT
9017674 TGTCTCCTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.51
Consensus pattern (29 bp):
TATTAAGTTATCTTGAATTATGCTTCGTA
Found at i:9024005 original size:20 final size:20
Alignment explanation
Indices: 9023967--9024005 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9023957 TATTTGATAA
*
9023967 AAATTTAATTATTTATATTC
1 AAATTTAAATATTTATATTC
9023987 AAATTTAAAATATTT-TATT
1 AAATTT-AAATATTTATATT
9024006 AATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATTTAAATATTTATATTC
Found at i:9024703 original size:26 final size:28
Alignment explanation
Indices: 9024674--9024741 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
9024664 TTGAAAATAG
* *
9024674 ATAAAT-TATTTTATTT-TTAAATTAAA
1 ATAAATATATTATATTTGATAAATTAAA
*
9024700 ATAATATATATTATATTTGATAATTTAAA
1 ATAA-ATATATTATATTTGATAAATTAAA
9024729 ATAAATA-ATTATA
1 ATAAATATATTATA
9024742 AATTATTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.11
27 8 0.22
28 12 0.33
29 12 0.33
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
ATAAATATATTATATTTGATAAATTAAA
Found at i:9027772 original size:37 final size:37
Alignment explanation
Indices: 9027731--9027804 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
9027721 GATGCCTTGT
9027731 CTTGTTTTATTTGATTATTTGATTAATTATTATTCAA
1 CTTGTTTTATTTGATTATTTGATTAATTATTATTCAA
9027768 CTTGTTTTATTTGATTATTTGATTAATTATTATTCAA
1 CTTGTTTTATTTGATTATTTGATTAATTATTATTCAA
9027805 TCATTGGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.59
Consensus pattern (37 bp):
CTTGTTTTATTTGATTATTTGATTAATTATTATTCAA
Found at i:9035081 original size:19 final size:18
Alignment explanation
Indices: 9035057--9035109 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
9035047 ATACAAAAAA
*
9035057 ATGATTATTTATATAAGTT
1 ATGATTATTTAAATAA-TT
*
9035076 ATGATTATATAAATAATT
1 ATGATTATTTAAATAATT
* *
9035094 ATGACTATTTGAATAA
1 ATGATTATTTAAATAA
9035110 AAATTTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (18 bp):
ATGATTATTTAAATAATT
Found at i:9039764 original size:16 final size:17
Alignment explanation
Indices: 9039733--9039767 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
9039723 ATATGATAAT
9039733 TTATTTATTGATCAAAA
1 TTATTTATTGATCAAAA
*
9039750 TTATTT-TTTATCAAAA
1 TTATTTATTGATCAAAA
9039766 TT
1 TT
9039768 TATACAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (17 bp):
TTATTTATTGATCAAAA
Found at i:9039770 original size:17 final size:18
Alignment explanation
Indices: 9039730--9039770 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
9039720 AGGATATGAT
9039730 AATTTATTTATTGATCAA
1 AATTTATTTATTGATCAA
*
9039748 AA-TTATTT-TTTATCAA
1 AATTTATTTATTGATCAA
9039764 AATTTAT
1 AATTTAT
9039771 ACAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
17 10 0.48
18 2 0.10
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (18 bp):
AATTTATTTATTGATCAA
Found at i:9041027 original size:20 final size:21
Alignment explanation
Indices: 9040991--9041032 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
9040981 AAAATGATAG
9040991 TTTTATTTCATTCTTAA-AAA
1 TTTTATTTCATTCTTAATAAA
*
9041011 TTTTATTT-ATTTTTTAATAAA
1 TTTTATTTCA-TTCTTAATAAA
9041032 T
1 T
9041033 ATATTGTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 1 0.05
20 14 0.74
21 4 0.21
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTATTTCATTCTTAATAAA
Found at i:9047862 original size:62 final size:62
Alignment explanation
