Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 13 of 143
Found at i:4013940 original size:19 final size:19
Alignment explanation
Indices: 4013913--4013950 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4013903 TTTTTCTCTC
* *
4013913 CTTAGATTGGTTGCTGCTT
1 CTTAAATTGCTTGCTGCTT
4013932 CTTAAATTGCTTGCTGCTT
1 CTTAAATTGCTTGCTGCTT
4013951 ATCTATATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.47
Consensus pattern (19 bp):
CTTAAATTGCTTGCTGCTT
Found at i:4017087 original size:362 final size:362
Alignment explanation
Indices: 4016422--4017145 Score: 1421
Period size: 362 Copynumber: 2.0 Consensus size: 362
4016412 CCAGTTTTCG
4016422 GCAGCTTCAACAAGTAATGGAAAAGGTATAACTGATGGAAAGGTTTTATTATGTGCACATATTTG
1 GCAGCTTCAACAAGTAATGGAAAAGGTATAACTGATGGAAAGGTTTTATTATGTGCACATATTTG
4016487 CATGTCTCTTGTAGGTAATTGGTAAAACAGTAATTGATTAAAACTGCTTGAATTTTCAGTTGGAT
66 CATGTCTCTTGTAGGTAATTGGTAAAACAGTAATTGATTAAAACTGCTTGAATTTTCAGTTGGAT
4016552 ATCAGGACAAAACTGTGCATCATCATCAACAAGGAATTCCCAGCAGGGTTCATCCCCAAACGTTG
131 ATCAGGACAAAACTGTGCATCATCATCAACAAGGAATTCCCAGCAGGGTTCATCCCCAAACGTTG
*
4016617 ATGATGGATCGGATGGTTGAAATGATCTCAATGTTGCCATCATCAAACAGTATGGCAGACCTCAA
196 ACGATGGATCGGATGGTTGAAATGATCTCAATGTTGCCATCATCAAACAGTATGGCAGACCTCAA
4016682 CGTTGCAGCAGAAGAAGCATTCATCGATCTAGACATTAAGAGACAATTGCTTGATCAACAAATAG
261 CGTTGCAGCAGAAGAAGCATTCATCGATCTAGACATTAAGAGACAATTGCTTGATCAACAAATAG
4016747 CTGAGAATTTGGAATTGAAATCCAAGAAACAAAAGTT
326 CTGAGAATTTGGAATTGAAATCCAAGAAACAAAAGTT
4016784 GCAGCTTCAACAAGTAATGGAAAAGGTATAACTGATGGAAAGGTTTTATTATGTGCACATATTTG
1 GCAGCTTCAACAAGTAATGGAAAAGGTATAACTGATGGAAAGGTTTTATTATGTGCACATATTTG
*
4016849 CATGTCTCTTGTAGGTAATTGGTAAGACAGTAATTGATTAAAACTGCTTGAATTTTCAGTTGGAT
66 CATGTCTCTTGTAGGTAATTGGTAAAACAGTAATTGATTAAAACTGCTTGAATTTTCAGTTGGAT
4016914 ATCAGGACAAAACTGTGCATCATCATCAACAAGGAATTCCCAGCAGGGTTCATCCCCAAACGTTG
131 ATCAGGACAAAACTGTGCATCATCATCAACAAGGAATTCCCAGCAGGGTTCATCCCCAAACGTTG
4016979 ACGATGGATCGGATGGTTGAAATGATCTCAATGTTGCCATCATCAAACAGTATGGCAGACCTCAA
196 ACGATGGATCGGATGGTTGAAATGATCTCAATGTTGCCATCATCAAACAGTATGGCAGACCTCAA
*
4017044 CGTTGCAGCAGAGGAAGCATTCATCGATCTAGACATTAAGAGACAATTGCTTGATCAACAAATAG
261 CGTTGCAGCAGAAGAAGCATTCATCGATCTAGACATTAAGAGACAATTGCTTGATCAACAAATAG
4017109 CTGAGAATTTGGAATTGAAATCCAAGAAACAAAAGTT
326 CTGAGAATTTGGAATTGAAATCCAAGAAACAAAAGTT
4017146 AAATCAGAGT
Statistics
Matches: 359, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
362 359 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (362 bp):
GCAGCTTCAACAAGTAATGGAAAAGGTATAACTGATGGAAAGGTTTTATTATGTGCACATATTTG
CATGTCTCTTGTAGGTAATTGGTAAAACAGTAATTGATTAAAACTGCTTGAATTTTCAGTTGGAT
ATCAGGACAAAACTGTGCATCATCATCAACAAGGAATTCCCAGCAGGGTTCATCCCCAAACGTTG
ACGATGGATCGGATGGTTGAAATGATCTCAATGTTGCCATCATCAAACAGTATGGCAGACCTCAA
CGTTGCAGCAGAAGAAGCATTCATCGATCTAGACATTAAGAGACAATTGCTTGATCAACAAATAG
CTGAGAATTTGGAATTGAAATCCAAGAAACAAAAGTT
Found at i:4019744 original size:36 final size:35
Alignment explanation
Indices: 4019679--4019747 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
4019669 AAAATAATAG
* *
4019679 CAAAAATAATAATAAAATAAGAATTATATAATATT
1 CAAAAATAACAATAAAATAAGAATAATATAATATT
* *
4019714 CAAACAATAACAATAAAATAATAGTAATATAATA
1 CAAA-AATAACAATAAAATAAGAATAATATAATA
4019748 GCAAAATGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 4 0.14
36 25 0.86
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (35 bp):
CAAAAATAACAATAAAATAAGAATAATATAATATT
Found at i:4021298 original size:28 final size:29
Alignment explanation
Indices: 4021266--4021320 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
4021256 GTTTCTTTAT
*
4021266 TTTTATAATATTATTAATTAAT-GAAAAA
1 TTTTATAATATCATTAATTAATCGAAAAA
*
4021294 TTTTATAATGTCATTAATTAATCGAAA
1 TTTTATAATATCATTAATTAATCGAAA
4021321 GACCATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (29 bp):
TTTTATAATATCATTAATTAATCGAAAAA
Found at i:4023653 original size:16 final size:16
Alignment explanation
Indices: 4023632--4023663 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4023622 TTCCTAATAC
4023632 AACTATAGTTGAGGCA
1 AACTATAGTTGAGGCA
4023648 AACTATAGTTGAGGCA
1 AACTATAGTTGAGGCA
4023664 CATGATCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (16 bp):
AACTATAGTTGAGGCA
Found at i:4028351 original size:29 final size:30
Alignment explanation
Indices: 4028290--4028351 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
4028280 TCCGAAGTAA
* *
4028290 TTGAAAAAATAATTTTCTTAGAAATGAACT
1 TTGAAAAAATAATTTTCCTAAAAATGAACT
*
4028320 TTGAAAAATTAATTTTCCTAAAAATGAA-T
1 TTGAAAAAATAATTTTCCTAAAAATGAACT
4028349 TTG
1 TTG
4028352 TTCTTAGATC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (30 bp):
TTGAAAAAATAATTTTCCTAAAAATGAACT
Found at i:4032260 original size:40 final size:40
Alignment explanation
Indices: 4032216--4032298 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
4032206 CTACTAGTCT
4032216 ATTTCAGCAATTCAATCAAACACATCATGGCCGGCTATTC
1 ATTTCAGCAATTCAATCAAACACATCATGGCCGGCTATTC
4032256 ATTTCAGCAATTCAATCAAACACATCATGGCCGGCTATTC
1 ATTTCAGCAATTCAATCAAACACATCATGGCCGGCTATTC
4032296 ATT
1 ATT
4032299 CATTCATTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (40 bp):
ATTTCAGCAATTCAATCAAACACATCATGGCCGGCTATTC
Found at i:4032664 original size:12 final size:12
Alignment explanation
Indices: 4032647--4032671 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4032637 TCCCCCACGC
4032647 TTCTTCTTCTTG
1 TTCTTCTTCTTG
4032659 TTCTTCTTCTTG
1 TTCTTCTTCTTG
4032671 T
1 T
4032672 CTTTTGCTTT
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:0.00, C:0.24, G:0.08, T:0.68
Consensus pattern (12 bp):
TTCTTCTTCTTG
Found at i:4042219 original size:16 final size:17
Alignment explanation
Indices: 4042200--4042237 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4042190 GTATAAATAA
*
4042200 ATATAGATT-ATAATTT
1 ATATAGATTAAAAATTT
*
4042216 ATATTGATTAAAAATTT
