Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 73 of 91
Found at i:26510986 original size:2 final size:2
Alignment explanation
Indices: 26510979--26511015 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
26510969 GTTAGCACTA
26510979 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
26511016 AATATTGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:26528846 original size:6 final size:6
Alignment explanation
Indices: 26528837--26528861 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
26528827 TTTAAATATA
26528837 AAAATT AAAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT A
26528862 TTTGACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:26537912 original size:35 final size:35
Alignment explanation
Indices: 26537864--26537987 Score: 106
Period size: 35 Copynumber: 3.5 Consensus size: 35
26537854 TATCGCATGA
* * *
26537864 AAAGTAGCATTTCACTTGTTTTAGTTTTTTTACAT
1 AAAGTAGTATTTCACTTGTTTTAGTTGTTTCACAT
* * * *
26537899 AAAGTAGTGTTTCACTTATTCTAGTTGTTTCGCAT
1 AAAGTAGTATTTCACTTGTTTTAGTTGTTTCACAT
* * * *
26537934 AGAGTAATACTTCACTTGTTTTAGTCG-TTCTACAT
1 AAAGTAGTATTTCACTTGTTTTAGTTGTTTC-ACAT
** *
26537969 ATGGTAGTACTTCACTTGT
1 AAAGTAGTATTTCACTTGT
26537988 AATGGTTGTT
Statistics
Matches: 70, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
34 3 0.04
35 67 0.96
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (35 bp):
AAAGTAGTATTTCACTTGTTTTAGTTGTTTCACAT
Found at i:26546858 original size:3 final size:3
Alignment explanation
Indices: 26546837--26546870 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
26546827 GATCTCGAGA
* *
26546837 AAG AAG GAG AAG AAC AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
26546871 CTCAGTTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:26550830 original size:2 final size:2
Alignment explanation
Indices: 26550823--26550847 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26550813 ATTTGGTCCA
26550823 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
26550848 CCGTTCAGTT
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:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:26552062 original size:17 final size:18
Alignment explanation
Indices: 26552031--26552064 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
26552021 AATACAATTA
*
26552031 TATATATTCATAACATTT
1 TATATATTCAAAACATTT
26552049 TATAT-TTCAAAACATT
1 TATATATTCAAAACATT
26552065 ACTAAGGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TATATATTCAAAACATTT
Found at i:26552295 original size:16 final size:16
Alignment explanation
Indices: 26552274--26552308 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
26552264 TTAATATATT
*
26552274 TTAAATATATTATTAA
1 TTAAATATACTATTAA
*
26552290 TTAAATTTACTATTAA
1 TTAAATATACTATTAA
26552306 TTA
1 TTA
26552309 TTCTTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAATATACTATTAA
Found at i:26553073 original size:17 final size:17
Alignment explanation
Indices: 26553051--26553094 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
26553041 AATAGCCTAT
26553051 CCCGTTTCCTCTCTTTC
1 CCCGTTTCCTCTCTTTC
26553068 CCCGTTTCCTCTCTTTC
1 CCCGTTTCCTCTCTTTC
*
26553085 CCCTTTTCCT
1 CCCGTTTCCT
26553095 TTTCCTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.00, C:0.48, G:0.05, T:0.48
Consensus pattern (17 bp):
CCCGTTTCCTCTCTTTC
Found at i:26554268 original size:23 final size:23
Alignment explanation
Indices: 26554236--26554298 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
26554226 GTTACTATAT
*
26554236 TATATAAATATATCATATTATCA
1 TATATTAATATATCATATTATCA
* *
26554259 TATATTAATAAATCATATTATTA
1 TATATTAATATATCATATTATCA
*
26554282 TCTATTATGATATATCA
1 TATATTA--ATATATCA
26554299 ATAAATAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
23 26 0.79
25 7 0.21
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (23 bp):
TATATTAATATATCATATTATCA
Found at i:26554369 original size:11 final size:11
Alignment explanation
Indices: 26554353--26554383 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
26554343 ACAAATGATG
26554353 TGTTAATTAAT
1 TGTTAATTAAT
26554364 TGTTAATTAAT
1 TGTTAATTAAT
*
26554375 TATTAATTA
1 TGTTAATTA
26554384 TATTAGTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
TGTTAATTAAT
Found at i:26554450 original size:28 final size:26
Alignment explanation
Indices: 26554393--26554467 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 26
26554383 ATATTAGTCT
*
26554393 ATTTAATTTAAA-A-TAAAAATATAAA
1 ATTTTATTTAAATATTAAAAATAT-AA
26554418 ATTTTATTTAAATATTAAAAAGTAT-A
1 ATTTTATTTAAATATTAAAAA-TATAA
*
26554444 ATTTTTTTTAAATAATTTAAAAAT
1 ATTTTATTTAAAT-A-TTAAAAAT
26554468 TTTTAAGTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
25 11 0.26
26 14 0.33
27 8 0.19
28 10 0.23
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (26 bp):
ATTTTATTTAAATATTAAAAATATAA
Found at i:26556664 original size:21 final size:21
Alignment explanation
Indices: 26556616--26556661 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
26556606 TTTAAATAAG
*
26556616 TATTTAGATTTTTATTATTTT
1 TATTTAAATTTTTATTATTTT
*
26556637 TAATTAAATTTTTA-TATTTT
1 TATTTAAATTTTTATTATTTT
26556657 TATTT
1 TATTT
26556662 TAAGTCGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TATTTAAATTTTTATTATTTT
Found at i:26556681 original size:30 final size:30
Alignment explanation
Indices: 26556645--26556733 Score: 169
Period size: 30 Copynumber: 3.0 Consensus size: 30
26556635 TTTAATTAAA
26556645 TTTTTATATTTTTATTTTAAGTCGAATAAT
1 TTTTTATATTTTTATTTTAAGTCGAATAAT
26556675 TTTTTATATTTTTATTTTAAGTCGAATAAT
1 TTTTTATATTTTTATTTTAAGTCGAATAAT
*
26556705 TTTTTATATTTTTATTTTAAGTCAAATAA
1 TTTTTATATTTTTATTTTAAGTCGAATAA
26556734 ATTCTTATGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (30 bp):
TTTTTATATTTTTATTTTAAGTCGAATAAT
Found at i:26558100 original size:2 final size:2
Alignment explanation
Indices: 26558093--26558123 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26558083 CTTGAAGAAG
26558093 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26558124 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26560432 original size:259 final size:264
Alignment explanation
Indices: 26559950--26560488 Score: 752
Period size: 271 Copynumber: 2.0 Consensus size: 264
26559940 ATCTTATATC
* * *
26559950 TATAATATATATAAAAGTAAGATGTTTCAAATTTTTTTTAATTTTTTTCAATTGAGTTTTCAATT
1 TATAATATATATAAAAGTAAGATGTTTCAAATTTCTTTTAATTTTTTTCAATTGAATCTTCAATT
* * *
26560015 GAATGACAAGTGTCATTCAATTAGAACTCATTTTTATTTTTTTGACTTTTCTTTTTCTATTGAGT
66 AAATGACAAGTGTCATTCAATTAAAACTCATTTTTATTTTTTTGACTTTTCGTTTTCTATTGAGT
* * * *
26560080 TAATTTTTTTTACACCTTATGTTAAAAATAAGTTGTTTTTGATATTTGAAGGGTTTTTTTTGTTT
131 TAATTTTTTTTACACCTTATGTCAAAAATAAGTAGTTTTTGACATTTGAA--------TTGGTTT
*
26560145 TTCTACTTTTATTTATTTTAATAAAAAATACTTAAAAACAATAATTTCTAACTTTTAATACTTAG
188 TTCTA-TTTTATTTATTTTAATAAAAAATACTTAAAAACAATAATTTATAACTTTTAATACTTA-
26560210 AA-GATAGATTT-T
251 AATGATAGATTTAT
26560222 TATAATATATATAAAAGTAAGATGTTTC-AATTTCTTTTAATTTTTTTCAATTGAATCTTCAATT
1 TATAATATATATAAAAGTAAGATGTTTCAAATTTCTTTTAATTTTTTTCAATTGAATCTTCAATT
26560286 AAATGACAAGTGTCATTCAATTAAAACTTC-TTTTTATTTTTTTGACTTTTCGTTTTCTATTGAG
66 AAATGACAAGTGTCATTCAATTAAAAC-TCATTTTTATTTTTTTGACTTTTCGTTTTCTATTGAG
* * * *
26560350 TTATTTTTTTTTACACTTTATGTCAAAATTACGTAGTTTTTGACATTTGAA-TGGTTTTT-T-TT
130 TTAATTTTTTTTACACCTTATGTCAAAAATAAGTAGTTTTTGACATTTGAATTGGTTTTTCTATT
* * * *
26560412 TTATTTATTTTAGTAAAAAATATTTGAAAACAATAATTTATAACTTTTAATGCTTAAATGATAGA
195 TTATTTATTTTAATAAAAAATACTTAAAAACAATAATTTATAACTTTTAATACTTAAATGATAGA
26560477 TTTAT
260 TTTAT
26560482 T-TAATAT
1 TATAATAT
26560489 TATTTTTTGT
Statistics
Matches: 245, Mismatches: 19, Indels: 19
0.87 0.07 0.07
Matches are distributed among these distances:
258 2 0.01
259 68 0.28
260 2 0.01
261 1 0.00
262 7 0.03
271 135 0.55
272 30 0.12
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (264 bp):
TATAATATATATAAAAGTAAGATGTTTCAAATTTCTTTTAATTTTTTTCAATTGAATCTTCAATT
AAATGACAAGTGTCATTCAATTAAAACTCATTTTTATTTTTTTGACTTTTCGTTTTCTATTGAGT
TAATTTTTTTTACACCTTATGTCAAAAATAAGTAGTTTTTGACATTTGAATTGGTTTTTCTATTT
TATTTATTTTAATAAAAAATACTTAAAAACAATAATTTATAACTTTTAATACTTAAATGATAGAT
TTAT
Found at i:26572148 original size:30 final size:31
Alignment explanation
Indices: 26572089--26572149 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
26572079 GTTGATGAAC
* *
26572089 TGAACTTTAATCAATTTGCTATCATATATGTA
1 TGAACTTGAATCAAATTGCTA-CATATATGTA
*
26572121 TGAACTTGAGTCAAATTGCTA-ATATATGT
1 TGAACTTGAATCAAATTGCTACATATATGT
26572150 GTAATTCCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 8 0.31
32 18 0.69
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (31 bp):
TGAACTTGAATCAAATTGCTACATATATGTA
Found at i:26577807 original size:111 final size:113
Alignment explanation
Indices: 26577610--26577836 Score: 352
Period size: 111 Copynumber: 2.0 Consensus size: 113
26577600 CTTTTAACTG
*
26577610 TGACATTGGTTCTGCCATTTGAGAAAAGAGAGGGGGAAGGTTGTGTTACTGAAATATGACAAAAG
1 TGACATTGGTTCTGCCATTTGAGAAAAGAGAAGGGGAAGGTTGTGTTACTGAAATATGACAAAAG
* **
26577675 TATATGGTGCTGAAAGATCCTTGTGAGTAGGTTTAGAACTGTAGCAAGA
66 TATATGGTGCTGAAAGATCCTTGTGAGT-CGTTTAGAACCATAGCAAGA
*
26577724 TGACATTGGTTCTGCCATTTG-GAAAAGA-AAGGGGAAGGTTGTGTTACTGGAAT-TGACAAAAG
1 TGACATTGGTTCTGCCATTTGAGAAAAGAGAAGGGGAAGGTTGTGTTACTGAAATATGACAAAAG
* * *
26577786 TATGTGGTGCTGAAAGATCCTTTTGAGTCTTTTAGAACCATAGCAAGA
66 TATATGGTGCTGAAAGATCCTTGTGAGTCGTTTAGAACCATAGCAAGA
26577834 TGA
1 TGA
26577837 GGTTAGAGCA
Statistics
Matches: 105, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
110 19 0.18
111 35 0.33
112 23 0.22
113 7 0.07
114 21 0.20
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.29
Consensus pattern (113 bp):
TGACATTGGTTCTGCCATTTGAGAAAAGAGAAGGGGAAGGTTGTGTTACTGAAATATGACAAAAG
TATATGGTGCTGAAAGATCCTTGTGAGTCGTTTAGAACCATAGCAAGA
Found at i:26583571 original size:94 final size:91
Alignment explanation
