Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 320 of 332
Found at i:105114153 original size:28 final size:29
Alignment explanation
Indices: 105114120--105114183 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
105114110 AGTGTAAAAC
105114120 TATAAAAAAAATTTAAA-AT-TATAAAGAT
1 TATAAAAAAAATTTAAATATGTA-AAAGAT
**
105114148 TATAAAAAAGTTTTAAATATGTAAAAGAT
1 TATAAAAAAAATTTAAATATGTAAAAGAT
105114177 TA-AAAAA
1 TATAAAAA
105114184 TAAAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 20 0.62
29 10 0.31
30 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (29 bp):
TATAAAAAAAATTTAAATATGTAAAAGAT
Found at i:105118601 original size:27 final size:26
Alignment explanation
Indices: 105118556--105118606 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
105118546 AGTGTAAAAT
105118556 TATAAAAAAATTCAAAAATTAAAAAGA
1 TATAAAAAAATTCAAAAA-TAAAAAGA
105118583 TATAAAAAAGATTC-AAAATAAAAA
1 TATAAAAAA-ATTCAAAAATAAAAA
105118607 TAAAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 6 0.26
27 13 0.57
28 4 0.17
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.22
Consensus pattern (26 bp):
TATAAAAAAATTCAAAAATAAAAAGA
Found at i:105121237 original size:8 final size:8
Alignment explanation
Indices: 105121224--105121255 Score: 50
Period size: 7 Copynumber: 4.2 Consensus size: 8
105121214 GCCACTAATT
105121224 GAAAAAAA
1 GAAAAAAA
105121232 G-AAAAAA
1 GAAAAAAA
105121239 G-AAAAAA
1 GAAAAAAA
105121246 GAAAAAAA
1 GAAAAAAA
105121254 GA
1 GA
105121256 GAATTCACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.61
8 9 0.39
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:105121243 original size:6 final size:7
Alignment explanation
Indices: 105121226--105121252 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
105121216 CACTAATTGA
105121226 AAAAAAG
1 AAAAAAG
105121233 AAAAAAG
1 AAAAAAG
105121240 AAAAAAG
1 AAAAAAG
105121247 AAAAAA
1 AAAAAA
105121253 AGAGAATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:105126422 original size:18 final size:18
Alignment explanation
Indices: 105126399--105126663 Score: 149
Period size: 18 Copynumber: 14.3 Consensus size: 18
105126389 GAATAATTAT
*
105126399 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAG
* * *
105126417 TTATTCGGTAACAACCAA
1 TTATTCAGTAACAATCAG
* * *
105126435 TTATTCAATAATAACCAG
1 TTATTCAGTAACAATCAG
*
105126453 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A---ATCAG
* * *
105126479 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAG
105126497 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAATCAG
* * *
105126514 ATATTCAGTAACTATTAAG
1 TTATTCAGTAAC-AATCAG
* **
105126533 TTATTCAGTAGCGGTCA-
1 TTATTCAGTAACAATCAG
*
105126550 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAATCAG
* *
105126569 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAATCAG
*
105126587 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAATC-AG
* * * *
105126605 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAG
* * *
105126623 TTATCCGGTAACAATCAA
1 TTATTCAGTAACAATCAG
*
105126641 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAG
105126659 TTATT
1 TTATT
105126664 TTATACCTTT
Statistics
Matches: 188, Mismatches: 45, Indels: 28
0.72 0.17 0.11
Matches are distributed among these distances:
17 17 0.09
18 137 0.73
19 17 0.09
21 2 0.01
22 1 0.01
23 2 0.01
26 12 0.06
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAATCAG
Found at i:105126882 original size:45 final size:45
Alignment explanation
Indices: 105126831--105127009 Score: 295
Period size: 45 Copynumber: 4.0 Consensus size: 45
105126821 ATCTGGAATA
* *
105126831 GTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAACG
* *
105126876 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATTGGTAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAACG
**
105126921 GTAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAATA
1 GTAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAACG
*
105126966 GTAGCAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAAC
1 GTAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAAC
105127010 AGTTGCAGTA
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 124 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAACG
Found at i:105127910 original size:13 final size:13
Alignment explanation
Indices: 105127892--105127916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105127882 CATTTCTTTT
105127892 ATTTCTTTATTTC
1 ATTTCTTTATTTC
105127905 ATTTCTTTATTT
1 ATTTCTTTATTT
105127917 TATTATTAAA
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:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCTTTATTTC
Found at i:105128254 original size:23 final size:22
Alignment explanation
Indices: 105128228--105128270 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
105128218 TATTCTATAA
105128228 TTAA-ACTTTCACACTTAATTAAT
1 TTAATACTTTC-CAC-TAATTAAT
*
105128251 TTAATCCTTTCCACTAATTA
1 TTAATACTTTCCACTAATTA
105128271 CTCTTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 6 0.33
23 7 0.39
24 5 0.28
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAATACTTTCCACTAATTAAT
Found at i:105132841 original size:15 final size:15
Alignment explanation
Indices: 105132821--105132851 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
105132811 ATTGTTTTGC
105132821 TTATTTTTACTATTA
1 TTATTTTTACTATTA
*
105132836 TTATTTTTACTTTTA
1 TTATTTTTACTATTA
105132851 T
1 T
105132852 CATATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTTTACTATTA
Found at i:105133470 original size:13 final size:13
Alignment explanation
Indices: 105133452--105133478 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
105133442 ATTATTATCC
105133452 ATTTATTTAGTTT
1 ATTTATTTAGTTT
105133465 ATTTATTTAGTTT
1 ATTTATTTAGTTT
105133478 A
1 A
105133479 CAATACACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (13 bp):
ATTTATTTAGTTT
Found at i:105137037 original size:17 final size:15
Alignment explanation
Indices: 105137012--105137057 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 15
105137002 AAAAATCATG
105137012 AAAAGATTAAAAAATGT
1 AAAA-ATTAAAAAAT-T
105137029 AAATAATTAAAAAATT
1 AAA-AATTAAAAAATT
105137045 AAAAATTAAAAAA
1 AAAAATTAAAAAA
105137058 ATCAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.36
16 4 0.14
17 13 0.46
18 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (15 bp):
AAAAATTAAAAAATT
Found at i:105137059 original size:9 final size:8
Alignment explanation
Indices: 105137012--105137057 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
105137002 AAAAATCATG
*
105137012 AAAAGATT
1 AAAAAATT
105137020 AAAAAATGT
1 AAAAAAT-T
*
105137029 AAATAATT
1 AAAAAATT
105137037 AAAAAATT
1 AAAAAATT
105137045 -AAAAATT
1 AAAAAATT
105137052 AAAAAA
1 AAAAAA
105137058 ATCAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
7 7 0.21
8 19 0.58
9 7 0.21
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (8 bp):
AAAAAATT
Found at i:105137059 original size:16 final size:17
Alignment explanation
Indices: 105137017--105137057 Score: 68
Period size: 15 Copynumber: 2.5 Consensus size: 17
105137007 TCATGAAAAG
105137017 ATTAAAAAATGTAAATA
1 ATTAAAAAATGTAAATA
105137034 ATTAAAAAAT-TAAA-A
1 ATTAAAAAATGTAAATA
105137049 ATTAAAAAA
1 ATTAAAAAA
105137058 ATCAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 10 0.42
16 4 0.17
17 10 0.42
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
ATTAAAAAATGTAAATA
Found at i:105138895 original size:26 final size:26
Alignment explanation
Indices: 105138847--105138898 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
105138837 GCAAAAGTTG
105138847 AAATTTTCATTTTTCTTCAAAAACGT
1 AAATTTTCATTTTTCTTCAAAAACGT
105138873 AAATTTTCATTTTTCTTCAAAAACGT
1 AAATTTTCATTTTTCTTCAAAAACGT
105138899 CTACCCTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.04, T:0.46
Consensus pattern (26 bp):
AAATTTTCATTTTTCTTCAAAAACGT
Found at i:105142521 original size:6 final size:6
Alignment explanation
Indices: 105142510--105142578 Score: 111
Period size: 6 Copynumber: 11.5 Consensus size: 6
105142500 TTTTACTATT
* *
105142510 ATTTCG ATTTCG ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA
*
105142558 ATTTCG ATTTCA ATTTCA ATT
1 ATTTCA ATTTCA ATTTCA ATT
105142579 ATTATTTTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (6 bp):
ATTTCA
Found at i:105150632 original size:6 final size:6
Alignment explanation
Indices: 105150621--105150650 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
105150611 CTCATGTGCC
105150621 TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA
105150651 AGCTCGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
TACATA
Found at i:105150793 original size:2 final size:2
Alignment explanation
Indices: 105150786--105150814 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
105150776 CATACATACA
105150786 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
105150815 AAAACTCTAT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:105160714 original size:21 final size:21
Alignment explanation
Indices: 105160688--105160728 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
105160678 CCCCTGCTTA
105160688 TGGTCAAAATTGGGGGTCTCC
1 TGGTCAAAATTGGGGGTCTCC
*
105160709 TGGTCAAAATTGGTGGTCTC
1 TGGTCAAAATTGGGGGTCTC
105160729 ACGATCAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.32
Consensus pattern (21 bp):
TGGTCAAAATTGGGGGTCTCC
Found at i:105167446 original size:20 final size:20
Alignment explanation
Indices: 105167417--105167456 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
105167407 ATATTTTCCA
*
105167417 GTAAATCATTTTACAGAAAT
1 GTAAAACATTTTACAGAAAT
*
105167437 GTAAAACATTTTCCAGAAAT
1 GTAAAACATTTTACAGAAAT
105167457 CATTTTACGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
GTAAAACATTTTACAGAAAT
Found at i:105167461 original size:34 final size:35
Alignment explanation
Indices: 105167404--105167469 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
105167394 CAAACACCAG
*
105167404 AAAATATTTTCCAGTAAATCATTTTACAGAAATGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAATGT
*
105167439 AAAACATTTTCCAG-AAATCATTTTACGGAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAA
105167470 ACATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAATGT
Found at i:105167462 original size:14 final size:14
Alignment explanation
Indices: 105167439--105167478 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
105167429 ACAGAAATGT
*
105167439 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
105167453 AAATCATTTTACGG
1 AAAACATTTTACAG
105167467 AAAACATTTTAC
1 AAAACATTTTAC
105167479 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:105168112 original size:40 final size:40
Alignment explanation
Indices: 105168059--105168139 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
105168049 GAATAAAAAG
105168059 AAAAATTAAATTAATAAATAAGTCTACAAACCAAGGGCGA
1 AAAAATTAAATTAATAAATAAGTCTACAAACCAAGGGCGA
105168099 AAAAATTAAATTAATAAATAAGTCTACAAACCAAGGGCGA
1 AAAAATTAAATTAATAAATAAGTCTACAAACCAAGGGCGA
105168139 A
1 A
105168140 TCTAGGGTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (40 bp):
AAAAATTAAATTAATAAATAAGTCTACAAACCAAGGGCGA
Found at i:105168397 original size:28 final size:28
Alignment explanation
Indices: 105168365--105168421 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
105168355 AGGGGGTTCA
105168365 CATGTCAGAGGAAGAAAAGGGGAATTAT
1 CATGTCAGAGGAAGAAAAGGGGAATTAT
105168393 CATGTCAGAGGAAGAAAAGGGGAATTAT
1 CATGTCAGAGGAAGAAAAGGGGAATTAT
105168421 C
1 C
105168422 TTTTTAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.09, G:0.32, T:0.18
Consensus pattern (28 bp):
CATGTCAGAGGAAGAAAAGGGGAATTAT
Found at i:105171629 original size:14 final size:14
Alignment explanation
Indices: 105171607--105171636 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
105171597 TAAAGGGGAG
105171607 CTCACAAAATAGAT
1 CTCACAAAATAGAT
*
105171621 CTCATAAAATAGAT
1 CTCACAAAATAGAT
105171635 CT
1 CT
105171637 GCAAACTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (14 bp):
CTCACAAAATAGAT
Found at i:105171790 original size:57 final size:55
Alignment explanation
Indices: 105171621--105171797 Score: 221
Period size: 56 Copynumber: 3.2 Consensus size: 55
105171611 CAAAATAGAT
* *
105171621 CTCATAAAATAGATCTGCAAACTCAAAAGAAAAAA-ACAATTGGGGTGAAAGAGAG
1 CTCACAAAATAGATCTGCAAACTGAAAAGAAAAAAGACAATT-GGGTGAAAGAGAG
* * * *
105171676 ATCACAAAATAGATCTGTAGACTGAAAAGAGAAAAGACAATTGGAGTGAAAGAGAG
1 CTCACAAAATAGATCTGCAAACTGAAAAGAAAAAAGACAATTGG-GTGAAAGAGAG
* * * *
105171732 CTCACAAAATAGATCTACAAACTGAAAAAAAAAAAAGATAATTGAGGTGAAGGAGAG
1 CTCACAAAATAGATCTGCAAACTG-AAAAGAAAAAAGACAATTG-GGTGAAAGAGAG
105171789 CTCACAAAA
1 CTCACAAAA
105171798 AGAAAGAGAG
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
55 31 0.30
56 37 0.36
57 35 0.34
58 1 0.01
ACGTcount: A:0.52, C:0.12, G:0.20, T:0.16
Consensus pattern (55 bp):
CTCACAAAATAGATCTGCAAACTGAAAAGAAAAAAGACAATTGGGTGAAAGAGAG
Found at i:105172846 original size:38 final size:40
Alignment explanation
Indices: 105172754--105172847 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 40
105172744 ATTATATTAA
* *
105172754 TTATATTAATAATTT-ATTATATGACTAAATATAAATAATT
1 TTATATTAAT-ATTTAATAATATGACAAAATATAAATAATT
*
105172794 ATATATGT-ATATTTAATAATATTGA-AAAATAT-AAT-ATT
1 TTATAT-TAATATTTAATAATA-TGACAAAATATAAATAATT
105172832 TTATATTAATATTTAA
1 TTATATTAATATTTAA
105172848 ATTTAAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
37 1 0.02
38 16 0.35
39 7 0.15
40 18 0.39
41 4 0.09
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (40 bp):
TTATATTAATATTTAATAATATGACAAAATATAAATAATT
Found at i:105175161 original size:31 final size:29
Alignment explanation
Indices: 105175118--105175187 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
105175108 TAAATTTTAG
* *
105175118 AATTATA-A-ATAAATTTTGATTTAATGTGT
1 AATTATATATATAAATTTTAATTT--GGTGT
*
105175147 AATTGTATATATAAATTTTAATTTGGTGT
1 AATTATATATATAAATTTTAATTTGGTGT
105175176 AATTATATATAT
1 AATTATATATAT
105175188 GAAACTCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 21 0.60
30 1 0.03
31 13 0.37
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (29 bp):
AATTATATATATAAATTTTAATTTGGTGT
Found at i:105177727 original size:16 final size:15
Alignment explanation
Indices: 105177706--105177736 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
105177696 TAAAATTTTA
105177706 TAAATTATAAAGAATT
1 TAAATTATAAA-AATT
105177722 TAAATTATAAAAATT
1 TAAATTATAAAAATT
105177737 ACCATTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
TAAATTATAAAAATT
Found at i:105180646 original size:30 final size:30
Alignment explanation
Indices: 105180610--105180670 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
105180600 TTGGTTGGAC
105180610 CCGATTTGGCCCATACTGAAACCCATTAAT
1 CCGATTTGGCCCATACTGAAACCCATTAAT
*
105180640 CCGATTTGGCCCATATTGAAACCCATTAAT
1 CCGATTTGGCCCATACTGAAACCCATTAAT
105180670 C
1 C
105180671 TATCTTACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (30 bp):
CCGATTTGGCCCATACTGAAACCCATTAAT
Found at i:105190155 original size:34 final size:36
Alignment explanation
Indices: 105190103--105190169 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
105190093 CAAATAATTT
105190103 AAAAATTATACAAATATTCATAAAAT-AAAATTTGA
1 AAAAATTATACAAATATTCATAAAATCAAAATTTGA
* *
105190138 AAAAATTATA-AATTATTCATAAATTCAAAATT
1 AAAAATTATACAAATATTCATAAAATCAAAATT
105190170 ATTAATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.34
Consensus pattern (36 bp):
AAAAATTATACAAATATTCATAAAATCAAAATTTGA
Found at i:105190487 original size:60 final size:61
Alignment explanation
Indices: 105190400--105190521 Score: 210
Period size: 60 Copynumber: 2.0 Consensus size: 61
105190390 ATCATATAAG
* * *
105190400 TAATTTATTTTCTTTAAATAAAAGAAAATTACCCTAAGCATTTAATAGTATATTGTATTAA
1 TAATTTATTTTCTTAAAATAAAAGAAAATTACCCCAAGCATTTAATAGTATATTGCATTAA
105190461 TAATTTATTTT-TTAAAATAAAAGAAAATTACCCCAAGCATTTAATAGTATATTGCATTAA
1 TAATTTATTTTCTTAAAATAAAAGAAAATTACCCCAAGCATTTAATAGTATATTGCATTAA
105190521 T
1 T
105190522 TAGTATCTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
60 47 0.81
61 11 0.19
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (61 bp):
TAATTTATTTTCTTAAAATAAAAGAAAATTACCCCAAGCATTTAATAGTATATTGCATTAA