Indices: 9047768--9047920 Score: 175
Period size: 62 Copynumber: 2.5 Consensus size: 62
9047758 TAATCTTGTT
* * * * * *
9047768 TAATCAGAGATGCCCTTTATGCAAAAGGAGAAGAATTTGAAAATTTTT-GTGTTAGTTTTGAGG
1 TAAT-AGAGATTCCCATTAAGCCAAAGTAGAAGAATTTG-AAATTTTTAGGGTTAGTTTTGAGG
* ***
9047831 TAATAGAGATTCCCATTAAGCCAAAGTAGAAGACTTTGCCTTTTTTAGGGTTAGTTTTGAGG
1 TAATAGAGATTCCCATTAAGCCAAAGTAGAAGAATTTGAAATTTTTAGGGTTAGTTTTGAGG
9047893 TAATAG-GAATTCCCATTAAGCCAAAGTA
1 TAATAGAG-ATTCCCATTAAGCCAAAGTA
9047921 AGCTTGTGTA
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
61 6 0.08
62 68 0.87
63 4 0.05
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (62 bp):
TAATAGAGATTCCCATTAAGCCAAAGTAGAAGAATTTGAAATTTTTAGGGTTAGTTTTGAGG
Found at i:9052133 original size:13 final size:13
Alignment explanation
Indices: 9052111--9052149 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
9052101 TCGATTTTTA
*
9052111 ATTTTTATATATT
1 ATTTTAATATATT
**
9052124 ATTTTAATATAAA
1 ATTTTAATATATT
9052137 ATTTTAATATATT
1 ATTTTAATATATT
9052150 TAAGTAGATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:9053237 original size:29 final size:28
Alignment explanation
Indices: 9053162--9053241 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 28
9053152 GGTTAGTCAT
** *
9053162 TTAAATTTTTGATATTTTATTATAATCAA
1 TTAAATTTTAAATA-TTTATTTTAATCAA
* * *
9053191 TCAAATTTTAAAAATTTATTTTGAATTAA
1 TTAAATTTTAAATATTTATTTT-AATCAA
9053220 TTAAATTTTAAATATTTATTTT
1 TTAAATTTTAAATATTTATTTT
9053242 CACTTCAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 7 0.17
29 35 0.83
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (28 bp):
TTAAATTTTAAATATTTATTTTAATCAA
Found at i:9054729 original size:111 final size:113
Alignment explanation
Indices: 9054600--9054822 Score: 396
Period size: 111 Copynumber: 2.0 Consensus size: 113
9054590 AGTTCAAACC
* *
9054600 CTATTTTTTTTTTTTTGCTATCAAAATTGAAATTGTCTTTCCTTTAATCTTGTATCAT-A-ATCA
1 CTATTTATTTTTTTTTGCTATCAAAATTAAAATTGTCTTTCCTTTAATCTTGTATCATCACATCA
9054663 TCAACATATTCTTTGTAATTTTCACATATGAATATTTAATATTATCCT
66 TCAACATATTCTTTGTAATTTTCACATATGAATATTTAATATTATCCT
*
9054711 CTATTTATTTTTTTTTGCTATCAAAATTAAAATTGTCTTTCTTTTAATCTTGTATCATCATCATC
1 CTATTTATTTTTTTTTGCTATCAAAATTAAAATTGTCTTTCCTTTAATCTTGTATCATCA-CATC
9054776 ATCAACATATTCTTTGTAATTTTCACATATGAATATTTAATATTATC
65 ATCAACATATTCTTTGTAATTTTCACATATGAATATTTAATATTATC
9054823 ATTTTGTTGA
Statistics
Matches: 106, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
111 55 0.52
112 1 0.01
114 50 0.47
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (113 bp):
CTATTTATTTTTTTTTGCTATCAAAATTAAAATTGTCTTTCCTTTAATCTTGTATCATCACATCA
TCAACATATTCTTTGTAATTTTCACATATGAATATTTAATATTATCCT
Found at i:9055553 original size:2 final size:2
Alignment explanation
Indices: 9055548--9055576 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9055538 ACACACACAC
9055548 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 A
9055577 AACTTTACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 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):
AT
Found at i:9059596 original size:13 final size:14
Alignment explanation
Indices: 9059564--9059597 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
9059554 TTGAAACAAA
9059564 TTAAATAAAATCAT
1 TTAAATAAAATCAT
9059578 TT-AATAAAAT-AT
1 TTAAATAAAATCAT
9059590 TTAAATAA
1 TTAAATAA
9059598 TAAAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 13 0.68
14 2 0.11