1 ATATAGATTAAAAATTT
4042233 ATATA
1 ATATA
4042238 AAAATCAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (17 bp):
ATATAGATTAAAAATTT
Found at i:4048499 original size:16 final size:16
Alignment explanation
Indices: 4048478--4048508 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4048468 ATTATAAGTT
*
4048478 TTATAATAATATAATA
1 TTATAAAAATATAATA
4048494 TTATAAAAATATAAT
1 TTATAAAAATATAAT
4048509 TTTTAACAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTATAAAAATATAATA
Found at i:4049177 original size:19 final size:19
Alignment explanation
Indices: 4049101--4049166 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
4049091 TTAATTTCAA
4049101 ATATTT-TTAATATAATTAT
1 ATATTTATT-ATATAATTAT
*
4049120 ATA--TA-TATAAAATATAT
1 ATATTTATTATATAAT-TAT
* *
4049137 GTTTTTATTATATAATTAT
1 ATATTTATTATATAATTAT
4049156 ATATTTATTAT
1 ATATTTATTAT
4049167 TTGATTTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
16 6 0.17
17 6 0.17
19 17 0.47
20 7 0.19
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATATTTATTATATAATTAT
Found at i:4056466 original size:60 final size:58
Alignment explanation
Indices: 4056342--4056469 Score: 170
Period size: 60 Copynumber: 2.2 Consensus size: 58
4056332 TTATTAATTC
* * *
4056342 ATAT-TTTAATAATAATTATATTAAGAATATTATTAGATTATATATTATTTTATTAAA
1 ATATATTTAATAATAATTATATTAAGAATATAAATAAATTATATATTATTTTATTAAA
* *
4056399 TTGTATTTAATAATAATTATATTAA-AATATAAATAAATTATTTATTATTATTTTATTAAA
1 ATATATTTAATAATAATTATATTAAGAATATAAATAAATTA--TA-TATTATTTTATTAAA
4056459 ATATATTTAAT
1 ATATATTTAAT
4056470 TTAAATGTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
57 14 0.23
58 20 0.33
59 2 0.03
60 24 0.40
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (58 bp):
ATATATTTAATAATAATTATATTAAGAATATAAATAAATTATATATTATTTTATTAAA
Found at i:4061146 original size:25 final size:25
Alignment explanation
Indices: 4061114--4061177 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
4061104 ACATAACATA
*
4061114 AACACTTAATTCACATATTTCATTT
1 AACACTTAATTCACATATTTAATTT
*
4061139 AATACTTAATTCACATATTTAATTT
1 AACACTTAATTCACATATTTAATTT
*
4061164 AACACTCAATTCAC
1 AACACTTAATTCAC
4061178 GTGTATTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (25 bp):
AACACTTAATTCACATATTTAATTT
Found at i:4061162 original size:13 final size:13
Alignment explanation
Indices: 4061119--4061162 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
4061109 ACATAAACAC
4061119 TTAATTCACATAT
1 TTAATTCACATAT
* * *
4061132 TTCATTTA-ATAC
1 TTAATTCACATAT
4061144 TTAATTCACATAT
1 TTAATTCACATAT
4061157 TTAATT
1 TTAATT
4061163 TAACACTCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAATTCACATAT
Found at i:4062827 original size:26 final size:26
Alignment explanation
Indices: 4062798--4062853 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
4062788 AAAGACTAGA
4062798 ATTTTGGAGC-ATTACAAATTTTATCT
1 ATTTT-GAGCAATTACAAATTTTATCT
**
4062824 A-TTTGCTCTAATTACAAATTTTATCT
1 ATTTTGAGC-AATTACAAATTTTATCT
4062850 ATTT
1 ATTT
4062854 GCTCTAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 2 0.08
25 3 0.12
26 18 0.72
27 2 0.08
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (26 bp):
ATTTTGAGCAATTACAAATTTTATCT
Found at i:4062854 original size:26 final size:26
Alignment explanation
Indices: 4062808--4062860 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
4062798 ATTTTGGAGC
4062808 ATTACAAATTTTATCTATTTGCTCTA
1 ATTACAAATTTTATCTATTTGCTCTA
4062834 ATTACAAATTTTATCTATTTGCTCTA
1 ATTACAAATTTTATCTATTTGCTCTA
4062860 A
1 A
4062861 CATTCCATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.15, G:0.04, T:0.49
Consensus pattern (26 bp):
ATTACAAATTTTATCTATTTGCTCTA
Found at i:4069322 original size:24 final size:24
Alignment explanation
Indices: 4069295--4069340 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4069285 TTTTTATTAG
4069295 TGTATAAAA-TAACTTTTATAAATT
1 TGTATAAAACTAA-TTTTATAAATT
*
4069319 TGTATAAAACTAATTTTTTAAA
1 TGTATAAAACTAATTTTATAAA
4069341 CTTAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (24 bp):
TGTATAAAACTAATTTTATAAATT
Found at i:4070403 original size:70 final size:67
Alignment explanation
Indices: 4070271--4070403 Score: 158
Period size: 70 Copynumber: 1.9 Consensus size: 67
4070261 ATAAACAATG
* * * **
4070271 TAATGGTTTTGCCTTTTAATTTAATAAGCAAACATTTATCAAAACGACGTAGTTTTGTCTTTTAA
1 TAATGGTTTTGACTTTTAATTTAAAAAGCAAACATTTATCAAAACGACATAGTTTTACCTTTTAA
4070336 CT
66 CT
* * * *
4070338 TAATGGTTTTGATTTTTAATTTTAAAAAAGGTAAACATTTATTAAAATGACATAGTTTTACCTTT
1 TAATGGTTTTGACTTTTAA-TTT-AAAAA-GCAAACATTTATCAAAACGACATAGTTTTACCTTT
4070403 T
63 T
4070404 CTTATTCGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
67 17 0.31
68 3 0.06
69 4 0.07
70 30 0.56
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAATTTAAAAAGCAAACATTTATCAAAACGACATAGTTTTACCTTTTAA
CT
Found at i:4073208 original size:24 final size:24
Alignment explanation
Indices: 4073181--4073236 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
4073171 TAAATTTTCA
** * *
4073181 TTTAATTTCAATTTCAATTTCAAT
1 TTTAATTTCAATTGAAAATTAAAT
*
4073205 TTTAATTTTAATTGAAAATTAAAT
1 TTTAATTTCAATTGAAAATTAAAT
4073229 TTTAATTT
1 TTTAATTT
4073237 TTTTTGGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTAATTTCAATTGAAAATTAAAT
Found at i:4073235 original size:6 final size:6
Alignment explanation
Indices: 4073158--4073237 Score: 56
Period size: 6 Copynumber: 13.3 Consensus size: 6
4073148 CAATGCCAGG
* * * *
4073158 TTAA-T TTAATTT TTAAATT TTCA-T TTAATT TCAATT TCAATT TCAATT
1 TTAATT TTAA-TT TT-AATT TTAATT TTAATT TTAATT TTAATT TTAATT
** * *
4073206 TTAATT TTAATT GAAAAT TAAATT TTAATT TT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TT
4073238 TTTTGGTGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
5 8 0.13
6 44 0.72
7 7 0.11
8 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.57