Found at i:105194475 original size:15 final size:16
Alignment explanation
Indices: 105194457--105194486 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
105194447 AGCAATAATA
105194457 TTAATAC-CAATCAAG
1 TTAATACTCAATCAAG
105194472 TTAATACTCAATCAA
1 TTAATACTCAATCAA
105194487 CAATTCTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (16 bp):
TTAATACTCAATCAAG
Found at i:105196309 original size:18 final size:18
Alignment explanation
Indices: 105196286--105196324 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
105196276 GTATTTATTT
*
105196286 TTATAAAGTTAAAAATAA
1 TTATAAAGATAAAAATAA
* *
105196304 TTATAATGATAAAATTAA
1 TTATAAAGATAAAAATAA
105196322 TTA
1 TTA
105196325 CTGTAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
TTATAAAGATAAAAATAA
Found at i:105196503 original size:21 final size:21
Alignment explanation
Indices: 105196477--105196531 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
105196467 AAACATGCAT
105196477 AAAAATTATTAAAATTTTTTA
1 AAAAATTATTAAAATTTTTTA
*
105196498 AAAAATCATTAAAA-TTTTTA
1 AAAAATTATTAAAATTTTTTA
*
105196518 AAAAA-TAATAAAAT
1 AAAAATTATTAAAAT
105196532 GTATTGTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.20
20 11 0.37
21 13 0.43
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATTATTAAAATTTTTTA
Found at i:105197318 original size:16 final size:17
Alignment explanation
Indices: 105197287--105197319 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
105197277 GAAAGTAAGA
*
105197287 TTAAATTTTCTAAATAT
1 TTAAATTCTCTAAATAT
105197304 TTAAATTCT-TAAATAT
1 TTAAATTCTCTAAATAT
105197320 ATATTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATTCTCTAAATAT
Found at i:105197998 original size:20 final size:20
Alignment explanation
Indices: 105197962--105197999 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
105197952 TCCACTATCA
*
105197962 TATTGCTATTATTTTGTTGC
1 TATTGCTATAATTTTGTTGC
105197982 TATTG-TATAATTCTTGTT
1 TATTGCTATAATT-TTGTT
105198000 TTATTATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.18, C:0.08, G:0.13, T:0.61
Consensus pattern (20 bp):
TATTGCTATAATTTTGTTGC
Found at i:105200424 original size:39 final size:38
Alignment explanation
Indices: 105200365--105200441 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 38
105200355 CCTAAGGTTT
105200365 CCAAACCTTAGTATTTAATCAAATTATCTCTTAATGGG
1 CCAAACCTTAGTATTTAATCAAATTATCTCTTAATGGG
105200403 CCAAACCTTAGGTATTTAATCAAATTATCTCTTAATGGG
1 CCAAACCTTA-GTATTTAATCAAATTATCTCTTAATGGG
105200442 TTTTCACTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 10 0.26
39 28 0.74
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (38 bp):
CCAAACCTTAGTATTTAATCAAATTATCTCTTAATGGG
Found at i:105203165 original size:19 final size:18
Alignment explanation
Indices: 105203141--105203176 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
105203131 GCATATATAC
105203141 ATAAAAATATAATAAAAAT
1 ATAAAAATA-AATAAAAAT
105203160 ATAAAAATAAATAAAAA
1 ATAAAAATAAATAAAAA
105203177 GAAAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (18 bp):
ATAAAAATAAATAAAAAT
Found at i:105203182 original size:17 final size:19
Alignment explanation
Indices: 105203141--105203185 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
105203131 GCATATATAC
*
105203141 ATAAAAATATAATAAAAAT
1 ATAAAAATATAATAAAAAG
105203160 ATAAAAATA-AATAAAAAG
1 ATAAAAATATAATAAAAAG
*
105203178 AAAAAAAT
1 ATAAAAAT
105203186 TAGAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (19 bp):
ATAAAAATATAATAAAAAG
Found at i:105203779 original size:21 final size:21
Alignment explanation
Indices: 105203755--105203818 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
105203745 TTTTTTTACA
105203755 TATTATTAATATTATTACTAT
1 TATTATTAATATTATTACTAT
105203776 TATTTTTATTAATA-TATTA--AT
1 TA---TTATTAATATTATTACTAT
*
105203797 TATTTTTAAAGTATTATTACTA
1 TATTATT-AA-TATTATTACTA
105203819 CTAATGATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 14
0.69 0.02 0.29
Matches are distributed among these distances:
18 4 0.12
19 2 0.06
20 2 0.06
21 11 0.32
23 6 0.18
24 9 0.26
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (21 bp):
TATTATTAATATTATTACTAT
Found at i:105203880 original size:13 final size:14
Alignment explanation
Indices: 105203856--105203886 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
105203846 ATTATTATTA
105203856 ATATTAATATATGT
1 ATATTAATATATGT
105203870 ATATT-ATATATGT
1 ATATTAATATATGT
105203883 ATAT
1 ATAT
105203887 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:105204126 original size:20 final size:20
Alignment explanation
Indices: 105204101--105204139 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
105204091 TATTTTATAT
105204101 ATATTATTA-TATATATTTTA
1 ATATTATTAGT-TATATTTTA
105204121 ATATTATTAGTTATATTTT
1 ATATTATTAGTTATATTTT
105204140 TCTTTTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
ATATTATTAGTTATATTTTA
Found at i:105218477 original size:31 final size:31
Alignment explanation
Indices: 105218419--105218487 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
105218409 CTTAACAACG
* *
105218419 TAGTGACTTAAATAAAATATTTCGAATAGTT
1 TAGTGATTTAAATAAAATATTTCGAATAATT
* *
105218450 TAGTGATTTGAATAAAA-ATTTTTGAATAATT
1 TAGTGATTTAAATAAAATA-TTTCGAATAATT
*
105218481 TAATGAT
1 TAGTGAT
105218488 AATTTTATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (31 bp):
TAGTGATTTAAATAAAATATTTCGAATAATT
Found at i:105224188 original size:53 final size:53
Alignment explanation
Indices: 105224108--105224215 Score: 180
Period size: 53 Copynumber: 2.0 Consensus size: 53
105224098 CTTTGTGTCC
**
105224108 TCAATAGACTAATAAACCTGACTGAAGTGAACATCTCTTTTGATGTCTACATA
1 TCAATAGACTAATAAACCCAACTGAAGTGAACATCTCTTTTGATGTCTACATA
* *
105224161 TCAATAGACTAATAAACCCAACTGAAGTGAACATCTCTTTTGCTGTTTACATA
1 TCAATAGACTAATAAACCCAACTGAAGTGAACATCTCTTTTGATGTCTACATA
105224214 TC
1 TC
105224216 TGGGCATGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.32
Consensus pattern (53 bp):
TCAATAGACTAATAAACCCAACTGAAGTGAACATCTCTTTTGATGTCTACATA
Found at i:105228169 original size:25 final size:26
Alignment explanation
Indices: 105228134--105228182 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
105228124 ATTATTATTT
*
105228134 ATTAATATAAATT-TATTTTATTTAA
1 ATTAATATAAATTACATTTTATTTAA
*
105228159 ATTAATTTAAATTACATTTTATTT
1 ATTAATATAAATTACATTTTATTT
105228183 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTAATATAAATTACATTTTATTTAA
Found at i:105228188 original size:25 final size:24
Alignment explanation
Indices: 105228125--105228188 Score: 56
Period size: 25 Copynumber: 2.5 Consensus size: 24
105228115 TTGGTTCAAA
*
105228125 TTATTATTTATTAATATAAATTTATT
1 TTATT-TTT-TTAATATAAATTCATT
** *
105228151 TTATTTAAATTAATTTAAATTACATT
1 TTATTT-TTTTAATATAAATT-CATT
105228177 TTATTTTTTTAA
1 TTATTTTTTTAA
105228189 AAAAAATTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
25 16 0.53
26 14 0.47
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
TTATTTTTTTAATATAAATTCATT
Found at i:105233611 original size:14 final size:14
Alignment explanation
Indices: 105233592--105233620 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
105233582 CTTTTTGAGA
105233592 TTTTAAAAAATATT
1 TTTTAAAAAATATT
105233606 TTTTAAAAAATATT
1 TTTTAAAAAATATT
105233620 T
1 T
105233621 ATCATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTAAAAAATATT
Found at i:105236272 original size:35 final size:35
Alignment explanation
Indices: 105236226--105236295 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
105236216 TTCAAGCTCC
105236226 CTCGTAAGCTTCTCCAATCCAATCTACCTTGTTTT
1 CTCGTAAGCTTCTCCAATCCAATCTACCTTGTTTT
105236261 CTCGTAAGCTTCTCCAATCCAATCTACCTTGTTTT
1 CTCGTAAGCTTCTCCAATCCAATCTACCTTGTTTT
105236296 TTCTGCATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.20, C:0.31, G:0.09, T:0.40
Consensus pattern (35 bp):
CTCGTAAGCTTCTCCAATCCAATCTACCTTGTTTT
Found at i:105257892 original size:17 final size:18
Alignment explanation
Indices: 105257870--105257906 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
105257860 TCATCAGACG
105257870 TGTGGG-CCACACGGGCA
1 TGTGGGCCCACACGGGCA
*
105257887 TGTGGGCCCACATGGGCA
1 TGTGGGCCCACACGGGCA