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
TTAAATAAAATCAT
Found at i:9059600 original size:16 final size:15
Alignment explanation
Indices: 9059579--9059610 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
9059569 TAAAATCATT
9059579 TAATAAAATATTTAAA
1 TAATAAAATA-TTAAA
9059595 TAATAAAATATTAAA
1 TAATAAAATATTAAA
9059610 T
1 T
9059611 TAAAAACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAATAAAATATTAAA
Found at i:9059777 original size:18 final size:18
Alignment explanation
Indices: 9059759--9059817 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
9059749 TTAAATAAAT
9059759 AATTAAAATTAATTTAAT-
1 AATT-AAATTAATTTAATC
*
9059777 AATT-GATTAA-TTAATC
1 AATTAAATTAATTTAATC
*
9059793 AAATTATATTAATTTAATC
1 -AATTAAATTAATTTAATC
9059812 AATTAA
1 AATTAA
9059818 TTCAATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 5 0.15
16 5 0.15
17 4 0.12
18 14 0.41
19 6 0.18
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (18 bp):
AATTAAATTAATTTAATC
Found at i:9060401 original size:19 final size:18
Alignment explanation
Indices: 9060374--9060415 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
9060364 TCGAATCGAA
9060374 TTATATATTTTTTAAATTT
1 TTATATA-TTTTTAAATTT
*
9060393 TTATGTATTTTTAAATTT
1 TTATATATTTTTAAATTT
9060411 TTATA
1 TTATA
9060416 AAATAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTATATATTTTTAAATTT
Found at i:9060562 original size:26 final size:27
Alignment explanation
Indices: 9060532--9060589 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
9060522 TCGAATCGAA
*
9060532 TAAATAAATTTTAACTTGATTT-AATT
1 TAAATAAATTATAACTTGATTTAAATT
* *
9060558 TAAATCAATTATAATTTGATTTAAATT
1 TAAATAAATTATAACTTGATTTAAATT
9060585 TAAAT
1 TAAAT
9060590 TGAATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (27 bp):
TAAATAAATTATAACTTGATTTAAATT
Found at i:9061055 original size:7 final size:8
Alignment explanation
Indices: 9061022--9061062 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
9061012 GATATAATAT
*
9061022 TAAAATGA
1 TAAAATTA
*
9061030 TAAAA-AA
1 TAAAATTA
9061037 TAAAATTA
1 TAAAATTA
9061045 TAAAATT-
1 TAAAATTA
9061052 TAAAATTA
1 TAAAATTA
9061060 TAA
1 TAA
9061063 TAAAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 13 0.45
8 16 0.55
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (8 bp):
TAAAATTA
Found at i:9061055 original size:15 final size:15
Alignment explanation
Indices: 9061020--9061062 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
9061010 GTGATATAAT
*
9061020 ATTAAAATGATAAAA
1 ATTAAAATTATAAAA
*
9061035 AATAAAATTATAAAA
1 ATTAAAATTATAAAA
*
9061050 TTTAAAATTATAA
1 ATTAAAATTATAA
9061063 TAAAAATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
ATTAAAATTATAAAA
Found at i:9061906 original size:9 final size:9
Alignment explanation
Indices: 9061894--9061929 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
9061884 TCATCATCAT
*
9061894 CAGCAGCAG
1 CAGCAACAG
9061903 CAGCAACAG
1 CAGCAACAG
*
9061912 CGGCAACAG
1 CAGCAACAG
9061921 CAGCAACAG
1 CAGCAACAG
9061930 GATCCACCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.39, C:0.33, G:0.28, T:0.00
Consensus pattern (9 bp):
CAGCAACAG
Found at i:9062363 original size:3 final size:3
Alignment explanation
Indices: 9062357--9062427 Score: 106
Period size: 3 Copynumber: 23.7 Consensus size: 3
9062347 GGTTCTTCTT
* *
9062357 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG GAG AAG GAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