Consensus pattern (6 bp):
TTAATT
Found at i:4073348 original size:6 final size:6
Alignment explanation
Indices: 4073337--4073523 Score: 60
Period size: 6 Copynumber: 30.3 Consensus size: 6
4073327 GTTCAAATTA
* *
4073337 AATTTT AATTTT GAACTTTATT AATTTT AAACTTT ATATTATT AAACTTT
1 AATTTT AATTTT -AA--TT-TT AATTTT -AATTTT A-ATT-TT -AATTTT
* * * * * *
4073387 AATTTT AAATTTC AA-TTT CATTTA AATTTG AA-CTT AA-TTT AAATTT
1 AATTTT -AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
* * * * *
4073433 CATTTA AATTTT AA-TTA AATTTT AAATTTT AAATTA AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT -AATTTT AATTTT AATTTT AATTTT
* * * * ** * *
4073481 AA-ATT AAATTT CATTTA AATTGA AAATTA AATTTT AATTTT AA
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AA
4073524 ACTTTATTTT
Statistics
Matches: 132, Mismatches: 35, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
5 18 0.14
6 79 0.60
7 24 0.18
8 4 0.03
9 5 0.04
10 2 0.02
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (6 bp):
AATTTT
Found at i:4073362 original size:16 final size:16
Alignment explanation
Indices: 4073341--4073387 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
4073331 AAATTAAATT
*
4073341 TTAATTTTGAACTTTA
1 TTAATTTTAAACTTTA
4073357 TTAATTTTAAACTTTA
1 TTAATTTTAAACTTTA
4073373 -T-ATTATTAAACTTTA
1 TTAATT-TTAAACTTTA
4073388 ATTTTAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 3 0.10
15 11 0.38
16 15 0.52
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (16 bp):
TTAATTTTAAACTTTA
Found at i:4073397 original size:7 final size:7
Alignment explanation
Indices: 4073334--4073485 Score: 56
Period size: 7 Copynumber: 22.0 Consensus size: 7
4073324 GGTGTTCAAA
4073334 TTAAATT
1 TTAAATT
4073341 TT-AATT
1 TTAAATT
*
4073347 TTGAACTT
1 TT-AAATT
*
4073355 TATTAATT
1 T-TAAATT
*
4073363 TTAAACT
1 TTAAATT
*
4073370 TTATATT
1 TTAAATT
*
4073377 ATTAAACT
1 -TTAAATT
4073385 TT-AATT
1 TTAAATT
4073391 TTAAATT
1 TTAAATT
* *
4073398 TCAATTTCAT
1 TTAA-AT--T
4073408 TTAAATT
1 TTAAATT
* *
4073415 TGAACTTAAT
1 TTAA---ATT
4073425 TTAAA-T
1 TTAAATT
*
4073431 TT-CATT
1 TTAAATT
4073437 T-AAATT
1 TTAAATT
4073443 TT-AA-T
1 TTAAATT
4073448 -TAAATT
1 TTAAATT
4073454 TTAAATT
1 TTAAATT
4073461 TTAAA--
1 TTAAATT
4073466 TTAAATT
1 TTAAATT
4073473 TT-AATT
1 TTAAATT
4073479 TTAAATT
1 TTAAATT
4073486 AAATTTCATT
Statistics
Matches: 106, Mismatches: 19, Indels: 40
0.64 0.12 0.24
Matches are distributed among these distances:
4 1 0.01
5 9 0.08
6 29 0.27
7 42 0.40
8 14 0.13
9 2 0.02
10 9 0.08
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.55
Consensus pattern (7 bp):
TTAAATT
Found at i:4073437 original size:11 final size:11
Alignment explanation
Indices: 4073378--4073520 Score: 83
Period size: 11 Copynumber: 12.2 Consensus size: 11
4073368 CTTTATATTA
4073378 TTAAACTTTAATT
1 TTAAA-TTTAA-T
4073391 TTAAATTTCAAT
1 TTAAATTT-AAT
*
4073403 TT-CATTTAAAT
1 TTAAATTT-AAT
* *
4073414 TTGAACTTAAT
1 TTAAATTTAAT
*
4073425 TTAAATTTCAT
1 TTAAATTTAAT
4073436 TTAAATTTTAA-
1 TTAAA-TTTAAT
4073447 TTAAATTTTAAATT
1 TTAAA-TTT-AA-T
*
4073461 TTAAATTAAATT
1 TTAAATTTAA-T
* *
4073473 TTAATTTTAAA
1 TTAAATTTAAT
*
4073484 TTAAATTTCAT
1 TTAAATTTAAT
* *
4073495 TTAAATTGAAAA
1 TTAAATT-TAAT
4073507 TTAAATTTTAAT
1 TTAAA-TTTAAT
4073519 TT
1 TT
4073521 TAAACTTTAT
Statistics
Matches: 102, Mismatches: 20, Indels: 17
0.73 0.14 0.12
Matches are distributed among these distances:
11 49 0.48
12 37 0.36
13 11 0.11
14 5 0.05
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.52
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:4073442 original size:17 final size:17
Alignment explanation
Indices: 4073378--4073595 Score: 92
Period size: 17 Copynumber: 12.5 Consensus size: 17
4073368 CTTTATATTA
4073378 TTAAACTTTAATTTTAAAT
1 TTAAA-TTTAA-TTTAAAT
* *
4073397 TTCAATTTCATTTAAAT
1 TTAAATTTAATTTAAAT
* *
4073414 TTGAACTTAATTTAAAT
1 TTAAATTTAATTTAAAT
* *
4073431 TT-CATTTAAATTTTAA-
1 TTAAATTT-AATTTAAAT
4073447 TTAAATTTTAAATTTTAAA-
1 TTAAA-TTT-AA-TTTAAAT
4073466 TTAAATTTTAATTTTAAA-
1 TTAAA-TTTAA-TTTAAAT
*
4073484 TTAAATTTCATTTAAAT
1 TTAAATTTAATTTAAAT
* * *
4073501 TGAAAATTAAATTTTAATT
1 T-TAAATTTAA-TTTAAAT
4073520 TTAAACTTT-ATTT---T
1 TTAAA-TTTAATTTAAAT
*
4073534 GTTAAACTTGAAGTTTAAAT
1 -TTAAA-TTTAA-TTTAAAT
** *
4073554 TTCTATTTCATTTAAAT
1 TTAAATTTAATTTAAAT
* * *
4073571 TTGAACTTAACTTAAAT
1 TTAAATTTAATTTAAAT
*
4073588 TTCAATTT
1 TTAAATTT
4073596 CAATGTCTTT
Statistics
Matches: 156, Mismatches: 29, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
14 1 0.01
15 8 0.05
16 12 0.08
17 67 0.43
18 37 0.24
19 30 0.19
20 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (17 bp):
TTAAATTTAATTTAAAT
Found at i:4073456 original size:18 final size:19
Alignment explanation
Indices: 4073435--4073524 Score: 105
Period size: 18 Copynumber: 4.7 Consensus size: 19
4073425 TTAAATTTCA
4073435 TTTAAATTTT-AATTAAAT
1 TTTAAATTTTAAATTAAAT
4073453 TTTAAATTTTAAATTAAAT
1 TTTAAATTTTAAATTAAAT
4073472 TTT-AATTTTAAATTAAATTT
1 TTTAAATTTTAAATTAAA--T
**
4073492 CATTTAAATTGAAAATTAAAT
1 --TTTAAATTTTAAATTAAAT
4073513 TTT-AATTTTAAA
1 TTTAAATTTTAAA
4073525 CTTTATTTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
18 31 0.50
19 14 0.23
20 1 0.02
21 1 0.02
22 3 0.05
23 12 0.19
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (19 bp):
TTTAAATTTTAAATTAAAT
Found at i:4073697 original size:23 final size:23
Alignment explanation
Indices: 4073648--4073691 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
4073638 ATTAAATTTC
*
4073648 ATTTCATTTCATTTTCAATCTTA
1 ATTTCATTTCATTTTCAAACTTA
4073671 ATTTCATTTCATTTT-AAACTT
1 ATTTCATTTCATTTTCAAACTT
4073692 GTATTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.27, C:0.16, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTCATTTCATTTTCAAACTTA
Found at i:4073751 original size:18 final size:18
Alignment explanation
Indices: 4073730--4073769 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4073720 TTACAATATC
4073730 ATTTCAAATTAAATTTCA
1 ATTTCAAATTAAATTTCA
* *
4073748 ATTTCAATTTCAATTTCA
1 ATTTCAAATTAAATTTCA
4073766 ATTT
1 ATTT
4073770 GTATGTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTCAAATTAAATTTCA
Found at i:4073761 original size:12 final size:12
Alignment explanation
Indices: 4073642--4073769 Score: 77
Period size: 12 Copynumber: 10.9 Consensus size: 12
4073632 TTTAAAATTA
4073642 AATTTC-ATTTC
1 AATTTCAATTTC
*
4073653 -ATTTCATTTTC
1 AATTTCAATTTC
4073664 AATCTT-AATTTC
1 AAT-TTCAATTTC
* *
4073676 -ATTTCATTTTA
1 AATTTCAATTTC
* ** *
4073687 AACTTGTATTTT
1 AATTTCAATTTC
* *
4073699 AATTTTGAATTTA
1 AA-TTTCAATTTC
* *
4073712 AATTTGAATTAC
1 AATTTCAATTTC
*
4073724 AATATC-ATTTC
1 AATTTCAATTTC
* *
4073735 AAATTAAATTTC
1 AATTTCAATTTC
4073747 AATTTCAATTTC
1 AATTTCAATTTC
4073759 AATTTCAATTT
1 AATTTCAATTT
4073770 GTATGTATAA
Statistics
Matches: 88, Mismatches: 22, Indels: 13
0.72 0.18 0.11
Matches are distributed among these distances:
10 7 0.08
11 17 0.19
12 53 0.60
13 11 0.12
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.52
Consensus pattern (12 bp):
AATTTCAATTTC
Found at i:4073787 original size:13 final size:13
Alignment explanation
Indices: 4073769--4073793 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4073759 AATTTCAATT
4073769 TGTATGTATAATG
1 TGTATGTATAATG
4073782 TGTATGTATAAT
1 TGTATGTATAAT
4073794 CATCTTACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTATGTATAATG
Found at i:4075808 original size:6 final size:6
Alignment explanation
Indices: 4075789--4075836 Score: 82
Period size: 6 Copynumber: 8.3 Consensus size: 6
4075779 TTTTTTCTCC
4075789 CTCCCT CT--CT CTCCCT CTCCCT CTCCCT CTCCCT CTCCCT CTCCCT
1 CTCCCT CTCCCT CTCCCT CTCCCT CTCCCT CTCCCT CTCCCT CTCCCT
4075835 CT
1 CT
4075837 TCCTTCTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.10
6 36 0.90
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (6 bp):
CTCCCT
Found at i:4077429 original size:24 final size:24
Alignment explanation
Indices: 4077384--4077429 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4077374 TTTTTATTAG
*
4077384 TGTATAAAATAATTTTTATAAATT
1 TGTATAAAATAATTTCTATAAATT
4077408 TGTATAAAATTAATTTCT-TAAA
1 TGTATAAAA-TAATTTCTATAAA
4077430 CTTAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (24 bp):
TGTATAAAATAATTTCTATAAATT
Found at i:4077799 original size:26 final size:25
Alignment explanation
Indices: 4077766--4077821 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
4077756 TAATTTTCAT
*
4077766 ATAAAAATAAATTTAAAA-ATATAAA
1 ATAAAAATAAACTTAAAACAT-TAAA
*
4077791 ATAACAAATACACTTAAAACATTAAA
1 ATAA-AAATAAACTTAAAACATTAAA
4077817 ATAAA
1 ATAAA
4077822 TATTTTTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 5 0.19
26 20 0.74
27 2 0.07
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (25 bp):
ATAAAAATAAACTTAAAACATTAAA
Found at i:4078672 original size:18 final size:18
Alignment explanation
Indices: 4078645--4078679 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
4078635 CAATTTAAAT
4078645 AAAAAAAAAAGC-AAAAG
1 AAAAAAAAAAGCTAAAAG
4078662 AAAAAAGAAAAGCTAAAA
1 AAAAAA-AAAAGCTAAAA
4078680 TTATCATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.80, C:0.06, G:0.11, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAAGCTAAAAG
Found at i:4079629 original size:6 final size:6
Alignment explanation
Indices: 4079618--4079653 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
4079608 GTCTAGTCCT
4079618 GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA
1 GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA
4079654 AGAGGGTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
GGAGAA
Found at i:4081284 original size:18 final size:18
Alignment explanation
Indices: 4081251--4081285 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4081241 TAAATAATTT
* *
4081251 GAGTTATTTGAGTTAATC
1 GAGTTATTTAAATTAATC
4081269 GAGTTATTTAAATTAAT
1 GAGTTATTTAAATTAAT
4081286 TCAAATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (18 bp):
GAGTTATTTAAATTAATC
Found at i:4081622 original size:15 final size:15
Alignment explanation
Indices: 4081602--4081638 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
4081592 AACTCGACTC
4081602 GATTCGAAATTTTTT
1 GATTCGAAATTTTTT
4081617 GATTCGAAATTTTTT
1 GATTCGAAATTTTTT
*
4081632 GACTCGA
1 GATTCGA
4081639 TTCTATTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (15 bp):
GATTCGAAATTTTTT
Found at i:4081640 original size:20 final size:19
Alignment explanation
Indices: 4081597--4081641 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 19
4081587 TTGTTAACTC
4081597 GACTCGATTCGAAATTTTT
1 GACTCGATTCGAAATTTTT
4081616 ---T-GATTCGAAATTTTTT
1 GACTCGATTCGAAA-TTTTT
4081632 GACTCGATTC
1 GACTCGATTC
4081642 TATTCAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 9
0.70 0.00 0.30
Matches are distributed among these distances:
15 9 0.43
16 6 0.29
19 1 0.05
20 5 0.24
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (19 bp):
GACTCGATTCGAAATTTTT
Found at i:4084604 original size:3 final size:3
Alignment explanation
Indices: 4084596--4084626 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4084586 AAAATTGATT
4084596 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4084627 ATAGGTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4085265 original size:39 final size:40
Alignment explanation
Indices: 4085180--4085256 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
4085170 GACGGTTACA
4085180 AAAAAATATTTTCAGATGCAAAAAATCCTCTTACTATTGC
1 AAAAAATATTTTCAGATGCAAAAAATCCTCTTACTATTGC
**
4085220 AAAAAATATTTTCA-ATTGTGAAAAATCCT-TTACTATT
1 AAAAAATATTTTCAGA-TGCAAAAAATCCTCTTACTATT