105257905 TG
1 TG
105257907 ACACACAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.16, C:0.27, G:0.41, T:0.16
Consensus pattern (18 bp):
TGTGGGCCCACACGGGCA
Found at i:105262412 original size:24 final size:23
Alignment explanation
Indices: 105262372--105262424 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 23
105262362 TGCTCTAACA
*
105262372 AGCTGAATCAGTAAGCTCATACG
1 AGCTGAAACAGTAAGCTCATACG
*
105262395 AGCTGAGAACAGTAAGCTCTTACG
1 AGCTGA-AACAGTAAGCTCATACG
105262419 AGCTGA
1 AGCTGA
105262425 TATATCGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (23 bp):
AGCTGAAACAGTAAGCTCATACG
Found at i:105267836 original size:30 final size:30
Alignment explanation
Indices: 105267778--105267836 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
105267768 ATTTTCGAGC
* **
105267778 CTAGGGGCAAAATGGTCATTTTGTCAAAGT
1 CTAGAGGCAAAATGGTCATTTTACCAAAGT
*
105267808 CTAGAGGCAAAATGGTCGTTTTACCAAAG
1 CTAGAGGCAAAATGGTCATTTTACCAAAG
105267837 ATATGAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (30 bp):
CTAGAGGCAAAATGGTCATTTTACCAAAGT
Found at i:105268356 original size:46 final size:44
Alignment explanation
Indices: 105268274--105268392 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 44
105268264 GACGAGTGCT
* * *
105268274 AGTGTAAGACAT-TCTAGGATATGCATCGGCCTCAAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAG--ATAAGCC
** **
105268319 AGTGTAAGACATGTCTGGGACATGCATCAG-CTACAAGATGTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CAAGATAAGCC
105268363 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
105268393 GACACAGATA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
44 12 0.19
45 28 0.44
46 23 0.37
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATAAGCC
Found at i:105269043 original size:56 final size:56
Alignment explanation
Indices: 105268957--105269068 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
105268947 GTTCGACTAA
*
105268957 ATCATTGAACCACCCAACAAGGACTACAAACAACACTAGGATTACCTGCAATAAGT
1 ATCATTGAACCACCCAACAAGGACTACAAACAACACTAGGACTACCTGCAATAAGT
105269013 ATCATTGAACCACCCAACAAGGACTACAAACAACACTAGGACTACCTGCAATAAGT
1 ATCATTGAACCACCCAACAAGGACTACAAACAACACTAGGACTACCTGCAATAAGT
105269069 TTTTGAATCC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.43, C:0.28, G:0.12, T:0.17
Consensus pattern (56 bp):
ATCATTGAACCACCCAACAAGGACTACAAACAACACTAGGACTACCTGCAATAAGT
Found at i:105269123 original size:41 final size:41
Alignment explanation
Indices: 105269068--105269149 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
105269058 CTGCAATAAG
105269068 TTTTTGAATCCACGCGCTAAAAAAACAAGTGAAAGTGGATT
1 TTTTTGAATCCACGCGCTAAAAAAACAAGTGAAAGTGGATT
105269109 TTTTTGAATCCACGCGCTAAAAAAACAAGTGAAAGTGGATT
1 TTTTTGAATCCACGCGCTAAAAAAACAAGTGAAAGTGGATT
105269150 GTTGATTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (41 bp):
TTTTTGAATCCACGCGCTAAAAAAACAAGTGAAAGTGGATT
Found at i:105275566 original size:13 final size:13
Alignment explanation
Indices: 105275548--105275575 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
105275538 GGCTTACAAA
105275548 TAGAGACTCTGAT
1 TAGAGACTCTGAT
105275561 TAGAGACTCTGAT
1 TAGAGACTCTGAT
105275574 TA
1 TA
105275576 TACTTCTTTG
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:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (13 bp):
TAGAGACTCTGAT
Found at i:105276264 original size:12 final size:12
Alignment explanation
Indices: 105276233--105276257 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
105276223 TTGTGTGTTC
105276233 TTTATTTTATTT
1 TTTATTTTATTT
105276245 TTTATTTTATTT
1 TTTATTTTATTT
105276257 T
1 T
105276258 ATTTTTTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:105285255 original size:46 final size:44
Alignment explanation
Indices: 105285196--105285310 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
105285186 ACAAGACAGA
* *
105285196 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTAGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTAGAG
* * * *
105285242 ACAGGATTGAGCCATGTAATTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTAGAG
* **
105285286 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
105285311 GTCAAAGACA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 33 0.57
46 25 0.43
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTAGAG
Found at i:105286871 original size:20 final size:22
Alignment explanation
Indices: 105286846--105286887 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
105286836 TTCATTTTAT
*
105286846 TTTTATTT-GAATAAA-TAAGA
1 TTTTATTTAAAATAAATTAAGA
105286866 TTTTATTTAAAATAAATTAAGA
1 TTTTATTTAAAATAAATTAAGA
105286888 ATTCATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 6 0.32
22 5 0.26
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
TTTTATTTAAAATAAATTAAGA
Found at i:105291455 original size:20 final size:21
Alignment explanation
Indices: 105291427--105291474 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
105291417 CTAACAATTT
* * *
105291427 TTTTTTTATTGTTG-TTGTTG
1 TTTTGTTATTGTTGACTATTG
105291447 TTTTGTTATTGTTGACTATTG
1 TTTTGTTATTGTTGACTATTG
105291468 TTTTGTT
1 TTTTGTT
105291475 GTAACTTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.08, C:0.02, G:0.19, T:0.71
Consensus pattern (21 bp):
TTTTGTTATTGTTGACTATTG
Found at i:105294669 original size:38 final size:38
Alignment explanation
Indices: 105294627--105294702 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
105294617 AGAAAAGCAA
105294627 AGAAATGCAAAAGATCAAAATTTTAGAAACATTTACTT
1 AGAAATGCAAAAGATCAAAATTTTAGAAACATTTACTT
105294665 AGAAATGCAAAAGATCAAAATTTTAGAAACATTTACTT
1 AGAAATGCAAAAGATCAAAATTTTAGAAACATTTACTT
105294703 TTAAGGAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.29
Consensus pattern (38 bp):
AGAAATGCAAAAGATCAAAATTTTAGAAACATTTACTT
Found at i:105295070 original size:23 final size:23
Alignment explanation
Indices: 105295027--105295071 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
105295017 TTTAATTTAA
*
105295027 TATTTATTAATTTTATATATTTT
1 TATTTATTAAATTTATATATTTT
105295050 TATTTATTAAAATTT-TATATTT
1 TATTTATT-AAATTTATATATTT
105295072 CGTCATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTTATTAAATTTATATATTTT
Found at i:105305004 original size:15 final size:15
Alignment explanation
Indices: 105304984--105305034 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
105304974 ATAACACAAT
105304984 AACGTAAGCGACTAA
1 AACGTAAGCGACTAA
** *
105304999 AACGTAA-CGTTTCA
1 AACGTAAGCGACTAA
*
105305013 AACATAAGCGACTAA
1 AACGTAAGCGACTAA
*
105305028 AATGTAA
1 AACGTAA
105305035 TCTAAGACAA
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.20
Consensus pattern (15 bp):
AACGTAAGCGACTAA
Found at i:105308455 original size:25 final size:24
Alignment explanation
Indices: 105308427--105308504 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 24
105308417 CACATTTGAC
*
105308427 ATTAAATCAAACTCAAACTTTAACT
1 ATTAAA-CAAACTCAAACTTTAAAT
*
105308452 ATT--AC-AACAT-AAA-TTTAATTAG
1 ATTAAACAAAC-TCAAACTTTAA--AT
105308474 ATTAAAGCAAACTCAAACTTTAAAT
1 ATTAAA-CAAACTCAAACTTTAAAT
105308499 ATTAAA
1 ATTAAA
105308505 ATGTAATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 18
0.66 0.05 0.29
Matches are distributed among these distances:
20 5 0.12
21 6 0.15
22 5 0.12
23 1 0.02
24 1 0.02
25 12 0.29
26 6 0.15
27 5 0.12
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.32
Consensus pattern (24 bp):
ATTAAACAAACTCAAACTTTAAAT
Found at i:105308728 original size:21 final size:19
Alignment explanation
Indices: 105308700--105308740 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
105308690 TAAATTCTAG
105308700 AATTATTTAAATAATATAAA
1 AATTATTTAAATAATA-AAA
*
105308720 AATTGATTTAAATGATAAAA
1 AATT-ATTTAAATAATAAAA
105308740 A
1 A
105308741 TCTTTATCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
AATTATTTAAATAATAAAA
Found at i:105335898 original size:23 final size:22
Alignment explanation
Indices: 105335872--105335920 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
105335862 TTAAGTAATT
*
105335872 TTTACTATTTTA-AATATAAAATA
1 TTTA-TATTTTACAACATAAAA-A
*
105335895 TTTATTTTTTACAACATAAAAA