9062405 GAG AAG GAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AA
9062428 AGTGATTATG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9081405 original size:247 final size:249
Alignment explanation
Indices: 9080933--9081422 Score: 596
Period size: 247 Copynumber: 2.0 Consensus size: 249
9080923 GTTGGCATTA
* * * *
9080933 TTTTTCTTAATTTTTACAACATGATCAAAGTATAGTTTGATGTGTAAATTAAGTGGTTTCATTTT
1 TTTTTCTTAATTTTTACAACATGATCAAAGCACAGTGTGATGTGTAAATTAAGCGGTTTCATTTT
* * * *
9080998 GATAATGTTAGAGACTATTTCAATCAAAAATTTTTTTTTTCAAAAAAAAAAAATTATTCATGAGT
66 GATAACGCTAGAGACTATTTCAATCAAAAATTTTTTTTTTCAAAAAAAAAAAATTACTCATAAGT
* * **
9081063 CATCTTATGTTAATACCTCATAACAAAATGGAGTAGTTGAACGTAAAAATGGTGATCTTTTAGAT
131 CATCTTATGTTAATACCTCACAACAAAATGGAGTAGCTGAACGTAAAAATGGCCATCTTTTAGAT
* * *
9081128 ATCATAAGAGCTTTATTGTTGCATAAAAATG-TTTCTAAAACATATTGGCACTGT
196 ATCACAAGAGCTTTATTGTTGCACAAAAATGCTCT-TAAAACATATTGGCACTGT
* **
9081182 TTTTTC-TAATTTTTATAACATGATCAAAGCACAGTGTGATGTG-AGAATTAAGCGGTTTTGTTT
1 TTTTTCTTAATTTTTACAACATGATCAAAGCACAGTGTGATGTGTA-AATTAAGCGGTTTCATTT
* * * *** *
9081245 TGATAACGCTAGGGACTATTTTAGTC-AAAATTTTTTTTTTTTTAAAGAAAAAATTACTCATAAG
65 TGATAACGCTAGAGACTATTTCAATCAAAAATTTTTTTTTTCAAAAAAAAAAAATTACTCATAAG
* * * * * *
9081309 TCCTCTTGTGTTAGTATCC-CACAACAAAATGGAGTGGCT-AAGTGTAAAAATGGCCATTTTTTA
130 TCATCTTATGTTAATA-CCTCACAACAAAATGGAGTAGCTGAA-CGTAAAAATGGCCATCTTTTA
* * *
9081372 TATTTCACAAGAGCTTTATTGTTTCACAAAAATGCTCTTAAAACATATTGG
193 GATATCACAAGAGCTTTATTGTTGCACAAAAATGCTCTTAAAACATATTGG
9081423 GGAGAAGCCA
Statistics
Matches: 203, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
246 2 0.01
247 122 0.60
248 73 0.36
249 6 0.03
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (249 bp):
TTTTTCTTAATTTTTACAACATGATCAAAGCACAGTGTGATGTGTAAATTAAGCGGTTTCATTTT
GATAACGCTAGAGACTATTTCAATCAAAAATTTTTTTTTTCAAAAAAAAAAAATTACTCATAAGT
CATCTTATGTTAATACCTCACAACAAAATGGAGTAGCTGAACGTAAAAATGGCCATCTTTTAGAT
ATCACAAGAGCTTTATTGTTGCACAAAAATGCTCTTAAAACATATTGGCACTGT
Found at i:9087563 original size:41 final size:41
Alignment explanation
Indices: 9087500--9087582 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
9087490 TCTTACGAGT
9087500 TTAGGACTTTGTACTCTATGTTTTGTATTCAAATAATAAAA
1 TTAGGACTTTGTACTCTATGTTTTGTATTCAAATAATAAAA
* * *
9087541 TTAGGACTTTGTTCTTTGTGTTTTGTATTCAAATAATAAAA
1 TTAGGACTTTGTACTCTATGTTTTGTATTCAAATAATAAAA
9087582 T
1 T
9087583 CTGCCAACGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.47
Consensus pattern (41 bp):
TTAGGACTTTGTACTCTATGTTTTGTATTCAAATAATAAAA
Found at i:9089544 original size:17 final size:18
Alignment explanation
Indices: 9089524--9089558 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
9089514 TCAATAATGC
9089524 ATACAAAAAAATA-AATA
1 ATACAAAAAAATACAATA
9089541 ATACAAAAAAATACAATA
1 ATACAAAAAAATACAATA
9089559 GTCCAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (18 bp):
ATACAAAAAAATACAATA
Found at i:9091060 original size:2 final size:2
Alignment explanation
Indices: 9091053--9091099 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
9091043 AAATAAAAAG
*
9091053 GA GA GA GA GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
9091095 GA GA G
1 GA GA G
9091100 CAAAAAGGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9091319 original size:86 final size:86
Alignment explanation
Indices: 9091209--9091383 Score: 341