4085257 TTTGAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 9 0.26
40 25 0.74
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.36
Consensus pattern (40 bp):
AAAAAATATTTTCAGATGCAAAAAATCCTCTTACTATTGC
Found at i:4092946 original size:4 final size:4
Alignment explanation
Indices: 4092937--4092963 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4092927 ATAAATCTTT
4092937 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
4092964 CAGTAGATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:4095221 original size:15 final size:16
Alignment explanation
Indices: 4095201--4095230 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4095191 GTCCGTCCAT
4095201 ATTATTTT-TATTTTA
1 ATTATTTTATATTTTA
4095216 ATTATTTTATATTTT
1 ATTATTTTATATTTT
4095231 TTTAACATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTATTTTATATTTTA
Found at i:4095263 original size:17 final size:17
Alignment explanation
Indices: 4095203--4095264 Score: 56
Period size: 18 Copynumber: 3.7 Consensus size: 17
4095193 CCGTCCATAT
*
4095203 TATTTT-TATTTTAAT-
1 TATTTTATATTTTTATA
*
4095218 TATTTTATATTTTTTTAA
1 TATTTTATATTTTTAT-A
* *
4095236 CATTTAATATTTTTATA
1 TATTTTATATTTTTATA
*
4095253 TATTTTTTATTT
1 TATTTTATATTT
4095265 ATTGAAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
15 6 0.17
16 7 0.19
17 10 0.28
18 13 0.36
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTATATTTTTATA
Found at i:4096515 original size:37 final size:36
Alignment explanation
Indices: 4096474--4096605 Score: 106
Period size: 37 Copynumber: 3.6 Consensus size: 36
4096464 GATTCATTAG
*
4096474 AAGAAAAGACAGAGATGAATAAAAGTGATTCTTTGTA
1 AAGAAAAGAC-GAGATGAACAAAAGTGATTCTTTGTA
* * * * *
4096511 AAGAAAAGACGGATATAAACAGGAA-TGATTCTCTGCA
1 AAGAAAAGAC-GAGATGAACA-AAAGTGATTCTTTGTA
***
4096548 AAGAAAAGACGAAGATGAACACGTGTGATT-TTCTGTA
1 AAGAAAAGACG-AGATGAACAAAAGTGATTCTT-TGTA
*
4096585 AAGAAAAGACGAAGACGAACA
1 AAGAAAAGACG-AGATGAACA
4096606 GTAAATATTT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
36 2 0.03
37 72 0.95
38 2 0.03
ACGTcount: A:0.48, C:0.11, G:0.23, T:0.19
Consensus pattern (36 bp):
AAGAAAAGACGAGATGAACAAAAGTGATTCTTTGTA
Found at i:4097133 original size:23 final size:23
Alignment explanation
Indices: 4097107--4097171 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
4097097 TTCATTTAAC
4097107 TTAATCGAACATATTCACAAACA
1 TTAATCGAACATATTCACAAACA
* * * **
4097130 TTAAACGAATATGTTCATGAACA
1 TTAATCGAACATATTCACAAACA
*
4097153 TATAATTGAACATATTCAC
1 T-TAATCGAACATATTCAC
4097172 GAATAATACT
Statistics
Matches: 31, Mismatches: 10, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
23 19 0.61
24 12 0.39
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.31
Consensus pattern (23 bp):
TTAATCGAACATATTCACAAACA
Found at i:4097201 original size:4 final size:4
Alignment explanation
Indices: 4097192--4097217 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4097182 AATGAATAAT
4097192 AAAC AAAC AAAC AAAC AAAC AAAC AA
1 AAAC AAAC AAAC AAAC AAAC AAAC AA
4097218 TAAATACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:4097306 original size:24 final size:24
Alignment explanation
Indices: 4097274--4097323 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
4097264 GCATTAATAA
**
4097274 ATAAACGAGTTAATAAACAAGCTT
1 ATAAACGAGGCAATAAACAAGCTT
*
4097298 ATAAACGAGGCAATAAACGAGCTT
1 ATAAACGAGGCAATAAACAAGCTT
4097322 AT
1 AT
4097324 TCGTGAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (24 bp):
ATAAACGAGGCAATAAACAAGCTT
Found at i:4097779 original size:21 final size:20
Alignment explanation
Indices: 4097745--4097797 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
4097735 TTTTAAAAAT
*
4097745 AAAAAATATAAAAAGTATTAA
1 AAAAAATATAAAAAGCA-TAA
* *
4097766 AAAGAATTTAAAAAGCATAA
1 AAAAAATATAAAAAGCATAA
*
4097786 AAAATATATAAA
1 AAAAAATATAAA
4097798 TATTTTTAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAAAATATAAAAAGCATAA
Found at i:4097954 original size:12 final size:12
Alignment explanation
Indices: 4097937--4097981 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
4097927 GTTTAAAGGT
*
4097937 AAAATTAGATGA
1 AAAATTAAATGA
4097949 AAAATTGAAATGA
1 AAAATT-AAATGA
4097962 AAAA-TAAATGA
1 AAAATTAAATGA
*
4097973 AAGATTAAA
1 AAAATTAAA
4097982 ATAAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 9 0.31
12 11 0.38
13 9 0.31
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.22
Consensus pattern (12 bp):
AAAATTAAATGA
Found at i:4099337 original size:166 final size:166
Alignment explanation
Indices: 4099063--4099562 Score: 874
Period size: 166 Copynumber: 3.0 Consensus size: 166
4099053 TTTTTTGCTG
* *
4099063 CCCTTGGTTATCTAAGTTTAACTTGAGAATGATACTATTTCAATACTCAGTTCTATGGAAAAAGA
1 CCCTTGGTTATCTAAGTTTAACTTGAGAATGATACTATTTCAATTCTCAGTTTTATGGAAAAAGA
4099128 GGATCTCTTTTTGCTCATCTGCTTGCTTAGAAAACTTTCCAATTGTACATAATTCGAGTTCCTTT
66 GGATCTCTTTTTGCTCATCTGCTTGCTTAGAAAACTTTCCAATTGTACATAATTCGAGTTCCTTT
*
4099193 GCTCCTTATATAATTTGTAAAGGGGATGGTATCTTT
131 GCTCCTTATATAATTCGTAAAGGGGATGGTATCTTT
**
4099229 CCCTTGGTTATCTAAGTTTAACTTGAGAATGATACTATTTCAATTCTCAGTTTTACAGAAAAAGA
1 CCCTTGGTTATCTAAGTTTAACTTGAGAATGATACTATTTCAATTCTCAGTTTTATGGAAAAAGA
* * *
4099294 GGATCTCTTTTTGCTCATCTGCTTGCTTTGAAAACTTTCCAATTGTACATAATTTGAGTTTCTTT
66 GGATCTCTTTTTGCTCATCTGCTTGCTTAGAAAACTTTCCAATTGTACATAATTCGAGTTCCTTT
*
4099359 GCTCCTTATATAATTCGCAAAGGGGATGGTATCTTT
131 GCTCCTTATATAATTCGTAAAGGGGATGGTATCTTT
* *
4099395 CCCTTGATTATCTCAGTTTAACTTGAGAATGATACTATTTCAATTCTCAGTTTTATGGAAAAAGA
1 CCCTTGGTTATCTAAGTTTAACTTGAGAATGATACTATTTCAATTCTCAGTTTTATGGAAAAAGA
4099460 GGATCTCTTTTTGCTCATCTGCTTGCTTAGAAAACTTTCCAATTGTACATAATTCGAGTTCCTTT
66 GGATCTCTTTTTGCTCATCTGCTTGCTTAGAAAACTTTCCAATTGTACATAATTCGAGTTCCTTT
* * *
4099525 GCTCCTTACATAATTCATAAAGGGGATGGTATCCTT
131 GCTCCTTATATAATTCGTAAAGGGGATGGTATCTTT
4099561 CC
1 CC
4099563 TTCTTTTGAG
Statistics