1 TTTATATTTTACAACATAAAAA
105335917 TTTA
1 TTTA
105335921 AATTAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTATATTTTACAACATAAAAA
Found at i:105335919 original size:22 final size:22
Alignment explanation
Indices: 105335879--105335920 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
105335869 ATTTTTACTA
*
105335879 TTTTAAATATAAAATATTTATT
1 TTTTAAACATAAAATATTTATT
105335901 TTTTACAACATAAAA-ATTTA
1 TTTTA-AACATAAAATATTTA
105335921 AATTAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTAAACATAAAATATTTATT
Found at i:105337714 original size:454 final size:448
Alignment explanation
Indices: 105336684--105337766 Score: 1302
Period size: 450 Copynumber: 2.4 Consensus size: 448
105336674 TAATGGGCAA
* * *
105336684 CATAATGTTGTC-GAAGTGACCGAAGGTGGTTACGATG-CTTGCAACGCTGCAAAT-CCTGTATC
1 CATAATGTTG-CAGAGGTGACCGAAGATGGTTACGATGAC-TGCAACGCTGCAAATGCC-ATATC
** * * * * * ** * **
105336746 TACGGTGAGCACTGGACCGGCGAGGATTACGCTTAACAGGACAGGGGAGTACTACTTTATTTGTG
63 TACTTTGACCACCGGACCGGCGAGGATTACCCTTAACA-GACCGGTGACCACTACTTCATTTGCA
* * * * * * * * *
105336811 GTATCCCTGGTCACTGTTCTGCCGGCCAGAAGCTAAACGTGGAAGTACGAAATGGTAACCCCACC
127 GTATCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTCGAAGTACGAAACGGTAACACCACC
* *
105336876 GGCGGTGTTACTCCGTCGACGCCTATAACTCCAACCACCACCACTTATACGGTGGGTGACTCCAC
192 GGCGGCGTTACTCCGTCGACGCCTATAACTCCAACCACCACCACTTATACAGTGGGTGACTCCAC
*
105336941 TGGTTGGCGAGTCCCTACTAATAATGATGATTTTTACGAGGATTGGGCTGATAATAAACACTTCG
257 TGGTTGGCGAGTCCCTACCAATAATGATGATTTTTACGAGGATTGGGCTGATAATAAACACTTCG
* * ** *
105337006 TCGTCGGAGATGTTTTGGGTCAGTTTCTTAAGTCGAACATTTGAATCGAAATTTGATGCTTTTTT
322 TCGTCGGAGATGTTTTAGGTCAGTTTCTAAAGTAAAAAATTTGAATCGAAATTTGATGCTTTTTT
* * *
105337071 GATCCAACTGTTTGATTTTTTTTTTCGTTTCTTTTTGCAGTGTTTAATTTTACGACCGGACAG
387 GATCCAACTCTTTGAGTTTTTTCTTCG-TTCTTTTTGCAGTGTTTAATTTTACGACCGGACAG
* * * * *
105337134 CATAATGTCGCAGAGGTGACGGAAGATGCTTACGATGACTGCAACACTGCGAATGCCATATCTAC
1 CATAATGTTGCAGAGGTGACCGAAGATGGTTACGATGACTGCAACGCTGCAAATGCCATATCTAC
* * * *
105337199 TTTGACCACCGGTCCGGCGAGGATTACCCTTAACAAGACCGGTGATCATTACTTCATTTGCAGTG
66 TTTGACCACCGGACCGGCGAGGATTACCCTTAAC-AGACCGGTGACCACTACTTCATTTGCAGTA
* * * * *
105337264 TCCCCGGTCATTGTTCCGCCGGTCAAAAGCTCAAGGTTGAAGTTCGAACCGGTAACACCACCGGT
130 TCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTCGAAGTACGAAACGGTAACACCACCGGC
* * * * * * *
105337329 GGCGTTGCTCCGTCGCCGTCTGTAACTCCAAGCACCACCACTTTTACAGTGGGTGACTCTACTGG
195 GGCGTTACTCCGTCGACGCCTATAACTCCAACCACCACCACTTATACAGTGGGTGACTCCACTGG
* * * *
105337394 TTGGCGTGTCCCTACCACTAATGATGATTTTTATGAGGATTGGGCTGATAATAAACACTTCGTTG
260 TTGGCGAGTCCCTACCAATAATGATGATTTTTACGAGGATTGGGCTGATAATAAACACTTCGTCG
* * * *
105337459 TTGGGGATGTTTTAGGTCAGCTTT-TAAATTTAAAAAATTTGATAT-TAATTATGATATGTAAAT
325 TCGGAGATGTTTTAGGTCAG-TTTCTAAA-GTAAAAAATTTGA-ATCGAA--AT--T-TG---AT
*
105337522 G-TTTTTTGATCTAACTCTTTG-GTTTTTTCTTC-TT-TTTTTGCAGTGTTTAATTTTACGACCG
379 GCTTTTTTGATCCAACTCTTTGAGTTTTTTCTTCGTTCTTTTTGCAGTGTTTAATTTTACGACCG
105337583 GACAG
444 GACAG
* * *
105337588 CATAATGTTGCAGAGGTGACTGAAGATGGTTATGACGACTGCAACGCTGCAAATGCCATATCTAC
1 CATAATGTTGCAGAGGTGACCGAAGATGGTTACGATGACTGCAACGCTGCAAATGCCATATCTAC
* *
105337653 TTTGACCACCGGACCGGCAAGGGTTACCCTTAACAGCACCGGTGACCACTACTTCATTTGCAGTA
66 TTTGACCACCGGACCGGCGAGGATTACCCTTAACAG-ACCGGTGACCACTACTTCATTTGCAGTA
*
105337718 TCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTCGAAGTCCGAAA
130 TCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTCGAAGTACGAAA
105337767 TGGCAACCGC
Statistics
Matches: 537, Mismatches: 80, Indels: 28
0.83 0.12 0.04
Matches are distributed among these distances:
449 1 0.00
450 286 0.53
451 18 0.03
452 2 0.00
453 4 0.01
454 191 0.36
455 3 0.01
456 2 0.00
457 9 0.02
458 18 0.03
459 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (448 bp):
CATAATGTTGCAGAGGTGACCGAAGATGGTTACGATGACTGCAACGCTGCAAATGCCATATCTAC
TTTGACCACCGGACCGGCGAGGATTACCCTTAACAGACCGGTGACCACTACTTCATTTGCAGTAT
CCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTCGAAGTACGAAACGGTAACACCACCGGCG
GCGTTACTCCGTCGACGCCTATAACTCCAACCACCACCACTTATACAGTGGGTGACTCCACTGGT
TGGCGAGTCCCTACCAATAATGATGATTTTTACGAGGATTGGGCTGATAATAAACACTTCGTCGT
CGGAGATGTTTTAGGTCAGTTTCTAAAGTAAAAAATTTGAATCGAAATTTGATGCTTTTTTGATC
CAACTCTTTGAGTTTTTTCTTCGTTCTTTTTGCAGTGTTTAATTTTACGACCGGACAG
Found at i:105339077 original size:30 final size:31
Alignment explanation
Indices: 105339030--105339102 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
105339020 TTTGAATAGT
* *
105339030 TTAT-ATTTGTATAATTTTTAAATGA-TTAAA
1 TTATAATTT-TATAATTTTTAAAAGACCTAAA
*
105339060 TTATAATTTTATCATTTTTAAAAGACCTAAA
1 TTATAATTTTATAATTTTTAAAAGACCTAAA
*
105339091 ATATAATTTTAT
1 TTATAATTTTAT
105339103 TTTTATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 18 0.49
31 19 0.51
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (31 bp):
TTATAATTTTATAATTTTTAAAAGACCTAAA
Found at i:105339527 original size:30 final size:31
Alignment explanation
Indices: 105339491--105339585 Score: 92
Period size: 30 Copynumber: 3.1 Consensus size: 31
105339481 TTATTTACAC
*
105339491 TTAATAATATAATTAATATTAT-CTATTATT
1 TTAATAATATAATTAATATTATAATATTATT
* *
105339521 TTAATAA-ATTATTTAATATTATAATTTTATT
1 TTAATAATA-TAATTAATATTATAATATTATT
*
105339552 TTAATAATA-AATTTAACATTAATAATA--ATT
1 TTAATAATATAA-TTAATATT-ATAATATTATT
105339582 TTAA
1 TTAA
105339586 ATTTCAAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
29 1 0.02
30 27 0.50
31 20 0.37
32 6 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (31 bp):
TTAATAATATAATTAATATTATAATATTATT
Found at i:105339564 original size:18 final size:18
Alignment explanation
Indices: 105339532--105339584 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
105339522 TAATAAATTA
* *
105339532 TTTAATATTATAATTTTAT
1 TTTAATAATA-AATTTTAC
*
105339551 TTTAATAATAAATTTAAC
1 TTTAATAATAAATTTTAC
*
105339569 ATTAATAAT-AATTTTA
1 TTTAATAATAAATTTTA
105339585 AATTTCAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 6 0.21
18 14 0.48
19 9 0.31
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAATAATAAATTTTAC
Found at i:105347793 original size:39 final size:39
Alignment explanation
Indices: 105347739--105347879 Score: 201
Period size: 39 Copynumber: 3.6 Consensus size: 39
105347729 CGCCGCCACG
* * *
105347739 CCGAGCCCCACCCCGCATGGAACTTCAAGTCCTCCTCGT
1 CCGAGCGCCACCCCGCCTGGAACTTCAAGTCCTCCTCCT
* *
105347778 CCGAGGGCCACCCCGCGTGGAACTTCAAGTCCTCCTCCT
1 CCGAGCGCCACCCCGCCTGGAACTTCAAGTCCTCCTCCT
* *
105347817 CCAAGCGCTACCCCGCCTGGAACTTCAAGTCCTCCTCCT
1 CCGAGCGCCACCCCGCCTGGAACTTCAAGTCCTCCTCCT
* *
105347856 CCGAGCGCCGCCACGCCTGGAACT
1 CCGAGCGCCACCCCGCCTGGAACT
105347880 CCGAGCTCCA
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 90 1.00
ACGTcount: A:0.17, C:0.45, G:0.21, T:0.17
Consensus pattern (39 bp):
CCGAGCGCCACCCCGCCTGGAACTTCAAGTCCTCCTCCT
Found at i:105350711 original size:18 final size:20
Alignment explanation
Indices: 105350688--105350731 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
105350678 TCAATAGAAT
105350688 AATTAAAAAT-TAT-TAAAA
1 AATTAAAAATATATATAAAA
*
105350706 AATTAAAAATATATATATAA
1 AATTAAAAATATATATAAAA
105350726 AATTAA
1 AATTAA
105350732 TTCAACCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.43
19 3 0.13
20 10 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AATTAAAAATATATATAAAA
Found at i:105356123 original size:29 final size:29
Alignment explanation
Indices: 105356068--105356132 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
105356058 TTAGACTTAT
* *
105356068 TTGATTCTTCTTAATAATATAAAGACTAAA
1 TTGA-TCTACTTAATAATAGAAAGACTAAA
* *
105356098 TTGATCTACTTAATAATGGAATGACTAAA
1 TTGATCTACTTAATAATAGAAAGACTAAA
105356127 TTGATC
1 TTGATC
105356133 CCATCCCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (29 bp):
TTGATCTACTTAATAATAGAAAGACTAAA
Found at i:105357698 original size:40 final size:40
Alignment explanation
Indices: 105357654--105357731 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
105357644 TTTAATTTTT
*
105357654 TTATAAATAATATACATAAATTTAGAC-GAATTTAAATTAA
1 TTATAAATAA-ATACATAAATTTAGACAAAATTTAAATTAA
* * *
105357694 TTATATATAAATAGATAAATTTATACAAAATTTAAATT