Period size: 86 Copynumber: 2.0 Consensus size: 86
9091199 GCATGTCTCC
*
9091209 CTGAAGTCTAATCCGACCTTCAACGCATGACCGGAATTCACTCTAATTTAAGTTATTTGAGCTGA
1 CTGAAGTCCAATCCGACCTTCAACGCATGACCGGAATTCACTCTAATTTAAGTTATTTGAGCTGA
9091274 GCCAAAGCCAAGCCGTTCCAA
66 GCCAAAGCCAAGCCGTTCCAA
9091295 CTGAAGTCCAATCCGACCTTCAACGCATGACCGGAATTCACTCTAATTTAAGTTATTTGAGCTGA
1 CTGAAGTCCAATCCGACCTTCAACGCATGACCGGAATTCACTCTAATTTAAGTTATTTGAGCTGA
9091360 GCCAAAGCCAAGCCGTTCCAA
66 GCCAAAGCCAAGCCGTTCCAA
9091381 CTG
1 CTG
9091384 CATTTGGTTC
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 88 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (86 bp):
CTGAAGTCCAATCCGACCTTCAACGCATGACCGGAATTCACTCTAATTTAAGTTATTTGAGCTGA
GCCAAAGCCAAGCCGTTCCAA
Found at i:9091468 original size:20 final size:21
Alignment explanation
Indices: 9091439--9091479 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
9091429 TTACCTTTTT
9091439 AATTTAATTTATT-TAGTTAA
1 AATTTAATTTATTCTAGTTAA
*
9091459 AATTTTATTTATTCTAGTTAA
1 AATTTAATTTATTCTAGTTAA
9091480 TTTTTCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
AATTTAATTTATTCTAGTTAA
Found at i:9095159 original size:62 final size:61
Alignment explanation
Indices: 9095033--9095249 Score: 232
Period size: 62 Copynumber: 3.5 Consensus size: 61
9095023 TTAATTTTGA
* * * *
9095033 GAAAATTAATGCTTTCAACTTTTCCT--AAAAAAAATCTTTTTTTTTTTGAAATTT-TATCTTTA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAAC----TTTTTTTAAAATTTAT-TC-TTA
9095095 AG
60 AG
*
9095097 GAAAATTGATACTTTCAACTTTTCTTCAAAAAAAAAACTTTTTTTAAAAATTTATTCTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAACTTTTTTT-AAAATTTATTCTTAAG
* * *
9095159 GAAAATTGATACTTTCAACTTTTCCTC--AAAAAAACCTTTTTGT-AGATTTATTCTTAA-
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAACTTTTTTTAAAATTTATTCTTAAG
9095216 GAGAAATTGATACTTTCAACTTTTTCCTCAAAAA
1 GA-AAATTGATACTTTCAAC-TTTTCCTCAAAAA
9095250 TATTTTTTTG
Statistics
Matches: 136, Mismatches: 9, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
57 2 0.01
58 30 0.22
59 8 0.06
60 14 0.10
61 3 0.02
62 38 0.28
63 8 0.06
64 24 0.18
66 9 0.07
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.43
Consensus pattern (61 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAACTTTTTTTAAAATTTATTCTTAAG
Found at i:9095280 original size:58 final size:57
Alignment explanation
Indices: 9095099--9095249 Score: 160
Period size: 58 Copynumber: 2.5 Consensus size: 57
9095089 TCTTTAAGGA
* * * * *
9095099 AAATTGATACTTTCAACTTTTCTTCAAAAAAAAAACTTTTTTTAAAAATTTATTCT-TAAGG
1 AAATTGATACTTTCAACTTTTCCTC---AAAAAAACTTTTTGT--AGATTTATTCTAAAAAG
* *
9095160 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTGTAGATTTATTCTTAAGAG
1 -AAATTGATACTTTCAACTTTTCCTCAAAAAAA-CTTTTTGTAGATTTATTCTAAAAAG
9095219 AAATTGATACTTTCAACTTTTTCCTCAAAAA
1 AAATTGATACTTTCAAC-TTTTCCTCAAAAA
9095250 TATTTTTTTG
Statistics
Matches: 80, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
58 27 0.34
59 22 0.28
60 7 0.09
62 24 0.30
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (57 bp):
AAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTGTAGATTTATTCTAAAAAG
Found at i:9095284 original size:4 final size:4
Alignment explanation
Indices: 9095267--9095325 Score: 50
Period size: 4 Copynumber: 14.0 Consensus size: 4
9095257 TTGTTTTATT
*
9095267 TAAA AAAA TGAAA TAAA TAAAA TAAA T-AA -AAA TAAA TAAA TAAAA TGAAAA
1 TAAA TAAA T-AAA TAAA T-AAA TAAA TAAA TAAA TAAA TAAA T-AAA T--AAA