Matches: 314, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
166 314 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (166 bp):
CCCTTGGTTATCTAAGTTTAACTTGAGAATGATACTATTTCAATTCTCAGTTTTATGGAAAAAGA
GGATCTCTTTTTGCTCATCTGCTTGCTTAGAAAACTTTCCAATTGTACATAATTCGAGTTCCTTT
GCTCCTTATATAATTCGTAAAGGGGATGGTATCTTT
Found at i:4104663 original size:12 final size:12
Alignment explanation
Indices: 4104646--4104684 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
4104636 ATAACATCCA
4104646 AACAACAAAAAC
1 AACAACAAAAAC
*
4104658 AACAACAAAAAT
1 AACAACAAAAAC
*
4104670 AATAAC-AAAAC
1 AACAACAAAAAC
4104681 AACA
1 AACA
4104685 TTAAAACAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.74, C:0.21, G:0.00, T:0.05
Consensus pattern (12 bp):
AACAACAAAAAC
Found at i:4104702 original size:23 final size:23
Alignment explanation
Indices: 4104628--4104766 Score: 93
Period size: 23 Copynumber: 6.4 Consensus size: 23
4104618 TAAAAATGCA
* *
4104628 TAAAAAAAATAACATCCAAAC--
1 TAAAAAAAACAACATCAAAACAG
* *
4104649 -AACAAAAACAACAACAAAA-A-
1 TAAAAAAAACAACATCAAAACAG
*
4104669 TAATAACAAAACAACATTAAAACAG
1 TAA-AA-AAAACAACATCAAAACAG
* *
4104694 TAAAAAAAACAGCATCAAAATAG
1 TAAAAAAAACAACATCAAAACAG
*
4104717 TAAAAAAAAC-AC--CAAAATAG
1 TAAAAAAAACAACATCAAAACAG
*
4104737 TAAAAAATAAC-AC--CAAAACAA
1 TAAAAAA-AACAACATCAAAACAG
4104758 TAAAAAAAA
1 TAAAAAAAA
4104767 AAGCACTAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
20 32 0.33
21 20 0.20
22 2 0.02
23 38 0.39
24 3 0.03
25 3 0.03
ACGTcount: A:0.71, C:0.16, G:0.03, T:0.11
Consensus pattern (23 bp):
TAAAAAAAACAACATCAAAACAG
Found at i:4104748 original size:21 final size:20
Alignment explanation
Indices: 4104687--4104766 Score: 97
Period size: 21 Copynumber: 3.8 Consensus size: 20
4104677 AAACAACATT
4104687 AAAACAGTAAAAAAAACAGCATC
1 AAAACAGTAAAAAAAACA-C--C
*
4104710 AAAATAGTAAAAAAAACACC
1 AAAACAGTAAAAAAAACACC
*
4104730 AAAATAGTAAAAAATAACACC
1 AAAACAGTAAAAAA-AACACC
*
4104751 AAAACAATAAAAAAAA
1 AAAACAGTAAAAAAAA
4104767 AAGCACTAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
20 17 0.32
21 18 0.34
22 1 0.02
23 17 0.32
ACGTcount: A:0.71, C:0.14, G:0.05, T:0.10
Consensus pattern (20 bp):
AAAACAGTAAAAAAAACACC
Found at i:4104777 original size:23 final size:22
Alignment explanation
Indices: 4104627--4104783 Score: 83
Period size: 23 Copynumber: 7.2 Consensus size: 22
4104617 GTAAAAATGC
4104627 ATAAAAAAAATAACATCC-AAACA
1 ATAAAAAAAA-AACA-CCAAAACA
* * *
4104650 ACAAAAACAACAACA--AAAATA
1 ATAAAAA-AAAAACACCAAAACA
* * **
4104671 ATAACAAAACAACATTAAAACA
1 ATAAAAAAAAAACACCAAAACA
* * * *
4104693 GTAAAAAAAACAGCATCAAAATA
1 ATAAAAAAAA-AACACCAAAACA
* *
4104716 GT--AAAAAAAACACCAAAATA
1 ATAAAAAAAAAACACCAAAACA
* *
4104736 GT-AAAAAATAACACCAAAACA
1 ATAAAAAAAAAACACCAAAACA
*
4104757 ATAAAAAAAAAAGCACTAAAACA
1 ATAAAAAAAAAA-CACCAAAACA
4104780 ATAA
1 ATAA
4104784 TATAATTTTT
Statistics
Matches: 107, Mismatches: 19, Indels: 16
0.75 0.13 0.11
Matches are distributed among these distances:
20 19 0.18
21 32 0.30
22 20 0.19
23 34 0.32
24 2 0.02
ACGTcount: A:0.70, C:0.16, G:0.03, T:0.11
Consensus pattern (22 bp):
ATAAAAAAAAAACACCAAAACA
Found at i:4115618 original size:9 final size:9
Alignment explanation
Indices: 4115604--4115630 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4115594 GCTCCATCAT
4115604 TTTTTGTTG
1 TTTTTGTTG
4115613 TTTTTGTTG
1 TTTTTGTTG
4115622 TTTTTGTTG
1 TTTTTGTTG
4115631 CATTGATTTA
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:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (9 bp):
TTTTTGTTG
Found at i:4123660 original size:19 final size:21
Alignment explanation
Indices: 4123620--4123660 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4123610 AGTTTATAAG
*
4123620 TATTTTTATGTTGAATTTTAA
1 TATTTTTATGTTGAAATTTAA
4123641 TATTTTTAT-TT-AAATTTAA
1 TATTTTTATGTTGAAATTTAA
4123660 T
1 T
4123661 TGTTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 9 0.47
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (21 bp):
TATTTTTATGTTGAAATTTAA
Found at i:4129000 original size:6 final size:6
Alignment explanation
Indices: 4128987--4129018 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
4128977 ACAGCAACAG
*
4128987 CACCGC CACTGC CACCGC CACCGC CACCGC CA
1 CACCGC CACCGC CACCGC CACCGC CACCGC CA
4129019 GTATAAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.62, G:0.16, T:0.03
Consensus pattern (6 bp):
CACCGC
Found at i:4132315 original size:29 final size:29
Alignment explanation
Indices: 4132282--4132340 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4132272 CTAGAAAATG
4132282 GCAACTGAAATAGCAAAAAGATAATATAA
1 GCAACTGAAATAGCAAAAAGATAATATAA
4132311 GCAACTGAAATAGCAAAAAGATAATATAA
1 GCAACTGAAATAGCAAAAAGATAATATAA
4132340 G
1 G
4132341 TAAACTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.17
Consensus pattern (29 bp):
GCAACTGAAATAGCAAAAAGATAATATAA
Found at i:4137456 original size:17 final size:17
Alignment explanation
Indices: 4137404--4137459 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
4137394 AATATGAAAA
4137404 GTTAAGGAAGATGGAAG
1 GTTAAGGAAGATGGAAG
4137421 GTTAAAGGTCAAG--GG-AG
1 GTT-AAGG--AAGATGGAAG
4137438 GTTAAGGAAGATGGAAG
1 GTTAAGGAAGATGGAAG
4137455 GTTAA
1 GTTAA
4137460 AAGTCAAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
14 3 0.09
16 6 0.18
17 15 0.45
18 6 0.18
20 3 0.09
ACGTcount: A:0.39, C:0.02, G:0.39, T:0.20
Consensus pattern (17 bp):
GTTAAGGAAGATGGAAG
Found at i:4142872 original size:72 final size:72
Alignment explanation
Indices: 4142783--4142986 Score: 399
Period size: 72 Copynumber: 2.8 Consensus size: 72
4142773 TCTTTTACAA
4142783 GTAGCATACTCCACTATATATATAGGGAGATTGGACTCTTTATATTCTAATACATCAATATTTCA
1 GTAGCATACTCCACTATATATATAGGGAGATTGGACTCTTTATATTCTAATACATCAATATTTCA
4142848 TATCTTT
66 TATCTTT
4142855 GTAGCATACTCCACTATATATATAGGGAGATTGGACTCTTTATATTCTAATACATCAATATTTCA