1 TTATAAATAAATACATAAATTTAGACAAAATTTAAATT
105357732 CATATTTCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 14 0.42
40 19 0.58
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (40 bp):
TTATAAATAAATACATAAATTTAGACAAAATTTAAATTAA
Found at i:105360701 original size:12 final size:12
Alignment explanation
Indices: 105360684--105360718 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
105360674 ATCTTCCTCC
*
105360684 CCTTCACCTTCA
1 CCTTCACCATCA
105360696 CCTTCACCATCA
1 CCTTCACCATCA
*
105360708 CCATCACCATC
1 CCTTCACCATC
105360719 GACGGCAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.23, C:0.51, G:0.00, T:0.26
Consensus pattern (12 bp):
CCTTCACCATCA
Found at i:105362237 original size:17 final size:16
Alignment explanation
Indices: 105362208--105362249 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
105362198 TATAAATTTA
105362208 ATATA-TTTTA-TTTT
1 ATATATTTTTATTTTT
105362222 ATGATATTTTTAATTTTT
1 AT-ATATTTTT-ATTTTT
105362240 ATATATTTTT
1 ATATATTTTT
105362250 TTACAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 3 0.12
16 4 0.17
17 9 0.38
18 6 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
ATATATTTTTATTTTT
Found at i:105363129 original size:25 final size:25
Alignment explanation
Indices: 105363101--105363151 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
105363091 AATTGATAAT
105363101 TACTTGATAATTTTTGAGTTTACAG
1 TACTTGATAATTTTTGAGTTTACAG
105363126 TACTTGATAATTTTTGAGTTTACAG
1 TACTTGATAATTTTTGAGTTTACAG
105363151 T
1 T
105363152 CCGAATAGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (25 bp):
TACTTGATAATTTTTGAGTTTACAG
Found at i:105364813 original size:42 final size:42
Alignment explanation
Indices: 105364767--105364846 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
105364757 TATCCAAACA
* *
105364767 TGCCACCATCATATAATTACAAGCAATTAGCCCGAAATACTT
1 TGCCACCATCATATAATTACAAACAATTAGCCCCAAATACTT
* ** *
105364809 TGCCACCCTTGTATAATTACAAACAATTATCCCCAAAT
1 TGCCACCATCATATAATTACAAACAATTAGCCCCAAAT
105364847 GCAATTACTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.38, C:0.28, G:0.07, T:0.28
Consensus pattern (42 bp):
TGCCACCATCATATAATTACAAACAATTAGCCCCAAATACTT
Found at i:105369309 original size:20 final size:20
Alignment explanation
Indices: 105369256--105369295 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
105369246 ATTTAAGTAT
*
105369256 TAAAAGATATTTATTAATTA
1 TAAAATATATTTATTAATTA
105369276 TAAAATATATTTATTAATTA
1 TAAAATATATTTATTAATTA
105369296 AATAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAAAATATATTTATTAATTA
Found at i:105369541 original size:19 final size:19
Alignment explanation
Indices: 105369506--105369550 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
105369496 AACGAAAAGC
*
105369506 AGGG-AAAGAAAGAAAGAG
1 AGGGAAAAGAAAGAAAGAA
105369524 AGGAGAAAAGAAAG-AAGAA
1 AGG-GAAAAGAAAGAAAGAA
105369543 AGGGAAAA
1 AGGGAAAA
105369551 TTCAAGGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 8 0.33
20 8 0.33
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (19 bp):
AGGGAAAAGAAAGAAAGAA
Found at i:105380507 original size:11 final size:11
Alignment explanation
Indices: 105380493--105380518 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
105380483 ATTTTTTATT
105380493 AAAATAATATA
1 AAAATAATATA
105380504 AAAATAATATA
1 AAAATAATATA
105380515 AAAA
1 AAAA
105380519 CAGGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAATATA
Found at i:105382134 original size:23 final size:23
Alignment explanation
Indices: 105382052--105382138 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
105382042 CCTGATCAGT
*
105382052 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
105382074 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
105382094 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
105382117 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
105382139 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:105386734 original size:44 final size:44
Alignment explanation
Indices: 105386671--105386759 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
105386661 TAGAAGGAAA
105386671 TGTTCAAATTCAAACCCAATGTATGAATGGAAAACCCTTTTGAT
1 TGTTCAAATTCAAACCCAATGTATGAATGGAAAACCCTTTTGAT
105386715 TGTTCAAATTCAAACCCAATGTATGAATGGAAAACCCTTTTGAT
1 TGTTCAAATTCAAACCCAATGTATGAATGGAAAACCCTTTTGAT
105386759 T
1 T
105386760 CAATCTTTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (44 bp):
TGTTCAAATTCAAACCCAATGTATGAATGGAAAACCCTTTTGAT
Found at i:105391663 original size:34 final size:34
Alignment explanation
Indices: 105391620--105391688 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
105391610 AGTTTACTTT
* *
105391620 TTATCTTACACTATAGAATCGTTATAGTATATAA
1 TTATCTTACACTATAAAATCGTTATAATATATAA
105391654 TTATCTTACACTATAAAATCGTTATAATATATAA
1 TTATCTTACACTATAAAATCGTTATAATATATAA
105391688 T
1 T
105391689 CTCACCACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.42
Consensus pattern (34 bp):
TTATCTTACACTATAAAATCGTTATAATATATAA
Found at i:105393479 original size:9 final size:9
Alignment explanation
Indices: 105393467--105393493 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
105393457 TTTATAAAAA
105393467 AATTATTTT
1 AATTATTTT
105393476 AATTATTTT
1 AATTATTTT
105393485 AATTATTTT
1 AATTATTTT
105393494 TCGTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
AATTATTTT
Found at i:105394655 original size:20 final size:20
Alignment explanation
Indices: 105394632--105394674 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
105394622 AAAGTGTATA
105394632 AATTATTTCTCCATTAAATC
1 AATTATTTCTCCATTAAATC
105394652 AATTATTTCTCCATTAAATC
1 AATTATTTCTCCATTAAATC
105394672 AAT
1 AAT
105394675 CTTAAATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTATTTCTCCATTAAATC
Found at i:105402143 original size:4 final size:4
Alignment explanation
Indices: 105402136--105402160 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
105402126 ATGCTTGTAG
105402136 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
105402161 ATTATCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:105407276 original size:3 final size:3
Alignment explanation
Indices: 105407268--105407292 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
105407258 TGCATAACGT
105407268 TGG TGG TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG T
105407293 AAATGACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (3 bp):
TGG
Found at i:105414070 original size:15 final size:16
Alignment explanation
Indices: 105414030--105414076 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
105414020 TTTTATATTT
*
105414030 AAAAGATGTTTTTATA
1 AAAATATGTTTTTATA
* *
105414046 AGAATTTGTTTTT-TA
1 AAAATATGTTTTTATA
*
105414061 AAAATATGTTGTTATA
1 AAAATATGTTTTTATA
105414077 CCTTATTGTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (16 bp):
AAAATATGTTTTTATA
Found at i:105422130 original size:71 final size:71
Alignment explanation
Indices: 105422033--105422175 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
105422023 TCTATTATCA
105422033 ACGATGCACATTTTTTCCCCCTAAACTATTACTGACTAGGGTGCTTTCCCTCGTTGCTTAATATG
1 ACGATGCACATTTTTTCCCCCTAAACTATTACTGACTAGGGTGCTTTCCCTCGTTGCTTAATATG
105422098 TTGCAG
66 TTGCAG
105422104 ACGATGCACATTTTTTCCCCCTAAACTATTACTGACTAGGGTGCTTTCCCTCGTTGCTTAATATG
1 ACGATGCACATTTTTTCCCCCTAAACTATTACTGACTAGGGTGCTTTCCCTCGTTGCTTAATATG
105422169 TTGCAG
66 TTGCAG
105422175 A
1 A
105422176 GTCATGAAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (71 bp):
ACGATGCACATTTTTTCCCCCTAAACTATTACTGACTAGGGTGCTTTCCCTCGTTGCTTAATATG
TTGCAG
Found at i:105432381 original size:2 final size:2
Alignment explanation
Indices: 105432374--105432406 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
105432364 TTATAAGGTA
105432374 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
105432407 TGGATGTGTG
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:105439040 original size:42 final size:42
Alignment explanation
Indices: 105438981--105439089 Score: 182
Period size: 42 Copynumber: 2.6 Consensus size: 42
105438971 CCAAAGTGCT
** *
105438981 TTTTGTTTTCTCCGAAACGTGTTGAGTTGAATGAAATTAGCA