Indices: 26583372--26583642 Score: 271
Period size: 94 Copynumber: 2.9 Consensus size: 91
26583362 CACACTAAAG
* * * * * *
26583372 CTATATATGTTATCATGTATGTAAATTTTCCTTAATCGTCTTATGAATTTATGTGAG-GAAAAAA
1 CTATATATGTTACCATATATGTAAATTTTCTTTAATTGTCTTATGAACTTATGTGAGAG-AGAAA
*
26583436 AATCTA-TCATAAATTATATG-AAAATCTA
65 AATTTACT-ATAAA-T-TATGCAAAATCTA
* ** * *
26583464 CTGTATACATTACCATATATGCATATTCTTCTTTAATTGTCTTATGAACTTATGTGAGAGATGAA
1 CTATATATGTTACCATATATGTAAATT-TTCTTTAATTGTCTTATGAACTTATGTGAGAGA-GAA
*
26583529 AAATTTACTATAAATTATGCAACAATCTG
64 AAATTTACTATAAATTATGCAA-AATCTA
* * * *
26583558 TTATATATGTTACCATATATGTACATTTTCTCTTAATTGTCTTATGAACCTATATGA-AGGAGAA
1 CTATATATGTTACCATATATGTAAATTTTCT-TTAATTGTCTTATGAACTTATGTGAGA-GAGAA
26583622 AAATTTTACTATAAATTATGC
64 AAA-TTTACTATAAATTATGC
26583643 TGATTAACTC
Statistics
Matches: 149, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
92 24 0.16
93 42 0.28
94 82 0.55
95 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.41
Consensus pattern (91 bp):
CTATATATGTTACCATATATGTAAATTTTCTTTAATTGTCTTATGAACTTATGTGAGAGAGAAAA
ATTTACTATAAATTATGCAAAATCTA
Found at i:26584749 original size:22 final size:22
Alignment explanation
Indices: 26584719--26584772 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 22
26584709 ATTATGATCA
26584719 AAATATTAAAATATTAATATTT-T
1 AAAT-TTAAAATATTAAT-TTTAT
*
26584742 TAATTTAAAATATTAATTTTAT
1 AAATTTAAAATATTAATTTTAT
26584764 AAATTTAAA
1 AAATTTAAA
26584773 TTTGTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 3 0.11
22 22 0.79
23 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATTTAAAATATTAATTTTAT
Found at i:26600094 original size:8 final size:8
Alignment explanation
Indices: 26600065--26600093 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
26600055 TTGAAAAAAG
26600065 AAAAAATT
1 AAAAAATT
26600073 AAAAAATT
1 AAAAAATT
26600081 AAAAAA-T
1 AAAAAATT
26600088 AAAAAA
1 AAAAAA
26600094 AACTCTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAAAATT
Found at i:26600231 original size:40 final size:40
Alignment explanation
Indices: 26600185--26600293 Score: 116
Period size: 40 Copynumber: 2.7 Consensus size: 40
26600175 AATTAACAGT
26600185 TTAAATATTAATATTTTATTATAATTTAATC-ATTAATAT-A
1 TTAAATATTAATATTTTATTATAATTT--TCTATTAATATGA
* * *
26600225 TTAAATACTAATATTTTATTTATTATTTTCTATTATTATGA
1 TTAAATATTAATATTTTA-TTATAATTTTCTATTAATATGA
*
26600266 TTAAAATATTAATAATTTTAAT-TAATTT
1 TT-AAATATTAAT-ATTTTATTATAATTT
26600294 CCAAATTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
39 2 0.03
40 24 0.41
41 16 0.28
42 10 0.17
43 6 0.10
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (40 bp):
TTAAATATTAATATTTTATTATAATTTTCTATTAATATGA
Found at i:26600598 original size:16 final size:15
Alignment explanation
Indices: 26600572--26600631 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
26600562 TTATGCTTTA
26600572 ATTAAAATTTAATAT
1 ATTAAAATTTAATAT
26600587 ATTAATAATTTAATA-
1 ATTAA-AATTTAATAT
26600602 ATATAAACA-TTAATAT
1 AT-TAAA-ATTTAATAT
* *
26600618 TTTTAAATATTAAT
1 ATTAAAAT-TTAAT
26600632 TTTTTATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
14 1 0.03
15 17 0.46
16 19 0.51
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAAATTTAATAT
Found at i:26600636 original size:16 final size:17
Alignment explanation
Indices: 26600603--26600642 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
26600593 AATTTAATAA
*
26600603 TATAAACATTAATATTT
1 TATAAATATTAATATTT
*
26600620 T-TAAATATTAATTTTT
1 TATAAATATTAATATTT
26600636 TATAAAT
1 TATAAAT
26600643 TATAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TATAAATATTAATATTT
Found at i:26602494 original size:17 final size:17
Alignment explanation
Indices: 26602462--26602493 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26602452 TTTATCTTCA
26602462 AAAAATAAGTTATTTTC
1 AAAAATAAGTTATTTTC
26602479 AAAAATAA-TTATTTT
1 AAAAATAAGTTATTTT
26602494 TTTAATTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (17 bp):
AAAAATAAGTTATTTTC
Found at i:26603606 original size:34 final size:34
Alignment explanation
Indices: 26603559--26603716 Score: 87
Period size: 34 Copynumber: 4.8 Consensus size: 34
26603549 CGCACTAAAA
* *
26603559 CTTCAGTAGCAAATATTACATGCTAAGGTCAAAG
1 CTTCAGTAGCAAATATTACACGCCAAGGTCAAAG
* * *
26603593 CTTCAGT-GCCAAATGTTATACGCCAAGGTGAAAG
1 CTTCAGTAG-CAAATATTACACGCCAAGGTCAAAG
* * * * * *
26603627 CTTCAGCATCAGATGTTACACGCACCAAAGCCAAAG
1 CTTCAGTAGCAAATATTACACG--CCAAGGTCAAAG
* *
26603663 ---CAG-A--AGATGTTACACGCCAAGGTCAAAG
1 CTTCAGTAGCAAATATTACACGCCAAGGTCAAAG
* * * *
26603691 CTTCGGTACCAGATGTTACACGCCAA
1 CTTCAGTAGCAAATATTACACGCCAA
26603717 AGTTTTCTTC
Statistics
Matches: 99, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
28 10 0.10
30 12 0.12
31 2 0.02
32 2 0.02
33 4 0.04
34 60 0.61
36 9 0.09
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (34 bp):
CTTCAGTAGCAAATATTACACGCCAAGGTCAAAG
Found at i:26604912 original size:19 final size:20
Alignment explanation
Indices: 26604890--26604931 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
26604880 AAAAAATAAA
* *
26604890 AAATTATTTAA-ATTTTTTT
1 AAATAATTTAAGAATTTTTT
26604909 AAATAATTTAAGAATTTTTT
1 AAATAATTTAAGAATTTTTT
26604929 AAA
1 AAA
26604932 ACGTTATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
AAATAATTTAAGAATTTTTT
Found at i:26609771 original size:4 final size:4
Alignment explanation
Indices: 26609762--26609800 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
26609752 ATATACATCC
26609762 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
26609801 AAATTTCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:26625131 original size:2 final size:2
Alignment explanation
Indices: 26625124--26625170 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
26625114 TTTTCTCATG
26625124 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26625166 AT AT A
1 AT AT A
26625171 GCACATGCAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26625915 original size:15 final size:16
Alignment explanation
Indices: 26625892--26625921 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26625882 GATGACAATG
26625892 GCAACGAATGGGAGAA
1 GCAACGAATGGGAGAA
26625908 GCAA-GAATGGGAGA
1 GCAACGAATGGGAGA
26625922 TCAAAATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.10, G:0.40, T:0.07
Consensus pattern (16 bp):
GCAACGAATGGGAGAA
Found at i:26627080 original size:14 final size:14
Alignment explanation
Indices: 26627061--26627087 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26627051 CAAAAATTAT
26627061 AACTTATAAAAAAG
1 AACTTATAAAAAAG
26627075 AACTTATAAAAAA
1 AACTTATAAAAAA
26627088 ATTTTATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (14 bp):
AACTTATAAAAAAG
Found at i:26629125 original size:2 final size:2
Alignment explanation
Indices: 26629118--26629173 Score: 94
Period size: 2 Copynumber: 27.0 Consensus size: 2
26629108 CTATACAATC
26629118 TA TA TA 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 TA TA TA
26629160 TA TCA GTA TA TA TA
1 TA T-A -TA TA TA TA
26629174 AAACTAAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 49 0.94
3 2 0.04
4 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:26667880 original size:25 final size:25
Alignment explanation
Indices: 26667793--26667872 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 25
26667783 GTGATATTAT
* *
26667793 AATTAAAATAAAA-AAAAATATTAA
1 AATTAAAATAAAATAAATATAATAA
* *
26667817 AA-TAAAATATACT-AATATAATAA
1 AATTAAAATAAAATAAATATAATAA
*
26667840 AATTAAAATAAAATAAATATAA-GA
1 AATTAAAATAAAATAAATATAATAA
26667864 AATTAAAAT
1 AATTAAAAT
26667873 TTATATAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
23 18 0.39
24 21 0.46
25 7 0.15
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (25 bp):
AATTAAAATAAAATAAATATAATAA
Found at i:26667932 original size:27 final size:26
Alignment explanation
Indices: 26667786--26667959 Score: 98
Period size: 29 Copynumber: 6.7 Consensus size: 26
26667776 ATATTTTGTG
* *
26667786 ATATTATAATTAAA-ATA-AAAAAAA
1 ATATTAAAATAAAATATATAAAAAAA
26667810 ATATTAAAATAAAATATACTAATATAATAA
1 ATATTAAAATAAAATATA-TAA-A-AA-AA
* * *
26667840 A-ATTAAAATAAAATAAAT-ATAAGA
1 ATATTAAAATAAAATATATAAAAAAA
**
26667864 A-ATTAAAAT-TTATATAATAAGGTAAAAGA
1 ATATTAAAATAAAATAT-ATAA---AAAA-A
*
26667893 A-ATTAAAATAAAATNTATAAAAAAA
1 ATATTAAAATAAAATATATAAAAAAA
* **
26667918 ATATTAAATTAAAA-ATATATTAAAA
1 ATATTAAAATAAAATATATAAAAAAA
26667943 A-A-TAAAATAAAATATAT
1 ATATTAAAATAAAATATAT
26667960 GATATTAAAA
Statistics
Matches: 117, Mismatches: 18, Indels: 30
0.71 0.11 0.18
Matches are distributed among these distances:
23 12 0.10
24 29 0.25
25 17 0.15
26 15 0.13
27 3 0.03
28 4 0.03
29 31 0.26
30 6 0.05
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (26 bp):
ATATTAAAATAAAATATATAAAAAAA
Found at i:26668016 original size:27 final size:27
Alignment explanation
Indices: 26667928--26668016 Score: 67
Period size: 27 Copynumber: 3.3 Consensus size: 27
26667918 ATATTAAATT
*
26667928 AAAAATA-TAT-TAAAAAATAA-AATA
1 AAAAATATTATATAAAAATTAATAATA
* * *
26667952 AAATATATGATATTAAAAATATATTTAATA
1 AAAAATATTATA-TAAAAAT-TA-ATAATA
* **
26667982 GATGATATTATATAAAAATTAATAATA
1 AAAAATATTATATAAAAATTAATAATA
26668009 AAAAATAT
1 AAAAATAT
26668017 AAGTATATTA
Statistics
Matches: 47, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
24 6 0.13
25 2 0.04
27 16 0.34
28 4 0.09
29 7 0.15
30 12 0.26
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAAATATTATATAAAAATTAATAATA
Found at i:26668199 original size:15 final size:15
Alignment explanation
Indices: 26668181--26668237 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
26668171 TTACAATTAC
26668181 ATTACTTATAATCAT
1 ATTACTTATAATCAT
* *
26668196 ATTATTTATAATCAC
1 ATTACTTATAATCAT
26668211 ATTACTTATAATCAT
1 ATTACTTATAATCAT
26668226 ATTACATTATAA
1 ATTAC-TTATAA
26668238 AATACTAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