9095318 TAAA TAAA
1 TAAA TAAA
9095326 AATATAGAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
3 4 0.09
4 26 0.55
5 12 0.26
6 5 0.11
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.20
Consensus pattern (4 bp):
TAAA
Found at i:9095335 original size:19 final size:19
Alignment explanation
Indices: 9095267--9095342 Score: 88
Period size: 19 Copynumber: 4.1 Consensus size: 19
9095257 TTGTTTTATT
9095267 TAAAAAAAT-G-AAATAAA
1 TAAAAAAATAGAAAATAAA
9095284 TAAAATAAATA-AAAATAAA
1 TAAAA-AAATAGAAAATAAA
9095303 TAAATAAAAT-GAAAATAAA
1 TAAA-AAAATAGAAAATAAA
* *
9095322 TAAAAATATAGAAAAAAAA
1 TAAAAAAATAGAAAATAAA
9095341 TA
1 TA
9095343 TTAAACACCC
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
17 5 0.10
18 8 0.16
19 37 0.73
20 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (19 bp):
TAAAAAAATAGAAAATAAA
Found at i:9095340 original size:29 final size:28
Alignment explanation
Indices: 9095281--9095342 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 28
9095271 AAAATGAAAT
* *
9095281 AAATAAAATAAATAAAAATAAATAAATA
1 AAATAAAATAAATAAAAATAAAGAAAAA
*
9095309 AAATGAAAATAAATAAAAATATAGAAAAA
1 AAAT-AAAATAAATAAAAATAAAGAAAAA
9095338 AAATA
1 AAATA
9095343 TTAAACACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 25 0.83
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (28 bp):
AAATAAAATAAATAAAAATAAAGAAAAA
Found at i:9095385 original size:23 final size:23
Alignment explanation
Indices: 9095268--9095386 Score: 88
Period size: 23 Copynumber: 5.2 Consensus size: 23
9095258 TGTTTTATTT
9095268 AAAAA-AATGAAATAAATAAAATA
1 AAAAATAAT-AAATAAATAAAATA
9095291 AATAAA-AATAAATAAATAAAAT-
1 AA-AAATAATAAATAAATAAAATA
* *
9095313 GAAAATAAATAAA-AATATAGAA-A
1 AAAAAT-AATAAATAA-ATAAAATA
* * ** *
9095336 AAAAATATTAAACACCCTAATAT-
1 AAAAATAATAAATA-AATAAAATA
9095359 AAAAATAATAAATAAATAAAATA
1 AAAAATAATAAATAAATAAAATA
9095382 AAAAA
1 AAAAA
9095387 ATGAAAAAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
21 3 0.04
22 13 0.18
23 52 0.70
24 6 0.08
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (23 bp):
AAAAATAATAAATAAATAAAATA
Found at i:9096269 original size:12 final size:12
Alignment explanation
Indices: 9096252--9096291 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
9096242 ATAAATAAAA
9096252 AAATTAACAGAT
1 AAATTAACAGAT
9096264 AAATTAA-A-ATT
1 AAATTAACAGA-T
9096275 AAA-TAACAGAT
1 AAATTAACAGAT
9096286 AAATTA
1 AAATTA
9096292 TAACATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (12 bp):
AAATTAACAGAT
Found at i:9096284 original size:22 final size:21
Alignment explanation
Indices: 9096230--9096291 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
9096220 AATATTAATG
9096230 AAAATAAAT--CAGATAAA-T
1 AAAATAAATAACAGATAAATT
9096248 AAAA-AAATTAACAGATAAATT
1 AAAATAAA-TAACAGATAAATT
9096269 AAAATTAAATAACAGATAAATT
1 AAAA-TAAATAACAGATAAATT
9096291 A
1 A
9096292 TAACATATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.08
18 5 0.13
20 8 0.21
21 5 0.13
22 14 0.37
23 3 0.08
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (21 bp):
AAAATAAATAACAGATAAATT
Found at i:9096386 original size:13 final size:14
Alignment explanation
Indices: 9096362--9096421 Score: 54
Period size: 14 Copynumber: 4.3 Consensus size: 14
9096352 ATATATTAAT
9096362 AAATACATAAGATAA
1 AAATA-ATAAGATAA
9096377 AAATAA-AAGA-AA
1 AAATAATAAGATAA
*
9096389 AATATATATAA-AAAA
1 AA-ATA-ATAAGATAA
*