1 GTAGCATACTCCACTATATATATAGGGAGATTGGACTCTTTATATTCTAATACATCAATATTTCA
4142920 TATCTTT
66 TATCTTT
*
4142927 GTAGCATACTCCACTATATATATAAGGAGATTGGACTCTTTATATTCTAATACATCAATA
1 GTAGCATACTCCACTATATATATAGGGAGATTGGACTCTTTATATTCTAATACATCAATA
4142987 GCAAAAAATA
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 131 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (72 bp):
GTAGCATACTCCACTATATATATAGGGAGATTGGACTCTTTATATTCTAATACATCAATATTTCA
TATCTTT
Found at i:4144416 original size:29 final size:31
Alignment explanation
Indices: 4144379--4144437 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
4144369 AGAAGAAAAA
* *
4144379 TTATTAAAACCAT-A-AAAAATTGTAAAATT
1 TTATAAAAACCATAAGAAAAATTATAAAATT
*
4144408 TTATAAAAATCATAAGAAAAATTATAAAAT
1 TTATAAAAACCATAAGAAAAATTATAAAAT
4144438 GCATCAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 1 0.04
31 13 0.52
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (31 bp):
TTATAAAAACCATAAGAAAAATTATAAAATT
Found at i:4144425 original size:50 final size:48
Alignment explanation
Indices: 4144341--4144436 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 48
4144331 ATAAATTTTA
*
4144341 ATAAAAATATTTAAAATTATTAAAAATTAGAAGAAAAATTATTAAAACC
1 ATAAAAATATTTAAAATTATTAAAAATCAGAAGAAAAATTA-TAAAACC
* *
4144390 ATAAAAA-ATTGTAAAATTTTATAAAAATCATAAGAAAAATTATAAAA
1 ATAAAAATATT-TAAAATTAT-TAAAAATCAGAAGAAAAATTATAAAA
4144437 TGCATCAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 3 0.07
49 20 0.48
50 19 0.45
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (48 bp):
ATAAAAATATTTAAAATTATTAAAAATCAGAAGAAAAATTATAAAACC
Found at i:4144630 original size:19 final size:18
Alignment explanation
Indices: 4144606--4144669 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
4144596 GTATAGTAAT
4144606 TTTTATAATTTTTTACGAA
1 TTTTATAATTTTTTAC-AA
* *
4144625 TTTTAT-ATTTCTTTATAT
1 TTTTATAATTT-TTTACAA
4144643 TTTTATAATTTTCTTACAA
1 TTTTATAATTTT-TTACAA
*
4144662 CTTTATAA
1 TTTTATAA
4144670 AATTTTATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
18 12 0.32
19 25 0.68
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTATAATTTTTTACAA
Found at i:4144677 original size:37 final size:37
Alignment explanation
Indices: 4144604--4144683 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
4144594 TGGTATAGTA
* **
4144604 ATTTTTATAATTTTTTACGAATTTTATATTTCTTTAT
1 ATTTTTATAATTTTTTACGAACTTTATAAATCTTTAT
4144641 ATTTTTATAATTTTCTTAC-AACTTTATAAAAT-TTTAT
1 ATTTTTATAATTTT-TTACGAACTTTAT-AAATCTTTAT
4144678 ATTTTT
1 ATTTTT
4144684 TTCTATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 32 0.84
38 6 0.16
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.62
Consensus pattern (37 bp):
ATTTTTATAATTTTTTACGAACTTTATAAATCTTTAT
Found at i:4149852 original size:559 final size:559
Alignment explanation
Indices: 4148796--4150469 Score: 3112
Period size: 559 Copynumber: 3.0 Consensus size: 559
4148786 GGCATGAGTA
* * *
4148796 TCACAATCTAACCCACTCAGTTCTGATATCCTTATCAGGACCACACATCAAAATGCTATCAAGGC
1 TCACAATCTGACCCACTCAATTCTGATATCCTTATCAGAACCACACATCAAAATGCTATCAAGGC
* * *
4148861 CCACTCCACAGAAC-AAAGTTTCAAGAGTGCAGTGTGAAAGTCCACAACAGGCTATCACATGCAT
66 CCACTCCTCAGAACTAAAATTTCAAGAGTGCAGTGTAAAAGTCCACAACAGGCTATCACATGCAT
* * *
4148925 TGATAACAATTGTACCTGCCAGGTATTTTTCACTTTAACCCAGAAGGTCATACACCTTTGTCTAG
131 TGATACCAATTGTACCTGCGAGGTATTTTTCACTTTAACCCAGAAGGTCTTACACCTTTGTCTAG
4148990 AAAAGGCACCTCACAAGTAAATGTTTAAGTCTCCACATGACATCATAGGAGATCTCACATATTTC
196 AAAAGGCACCTCACAAGTAAATGTTTAAGTCTCCACATGACATCATAGGAGATCTCACATATTTC
4149055 CTTGTGAGGGAGTTACAATATGATCTCCCAGAATTTATTACTAGCAAAGATCATGACTGAAAAAA
261 CTTGTGAGGGAGTTACAATATGATCTCCCAGAATTTATTACTAGCAAAGATCATGACTGAAAAAA
4149120 CAAAGAGATATATATGGTACAGAACTTGGGAGTTAACACCAACAACCACAATGGAAAGGATCTCG
326 CAAAGAGATATATATGGTACAGAACTTGGGAGTTAACACCAACAACCACAATGGAAAGGATCTCG
4149185 TGTTTTGGACCTTAGCTAGTCTTTGGTACCATGATTGCCCAATTATAATCTTGTTATCTAAAACT
391 TGTTTTGGACCTTAGCTAGTCTTTGGTACCATGATTGCCCAATTATAATCTTGTTATCTAAAACT
4149250 GATCATTTTATTTTAGATAAGCATGACTATATCAATGGATTTTTCAACAATCAAGAAGTCCTCTC
456 GATCATTTTATTTTAGATAAGCATGACTATATCAATGGATTTTTCAACAATCAAGAAGTCCTCTC
4149315 AGTTCAAGGAAAGTGTCATTGGTAGTTCTAGGTTCTTAT
521 AGTTCAAGGAAAGTGTCATTGGTAGTTCTAGGTTCTTAT
*
4149354 TCACAATCTGACCCACTCAATTTTGATATCCTTATCAGAACCACACATCAAAATGCTATCAAGGC
1 TCACAATCTGACCCACTCAATTCTGATATCCTTATCAGAACCACACATCAAAATGCTATCAAGGC
4149419 CCACTCCTCAGAACTAAAATTTCAAGAGTGCAGTGTAAAAGTCCACAACAGGCTATCACATGCAT
66 CCACTCCTCAGAACTAAAATTTCAAGAGTGCAGTGTAAAAGTCCACAACAGGCTATCACATGCAT
4149484 TGATACCAATTGTACCTGCGAGGTATTTTTCACTTTAACCCAGAAGGTCTTACACCTTTGTCTAG
131 TGATACCAATTGTACCTGCGAGGTATTTTTCACTTTAACCCAGAAGGTCTTACACCTTTGTCTAG
4149549 AAAAGGCACCTCACAAGTAAATGTTTAAGTCTCCACATGACATCATAGGAGATCTCACATATTTC
196 AAAAGGCACCTCACAAGTAAATGTTTAAGTCTCCACATGACATCATAGGAGATCTCACATATTTC
4149614 CTTGTG-GGGTAGTTACAATATGATCTCCCAGAATTTATTACTAGCAAAGATCATGACTG-AAAA
261 CTTGTGAGGG-AGTTACAATATGATCTCCCAGAATTTATTACTAGCAAAGATCATGACTGAAAAA
4149677 ACAAAGAGATATATATGGTACAGAACTTGGGAGTTAACACCAACAACCACAATGGAAAGGATCTC
325 ACAAAGAGATATATATGGTACAGAACTTGGGAGTTAACACCAACAACCACAATGGAAAGGATCTC
4149742 GTGTTTTGGACCTTAGCTAGTCTTTGGTACCATGATTGCCCAATTATAATCTTGTTATCTAAAAC
390 GTGTTTTGGACCTTAGCTAGTCTTTGGTACCATGATTGCCCAATTATAATCTTGTTATCTAAAAC
4149807 TGATCATTTTAGTTTTAGATAAGCATGACTATATCAATGGATTTTTCAACAATCAAGAAGTCCTC
455 TGATCATTTTA-TTTTAGATAAGCATGACTATATCAATGGATTTTTCAACAATCAAGAAGTCCTC
4149872 TCAGTTCAAGGAAAGTGTCATTGGTAGTTCTAGGTTCTTAT
519 TCAGTTCAAGGAAAGTGTCATTGGTAGTTCTAGGTTCTTAT
4149913 TCACAATCTGACCCACTCAATTCTGATATCCTTATCAGAACCACACATCAAAATGCTATCAAGGC
1 TCACAATCTGACCCACTCAATTCTGATATCCTTATCAGAACCACACATCAAAATGCTATCAAGGC
4149978 CCACTCCTCAGAACTAAAATTTCAAGAGTGCAGTGTAAAAGTCCACAACAGGCTATCACATGCAT
66 CCACTCCTCAGAACTAAAATTTCAAGAGTGCAGTGTAAAAGTCCACAACAGGCTATCACATGCAT