15 31 0.84
16 6 0.16
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTACTTATAATCAT
Found at i:26682339 original size:17 final size:17
Alignment explanation
Indices: 26682317--26682350 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26682307 AAAATTTATT
26682317 TTAATTAATAATAATAA
1 TTAATTAATAATAATAA
* *
26682334 TTAATTATTAATTATAA
1 TTAATTAATAATAATAA
26682351 ATATTTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAATTAATAATAATAA
Found at i:26685712 original size:55 final size:55
Alignment explanation
Indices: 26685562--26685713 Score: 209
Period size: 56 Copynumber: 2.7 Consensus size: 55
26685552 TACTCATGTC
*
26685562 ATGGGTCAGTT-TGTTTGGCTTGATAG-TCGAGACAGTTTCTTGTTGATATAAAACTT
1 ATGGGTCAGTTAT-TTT-GCTTGAT-GCTTGAGACAGTTTCTTGTTGATATAAAACTT
* * *
26685618 ATGGGTCGGTTTATTTTGCTTGATGCTTGAGACAGTTTCTTGTTGGTATAAAATTT
1 ATGGGTCAG-TTATTTTGCTTGATGCTTGAGACAGTTTCTTGTTGATATAAAACTT
*
26685674 ATGGGTCAGTTATTTTGCTTGATGCTTGGGACAGTTTCTT
1 ATGGGTCAGTTATTTTGCTTGATGCTTGAGACAGTTTCTT
26685714 CTGCTTATAT
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
55 31 0.36
56 50 0.57
57 5 0.06
58 1 0.01
ACGTcount: A:0.20, C:0.11, G:0.26, T:0.44
Consensus pattern (55 bp):
ATGGGTCAGTTATTTTGCTTGATGCTTGAGACAGTTTCTTGTTGATATAAAACTT
Found at i:26687793 original size:2 final size:2
Alignment explanation
Indices: 26687786--26687812 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
26687776 TCTTCTTTGC
26687786 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
26687813 NAGGTGATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:26687858 original size:67 final size:66
Alignment explanation
Indices: 26687747--26687879 Score: 239
Period size: 67 Copynumber: 2.0 Consensus size: 66
26687737 TCTTACTTCA
26687747 AGGTGATAGGTATGATACTATTCATTTCTTCTTCTTTGCCTCTCTCTCTCTCTCTCTCTCTCTCT
1 AGGTGATAGGTATGATACTATTCATTTCTTCTTCTTTGCCTCTCTCTCTCTCTCTCTCTCTCTCT
26687812 C
66 C
* *
26687813 NAGGTGATAGGTATGATACTATTCATTTCTTCTTCTTTTCTTCTCTCTCTCTCTCTCTCTCTCTC
1 -AGGTGATAGGTATGATACTATTCATTTCTTCTTCTTTGCCTCTCTCTCTCTCTCTCTCTCTCTC
26687878 TC
65 TC
26687880 TCGTTCAAGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.12, C:0.29, G:0.10, T:0.48
Consensus pattern (66 bp):
AGGTGATAGGTATGATACTATTCATTTCTTCTTCTTTGCCTCTCTCTCTCTCTCTCTCTCTCTCT
C
Found at i:26687861 original size:2 final size:2
Alignment explanation
Indices: 26687854--26687881 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26687844 CTTCTTTTCT
26687854 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
26687882 GTTCAAGATG
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:26693498 original size:17 final size:17
Alignment explanation
Indices: 26693476--26693509 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
26693466 ATTAAATATC
26693476 TAATTAAATAATT-TAAA
1 TAATTAAA-AATTGTAAA
26693493 TAATTAAAAATTGTAAA
1 TAATTAAAAATTGTAAA
26693510 AGGTTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATTAAAAATTGTAAA
Found at i:26694602 original size:36 final size:36
Alignment explanation
Indices: 26694555--26694666 Score: 161
Period size: 36 Copynumber: 3.1 Consensus size: 36
26694545 ATTGTTTTAG
* *
26694555 ATAATTACAACTAGTATGTGTTTACTCGTCTCTTGA
1 ATAATTACAACTAGTATGTGTTTATTCTTCTCTTGA
* *
26694591 ATAATTACAACTAGCATGTATTTATTCTTCTCTTGA
1 ATAATTACAACTAGTATGTGTTTATTCTTCTCTTGA
* *
26694627 ATTATTTGCAACTAGTATGTGTTTATTCTTCTCTTGA
1 A-TAATTACAACTAGTATGTGTTTATTCTTCTCTTGA
26694664 ATA
1 ATA
26694667 TTCATGCATG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 35 0.52
37 32 0.48
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.46
Consensus pattern (36 bp):
ATAATTACAACTAGTATGTGTTTATTCTTCTCTTGA
Found at i:26694652 original size:37 final size:37
Alignment explanation
Indices: 26694556--26694665 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
26694546 TTGTTTTAGA
* *
26694556 TAATTACAACTAGTATGTGTTTACTCGTCTCTTGAA-
1 TAATTACAACTAGTATGTGTTTATTCTTCTCTTGAAT
* *
26694592 TAATTACAACTAGCATGTATTTATTCTTCTCTTGAAT
1 TAATTACAACTAGTATGTGTTTATTCTTCTCTTGAAT
* *
26694629 TATTTGCAACTAGTATGTGTTTATTCTTCTCTTGAAT
1 TAATTACAACTAGTATGTGTTTATTCTTCTCTTGAAT
26694666 ATTCATGCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
36 32 0.49
37 33 0.51
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.46
Consensus pattern (37 bp):
TAATTACAACTAGTATGTGTTTATTCTTCTCTTGAAT
Found at i:26715069 original size:14 final size:15
Alignment explanation
Indices: 26715043--26715076 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
26715033 GATTATTTGG
26715043 TAAAT-TTTCTTTTA
1 TAAATATTTCTTTTA
26715057 TAAATATTT-TTTTA
1 TAAATATTTCTTTTA
26715071 TAAATA
1 TAAATA
26715077 AATTGTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
TAAATATTTCTTTTA
Found at i:26741393 original size:2 final size:2
Alignment explanation
Indices: 26741386--26741441 Score: 69
Period size: 2 Copynumber: 28.5 Consensus size: 2
26741376 TACTTTCTGC
* **
26741386 TA TA TA TA TA TA TA TA TA TA TA -A TA TN GC 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 TA TA TA
*
26741427 TA TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA T
26741442 GCCAAAAGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:26748171 original size:17 final size:17
Alignment explanation
Indices: 26748145--26748180 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
26748135 AGCTAATTGT
26748145 TTATAAATAAAAGACAA
1 TTATAAATAAAAGACAA
*
26748162 TTATATATAAAAGACAA
1 TTATAAATAAAAGACAA
26748179 TT
1 TT
26748181 GATGTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (17 bp):
TTATAAATAAAAGACAA
Found at i:26748406 original size:81 final size:86
Alignment explanation
Indices: 26748283--26748455 Score: 221
Period size: 85 Copynumber: 2.0 Consensus size: 86
26748273 TAGAATTAAG
* * *
26748283 AAAAACAAATTTTGATATAAAAGTCATTGAATGCAATTAGAATTC-T-TATTTATAAATTGGATA
1 AAAAACAAATTTTGATATAAAAGTCATTCAATACAATTAGAATTCTTATATTTATAAATTAGATA
* *
26748346 AATCTTATTAGTATTTATAAT
66 AATCTTATTAATATTAATAAT
* * *
26748367 AAAAA-AAATTTT-A-ATTAAAGTCATTCAATACAGTTAGAATTCTTACATATTTATAAATTAGT
1 AAAAACAAATTTTGATATAAAAGTCATTCAATACAATTAGAATTCTT--ATATTTATAAATTAGA
26748429 TAAATCTTATTAATATTAATAAT
64 TAAATCTTATTAATATTAATAAT
26748452 AAAA
1 AAAA
26748456 GTTTTTCAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
81 25 0.32
82 2 0.03
83 7 0.09
84 5 0.06
85 38 0.49
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (86 bp):
AAAAACAAATTTTGATATAAAAGTCATTCAATACAATTAGAATTCTTATATTTATAAATTAGATA
AATCTTATTAATATTAATAAT
Found at i:26753529 original size:18 final size:18
Alignment explanation
Indices: 26753489--26753544 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
26753479 TTTTTAAAAT
* *
26753489 TAATAAATTA-AATTTAA
1 TAATAAATAATAATTTTA
*
26753506 TCAATAATTAA-AATATTTA
1 T-AATAAATAATAAT-TTTA
26753525 TAATAAATAATAATTTTA
1 TAATAAATAATAATTTTA
26753543 TA
1 TA
26753545 GAACATATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 1 0.03
18 24 0.75
19 7 0.22
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAAATAATAATTTTA
Found at i:26753981 original size:3 final size:3
Alignment explanation
Indices: 26753973--26754017 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
26753963 AGAACTTATG
26753973 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
26754018 AGAACTTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:26754624 original size:61 final size:61
Alignment explanation
Indices: 26754557--26754677 Score: 197
Period size: 61 Copynumber: 2.0 Consensus size: 61
26754547 TATTTTTGAA
* * * *
26754557 AATTACATAATAATTTTTTAATTTTTAAAGTTTAAAATCATAGAAAATAAAATTTATATAG
1 AATTACAAAATAATTTTTTAATTTTTAAAGATTAAAATCATAAAAAATAAAATTCATATAG
*
26754618 AATTACAAAATAATTTTTTAATTTTTAAAGATTAAAATTATAAAAAATAAAATTCATATA
1 AATTACAAAATAATTTTTTAATTTTTAAAGATTAAAATCATAAAAAATAAAATTCATATA
26754678 ATAAAAAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (61 bp):
AATTACAAAATAATTTTTTAATTTTTAAAGATTAAAATCATAAAAAATAAAATTCATATAG
Found at i:26754682 original size:21 final size:21
Alignment explanation
Indices: 26754657--26754727 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
26754647 GATTAAAATT
*
26754657 ATAAAAAATAAAATTCATATA
1 ATAAAAAATAGAATTCATATA
26754678 ATAAAAAATAGAA--CATGATAA
1 ATAAAAAATAGAATTCAT-AT-A
* * *
26754699 ATAGAAGATAGAATTTATATA
1 ATAAAAAATAGAATTCATATA
26754720 ATAAAAAA
1 ATAAAAAA
26754728 ATATATAACT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 3 0.08
20 2 0.05
21 31 0.77
22 2 0.05
23 2 0.05
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (21 bp):
ATAAAAAATAGAATTCATATA
Found at i:26754801 original size:13 final size:13
Alignment explanation
Indices: 26754785--26754844 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
26754775 TTATGAATAT
*
26754785 ATAAGTAAATAAA
1 ATAAATAAATAAA
26754798 ATAAATAAATAAA
1 ATAAATAAATAAA
26754811 TATAAAT-AATAATA
1 -ATAAATAAATAA-A
26754825 AT-AAT-AAT-AA
1 ATAAATAAATAAA
26754835 ATAAATAAAT
1 ATAAATAAAT
26754845 TTATCTCTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
10 3 0.07
11 4 0.10
12 9 0.21
13 19 0.45
14 7 0.17
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (13 bp):
ATAAATAAATAAA
Found at i:26754803 original size:4 final size:4
Alignment explanation
Indices: 26754780--26754844 Score: 54
Period size: 4 Copynumber: 17.8 Consensus size: 4
26754770 ATAAATTATG
* *
26754780 AATA TATA AGTA AATAA AATA AATA AATA AAT- -ATA AAT- AAT- AAT-
1 AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AATA AATA AATA
26754824 AAT- AAT- AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AAT
26754845 TTATCTCTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 2 0.04
3 15 0.28
4 32 0.60
5 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:26754804 original size:9 final size:9
Alignment explanation
Indices: 26754790--26754843 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
26754780 AATATATAAG
26754790 TAAATAAAA