9096404 AAATAATAAAATAA
1 AAATAATAAGATAA
9096418 AAAT
1 AAAT
9096422 GTAAAATACA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
12 4 0.10
13 11 0.28
14 13 0.33
15 11 0.28
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (14 bp):
AAATAATAAGATAA
Found at i:9096419 original size:17 final size:16
Alignment explanation
Indices: 9096376--9096446 Score: 52
Period size: 17 Copynumber: 4.1 Consensus size: 16
9096366 ACATAAGATA
*
9096376 AAAATAAAAGAAAAAT
1 AAAATAAAAAAAAAAT
*
9096392 ATATATAAAAAAAAATAAT
1 A-AAAT-AAAAAAAA-AAT
*
9096411 AAAATAAAAATGTAAAAT
1 AAAATAAAAA--AAAAAT
*
9096429 ACAAAAAAAAAAAAAAT
1 A-AAATAAAAAAAAAAT
9096446 A
1 A
9096447 GACTTATATA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
16 1 0.02
17 14 0.33
18 14 0.33
19 14 0.33
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAATAAAAAAAAAAT
Found at i:9096426 original size:13 final size:14
Alignment explanation
Indices: 9096362--9096446 Score: 58
Period size: 13 Copynumber: 6.4 Consensus size: 14
9096352 ATATATTAAT
*
9096362 AAATACATAAGATAA
1 AAATA-ATAAAATAA
9096377 AAATAA-AAGAA-AA
1 AAATAATAA-AATAA
*
9096390 ATATATATAAAA-AA
1 AAATA-ATAAAATAA
9096404 AAATAATAAAATAA
1 AAATAATAAAATAA
* *
9096418 AAAT-GTAAAATAC
1 AAATAATAAAATAA
9096431 AAA-AA-AAAA-AA
1 AAATAATAAAATAA
9096442 AAATA
1 AAATA
9096447 GACTTATATA
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
11 4 0.07
12 5 0.09
13 24 0.42
14 17 0.30
15 7 0.12
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (14 bp):
AAATAATAAAATAA
Found at i:9097705 original size:228 final size:228
Alignment explanation
Indices: 9097303--9097740 Score: 664
Period size: 228 Copynumber: 1.9 Consensus size: 228
9097293 ATGAATCAAG
* * *
9097303 TGTACACCCAGTATCCATACGTTGTTGAGTCAAGTATGCTTAATATTCCATCATAGTTATAGTTT
1 TGTACACCCAGTATCCATAAGTTGTTAAGTCAAATATGCTTAATATTCCATCATAGTTATAGTTT
* * *
9097368 TCCTCTCTTTTTCATTAGCATAGTGATATCTTGATTCATGTAATTGATATGGAATACCTAATGAA
66 TCCTCTCTTTTTCATTAGCATAGTGATATCTTGATTCACGCAATTGATATAGAATACCTAATGAA
* *
9097433 AACCCATCTTCACAAAAAGAGAATAGCAAAAGGTATTGCATTGCCATAAACAAAGGATACAACTC
131 AACCCATCTTCACAAAAAGAGAATAGCAAAAGGTATTACATTGCCATAAACAAAGAATACAACTC
9097498 ATTTATACATTTTAATCTTCCACCCCCCACCAA
196 ATTTATACATTTTAATCTTCCACCCCCCACCAA
* * *
9097531 TGTACACCCAGTATCTATAAGTTGTTAAGTCAAATATGCTTAGTATTCTATCATAGTTATAGTTT
1 TGTACACCCAGTATCCATAAGTTGTTAAGTCAAATATGCTTAATATTCCATCATAGTTATAGTTT
* *
9097596 TCCTCTCTTTTTCATTGGCAATA-TGATATCTTGATTCACGCAGTTGATATAGAATACCTAATGA
66 TCCTCTCTTTTTCATTAGC-ATAGTGATATCTTGATTCACGCAATTGATATAGAATACCTAATGA
** * * *
9097660 AAATTCATCTTCGTCAAAAAG-GAATAGCAAAGGGTATTACATTGCCATAGACAAAGAATACAAC
130 AAACCCATCTTC-ACAAAAAGAGAATAGCAAAAGGTATTACATTGCCATAAACAAAGAATACAAC
* *
9097724 TTATTTATACGTTTTAA
194 TCATTTATACATTTTAA
9097741 GCCATTAGTT
Statistics
Matches: 188, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
228 178 0.95
229 10 0.05
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (228 bp):
TGTACACCCAGTATCCATAAGTTGTTAAGTCAAATATGCTTAATATTCCATCATAGTTATAGTTT
TCCTCTCTTTTTCATTAGCATAGTGATATCTTGATTCACGCAATTGATATAGAATACCTAATGAA
AACCCATCTTCACAAAAAGAGAATAGCAAAAGGTATTACATTGCCATAAACAAAGAATACAACTC
ATTTATACATTTTAATCTTCCACCCCCCACCAA
Found at i:9099763 original size:20 final size:22
Alignment explanation
Indices: 9099738--9099784 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9099728 AGCATATAAG
*
9099738 AAATATA-AT-TAAACAGCATT
1 AAATATACATATAAACAGCAAT