1 TTTTGTTTTCTCCGAAACACGTTAAGTTGAATGAAATTAGCA
*
105439023 TTTTGTTTTCTCCGAAACACGTTAAGTTGAATTAAATTAGCA
1 TTTTGTTTTCTCCGAAACACGTTAAGTTGAATGAAATTAGCA
105439065 TTTTGTTTTCTCCGAAACACGTTAA
1 TTTTGTTTTCTCCGAAACACGTTAA
105439090 CATTTTGTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (42 bp):
TTTTGTTTTCTCCGAAACACGTTAAGTTGAATGAAATTAGCA
Found at i:105439101 original size:27 final size:27
Alignment explanation
Indices: 105439063--105439116 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
105439053 ATTAAATTAG
105439063 CATTTTGTTTTCTCCGAAACACGTTAA
1 CATTTTGTTTTCTCCGAAACACGTTAA
*
105439090 CATTTTGTTTTCTCCGAAACATGTTAA
1 CATTTTGTTTTCTCCGAAACACGTTAA
105439117 GTTTAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (27 bp):
CATTTTGTTTTCTCCGAAACACGTTAA
Found at i:105439144 original size:16 final size:16
Alignment explanation
Indices: 105439123--105439156 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
105439113 TTAAGTTTAA
105439123 TTAAATTAGCATTTTG
1 TTAAATTAGCATTTTG
105439139 TTAAATTAGCATTTTG
1 TTAAATTAGCATTTTG
105439155 TT
1 TT
105439157 TTCTCCGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (16 bp):
TTAAATTAGCATTTTG
Found at i:105441794 original size:20 final size:20
Alignment explanation
Indices: 105441765--105441805 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
105441755 TTAGTAAAAT
*
105441765 AATTTTAAATATAAAAATTA
1 AATTTCAAATATAAAAATTA
* *
105441785 AATTTCAAATTTATAAATTA
1 AATTTCAAATATAAAAATTA
105441805 A
1 A
105441806 TGGAATAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTTCAAATATAAAAATTA
Found at i:105452002 original size:16 final size:16
Alignment explanation
Indices: 105451981--105452011 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
105451971 AATGCCACAC
105451981 ACACACATATATATAT
1 ACACACATATATATAT
*
105451997 ACACACATGTATATA
1 ACACACATATATATA
105452012 CATATATGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.29
Consensus pattern (16 bp):
ACACACATATATATAT
Found at i:105456786 original size:5 final size:5
Alignment explanation
Indices: 105456773--105456853 Score: 54
Period size: 5 Copynumber: 14.8 Consensus size: 5
105456763 TCTGACGCCT
* * * *
105456773 TTTTG TTTTC TTTTTC TTTTG TTTTC ATATTTC TTTTGT TTTTT TTTTC
1 TTTTC TTTTC -TTTTC TTTTC TTTTC -T-TTTC TTTT-C TTTTC TTTTC
*
105456822 TTTTC TTTTC ATGTTTC TTTTT TTTTAC TTTT
1 TTTTC TTTTC -T-TTTC TTTTC TTTT-C TTTT
105456854 TTATTTTGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
5 37 0.60
6 17 0.27
7 8 0.13
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:105456791 original size:17 final size:16
Alignment explanation
Indices: 105456773--105456854 Score: 92
Period size: 17 Copynumber: 4.9 Consensus size: 16
105456763 TCTGACGCCT
105456773 TTTTGTTTTCTTTTTC
1 TTTTGTTTTCTTTTTC
*
105456789 TTTTGTTTTCATATTTC
1 TTTTGTTTTC-TTTTTC
*
105456806 TTTTGTTTTTTTTTTC
1 TTTTGTTTTCTTTTTC
* *
105456822 TTTTCTTTTCATGTTTC
1 TTTTGTTTTC-TTTTTC
*
105456839 TTTTTTTTTACTTTTT
1 TTTTGTTTT-CTTTTT
105456855 TATTTTGTTC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
16 23 0.42
17 31 0.56
18 1 0.02
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.79
Consensus pattern (16 bp):
TTTTGTTTTCTTTTTC
Found at i:105456809 original size:28 final size:26
Alignment explanation
Indices: 105456778--105456853 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 26
105456768 CGCCTTTTTG
*
105456778 TTTTCTTTTTCTTTTGTTTTCATATTTC-
1 TTTTCTTTTT-TTTTCTTTTC-T-TTTCA
*
105456806 TTTTGTTTTTTTTTTCTTTTCTTTTCA
1 TTTT-CTTTTTTTTTCTTTTCTTTTCA
105456833 TGTTTCTTTTTTTTTACTTTT
1 T-TTTCTTTTTTTTT-CTTTT
105456854 TTATTTTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
26 4 0.10
27 11 0.27
28 21 0.51
29 5 0.12
ACGTcount: A:0.05, C:0.12, G:0.04, T:0.79
Consensus pattern (26 bp):
TTTTCTTTTTTTTTCTTTTCTTTTCA
Found at i:105456820 original size:33 final size:33
Alignment explanation
Indices: 105456773--105456863 Score: 119
Period size: 33 Copynumber: 2.7 Consensus size: 33
105456763 TCTGACGCCT
*
105456773 TTTTGTTTTCTTTTTCTTTTGTTTTCATATTTC
1 TTTTGTTTTTTTTTTCTTTTGTTTTCATATTTC
* *
105456806 TTTTGTTTTTTTTTTCTTTTCTTTTCATGTTTC
1 TTTTGTTTTTTTTTTCTTTTGTTTTCATATTTC
* *
105456839 TTTTTTTTTACTTTTTTATTTTGTT
1 TTTTGTTTT--TTTTTTCTTTTGTT
105456864 CCTTAATAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
33 38 0.76
35 12 0.24
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.79
Consensus pattern (33 bp):
TTTTGTTTTTTTTTTCTTTTGTTTTCATATTTC
Found at i:105456838 original size:12 final size:11
Alignment explanation
Indices: 105456778--105456842 Score: 53
Period size: 12 Copynumber: 5.8 Consensus size: 11
105456768 CGCCTTTTTG
105456778 TTTTCTTTTTC-
1 TTTTC-TTTTCA
*
105456789 TTTTGTTTTCA
1 TTTTCTTTTCA
**
105456800 TATTTCTTTTGT
1 T-TTTCTTTTCA
*
105456812 TTTTTTTTTC-
1 TTTTCTTTTCA
105456822 TTTTCTTTTCA
1 TTTTCTTTTCA
105456833 TGTTTCTTTT
1 T-TTTCTTTT
105456843 TTTTTACTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
10 14 0.33
11 13 0.30
12 16 0.37
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.78
Consensus pattern (11 bp):
TTTTCTTTTCA
Found at i:105456854 original size:24 final size:24
Alignment explanation
Indices: 105456809--105456853 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
105456799 ATATTTCTTT
* *
105456809 TGTTTTTTTTTTCTTTTCTTTTCA
1 TGTTTCTTTTTTCTTTACTTTTCA
105456833 TGTTTCTTTTTT-TTTACTTTT
1 TGTTTCTTTTTTCTTTACTTTT
105456854 TTATTTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.04, C:0.11, G:0.04, T:0.80
Consensus pattern (24 bp):
TGTTTCTTTTTTCTTTACTTTTCA
Found at i:105456894 original size:17 final size:17
Alignment explanation
Indices: 105456874--105456951 Score: 54
Period size: 17 Copynumber: 4.4 Consensus size: 17
105456864 CCTTAATAAA
105456874 TTTTATCTTTTTATTTT
1 TTTTATCTTTTTATTTT
105456891 TTTTA-CTTTTT-TGATTT
1 TTTTATCTTTTTAT--TTT
105456908 TTTT-TCTTATTTCATTTT
1 TTTTATCTT-TTT-ATTTT
* *
105456926 GTTTATTTTGTTTTATTTT
1 TTTTA-TCT-TTTTATTTT
105456945 TTATTAT
1 TT-TTAT
105456952 TAACTTTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
15 1 0.02
16 6 0.12
17 15 0.31
18 9 0.19
19 7 0.15
20 9 0.19
21 1 0.02
ACGTcount: A:0.13, C:0.05, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTTATCTTTTTATTTT
Found at i:105456895 original size:9 final size:9
Alignment explanation
Indices: 105456881--105456952 Score: 65
Period size: 9 Copynumber: 7.9 Consensus size: 9
105456871 AAATTTTATC
105456881 TTTTTATTT
1 TTTTTATTT
*
105456890 TTTTTACTT
1 TTTTTATTT
*
105456899 TTTTGATTT
1 TTTTTATTT
*
105456908 TTTTT-CTT
1 TTTTTATTT
* *
105456916 ATTTCATTT
1 TTTTTATTT
*
105456925 TGTTTATTT
1 TTTTTATTT
105456934 TGTTTTATTT
1 T-TTTTATTT
105456944 TTTATTATT
1 TTT-TTATT
105456953 AACTTTAAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
8 5 0.10
9 30 0.62
10 13 0.27
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTTATTT
Found at i:105456994 original size:28 final size:29
Alignment explanation
Indices: 105456962--105457023 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 29
105456952 TAACTTTAAA
105456962 ATGATATAATATAATATATTTTTT-AATT
1 ATGATATAATATAATATATTTTTTAAATT
105456990 ATGATATAATATAATATATTTTTTAAATT
1 ATGATATAATATAATATATTTTTTAAATT
105457019 ATGAT
1 ATGAT
105457024 TGGTTTATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 24 0.73
29 9 0.27
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (29 bp):
ATGATATAATATAATATATTTTTTAAATT
Found at i:105457871 original size:29 final size:29
Alignment explanation
Indices: 105457743--105457858 Score: 102
Period size: 29 Copynumber: 4.2 Consensus size: 29
105457733 TTAAAATCCA
105457743 ATCATAATTAAAAAAATATATTATATTAT
1 ATCATAATTAAAAAAATATATTATATTAT
* * *
105457772 ATCAT-ATTAAATAAAA-AAATAAAATTAT
1 ATCATAATTAAA-AAAATATATTATATTAT
* ** *
105457800 AT--TAGA--CACCACATA-ATTATATTAT
1 ATCATA-ATTAAAAAAATATATTATATTAT
105457825 ATCATAATTAAAAAAATATATTATATTAT
1 ATCATAATTAAAAAAATATATTATATTAT
105457854 ATCAT
1 ATCAT
105457859 TTTAAAGTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 18
0.68 0.14 0.19
Matches are distributed among these distances:
25 12 0.18
26 4 0.06
27 2 0.03
28 23 0.35