1 TAAATAAAA
26754799 TAAAT-AAA
1 TAAATAAAA
26754807 TAAATATAAA
1 TAAATA-AAA
26754817 T-AATAATAA
1 TAAATAA-AA
26754826 T-AATAATAAA
1 TAAAT-A-AAA
26754836 TAAATAAA
1 TAAATAAA
26754844 TTTATCTCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
8 9 0.23
9 17 0.44
10 9 0.23
11 4 0.10
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
TAAATAAAA
Found at i:26772614 original size:27 final size:27
Alignment explanation
Indices: 26772584--26772637 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
26772574 GAGATATTAA
26772584 CGGGAATTAAGTAAAGATGCCATGCTG
1 CGGGAATTAAGTAAAGATGCCATGCTG
26772611 CGGGAATTAAGTAAAGATGCCATGCTG
1 CGGGAATTAAGTAAAGATGCCATGCTG
26772638 AGTGGTACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (27 bp):
CGGGAATTAAGTAAAGATGCCATGCTG
Found at i:26774429 original size:22 final size:22
Alignment explanation
Indices: 26774402--26774480 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
26774392 GTTATATAAA
*
26774402 AATAATAAATAATATTTTAATT
1 AATAATAAATAATAATTTAATT
* *
26774424 AATAATAATTAATAAATT-ATT
1 AATAATAAATAATAATTTAATT
* *
26774445 AATTATAAAAAATTAATTTAATTT
1 AATAATAAATAA-TAATTTAA-TT
26774469 AA-AATAAA-AATA
1 AATAATAAATAATA
26774481 TATAAATTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
21 14 0.30
22 22 0.48
23 6 0.13
24 4 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATAATAAATAATAATTTAATT
Found at i:26774437 original size:25 final size:25
Alignment explanation
Indices: 26774402--26774449 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
26774392 GTTATATAAA
26774402 AATAATAAATAATATT-TTAATTAAT
1 AATAATAAATAA-ATTATTAATTAAT
*
26774427 AATAATTAATAAATTATTAATTA
1 AATAATAAATAAATTATTAATTA
26774450 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AATAATAAATAAATTATTAATTAAT
Found at i:26774458 original size:25 final size:24
Alignment explanation
Indices: 26774398--26774461 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 24
26774388 TCACGTTATA
*
26774398 TAAAAATAATAAATAATATTTTAAT
1 TAAAAA-AATTAATAATATTTTAAT
*
26774423 TAATAATAATTAATAA-ATTATTAAT
1 TAA-AAAAATTAATAATATT-TTAAT
26774448 TATAAAAAATTAAT
1 TA-AAAAAATTAAT
26774462 TTAATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 3 0.09
25 27 0.82
26 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TAAAAAAATTAATAATATTTTAAT
Found at i:26774511 original size:26 final size:25
Alignment explanation
Indices: 26774448--26774515 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 25
26774438 AATTATTAAT
* *
26774448 TATAAAAAATTAATTTAATTTAAAA
1 TATAAAAAATAAATTTAATTGAAAA
*
26774473 TA-AAAATATATAAATTTAATTGAACA
1 TATAAAA-A-ATAAATTTAATTGAAAA
26774499 TCATAAAAAATAAATTT
1 T-ATAAAAAATAAATTT
26774516 TTGCAAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
24 4 0.11
25 3 0.08
26 23 0.64
27 2 0.06
28 4 0.11
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (25 bp):
TATAAAAAATAAATTTAATTGAAAA
Found at i:26782710 original size:15 final size:15
Alignment explanation
Indices: 26782665--26782727 Score: 58
Period size: 15 Copynumber: 4.0 Consensus size: 15
26782655 TTTTTTAAGT
26782665 ATTAATAATTT-ATA
1 ATTAATAATTTAATA
26782679 ATTAATTAAAATATTAATA
1 ATTAA-T--AAT-TTAATA
26782698 ATTAATAATTTAA-A
1 ATTAATAATTTAATA
*
26782712 TATTAATATTTTAATA
1 -ATTAATAATTTAATA
26782728 TAATTTAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
14 6 0.15
15 17 0.41
16 4 0.10
17 3 0.07
18 3 0.07
19 8 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAATAATTTAATA
Found at i:26782800 original size:8 final size:8
Alignment explanation
Indices: 26782789--26782866 Score: 56
Period size: 8 Copynumber: 9.9 Consensus size: 8
26782779 CATTAAAAAT
26782789 TTAATATA
1 TTAATATA
26782797 TTAATA-A
1 TTAATATA
26782804 TTTAATA-A
1 -TTAATATA
* *
26782812 ATAAAATA
1 TTAATATA
26782820 TTAATAGT-
1 TTAATA-TA
*
26782828 TTAA-CTA
1 TTAATATA
*
26782835 TTAATATT
1 TTAATATA
*
26782843 TTAATATT
1 TTAATATA
26782851 TTAATTATA
1 TTAA-TATA
26782860 TTAATAT
1 TTAATAT
26782867 TAATAACATT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
6 1 0.02
7 9 0.16
8 38 0.68
9 8 0.14
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (8 bp):
TTAATATA
Found at i:26782836 original size:15 final size:14
Alignment explanation
Indices: 26782816--26782850 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
26782806 TAATAAATAA
26782816 AATATTAATAGTTT
1 AATATTAATAGTTT
*
26782830 AACTATTAATATTTT
1 AA-TATTAATAGTTT
26782845 AATATT
1 AATATT
26782851 TTAATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (14 bp):
AATATTAATAGTTT
Found at i:26782861 original size:25 final size:26
Alignment explanation
Indices: 26782833--26782886 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
26782823 ATAGTTTAAC
* * *
26782833 TATTAATATT-TTAATATTTTAATTA
1 TATTAATATTAATAACATTTAAATTA
26782858 TATTAATATTAATAACATTTAAATTA
1 TATTAATATTAATAACATTTAAATTA
26782884 TAT
1 TAT
26782887 ATATAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
TATTAATATTAATAACATTTAAATTA
Found at i:26782869 original size:23 final size:22
Alignment explanation
Indices: 26782794--26782872 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
26782784 AAAATTTAAT
* *
26782794 ATATTAATAATTTAATAAATAAA
1 ATATTAATAATTTAATATAT-TA
* *
26782817 ATATTAATAGTTTAA-CTATTA
1 ATATTAATAATTTAATATATTA
*
26782838 ATATTTTAATATTTTAATTATATTA
1 ATA--TTAATAATTTAA-TATATTA
26782863 ATATTAATAA
1 ATATTAATAA
26782873 CATTTAAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
21 4 0.09
22 2 0.04
23 31 0.69
25 8 0.18
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (22 bp):
ATATTAATAATTTAATATATTA
Found at i:26782935 original size:10 final size:10
Alignment explanation
Indices: 26782920--26782951 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
26782910 TTATAAATAA
26782920 TTTATTCTTT
1 TTTATTCTTT
26782930 TTTATTCTTT
1 TTTATTCTTT
*
26782940 TTTTTTCTTT
1 TTTATTCTTT
26782950 TT
1 TT
26782952 CATGGGCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTATTCTTT
Found at i:26784412 original size:16 final size:17
Alignment explanation
Indices: 26784393--26784425 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26784383 AACATTTTTT
*
26784393 AAATT-TTTTATTTTAA
1 AAATTATTTTAATTTAA
26784409 AAATTATTTTAATTTAA
1 AAATTATTTTAATTTAA
26784426 TTTTTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AAATTATTTTAATTTAA
Found at i:26785448 original size:339 final size:339
Alignment explanation
Indices: 26784822--26786651 Score: 2890
Period size: 339 Copynumber: 5.4 Consensus size: 339
26784812 TGGCATTACT
* *
26784822 ACATCACTTTTACATGTTGACGTGATATTGTTACATCAGCATATGATGTCACGTCAATGTTGATG
1 ACATCACTTTTACATGTTGACGTGATATTATTACATCAACATATGATGTCACGTCAATGTTGATG
* * * * *
26784887 TTAGTATTATAACGATAAATTTAAACGAAAAATATTAGAGAGACTAAATTAAAATAATTCTCAAA
66 TTAGTACTATAACGATAAATTTAAACGAAAAATATTAAAAAGATTAAATTAAAATAATTTTCAAA
** * * * * *
26784952 ATAAAATAAGGATATCACATGTTAGTATTATGATACACCACATGTCCATATTTTGATCTGTCATG
131 ATAAAATAAAAATATCACATGTTAGCATTATGATACGCCACGTGTCCATATCTTGATGTGTCATG
* * *
26785017 TGGCAACTTCTTAATGTGCCATGATAGCTCAGGCTCGAAATACGACGTGGTAGTGACACGTTGTC
196 TGGTAACTTCTTAATGTGCCATGATAGCTCAGGCCCGAAATACGACGTGGTAGTGACACGTTGAC
* * * *
26785082 GTAGCACCACCACGTTATTATTCAAACTCAATGTGACGTGACATTACTACATCACTTTTTGTATT
261 GTAGCACCGCCACGTTAGTATTCAAACTCAGTGTGACGTGGCATTACTACATCACTTTTTGTATT
*
26785147 GATGTGATAATGTC
326 GATGTGACAATGTC
* * * * *
26785161 ACATCCCTTTTACATGTTGACGTGATATTGTTACATCAACATATGATATCACATTAATGTTGATG
1 ACATCACTTTTACATGTTGACGTGATATTATTACATCAACATATGATGTCACGTCAATGTTGATG
* *
26785226 TTAGTACTATAACGATAAATTTAAACGAAAAATATTAAAGAGATTAAATTAAAACAATTTTCAAA
66 TTAGTACTATAACGATAAATTTAAACGAAAAATATTAAAAAGATTAAATTAAAATAATTTTCAAA
* *
26785291 ATAAAATAAGAATATCACATGTTAGCATTATGATACGCCACGTGTCCATATCTTGATGTTTCATG
131 ATAAAATAAAAATATCACATGTTAGCATTATGATACGCCACGTGTCCATATCTTGATGTGTCATG
* * * * *
26785356 TGGTAACTTTTTAATGTGTCGTGATAGCTCAGGCTCGAAATACGACATGGTAGTGACACGTTGAC
196 TGGTAACTTCTTAATGTGCCATGATAGCTCAGGCCCGAAATACGACGTGGTAGTGACACGTTGAC
* *
26785421 GTAGCACCGTCACGTTAGTATTCAAACTCAGTGTGACGTGGCTTTACTACATCACTTTTTGTATT
261 GTAGCACCGCCACGTTAGTATTCAAACTCAGTGTGACGTGGCATTACTACATCACTTTTTGTATT
*
26785486 GATGTAACAATGTC
326 GATGTGACAATGTC
* *
26785500 ACATCACTTTTACATATTGACGTGATATTGTTACATCAACATATGATGTCACGTCAATGTTGATG
1 ACATCACTTTTACATGTTGACGTGATATTATTACATCAACATATGATGTCACGTCAATGTTGATG
* * ** *
26785565 TTAATACTATAACGATAAATTTAAACGAAAAATATTAAAAAAATTAAATTAAAGCAATTCTCAAA
66 TTAGTACTATAACGATAAATTTAAACGAAAAATATTAAAAAGATTAAATTAAAATAATTTTCAAA
* *
26785630 ATAAAATAAAAATATTACATGTTAGCATTATGATACGCCACTTGTCCATATCTTGATGTGTCATG
131 ATAAAATAAAAATATCACATGTTAGCATTATGATACGCCACGTGTCCATATCTTGATGTGTCATG
* * *
26785695 TGGCAACTTCTTAATGTGCCATGATAGCTCAGGCCCGAAATACGACGTGGTAGTGACACATTGAT
196 TGGTAACTTCTTAATGTGCCATGATAGCTCAGGCCCGAAATACGACGTGGTAGTGACACGTTGAC
26785760 GTAGCACCGCCACGTTAGTATTCAAACTCAGTGTGACGTGGCATTACTACATCACTTTTTGTATT
261 GTAGCACCGCCACGTTAGTATTCAAACTCAGTGTGACGTGGCATTACTACATCACTTTTTGTATT
*
26785825 AATGTGACAATGTC
326 GATGTGACAATGTC
* * *
26785839 ACATCATTTTTACACGTTGACGTGATATTATTACATCAGCATATGATGTCACGTCAATGTTGATG
1 ACATCACTTTTACATGTTGACGTGATATTATTACATCAACATATGATGTCACGTCAATGTTGATG
*
26785904 TTAGTACTATAACGATAAATTTAAACAAAAAATATTAAAAAGATTAAATTAAAATTAATTTT-AA
66 TTAGTACTATAACGATAAATTTAAACGAAAAATATTAAAAAGATTAAATTAAAA-TAATTTTCAA
* **
26785968 AATAAAATAAAAATATCACATGTTAACATTATGATACGCCGTGTGTCCATATCTTGATGTGTCAT
130 AATAAAATAAAAATATCACATGTTAGCATTATGATACGCCACGTGTCCATATCTTGATGTGTCAT
* *
26786033 GTGGTAACTTCTTAATGTGCCATGATAGCTCAGACCCGAAATACGACGTGGTAGAGACACGTTGA
195 GTGGTAACTTCTTAATGTGCCATGATAGCTCAGGCCCGAAATACGACGTGGTAGTGACACGTTGA
* *
26786098 CGTAGCATCGCCATGTTAGTATTCAAACTCAGTGTGACGTGGCATTACTACATCACTTTTTGTAT
260 CGTAGCACCGCCACGTTAGTATTCAAACTCAGTGTGACGTGGCATTACTACATCACTTTTTGTAT
*
26786163 TAATGTGACAATGTC
325 TGATGTGACAATGTC
* * *
26786178 ACATCACTTTTACACGTTGACGTGATATTATTACATCAGCATATGATGTCACGTCAATATTGATG