*
9099758 AAATATACATATAAACATCAAT
1 AAATATACATATAAACAGCAAT
9099780 AAATA
1 AAATA
9099785 CTAAACGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 2 0.09
22 14 0.61
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.28
Consensus pattern (22 bp):
AAATATACATATAAACAGCAAT
Found at i:9100871 original size:29 final size:29
Alignment explanation
Indices: 9100829--9100899 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
9100819 AAGTCAGCAC
9100829 AATAAAAATATAAGCAATTATTTGAGTAA
1 AATAAAAATATAAGCAATTATTTGAGTAA
* * *
9100858 AATAAAGAAT-TAAGTACTTATTTGAGTAC
1 AATAAA-AATATAAGCAATTATTTGAGTAA
9100887 AATAAAAATATAA
1 AATAAAAATATAA
9100900 AAATTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 3 0.08
29 31 0.84
30 3 0.08
ACGTcount: A:0.55, C:0.04, G:0.10, T:0.31
Consensus pattern (29 bp):
AATAAAAATATAAGCAATTATTTGAGTAA
Found at i:9100907 original size:29 final size:28
Alignment explanation
Indices: 9100827--9100909 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
9100817 GGAAGTCAGC
*
9100827 ACAATAAAAATATAAGCAATTATTTGAGT
1 ACAATAAAAATATAA-AAATTATTTGAGT
* * *
9100856 AAAATAAAGAAT-TAAGTACTTATTTGAGT
1 ACAATAAA-AATATAA-AAATTATTTGAGT
9100885 ACAATAAAAATATAAAAATTTATTT
1 ACAATAAAAATATAAAAA-TTATTT
9100910 AAATAAAGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
28 4 0.09
29 38 0.84
30 3 0.07
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (28 bp):
ACAATAAAAATATAAAAATTATTTGAGT
Found at i:9101886 original size:6 final size:5
Alignment explanation
Indices: 9101854--9101895 Score: 66
Period size: 5 Copynumber: 8.0 Consensus size: 5
9101844 AATATAGAGT
9101854 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAAA TAAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA T-AAAA TAAAA
9101896 CGAAACAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 25 0.69
6 11 0.31
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:9102080 original size:23 final size:23
Alignment explanation
Indices: 9102054--9102108 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 23
9102044 TATTTAATAT
*
9102054 ATATAATA-ATACGAATTATTAAA
1 ATATAATAGATACAAATTA-TAAA
9102077 ATATAAATATGATACAAATTATAAA
1 ATAT-AATA-GATACAAATTATAAA
9102102 ATATAAT
1 ATATAAT
9102109 TAAATTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 4 0.14
24 7 0.25
25 8 0.29
26 9 0.32
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATAATAGATACAAATTATAAA
Found at i:9102080 original size:25 final size:25
Alignment explanation
Indices: 9102047--9102107 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
9102037 CGTATCATAT
* *
9102047 TTAATATATATAATA-ATACGAATTA
1 TTAAAATATA-AATAGATACAAATTA
9102072 TTAAAATATAAATATGATACAAATTA
1 TTAAAATATAAATA-GATACAAATTA
9102098 -TAAAATATAA
1 TTAAAATATAA
9102108 TTAAATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 4 0.12
25 19 0.59
26 9 0.28
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (25 bp):
TTAAAATATAAATAGATACAAATTA
Found at i:9105102 original size:25 final size:25
Alignment explanation
Indices: 9105073--9105120 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
9105063 ATGTGATTAG
9105073 TTTTACCTGCATACCAGCTTTTTGT
1 TTTTACCTGCATACCAGCTTTTTGT
9105098 TTTTACCTGCATACCAGCTTTTT
1 TTTTACCTGCATACCAGCTTTTT
9105121 ATTAAACCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.17, C:0.25, G:0.10, T:0.48
Consensus pattern (25 bp):
TTTTACCTGCATACCAGCTTTTTGT
Done.