29 24 0.37
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (29 bp):
ATCATAATTAAAAAAATATATTATATTAT
Found at i:105457914 original size:10 final size:10
Alignment explanation
Indices: 105457892--105457931 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
105457882 AAACAAAATG
105457892 AAATAAGAAAA
1 AAATAA-AAAA
105457903 AAATAAAAAA
1 AAATAAAAAA
*
105457913 AAGTAAAAAA
1 AAATAAAAAA
105457923 AAATAAAAA
1 AAATAAAAA
105457932 GATAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 21 0.78
11 6 0.22
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:105457914 original size:36 final size:34
Alignment explanation
Indices: 105457868--105457938 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 34
105457858 TTTTAAAGTT
* *
105457868 AATAATAAAAAATAAAACAAAATGAAATAAGAAAAA
1 AATAAAAAAAAATAAAAAAAAAT-AAA-AAGAAAAA
* *
105457904 AATAAAAAAAAGTAAAAAAAAATAAAAAGATAAA
1 AATAAAAAAAAATAAAAAAAAATAAAAAGAAAAA
105457938 A
1 A
105457939 TTTATTAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 8 0.26
35 3 0.10
36 20 0.65
ACGTcount: A:0.80, C:0.01, G:0.06, T:0.13
Consensus pattern (34 bp):
AATAAAAAAAAATAAAAAAAAATAAAAAGAAAAA
Found at i:105457972 original size:17 final size:16
Alignment explanation
Indices: 105457871--105458034 Score: 61
Period size: 17 Copynumber: 9.9 Consensus size: 16
105457861 TAAAGTTAAT
105457871 AATAAAAAATA-AAACAA
1 AATAAAAAA-AGAAA-AA
* *
105457888 AATGAAATAAGAAAAA
1 AATAAAAAAAGAAAAA
105457904 AATAAAAAAAAGTAAAAA
1 AAT-AAAAAAAG-AAAAA
*
105457922 AA-AATAAAAAGATAAA
1 AATAA-AAAAAGAAAAA
* * ** * *
105457938 ATTTATTAAGGAACAA
1 AATAAAAAAAGAAAAA
*
105457954 AATAAAAAAAG-TAAA
1 AATAAAAAAAGAAAAA
*
105457969 AA-AAAAAAAGAAATATG
1 AATAAAAAAAGAAA-A-A
*
105457986 AA-AATAAAAGAAAAA
1 AATAAAAAAAGAAAAA
*
105458001 AACAAAGAAATATGAAAATA
1 AATAAA-AAA-A-GAAAA-A
*
105458021 AA-AGAAAAAGAAAA
1 AATAAAAAAAGAAAA
105458035 CAAAAAGAAA
Statistics
Matches: 109, Mismatches: 25, Indels: 27
0.68 0.16 0.17
Matches are distributed among these distances:
14 8 0.07
15 7 0.06
16 34 0.31
17 39 0.36
18 11 0.10
19 7 0.06
20 3 0.03
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.13
Consensus pattern (16 bp):
AATAAAAAAAGAAAAA
Found at i:105457982 original size:26 final size:25
Alignment explanation
Indices: 105457953--105458029 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 25
105457943 TTAAGGAACA
105457953 AAATAAAAAAAGTAAAAAAAAAAAAG
1 AAATAAAAAAA-TAAAAAAAAAAAAG
105457979 AAATATGAAAATAA-AAGAAAAAAACAAAG
1 AAATA--AAAA-AATAA-AAAAAAA-AAAG
** *
105458008 AAATATGAAAATAAAAGAAAAA
1 AAATAAAAAAATAAAAAAAAAA
105458030 GAAAACAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
25 1 0.02
26 13 0.31
27 6 0.14
28 11 0.26
29 11 0.26
ACGTcount: A:0.79, C:0.01, G:0.09, T:0.10
Consensus pattern (25 bp):
AAATAAAAAAATAAAAAAAAAAAAG
Found at i:105458000 original size:29 final size:29
Alignment explanation
Indices: 105457967--105458034 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
105457957 AAAAAAAGTA
105457967 AAAAAAAAAAAGAAATATGAAAATAAAAG
1 AAAAAAAAAAAGAAATATGAAAATAAAAG
*
105457996 AAAAAAACAAAGAAATATGAAAATAAAAG
1 AAAAAAAAAAAGAAATATGAAAATAAAAG
*
105458025 AAAAAGAAAA
1 AAAAAAAAAA
105458035 CAAAAAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.79, C:0.01, G:0.10, T:0.09
Consensus pattern (29 bp):
AAAAAAAAAAAGAAATATGAAAATAAAAG
Found at i:105459042 original size:14 final size:16
Alignment explanation
Indices: 105459022--105459061 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
105459012 CTTAATATCT
105459022 ATAAATTTTTAT-AAC
1 ATAAATTTTTATAAAC
*
105459037 -TAAA-TTTAATAAAC
1 ATAAATTTTTATAAAC
105459051 ATAAATTTTTA
1 ATAAATTTTTA
105459062 AAAAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 5
0.74 0.07 0.19
Matches are distributed among these distances:
13 5 0.25
14 7 0.35
15 4 0.20
16 4 0.20
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAAATTTTTATAAAC
Found at i:105463877 original size:15 final size:16
Alignment explanation
Indices: 105463840--105463880 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
105463830 ATAATAAAAA
105463840 TATAATTTTATTATTT
1 TATAATTTTATTATTT
105463856 TAGTAA-TTTA-TATTTT
1 TA-TAATTTTATTA-TTT
105463872 TATAATTTT
1 TATAATTTT
105463881 TAAAAGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 5 0.23
16 14 0.64
17 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (16 bp):
TATAATTTTATTATTT
Found at i:105471468 original size:27 final size:29
Alignment explanation
Indices: 105471430--105471486 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
105471420 TTAAAGCCGA
*
105471430 ATTAACCGATT-G-AACTGATCTAATTCG
1 ATTAACCGATTGGTAACAGATCTAATTCG
*
105471457 ATTAATCGATTGGTTAACAGATCTAATTCG
1 ATTAACCGATTGG-TAACAGATCTAATTCG
105471487 GTCAGAGGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.40
28 1 0.04
30 14 0.56
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (29 bp):
ATTAACCGATTGGTAACAGATCTAATTCG
Found at i:105472392 original size:96 final size:96
Alignment explanation
Indices: 105472226--105472405 Score: 261
Period size: 96 Copynumber: 1.9 Consensus size: 96
105472216 TTATCTCAAA
* * * *
105472226 TAAAAATATAAAGATTAAATCATAATTTTGAGTTTAATAGAGGAACCAAAACTGAAAGTTTACCA
1 TAAAAATATAAAGATTAAATCATAAATTTGAGTTTAACAAAGGAACCAAAACTGAAAATTTACCA
105472291 CTATAATTGAAATGGCAAACAAAAGCTGACT
66 CTATAATTGAAATGGCAAACAAAAGCTGACT
* * * * *
105472322 TAAAAATTTAAATATTATATCTTAAATTTGAGTTTAACAAAGGGACCAAAACTGAAAATTTACCA
1 TAAAAATATAAAGATTAAATCATAAATTTGAGTTTAACAAAGGAACCAAAACTGAAAATTTACCA
* *
105472387 TTATAATTTAAATGGCAAA
66 CTATAATTGAAATGGCAAA
105472406 AAGTGTGGCC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.30
Consensus pattern (96 bp):
TAAAAATATAAAGATTAAATCATAAATTTGAGTTTAACAAAGGAACCAAAACTGAAAATTTACCA
CTATAATTGAAATGGCAAACAAAAGCTGACT
Found at i:105480640 original size:6 final size:6
Alignment explanation
Indices: 105480631--105480678 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
105480621 GTACATGTAA
* * *
105480631 TATGTG TATGTG TATGTG TATGTG -A-GTG TATTTG TATATG TATATG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
105480677 TA
1 TA
105480679 CGTGGAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 3 0.08
5 2 0.05
6 33 0.87
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (6 bp):
TATGTG
Found at i:105480654 original size:18 final size:18
Alignment explanation
Indices: 105480631--105480678 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
105480621 GTACATGTAA
105480631 TATGTGTATGTGTATGTG
1 TATGTGTATGTGTATGTG
*
105480649 TATGTG-A-GTGTATTTG
1 TATGTGTATGTGTATGTG
* *
105480665 TATATGTATATGTA
1 TATGTGTATGTGTA
105480679 CGTGGAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 13 0.52
17 2 0.08
18 10 0.40
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (18 bp):
TATGTGTATGTGTATGTG
Found at i:105480739 original size:6 final size:6
Alignment explanation
Indices: 105480728--105480763 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
105480718 TGATTCTTGA
105480728 GTATAT GTATAT GTATAT GTATAT GCGTATAT GTAT
1 GTATAT GTATAT GTATAT GTATAT --GTATAT GTAT
105480764 GTTTATGTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 22 0.79
8 6 0.21
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (6 bp):
GTATAT
Found at i:105480778 original size:20 final size:20
Alignment explanation
Indices: 105480735--105480778 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
105480725 TGAGTATATG
*
105480735 TATATGTATATGTATATGCG
1 TATATGTATATGTATATGCA
* * *
105480755 TATATGTATGTTTATGTGCA
1 TATATGTATATGTATATGCA
105480775 TATA
1 TATA
105480779 CATGTAGTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.48
Consensus pattern (20 bp):
TATATGTATATGTATATGCA
Found at i:105484071 original size:20 final size:19
Alignment explanation
Indices: 105484046--105484089 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
105484036 ATTTTTTTTA
105484046 TTAAAAATCGTAAAAAATAT
1 TTAAAAATCGT-AAAAATAT
* *
105484066 TTAAAAATGGTAAAATTAT
1 TTAAAAATCGTAAAAATAT
105484085 TTAAA
1 TTAAA
105484090 TTATTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (19 bp):
TTAAAAATCGTAAAAATAT
Done.