1 ACATCACTTTTACATGTTGACGTGATATTATTACATCAACATATGATGTCACGTCAATGTTGATG
*
26786243 TTAGTACTATAACGATAAATTTAAACAAAAAATATTAAAAAGATTAAATTAAAATAATTTT-AAA
66 TTAGTACTATAACGATAAATTTAAACGAAAAATATTAAAAAGATTAAATTAAAATAATTTTCAAA
* **
26786307 ATAAAATAAAAATATCACATGTTAACATTATGATACGCCGTGTGTCCATATCTTGATGTGTCATG
131 ATAAAATAAAAATATCACATGTTAGCATTATGATACGCCACGTGTCCATATCTTGATGTGTCATG
*
26786372 TGGTAACTTCTTAATGTGCCATGATAGCTCAGGCCCGAAATACGACGTGGTAGAGACACGTTGAC
196 TGGTAACTTCTTAATGTGCCATGATAGCTCAGGCCCGAAATACGACGTGGTAGTGACACGTTGAC
* *
26786437 GTAGCATCGCCATGTTAGTATTCAAACTCAGTGTGACGTGGCATTACTACATCACTTTTTGTATT
261 GTAGCACCGCCACGTTAGTATTCAAACTCAGTGTGACGTGGCATTACTACATCACTTTTTGTATT
*
26786502 GATGTGATAATGTC
326 GATGTGACAATGTC
* * * *
26786516 ACATTACTTTTACATGTTGACGTGATATTATTACATCAATATATGATGTCACATCAATATTGATG
1 ACATCACTTTTACATGTTGACGTGATATTATTACATCAACATATGATGTCACGTCAATGTTGATG
* * * *
26786581 TTAGTACCATAACAATAAATTTAAATGAAAAATATTAAAAAGATTAAATTAAAATAATTTTTAAA
66 TTAGTACTATAACGATAAATTTAAACGAAAAATATTAAAAAGATTAAATTAAAATAATTTTCAAA
26786646 ATAAAA
131 ATAAAA
26786652 GAATTAAAAT
Statistics
Matches: 1395, Mismatches: 94, Indels: 4
0.93 0.06 0.00
Matches are distributed among these distances:
338 333 0.24
339 1057 0.76
340 5 0.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (339 bp):
ACATCACTTTTACATGTTGACGTGATATTATTACATCAACATATGATGTCACGTCAATGTTGATG
TTAGTACTATAACGATAAATTTAAACGAAAAATATTAAAAAGATTAAATTAAAATAATTTTCAAA
ATAAAATAAAAATATCACATGTTAGCATTATGATACGCCACGTGTCCATATCTTGATGTGTCATG
TGGTAACTTCTTAATGTGCCATGATAGCTCAGGCCCGAAATACGACGTGGTAGTGACACGTTGAC
GTAGCACCGCCACGTTAGTATTCAAACTCAGTGTGACGTGGCATTACTACATCACTTTTTGTATT
GATGTGACAATGTC
Found at i:26786581 original size:17 final size:18
Alignment explanation
Indices: 26786548--26786581 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26786538 TGATATTATT
26786548 ACATCAATATATGATGTC
1 ACATCAATATATGATGTC
26786566 ACATCAATAT-TGATGT
1 ACATCAATATATGATGT
26786582 TAGTACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
ACATCAATATATGATGTC
Found at i:26794218 original size:31 final size:31
Alignment explanation
Indices: 26794123--26794211 Score: 153
Period size: 31 Copynumber: 2.9 Consensus size: 31
26794113 AATCAAGCCT
26794123 TTATAC-TTTTATTTTGAGTCAAATAAATCC
1 TTATACTTTTTATTTTGAGTCAAATAAATCC
* *
26794153 TTCTACTTTTTATTTTGAATCAAATAAATCC
1 TTATACTTTTTATTTTGAGTCAAATAAATCC
26794184 TTATACTTTTTATTTTGAGTCAAATAAA
1 TTATACTTTTTATTTTGAGTCAAATAAA
26794212 CTCTTATGAT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
30 5 0.09
31 49 0.91
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (31 bp):
TTATACTTTTTATTTTGAGTCAAATAAATCC
Found at i:26795160 original size:10 final size:10
Alignment explanation
Indices: 26795147--26795171 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
26795137 TATTTTTTAC
26795147 TATTTGTAAT
1 TATTTGTAAT
26795157 TATTTGTAAT
1 TATTTGTAAT
26795167 TATTT
1 TATTT
26795172 TTTCTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (10 bp):
TATTTGTAAT
Found at i:26799616 original size:165 final size:164
Alignment explanation
Indices: 26799344--26799672 Score: 649
Period size: 165 Copynumber: 2.0 Consensus size: 164
26799334 AAAAAAAAAG
26799344 AAAAGCCAAGAAACAACCCAAAAAAAAAACCCAATCTTTTAAAAGAAACCAGATCAAAAAAACCA
1 AAAAGCCAAGAAACAACCCAAAAAAAAAACCCAATCTTTTAAAAGAAACCAGATCAAAAAAACCA
26799409 AACAATCACTCAAATAATTATTGTTAAAAAATAATAATAATAAACAACAATAAATATACGAATAA
66 AACAATCACTCAAATAATTATTGTTAAAAAATAATAATAATAAACAACAATAAATATACGAATAA
26799474 GATAATAAATCACCCTAAATTATTAAACATATTA
131 GATAATAAATCACCCTAAATTATTAAACATATTA
26799508 NAAAAGCCAAGAAACAACCCAAAAAAAAAACCCAATCTTTTAAAAGAAACCAGATCAAAAAAACC
1 -AAAAGCCAAGAAACAACCCAAAAAAAAAACCCAATCTTTTAAAAGAAACCAGATCAAAAAAACC
26799573 AAACAATCACTCAAATAATTATTGTTAAAAAATAATAATAATAAACAACAATAAATATACGAATA
65 AAACAATCACTCAAATAATTATTGTTAAAAAATAATAATAATAAACAACAATAAATATACGAATA
26799638 AGATAATAAATCACCCTAAATTATTAAACATATTA
130 AGATAATAAATCACCCTAAATTATTAAACATATTA
26799673 CTGCATGCAT
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
165 164 1.00
ACGTcount: A:0.58, C:0.16, G:0.04, T:0.21
Consensus pattern (164 bp):
AAAAGCCAAGAAACAACCCAAAAAAAAAACCCAATCTTTTAAAAGAAACCAGATCAAAAAAACCA
AACAATCACTCAAATAATTATTGTTAAAAAATAATAATAATAAACAACAATAAATATACGAATAA
GATAATAAATCACCCTAAATTATTAAACATATTA
Found at i:26802171 original size:2 final size:2
Alignment explanation
Indices: 26802164--26802203 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
26802154 TTAGGATGAC
26802164 TA TA 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 TA TA
26802204 NAAAGTGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26813402 original size:77 final size:77
Alignment explanation
Indices: 26813274--26813426 Score: 252
Period size: 77 Copynumber: 2.0 Consensus size: 77
26813264 AAATAATCTT
* * * *
26813274 ATAATCTTATAACAGCGCTTATATTTGATTCAACGTGGAAACAACTGAGGTTGTTGCAAGTCTTG
1 ATAATCTTATAACAGCGCTCATATTTGATTCAAAGGGGAAACAACTAAGGTTGTTGCAAGTCTTG
*
26813339 AGTGGTCTTTGC
66 AGCGGTCTTTGC
*
26813351 ATAATCTTATAACAGGGCTCATATTTGATTCAAAGGGGAAACAACTAAGGTTGTTGCAAGTCTTG
1 ATAATCTTATAACAGCGCTCATATTTGATTCAAAGGGGAAACAACTAAGGTTGTTGCAAGTCTTG
26813416 AGCGGTCTTTG
66 AGCGGTCTTTG
26813427 TTAGTTATGG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (77 bp):
ATAATCTTATAACAGCGCTCATATTTGATTCAAAGGGGAAACAACTAAGGTTGTTGCAAGTCTTG
AGCGGTCTTTGC
Found at i:26813917 original size:37 final size:34
Alignment explanation
Indices: 26813875--26813943 Score: 86
Period size: 33 Copynumber: 1.9 Consensus size: 34
26813865 TTTTTATCAT
*
26813875 AATATTATAAAAATATTAATATTTATCAAT-TGTATAA
1 AATATT-T-AAAAT-TT-ATATTTATAAATGTGTATAA
26813912 AATATTTAAAATTTATATTTATAAATGTGTAT
1 AATATTTAAAATTTATATTTATAAATGTGTAT
26813944 TCATTAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 11 0.37
34 7 0.23
35 5 0.17
36 1 0.03
37 6 0.20
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (34 bp):
AATATTTAAAATTTATATTTATAAATGTGTATAA
Found at i:26814462 original size:14 final size:14
Alignment explanation
Indices: 26814443--26814516 Score: 69
Period size: 14 Copynumber: 5.1 Consensus size: 14
26814433 AATGAATATT
26814443 AATATTTAATTTAA
1 AATATTTAATTTAA
* * *
26814457 AATATTAAAAAATAAA
1 AATATT--TAATTTAA
26814473 AATATTTAACTTTAA
1 AATATTTAA-TTTAA
26814488 AAT-TTTAATTTAA
1 AATATTTAATTTAA
*
26814501 AATATTAATATTTAA
1 AATATTTA-ATTTAA
26814516 A
1 A
26814517 TTATACAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
13 8 0.17
14 16 0.33
15 13 0.27
16 11 0.23
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATTTAATTTAA
Found at i:26814499 original size:13 final size:13
Alignment explanation
Indices: 26814471--26814509 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
26814461 TTAAAAAATA
26814471 AAAATATTTAACTTT
1 AAAAT-TTTAA-TTT
26814486 AAAATTTTAATTT
1 AAAATTTTAATTT
*
26814499 AAAATATTAAT
1 AAAATTTTAAT
26814510 ATTTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 13 0.57
14 5 0.22
15 5 0.22
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATTTTAATTT
Found at i:26814960 original size:27 final size:27
Alignment explanation
Indices: 26814927--26814978 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
26814917 ATTTTATTTG
26814927 TTAAAATATTAATAATTGATAATTTAT
1 TTAAAATATTAATAATTGATAATTTAT
26814954 TTAAAATATTAATAATTGATAATTT
1 TTAAAATATTAATAATTGATAATTT
26814979 TAAATATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (27 bp):
TTAAAATATTAATAATTGATAATTTAT
Found at i:26814970 original size:20 final size:20
Alignment explanation
Indices: 26814949--26815069 Score: 91
Period size: 23 Copynumber: 5.5 Consensus size: 20
26814939 TAATTGATAA
26814949 TTTATTTAAAATATTAATAAT
1 TTTATTTAAAATATTAAT-AT
* *
26814970 TGATAATTTTAAATATTAATATT
1 T--TTATTTAAAATATTAATA-T
*
26814993 TTTATTTATAAT-TTAATTAT
1 TTTATTTAAAATATTAA-TAT
26815013 TTATATTTTAAAAATATTAATAT
1 TT-TA-TTT-AAAATATTAATAT
26815036 TTTATTTAATTAAAAATATTAATAT
1 TTTA--T--TT-AAAATATTAATAT
26815061 TTTATTTAA
1 TTTATTTAA
26815070 TTAAAATATT
Statistics
Matches: 83, Mismatches: 6, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
20 9 0.11
21 15 0.18
22 6 0.07
23 29 0.35
24 4 0.05
25 20 0.24
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (20 bp):
TTTATTTAAAATATTAATAT
Found at i:26814983 original size:23 final size:26
Alignment explanation
Indices: 26814927--26814990 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 26
26814917 ATTTTATTTG
26814927 TTAAAATATTAATAATTGATAATTTAT
1 TTAAAATATTAATAATTGATAA-TTAT
26814954 TTAAAATATTAATAATTGATAA-T-T
1 TTAAAATATTAATAATTGATAATTAT
26814978 TT-AAATATTAATA
1 TTAAAATATTAATA
26814991 TTTTTATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
23 11 0.30
24 3 0.08
25 1 0.03
27 22 0.59
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (26 bp):
TTAAAATATTAATAATTGATAATTAT
Found at i:26815004 original size:15 final size:15
Alignment explanation
Indices: 26814950--26815023 Score: 55
Period size: 16 Copynumber: 5.0 Consensus size: 15
26814940 AATTGATAAT
*
26814950 TTATTTAAAATATTAA
1 TTATTTATAAT-TTAA
* *
26814966 TAATTGATAATTTTAA
1 TTATTTATAA-TTTAA
* *
26814982 ATATTAAT-ATTT--
1 TTATTTATAATTTAA
26814994 TTATTTATAATTTAA
1 TTATTTATAATTTAA
*
26815009 TTATTTATATTTTAA
1 TTATTTATAATTTAA
26815024 AAATATTAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
12 6 0.13
13 4 0.09
14 3 0.07
15 15 0.33
16 16 0.36
17 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (15 bp):
TTATTTATAATTTAA
Found at i:26815040 original size:43 final size:44
Alignment explanation
Indices: 26814949--26815044 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
26814939 TAATTGATAA
26814949 TTTATTTAAAATATTAATAATTGATAATTTTAAATATTAATATT
1 TTTATTTAAAATATTAATAATTGATAATTTTAAATATTAATATT
* * *
26814993 TTTATTTATAAT-TTAATTATTTAT-ATTTTAAAAATATTAATA-T
1 TTTATTTAAAATATTAATAATTGATAATTTT--AAATATTAATATT
26815036 TTTATTTAA
1 TTTATTTAA
26815045 TTAAAAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 5 0.11
43 19 0.41
44 22 0.48
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (44 bp):
TTTATTTAAAATATTAATAATTGATAATTTTAAATATTAATATT
Found at i:26815054 original size:25 final size:25
Alignment explanation
Indices: 26815020--26815080 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
26815010 TATTTATATT
26815020 TTAAAAATATTAATATTTTATTTAA
1 TTAAAAATATTAATATTTTATTTAA
26815045 TTAAAAATATTAATATTTTATTTAA
1 TTAAAAATATTAATATTTTATTTAA
26815070 TT-AAAATATTA
1 TTAAAAATATTA
26815081 TTAAGATCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 9 0.25
25 27 0.75
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TTAAAAATATTAATATTTTATTTAA
Found at i:26815153 original size:27 final size:26
Alignment explanation
Indices: 26815112--26815163 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
26815102 TATTTTATTC
* *
26815112 TTAAAAATTAATAATTGATTATTTAT
1 TTAAAAATTAATAATAGATCATTTAT
26815138 TTAAAATATTAATAATAGATCATTTA
1 TTAAAA-ATTAATAATAGATCATTTA
26815164 AATATTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (26 bp):
TTAAAAATTAATAATAGATCATTTAT
Found at i:26815166 original size:183 final size:182
Alignment explanation
Indices: 26814866--26815204 Score: 531
Period size: 183 Copynumber: 1.9 Consensus size: 182
26814856 TTAATAATTT
* * * *
26814866 AAATATTAATATTTTATTTAATTTAAATATTATTATGATTAATTTTGTTTTATTTTATTTGTTAA
1 AAATATTAATATTTTATTTAATTAAAATATTATTAAGATTAATTTTATTTTATTTTATTTCTTAA
*
26814931 AATATTAATAATTGATAATTTATTTAAAATATTAATAATTGATAATTTTAAATATTAATATTTTT
66 AATATTAATAATTGATAATTTATTTAAAATATTAATAATAGATAATTTTAAATATTAATA-TTTT
* *
26814996 ATTTATAATTTAATTATTTATATTTTAAAAATATTAATATTTTATTTAATTAA
130 ATTTATAATTTAATCATTAATATTTTAAAAATATTAATATTTTATTTAATTAA
*
26815049 AAATATTAATATTTTATTTAATTAAAATATTATTAAGATCAATTATTTTATTTTATTTTA-TTCT
1 AAATATTAATATTTTATTTAATTAAAATATTATTAAGAT---TAATTTTATTTTATTTTATTTCT
* *
26815113 TAAAA-ATTAATAATTGATTATTTATTTAAAATATTAATAATAGATCA-TTTAAATATTAATATT
63 TAAAATATTAATAATTGATAATTTATTTAAAATATTAATAATAGATAATTTTAAATATTAATATT
26815176 TTATTTATAATTTAATCATTAATATTTTA
128 TTATTTATAATTTAATCATTAATATTTTA
26815205 TTTTTTTAAT
Statistics
Matches: 143, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
182 29 0.20
183 51 0.36
184 39 0.27
185 8 0.06
186 16 0.11
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (182 bp):
AAATATTAATATTTTATTTAATTAAAATATTATTAAGATTAATTTTATTTTATTTTATTTCTTAA
AATATTAATAATTGATAATTTATTTAAAATATTAATAATAGATAATTTTAAATATTAATATTTTA
TTTATAATTTAATCATTAATATTTTAAAAATATTAATATTTTATTTAATTAA
Found at i:26815190 original size:26 final size:23
Alignment explanation
Indices: 26815159--26815232 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 23
26815149 ATAATAGATC
26815159 ATTTAAATATTAATATTTTATTTAT
1 ATTT-AATATTAATATTTTATTT-T
26815184 AATTTAATCATTAATATTTTATTTT
1 -ATTTAAT-ATTAATATTTTATTTT
26815209 -TTTAATATTAATATTATTAATTTT
1 ATTTAATATTAATATT-TT-ATTTT
26815233 TTATTTGCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
22 9 0.20
23 8 0.18
24 5 0.11
25 4 0.09
26 19 0.42
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTAATATTAATATTTTATTTT
Found at i:26815208 original size:31 final size:31
Alignment explanation
Indices: 26815167--26815256 Score: 82
Period size: 31 Copynumber: 2.9 Consensus size: 31
26815157 TCATTTAAAT
*
26815167 ATTAATATTTTA--TTTATAAT-TT-A-ATC
1 ATTAATATTTTATTTTTTTAATATTAATATC
*
26815193 ATTAATATTTTATTTTTTTAATATTAATATT
1 ATTAATATTTTATTTTTTTAATATTAATATC
*
26815224 ATTAATTTTTTATTTGCTTTTTAAATATTAATA
1 ATTAATATTTTA-TT--TTTTT-AATATTAATA
26815257 ATTGGTAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
26 12 0.23
28 7 0.13
29 2 0.04
30 1 0.02
31 13 0.25
32 2 0.04
34 5 0.10
35 10 0.19
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (31 bp):
ATTAATATTTTATTTTTTTAATATTAATATC
Found at i:26815232 original size:22 final size:23
Alignment explanation
Indices: 26815167--26815233 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 23
26815157 TCATTTAAAT
*
26815167 ATTAATATTTTATTTATAATTTAATC
1 ATTAATATTTTA--TAT-TTTTAATC
*
26815193 ATTAATATTTTATTTTTTTAAT-
1 ATTAATATTTTATATTTTTAATC
26815215 ATTAATATTATTA-ATTTTT
1 ATTAATATT-TTATATTTTT
26815234 TATTTGCTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 14 0.38
23 9 0.24
24 2 0.05
26 12 0.32
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (23 bp):
ATTAATATTTTATATTTTTAATC
Found at i:26815311 original size:19 final size:20
Alignment explanation
Indices: 26815265--26815317 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 20
26815255 TAATTGGTAA
*
26815265 TTTATTTAAAATATTAATAAT
1 TTTATTT-AATTATTAATAAT
26815286 TGATTATTTAATTATTAAT-AT
1 T--TTATTTAATTATTAATAAT
*
26815307 TTTATATAATT
1 TTTATTTAATT
26815318 TAAATGATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 9 0.32
21 4 0.14
22 9 0.32
23 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTATTTAATTATTAATAAT
Found at i:26815405 original size:30 final size:30
Alignment explanation
Indices: 26815369--26815448 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 30
26815359 TTAAATAGGA
26815369 ATAATTT-ATATTTTATTTTATTAATAATT
1 ATAATTTAATATTTTATTTTATTAATAATT
* *
26815398 GATAATTTAAATATTATTATTTTATTTATAGTT
1 -ATAATTT-AATATT-TTATTTTATTAATAATT
26815431 -TAATATTAATATTTTATT
1 ATAAT-TTAATATTTTATT
26815449 AAAAGTTGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
30 12 0.27
31 10 0.23
32 7 0.16
33 15 0.34
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (30 bp):
ATAATTTAATATTTTATTTTATTAATAATT
Found at i:26815455 original size:25 final size:25
Alignment explanation
Indices: 26815407--26815455 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
26815397 TGATAATTTA
* * *
26815407 AATATTATTATTTTATTTATAGTTT
1 AATATTAATATTTTATTAAAAGTTT
26815432 AATATTAATATTTTATTAAAAGTT
1 AATATTAATATTTTATTAAAAGTT
26815456 GGAATCAATG
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:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (25 bp):
AATATTAATATTTTATTAAAAGTTT
Found at i:26817165 original size:14 final size:14
Alignment explanation
Indices: 26817138--26817179 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
26817128 AAATTAATTT
26817138 TTTTAAAGAAAAAAC
1 TTTTAAA-AAAAAAC
26817153 TTTTAAAAAAAAA-
1 TTTTAAAAAAAAAC
*
26817166 -GTTAAAAAAAAAC
1 TTTTAAAAAAAAAC
26817179 T
1 T
26817180 CTCTATCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 11 0.46
14 6 0.25
15 7 0.29
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (14 bp):
TTTTAAAAAAAAAC
Found at i:26817902 original size:33 final size:33
Alignment explanation
Indices: 26817864--26817927 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
26817854 TCATGTTATC
* *
26817864 ATTAATTATGATATGTCAACATGTCACATCATA
1 ATTAATTATAATATGTCAACATATCACATCATA
* *
26817897 ATTAATTATAATATTTTAACATATCACATCA
1 ATTAATTATAATATGTCAACATATCACATCA
26817928 ATGACACACG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (33 bp):
ATTAATTATAATATGTCAACATATCACATCATA
Found at i:26822218 original size:18 final size:18
Alignment explanation
Indices: 26822197--26822244 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
26822187 ATTTTATCCC
* *
26822197 TTTAAAAGAATTTATTTA
1 TTTAAAAGAATTTACTCA
26822215 TTTAAAAGAATTTACTCA
1 TTTAAAAGAATTTACTCA
26822233 TTTAAAAGAATT
1 TTTAAAAGAATT
26822245 CTGTTAATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (18 bp):
TTTAAAAGAATTTACTCA
Found at i:26829529 original size:74 final size:74
Alignment explanation
Indices: 26829408--26829548 Score: 230
Period size: 74 Copynumber: 1.9 Consensus size: 74
26829398 CGCAACATCC
* *
26829408 TTAAATGCAACTATATTTATGAAGAGGGTGTCTAAAATAGAAAAAATTCACTTA-GGAAAACATA
1 TTAAATACAACTATATTTATGAAGAGAGTGTCTAAAATAGAAAAAATTCACTTACGG-AAACATA
26829472 AAAAATATTT
65 AAAAATATTT
* *
26829482 TTAAATACAATTATATTTATGAAGAGAGTGTCTAAAATAGAAAAAATTCAGTTACGGAAACATAA
1 TTAAATACAACTATATTTATGAAGAGAGTGTCTAAAATAGAAAAAATTCACTTACGGAAACATAA
26829547 AA
66 AA
26829549 GTTGGTTTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 60 0.97
75 2 0.03
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (74 bp):
TTAAATACAACTATATTTATGAAGAGAGTGTCTAAAATAGAAAAAATTCACTTACGGAAACATAA
AAAATATTT
Found at i:26830855 original size:8 final size:8
Alignment explanation
Indices: 26830842--26830866 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26830832 AACTAATTTT
26830842 TTTATATA
1 TTTATATA
26830850 TTTATATA
1 TTTATATA
26830858 TTTATATA
1 TTTATATA
26830866 T
1 T
26830867 ATAATCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTATATA
Found at i:26831180 original size:22 final size:23
Alignment explanation
Indices: 26831154--26831203 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
26831144 ATGTTTCGTA
*
26831154 ATATAAAATTATATGAATATA-T
1 ATATAAAATTATATAAATATATT
* *
26831176 ATATATAATTGTATAAATATATT
1 ATATAAAATTATATAAATATATT
26831199 ATATA
1 ATATA
26831204 TACATATACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
ATATAAAATTATATAAATATATT
Found at i:26831431 original size:203 final size:205
Alignment explanation
Indices: 26831208--26831589 Score: 615
Period size: 203 Copynumber: 1.9 Consensus size: 205
26831198 TATATATACA
* ** * *
26831208 TATACTTAAGCATTACTATAATTTATAATAAACTTTATTTATATGATTATATTTAATAACTTTAT
1 TATACATAAGCATTACTATAACCTATAATAAACTTTATTTATATAATTATACTTAATAACTTTAT
* * *
26831273 TAGTTATCATTTTAGATTTTATAACATATTATTTATAATTAGTTATTATTTATATAAACTTTGAT
66 TAGTTATCATCTTAGATTTTATAACATATTATTTATAATTAATTATTATTTATACAAACTTTGAT
* *
26831338 ATAAAACATTATAACATATAAGTTATGTCATTAA-TT-ATATATATAATAAAGTCATATAGTATA
131 ATAAAACATTATAACATATAAGTTATATAATTAATTTCATATATATAATAAAGTCATATAGTATA
26831401 TATATTAATT
196 TATATTAATT
* * *
26831411 TATACATAAGCATTACTATAACCTATAATAAACTTTATTTGTATAATTATGCTTAATAAGTTTAT
1 TATACATAAGCATTACTATAACCTATAATAAACTTTATTTATATAATTATACTTAATAACTTTAT
* *
26831476 TAGTTATTATCTTAGATTTTATAACATATTGTTTATAATTAATTATTATTTATACAAACTTTGAT
66 TAGTTATCATCTTAGATTTTATAACATATTATTTATAATTAATTATTATTTATACAAACTTTGAT
26831541 ATAAAACATTATAACATATAAGTTATATAATTAATTTCATATATATAAT
131 ATAAAACATTATAACATATAAGTTATATAATTAATTTCATATATATAAT
26831590 TATGGATAAA
Statistics
Matches: 162, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
203 149 0.92
204 2 0.01
205 11 0.07
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (205 bp):
TATACATAAGCATTACTATAACCTATAATAAACTTTATTTATATAATTATACTTAATAACTTTAT
TAGTTATCATCTTAGATTTTATAACATATTATTTATAATTAATTATTATTTATACAAACTTTGAT
ATAAAACATTATAACATATAAGTTATATAATTAATTTCATATATATAATAAAGTCATATAGTATA
TATATTAATT
Found at i:26832177 original size:12 final size:12
Alignment explanation
Indices: 26832140--26832178 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
26832130 AAAGCTTAAC
26832140 AAAGAAACTGAA
1 AAAGAAACTGAA
**
26832152 AAAGGAAAAAGAA
1 AAA-GAAACTGAA
26832165 AAAGAAACTGAA
1 AAAGAAACTGAA
26832177 AA
1 AA
26832179 GGGCAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.72, C:0.05, G:0.18, T:0.05
Consensus pattern (12 bp):
AAAGAAACTGAA
Found at i:26868266 original size:28 final size:27
Alignment explanation
Indices: 26868222--26868599 Score: 222
Period size: 28 Copynumber: 13.8 Consensus size: 27
26868212 TTAACACAAT
* *
26868222 ATGTAATAATTATATTTTTCAATATGGC
1 ATGTAATAATTA-AATTTTCAATATGAC
* * *
26868250 ATGTAATAATTACATTTTTTAATATGAT
1 ATGTAATAATTA-AATTTTCAATATGAC
* *
26868278 AT-TTATAACTAAATTTTCAATATGAC
1 ATGTAATAATTAAATTTTCAATATGAC
* * *
26868304 GTGTAAGAATTAAATTTTTTAACT-TGAC
1 ATGTAATAATTAAA-TTTTCAA-TATGAC
* *
26868332 GTGTAATAATTAAATTTTCAATATAAC
1 ATGTAATAATTAAATTTTCAATATGAC
*** * * * *
26868359 ATGTGGCAATTAAATCTTCAACATAAT
1 ATGTAATAATTAAATTTTCAATATGAC
* * *
26868386 ATGTAAAAATTAAATTTTTTAACATGAC
1 ATGTAATAATTAAA-TTTTCAATATGAC
* * *
26868414 GTGTAATAATTAAATTTTCAACATAAC
1 ATGTAATAATTAAATTTTCAATATGAC
* *
26868441 ATGTAACAATTAAATTTTTCAACAT-AGC
1 ATGTAATAATTAAA-TTTTCAATATGA-C
* * *
26868469 ATATAATAACTAAATTTTCAATATAAC
1 ATGTAATAATTAAATTTTCAATATGAC
* * * * *
26868496 GTATAATAATTAAATCTTCAACATGAT
1 ATGTAATAATTAAATTTTCAATATGAC
* * * * *
26868523 GTGTCATAACTACATTTTTCAACATGAC
1 ATGTAATAATTA-AATTTTCAATATGAC
* * * * *
26868551 GTATAACAACTATATTTTTCAATATGAC
1 ATGTAATAATTA-AATTTTCAATATGAC
* * *
26868579 ATATAACAACTAAATTTTCAA
1 ATGTAATAATTAAATTTTCAA
26868600 AGCGATTTTT
Statistics
Matches: 281, Mismatches: 60, Indels: 19
0.78 0.17 0.05
Matches are distributed among these distances:
26 14 0.05
27 127 0.45
28 139 0.49
29 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.39
Consensus pattern (27 bp):
ATGTAATAATTAAATTTTCAATATGAC
Found at i:26868337 original size:82 final size:82
Alignment explanation
Indices: 26868167--26868508 Score: 240
Period size: 82 Copynumber: 4.2 Consensus size: 82
26868157 TCATTATGGA
* * * * ** * * * *
26868167 GTGTAACAATTAAATTTTTAAACATAGCATGCAACAACTAAAT-TATTAACACAATATGTAATAA
1 GTGTAATAATT-AATTTTTCAATATAACATGTGACAACTAAATCT-TCAACATAACATGTAAAAA
* * * *
26868231 TTATATTTTTCAATATGGC
64 TTAAATTTTTTAACATGAC
* * * * * * * * * * *
26868250 ATGTAATAATTACATTTTTTAATATGATAT-TTATAACTAAATTTTCAATATGACGTGTAAGAAT
1 GTGTAATAATTA-ATTTTTCAATATAACATGTGACAACTAAATCTTCAACATAACATGTAAAAAT
*
26868314 TAAATTTTTTAACTTGAC
65 TAAATTTTTTAACATGAC
* * * *
26868332 GTGTAATAATTAAATTTTCAATATAACATGTGGCAATTAAATCTTCAACATAATATGTAAAAATT
1 GTGTAATAATTAATTTTTCAATATAACATGTGACAACTAAATCTTCAACATAACATGTAAAAATT
26868397 AAATTTTTTAACATGAC
66 AAATTTTTTAACATGAC
* * * * * * * * *
26868414 GTGTAATAATTAAATTTTCAACATAACATGTAACAATTAAATTTTTCAACATAGCATATAATAAC
1 GTGTAATAATTAATTTTTCAATATAACATGTGACAACTAAA-TCTTCAACATAACATGTAAAAAT
* * *
26868479 TAAA-TTTTCAATATAAC
65 TAAATTTTTTAACATGAC
*
26868496 GTATAATAATTAA
1 GTGTAATAATTAA
26868509 ATCTTCAACA
Statistics
Matches: 204, Mismatches: 51, Indels: 9
0.77 0.19 0.03
Matches are distributed among these distances:
81 13 0.06
82 148 0.73
83 43 0.21
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.39
Consensus pattern (82 bp):
GTGTAATAATTAATTTTTCAATATAACATGTGACAACTAAATCTTCAACATAACATGTAAAAATT
AAATTTTTTAACATGAC
Found at i:26868348 original size:55 final size:54
Alignment explanation
Indices: 26868205--26868599 Score: 213
Period size: 55 Copynumber: 7.2 Consensus size: 54
26868195 ATGCAACAAC
* * * * *
26868205 TAAATTATT-AACACAATATGTAATAATTATATTTTTCAATATGGCATGTAATAAT
1 TAAATT-TTCAACATAACATGTAATAATTA-AATTTTCAATATGACATGTAAGAAT
* * * * * * * *
26868260 TACATTTTTTAATATGATAT-TTATAACTAAATTTTCAATATGACGTGTAAGAAT
1 TA-AATTTTCAACATAACATGTAATAATTAAATTTTCAATATGACATGTAAGAAT
* * * * * *
26868314 TAAATTTTTTAACTTGACGTGTAATAATTAAATTTTCAATATAACATGT-GGCAAT
1 TAAA-TTTTCAACATAACATGTAATAATTAAATTTTCAATATGACATGTAAG-AAT
* * * * * * *
26868369 TAAATCTTCAACATAATATGTAAAAATTAAATTTTTTAACATGACGTGTAATAAT
1 TAAATTTTCAACATAACATGTAATAATTAAA-TTTTCAATATGACATGTAAGAAT
* * * * *
26868424 TAAATTTTCAACATAACATGTAACAATTAAATTTTTCAACAT-AGCATATAATAAC
1 TAAATTTTCAACATAACATGTAATAATTAAA-TTTTCAATATGA-CATGTAAGAAT
* * * * * ** * * *
26868479 TAAATTTTCAATATAACGTATAATAATTAAATCTTCAACATGATGTGTCATAAC
1 TAAATTTTCAACATAACATGTAATAATTAAATTTTCAATATGACATGTAAGAAT
* * * * * * * * * *
26868533 TACATTTTTCAACATGACGTATAACAACTATATTTTTCAATATGACATATAACAAC
1 TA-AATTTTCAACATAACATGTAATAATTA-AATTTTCAATATGACATGTAAGAAT
26868589 TAAATTTTCAA
1 TAAATTTTCAA
26868600 AGCGATTTTT
Statistics
Matches: 266, Mismatches: 63, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
53 1 0.00
54 74 0.28
55 162 0.61
56 29 0.11
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (54 bp):
TAAATTTTCAACATAACATGTAATAATTAAATTTTCAATATGACATGTAAGAAT
Found at i:26868483 original size:110 final size:109
Alignment explanation
Indices: 26868287--26868599 Score: 306
Period size: 110 Copynumber: 2.9 Consensus size: 109
26868277 TATTTATAAC
* * * * * *
26868287 TAAATTTTCAATATGACGTGTAAGAATTAAATTTTTTAACTTGACGTGTAATAATTAAA-TTTTC
1 TAAATCTTCAACATGACGTGTAATAATTAAA-TTTTCAACATGACGTGTAACAATTAAATTTTTC
* * ** * * * *
26868351 AATATAACATGTGGCAATTAAATCTTCAACATAATATGTAAAAAT
65 AATATAGCATATAACAACTAAATTTTCAACATAACATATAAAAAT
* * * *
26868396 TAAATTTTTTAACATGACGTGTAATAATTAAATTTTCAACATAACATGTAACAATTAAATTTTTC
1 TAAA-TCTTCAACATGACGTGTAATAATTAAATTTTCAACATGACGTGTAACAATTAAATTTTTC
* * * * *
26868461 AACATAGCATATAATAACTAAATTTTCAATATAACGTATAATAAT
65 AATATAGCATATAACAACTAAATTTTCAACATAACATATAAAAAT
* * * * * * *
26868506 TAAATCTTCAACATGATGTGTCATAACTACATTTTTCAACATGACGTATAACAACTATATTTTTC
1 TAAATCTTCAACATGACGTGTAATAATTA-AATTTTCAACATGACGTGTAACAATTAAATTTTTC
26868571 AATAT-GACATATAACAACTAAATTTTCAA
65 AATATAG-CATATAACAACTAAATTTTCAA
26868600 AGCGATTTTT
Statistics
Matches: 166, Mismatches: 34, Indels: 7
0.80 0.16 0.03
Matches are distributed among these distances:
109 47 0.28
110 119 0.72
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (109 bp):
TAAATCTTCAACATGACGTGTAATAATTAAATTTTCAACATGACGTGTAACAATTAAATTTTTCA
ATATAGCATATAACAACTAAATTTTCAACATAACATATAAAAAT
Found at i:26868507 original size:137 final size:136
Alignment explanation
Indices: 26868168--26868596 Score: 421
Period size: 137 Copynumber: 3.1 Consensus size: 136
26868158 CATTATGGAG
* * * * *
26868168 TGTAACAATTAAATTTTTAAACATAGCATGCAACAACTAAATTATT-AACACAATATGTAATAAT
1 TGTAACAATTAAATTTTTAAACATAGCATGTAATAACTAAATT-TTCAATATAACATGTAATAAT
* * * ** * ** *
26868232 TATATTTTTCAATATGGCATGTAATAATTACATTTTTTAATATGATATTTATAACTAAATTTTCA
65 TA-AATCTTCAACATGATATGTAATAATTACATTTTTTAACATGACGTTAATAACTAAATTTTCA
*
26868297 ATATGACG
129 ATATGACA
* * * * * ***
26868305 TGTAAGAATTAAATTTTTTAAC-TTGACGTGTAATAATTAAATTTTCAATATAACATGTGGCAAT
1 TGTAACAATTAAATTTTTAAACATAG-CATGTAATAACTAAATTTTCAATATAACATGTAATAAT
* * * *
26868369 TAAATCTTCAACATAATATGTAAAAATTAAATTTTTTAACATGACGTGTAATAATTAAATTTTCA
65 TAAATCTTCAACATGATATGTAATAATTACATTTTTTAACATGACGT-TAATAACTAAATTTTCA
* *
26868434 ACATAACA
129 ATATGACA
* * * *
26868442 TGTAACAATTAAATTTTTCAACATAGCATATAATAACTAAATTTTCAATATAACGTATAATAATT
1 TGTAACAATTAAATTTTTAAACATAGCATGTAATAACTAAATTTTCAATATAACATGTAATAATT
* * * * * *
26868507 AAATCTTCAACATGATGTGTCATAACTACATTTTTCAACATGACGTATAACAACTATATTTTTCA
66 AAATCTTCAACATGATATGTAATAATTACATTTTTTAACATGACGT-TAATAACTA-AATTTTCA
26868572 ATATGACA
129 ATATGACA
* *
26868580 TATAACAACTAAATTTT
1 TGTAACAATTAAATTTT
26868597 CAAAGCGATT
Statistics
Matches: 232, Mismatches: 55, Indels: 9
0.78 0.19 0.03
Matches are distributed among these distances:
136 38 0.16
137 164 0.71
138 30 0.13
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (136 bp):
TGTAACAATTAAATTTTTAAACATAGCATGTAATAACTAAATTTTCAATATAACATGTAATAATT
AAATCTTCAACATGATATGTAATAATTACATTTTTTAACATGACGTTAATAACTAAATTTTCAAT
ATGACA
Found at i:26868509 original size:82 final size:82
Alignment explanation
Indices: 26868328--26868599 Score: 251
Period size: 82 Copynumber: 3.3 Consensus size: 82
26868318 TTTTTTAACT
* * ** * ** *
26868328 TGACGTGTAATAATTAAATTTTCAATATAACATGTGGCAATTAAA-TCTTCAACATAATATGTAA
1 TGACGTATAATAATTAAATTTTCAACATAACATGTAACAATTAAATTTTTCAACATAGCATATAA
* * *
26868392 AAATTAAATTTTTTAACA
66 AAACTAAA-TTTTCAATA
*
26868410 TGACGTGTAATAATTAAATTTTCAACATAACATGTAACAATTAAATTTTTCAACATAGCATATAA
1 TGACGTATAATAATTAAATTTTCAACATAACATGTAACAATTAAATTTTTCAACATAGCATATAA
*
26868475 TAACTAAATTTTCAATA
66 AAACTAAATTTTCAATA
* * * ** * * * * *
26868492 TAACGTATAATAATTAAATCTTCAACATGATGTGTCATAACTACATTTTTCAACAT-GACGTATA
1 TGACGTATAATAATTAAATTTTCAACATAACATGTAACAATTAAATTTTTCAACATAG-CATATA
* *
26868556 ACAACTATATTTTTCAATA
65 AAAACTA-AATTTTCAATA
* * *
26868575 TGACATATAACAACTAAATTTTCAA
1 TGACGTATAATAATTAAATTTTCAA
26868600 AGCGATTTTT
Statistics
Matches: 158, Mismatches: 29, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
81 1 0.01
82 106 0.67
83 51 0.32
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (82 bp):
TGACGTATAATAATTAAATTTTCAACATAACATGTAACAATTAAATTTTTCAACATAGCATATAA
AAACTAAATTTTCAATA
Found at i:26869780 original size:19 final size:17
Alignment explanation
Indices: 26869744--26869787 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
26869734 AACTGTTAAC
*
26869744 ATATTCTTAAATAATAT
1 ATATTTTTAAATAATAT
*
26869761 ATATTTTTAAATAAAAT
1 ATATTTTTAAATAATAT
26869778 ATATATTTTA
1 ATAT-TTTTA
26869788 TATTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTTTTAAATAATAT
Found at i:26870142 original size:22 final size:23
Alignment explanation
Indices: 26870097--26870150 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
26870087 TTATAGGACG
*
26870097 TAAATTAAAAAGATTATTTTTTT
1 TAAATTAAAAAGATTATTTGTTT
26870120 TAAATTAAAAAGATTA-TTGTTT
1 TAAATTAAAAAGATTATTTGTTT
*
26870142 TAATTTAAA
1 TAAATTAAA
26870151 CTTTCAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 13 0.45
23 16 0.55
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (23 bp):
TAAATTAAAAAGATTATTTGTTT
Found at i:26872686 original size:108 final size:108
Alignment explanation
Indices: 26872497--26872728 Score: 455
Period size: 108 Copynumber: 2.1 Consensus size: 108
26872487 ACATTCGAAC
26872497 ATTGCTCATCCCCAACACCCTTCGATAAGCTCGCTTGTTTGGGAATAGATGGGACTTCGTCTCCT
1 ATTGCTCATCCCCAACACCCTTCGATAAGCTCGCTTGTTTGGGAATAGATGGGACTTCGTCTCCT
26872562 TCCTCCTCGTCCTTTACAACTACTCGATAGCTATCCACCTCAT
66 TCCTCCTCGTCCTTTACAACTACTCGATAGCTATCCACCTCAT
26872605 ATTGCTCATCCCCAACACCCTTCGATAAGCTCGCTTGTTTGGGAATAGATGGGACTTCGTCTCCT
1 ATTGCTCATCCCCAACACCCTTCGATAAGCTCGCTTGTTTGGGAATAGATGGGACTTCGTCTCCT
*
26872670 TCCTCCTCGTCCTTTACAACTACTCGATAGCTATCTACCTCAT
66 TCCTCCTCGTCCTTTACAACTACTCGATAGCTATCCACCTCAT
26872713 ATTGCTCATCCCCAAC
1 ATTGCTCATCCCCAAC
26872729 CACCATTGAT
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 123 1.00
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.31
Consensus pattern (108 bp):
ATTGCTCATCCCCAACACCCTTCGATAAGCTCGCTTGTTTGGGAATAGATGGGACTTCGTCTCCT
TCCTCCTCGTCCTTTACAACTACTCGATAGCTATCCACCTCAT
Found at i:26882678 original size:24 final size:24
Alignment explanation
Indices: 26882651--26882701 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
26882641 TGTTACACCC
* * *
26882651 CATGTATAAACACCTGTGACACGT
1 CATGTACAAAAACCTGTGACAAGT
26882675 CATGTACAAAAACCTGTGACAAGT
1 CATGTACAAAAACCTGTGACAAGT
26882699 CAT
1 CAT
26882702 AGTTAGGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (24 bp):
CATGTACAAAAACCTGTGACAAGT
Found at i:26882744 original size:31 final size:30
Alignment explanation
Indices: 26882708--26882861 Score: 134
Period size: 29 Copynumber: 5.4 Consensus size: 30
26882698 TCATAGTTAG
26882708 GTTGTTACACGCCATGTTGAAAAAAAATATT
1 GTTGTTACACGCCATGTTG-AAAAAAATATT
* *
26882739 GTTGTTACACGTCATG-T-ACAAAAATA--
1 GTTGTTACACGCCATGTTGAAAAAAATATT
* * *
26882765 --TATTACACGTCATGGTT---AAAAA-A-G
1 GTTGTTACACGCCAT-GTTGAAAAAAATATT
26882789 GTTGTTACACGCCATGTTGAAAAAAAAAATATT
1 GTTGTTACACGCCATGTTG---AAAAAAATATT
26882822 GTTGTTACACGCCATGTTG-AAAAAATATT
1 GTTGTTACACGCCATGTTGAAAAAAATATT
26882851 GTTGTTACACG
1 GTTGTTACACG
26882862 ACATATTTAA
Statistics
Matches: 104, Mismatches: 6, Indels: 28
0.75 0.04 0.20
Matches are distributed among these distances:
23 1 0.01
24 17 0.16
25 4 0.04
26 12 0.12
28 8 0.08
29 21 0.20
30 1 0.01
31 20 0.19
32 1 0.01
33 19 0.18
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (30 bp):
GTTGTTACACGCCATGTTGAAAAAAATATT
Found at i:26882796 original size:26 final size:24
Alignment explanation
Indices: 26882739--26882813 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 24
26882729 AAAAAATATT
26882739 GTTGTTACACGTCATG-TACAAAAA
1 GTTGTTACACGTCATGTTA-AAAAA
*
26882763 -TATATTACACGTCATGGTTAAAAAA
1 GT-TGTTACACGTCAT-GTTAAAAAA
*
26882788 GGTTGTTACACGCCATGTTGAAAAAA
1 -GTTGTTACACGTCATGTT-AAAAAA
26882814 AAAATATTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
23 1 0.02
24 12 0.29
25 9 0.21
26 19 0.45
27 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (24 bp):
GTTGTTACACGTCATGTTAAAAAA
Found at i:26882831 original size:33 final size:29
Alignment explanation
Indices: 26882708--26882887 Score: 132
Period size: 29 Copynumber: 6.3 Consensus size: 29
26882698 TCATAGTTAG
26882708 GTTGTTACACGCCATGTTGAAAAAAAATATT
1 GTTGTTACACGCCATGTTG--AAAAAATATT
*
26882739 GTTGTTACACGTCATG-T-ACAAAAATA--
1 GTTGTTACACGCCATGTTGA-AAAAATATT
* * *
26882765 --TATTACACGTCATGGTT--AAAAA-A-G
1 GTTGTTACACGCCAT-GTTGAAAAAATATT
26882789 GTTGTTACACGCCATGTTGAAAAAAAAAATATT
1 GTTGTTACACGCCATGTTG----AAAAAATATT
26882822 GTTGTTACACGCCATGTTGAAAAAATATT
1 GTTGTTACACGCCATGTTGAAAAAATATT
* * * *
26882851 GTTGTTACACGACATATT-TAAAAACATT
1 GTTGTTACACGCCATGTTGAAAAAATATT
26882879 -TTGTTACAC
1 GTTGTTACAC
26882888 TTTAATACTT
Statistics
Matches: 126, Mismatches: 9, Indels: 32
0.75 0.05 0.19
Matches are distributed among these distances:
23 1 0.01
24 17 0.13
25 4 0.03
26 12 0.10
27 10 0.08
28 15 0.12
29 26 0.21
30 1 0.01
31 20 0.16
32 1 0.01
33 19 0.15
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (29 bp):
GTTGTTACACGCCATGTTGAAAAAATATT
Found at i:26883643 original size:25 final size:25
Alignment explanation
Indices: 26883608--26883671 Score: 119
Period size: 25 Copynumber: 2.6 Consensus size: 25
26883598 GTAATCGGAT
*
26883608 CATAATACTTCAATAACAATTGGAC
1 CATAATGCTTCAATAACAATTGGAC
26883633 CATAATGCTTCAATAACAATTGGAC
1 CATAATGCTTCAATAACAATTGGAC
26883658 CATAATGCTTCAAT
1 CATAATGCTTCAAT
26883672 TCTTTAAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (25 bp):
CATAATGCTTCAATAACAATTGGAC
Found at i:26883857 original size:30 final size:30
Alignment explanation
Indices: 26883823--26883881 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
26883813 TTCACATTGA
* *
26883823 AGAGAAACTC-CTAACAAGGAGTAAGGGAGG
1 AGAGAAACTCTC-AAAAAGGAGTAAAGGAGG
26883853 AGAGAAACTCTCAAAAAGGAGTAAAGGAG
1 AGAGAAACTCTCAAAAAGGAGTAAAGGAG
26883882 CATATCATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.47, C:0.12, G:0.31, T:0.10
Consensus pattern (30 bp):
AGAGAAACTCTCAAAAAGGAGTAAAGGAGG
Found at i:26888840 original size:23 final size:22
Alignment explanation
Indices: 26888813--26888888 Score: 68
Period size: 24 Copynumber: 3.4 Consensus size: 22
26888803 AGAATGAGAG
26888813 AGAGAGAAAGGAAAAAAGAACAA
1 AGAGAGAAA-GAAAAAAGAACAA
26888836 AGAGAGAAACAGAAAAAAGAA-AGA
1 AGAGAG-AA-AGAAAAAAGAACA-A
* *
26888860 AG-GAGAAA-AACAAAGAGACAG
1 AGAGAGAAAGAAAAAAGA-ACAA
26888881 AGAGAGAA
1 AGAGAGAA
26888889 GAAGAACGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
20 7 0.16
21 4 0.09
22 8 0.18
23 10 0.22
24 15 0.33
25 1 0.02
ACGTcount: A:0.67, C:0.05, G:0.28, T:0.00
Consensus pattern (22 bp):
AGAGAGAAAGAAAAAAGAACAA
Found at i:26891398 original size:15 final size:15
Alignment explanation
Indices: 26891378--26891408 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
26891368 TAATGCTATA
26891378 ATTAAAATAAAATAT
1 ATTAAAATAAAATAT
26891393 ATTAAAATAAAATAT
1 ATTAAAATAAAATAT
26891408 A
1 A
26891409 CAATATAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTAAAATAAAATAT
Found at i:26891469 original size:24 final size:25
Alignment explanation
Indices: 26891377--26891470 Score: 83
Period size: 25 Copynumber: 3.9 Consensus size: 25
26891367 GTAATGCTAT
*
26891377 AATTAAAATA-AA-AT-ATATTA-A
1 AATTAAAATATAATATAATATAAGA
* *
26891398 AA-TAAAATATACAATATAAGAATTAGA
1 AATTAAAATAT--AATATAA-TATAAGA
26891425 AATTAAAATATAATATAATATAAGA
1 AATTAAAATATAATATAATATAAGA
*
26891450 AATTAAAAT-TTATATAATATA
1 AATTAAAATATAATATAATATA
26891471 GGTAAAAGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
20 7 0.11
21 2 0.03
23 2 0.03
24 13 0.21
25 15 0.25
26 11 0.18
27 3 0.05
28 8 0.13
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (25 bp):
AATTAAAATATAATATAATATAAGA
Found at i:26891543 original size:34 final size:35
Alignment explanation
Indices: 26891484--26891564 Score: 121
Period size: 34 Copynumber: 2.4 Consensus size: 35
26891474 AAAAGAAATT
* *
26891484 GAAATAAAATATATAATATAAAAAATTATATTAAA
1 GAAATAAAATATAAAATATAAAAAATTATAATAAA
*
26891519 GAAATAAAA-ATAAAATATATAAAATTATAATAAA
1 GAAATAAAATATAAAATATAAAAAATTATAATAAA
26891553 -AAATAAAATATA
1 GAAATAAAATATA
26891565 TGACATTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 8 0.19
34 25 0.60
35 9 0.21
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.28
Consensus pattern (35 bp):
GAAATAAAATATAAAATATAAAAAATTATAATAAA
Found at i:26891577 original size:34 final size:34
Alignment explanation
Indices: 26891484--26891577 Score: 104
Period size: 34 Copynumber: 2.7 Consensus size: 34
26891474 AAAAGAAATT
* *
26891484 GAAATAAAATATATAATATAAAAAATTATATTAAA
1 GAAATAAAATATATAA-ATTAAAAATTATAATAAA
26891519 GAAATAAAA-ATA-AAATATATAAAATTATAATAAA
1 GAAATAAAATATATAAAT-TA-AAAATTATAATAAA
*
26891553 -AAATAAAATATATGACATTAAAAAT
1 GAAATAAAATATAT-AAATTAAAAAT
26891578 ATATTTAAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
32 2 0.04
33 11 0.22
34 24 0.47
35 11 0.22
36 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (34 bp):
GAAATAAAATATATAAATTAAAAATTATAATAAA
Found at i:26891800 original size:15 final size:15
Alignment explanation
Indices: 26891782--26891835 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
26891772 ATATTTCCTG
* *
26891782 CAATCATATTGCTTA
1 CAATCACATTACTTA
*
26891797 CAATCACATTACTTG
1 CAATCACATTACTTA
* *
26891812 CAATCAAATTACTTG
1 CAATCACATTACTTA
*
26891827 TAATCACAT
1 CAATCACAT
26891836 AGCATAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (15 bp):
CAATCACATTACTTA
Found at i:26902517 original size:40 final size:40
Alignment explanation
Indices: 26902456--26902534 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
26902446 CTGTATTGTC
* *
26902456 GCTTTGCCAAACCTACCAGTCAGTTATGGTGGAAGTGGTT
1 GCTTTGCCAAACCTACCAGTCAGTTACGGTGGAAATGGTT
26902496 GCTTTGCCAAACCT-CCAAGTCAGTTACGGTGGAAATGGT
1 GCTTTGCCAAACCTACC-AGTCAGTTACGGTGGAAATGGT
26902535 ACGAATTAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 2 0.06
40 34 0.94
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
GCTTTGCCAAACCTACCAGTCAGTTACGGTGGAAATGGTT
Done.