4150043 TGATACCAATTGTACCTGCGAGGTATTTTTCACTTTAACCCAGAAGGTCTTACACCTTTGTCTAG
131 TGATACCAATTGTACCTGCGAGGTATTTTTCACTTTAACCCAGAAGGTCTTACACCTTTGTCTAG
4150108 AAAAGGCACCTCACAAGTAAATGTTTAAGTCTCCACATGACATCATAGGAGATCCTCACATATTT
196 AAAAGGCACCTCACAAGTAAATGTTTAAGTCTCCACATGACATCATAGGAGAT-CTCACATATTT
* *
4150173 CCATGTGAGGGAGTTACAATATTATCTCCCAGAATTTATTACTAGCAAAGATCATGACTGAAAAA
260 CCTTGTGAGGGAGTTACAATATGATCTCCCAGAATTTATTACTAGCAAAGATCATGACTGAAAAA
* *
4150238 ACAAAGAGATATATATGGTACAGAACTTGGGAGTTAACACCAACAACCACAGTGGAAAGGATCTT
325 ACAAAGAGATATATATGGTACAGAACTTGGGAGTTAACACCAACAACCACAATGGAAAGGATCTC
4150303 GTGTTTTGGACCTTAGCTAGTCTTTGGTACCATGATTGCCCAATTATAATCTTGTTATCTAAAAC
390 GTGTTTTGGACCTTAGCTAGTCTTTGGTACCATGATTGCCCAATTATAATCTTGTTATCTAAAAC
* *
4150368 TGATC-----ATTTTAGATAAGCATGGCTATATCAATGGATTTTTCAACAACCAAGAAGTCCTCT
455 TGATCATTTTATTTTAGATAAGCATGACTATATCAATGGATTTTTCAACAATCAAGAAGTCCTCT
*
4150428 CAGTTCAAGGAAAGTGTCATTGGTAGTTCTAGGTTCGTAT
520 CAGTTCAAGGAAAGTGTCATTGGTAGTTCTAGGTTCTTAT
4150468 TC
1 TC
4150470 CTAATCTAGT
Statistics
Matches: 1092, Mismatches: 18, Indels: 15
0.97 0.02 0.01
Matches are distributed among these distances:
555 93 0.09
556 1 0.00
558 222 0.20
559 571 0.52
560 65 0.06
561 140 0.13
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (559 bp):
TCACAATCTGACCCACTCAATTCTGATATCCTTATCAGAACCACACATCAAAATGCTATCAAGGC
CCACTCCTCAGAACTAAAATTTCAAGAGTGCAGTGTAAAAGTCCACAACAGGCTATCACATGCAT
TGATACCAATTGTACCTGCGAGGTATTTTTCACTTTAACCCAGAAGGTCTTACACCTTTGTCTAG
AAAAGGCACCTCACAAGTAAATGTTTAAGTCTCCACATGACATCATAGGAGATCTCACATATTTC
CTTGTGAGGGAGTTACAATATGATCTCCCAGAATTTATTACTAGCAAAGATCATGACTGAAAAAA
CAAAGAGATATATATGGTACAGAACTTGGGAGTTAACACCAACAACCACAATGGAAAGGATCTCG
TGTTTTGGACCTTAGCTAGTCTTTGGTACCATGATTGCCCAATTATAATCTTGTTATCTAAAACT
GATCATTTTATTTTAGATAAGCATGACTATATCAATGGATTTTTCAACAATCAAGAAGTCCTCTC
AGTTCAAGGAAAGTGTCATTGGTAGTTCTAGGTTCTTAT
Found at i:4154964 original size:14 final size:16
Alignment explanation
Indices: 4154932--4154965 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
4154922 GTTTCACATA
4154932 TTCAATTTCTATGTAT
1 TTCAATTTCTATGTAT
4154948 TTCAA-TTCTAT-TAT
1 TTCAATTTCTATGTAT
4154962 TTCA
1 TTCA
4154966 TCCACATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 6 0.33
16 5 0.28
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (16 bp):
TTCAATTTCTATGTAT
Found at i:4155554 original size:16 final size:15
Alignment explanation
Indices: 4155513--4155554 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
4155503 AAATATTAGT
4155513 TTTTTCAAAAAAATTA
1 TTTTTC-AAAAAATTA
*
4155529 TTTTACAAAAAATTA
1 TTTTTCAAAAAATTA
*
4155544 TTTTTCGAAAA
1 TTTTTCAAAAA
4155555 CCATTTTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (15 bp):
TTTTTCAAAAAATTA
Found at i:4159089 original size:14 final size:15
Alignment explanation
Indices: 4159063--4159105 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
4159053 CAATCTTTAT
4159063 TTTTTTACTAATAAT-
1 TTTTTTA-TAATAATG
4159078 TTTTCTTA-AATAATG
1 TTTT-TTATAATAATG
4159093 TTTTTTATAATAA
1 TTTTTTATAATAA
4159106 AAAAACAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.36
15 13 0.52
16 3 0.12
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (15 bp):
TTTTTTATAATAATG
Found at i:4172460 original size:17 final size:18
Alignment explanation
Indices: 4172427--4172460 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4172417 TAAGTTTTAA
4172427 AATAAATATAGGCATAAT
1 AATAAATATAGGCATAAT
*
4172445 AATAAATTTA-GCATAA
1 AATAAATATAGGCATAA
4172461 CATTTACTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (18 bp):
AATAAATATAGGCATAAT
Found at i:4178221 original size:16 final size:16
Alignment explanation
Indices: 4178200--4178233 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4178190 TTATTTTATT
* *
4178200 TTTATATACTATGAAA
1 TTTATATAATATAAAA
4178216 TTTATATAATATAAAA
1 TTTATATAATATAAAA
4178232 TT
1 TT
4178234 AAATATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
TTTATATAATATAAAA
Found at i:4178848 original size:24 final size:25
Alignment explanation
Indices: 4178819--4178868 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
4178809 AACTAACTTA
4178819 ATTTGGAGATTATA-AGATCTCGAG
1 ATTTGGAGATTATATAGATCTCGAG
* *
4178843 ATTTGGAGATTTTATATATCTCGAG
1 ATTTGGAGATTATATAGATCTCGAG
4178868 A
1 A
4178869 CCAAGTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (25 bp):
ATTTGGAGATTATATAGATCTCGAG
Found at i:4183066 original size:17 final size:17
Alignment explanation
Indices: 4183032--4183066 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4183022 TTTGGAGTCA
*
4183032 TGGGTAGTTTAGGTTTT
1 TGGGTAGTTTAGGATTT
*
4183049 TGGGTAGTTTTGGATTT
1 TGGGTAGTTTAGGATTT
4183066 T
1 T
4183067 AAATTTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.11, C:0.00, G:0.34, T:0.54
Consensus pattern (17 bp):
TGGGTAGTTTAGGATTT
Found at i:4191729 original size:2 final size:2
Alignment explanation
Indices: 4191722--4191746 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4191712 CTATTGCTAT
4191722 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 A
4191747 TGGGAGATAA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4195196 original size:5 final size:5
Alignment explanation
Indices: 4195188--4195234 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
4195178 AAAAAAAAAA
* * *
4195188 TTCTT TTCTT TTCCT TTCCT TTCTT TTCTT TTCCT TTCTTT TTCTT T
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTC-TT TTCTT T
4195235 CCCATCGACA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (5 bp):
TTCTT
Found at i:4195212 original size:15 final size:15
Alignment explanation
Indices: 4195192--4195236 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
4195182 AAAAAATTCT
4195192 TTTCTTTTCCTTTCC
1 TTTCTTTTCCTTTCC
*
4195207 TTTCTTTTCTTTTCC
1 TTTCTTTTCCTTTCC
*
4195222 TTTCTTTTTCTTTCC
1 TTTCTTTTCCTTTCC
4195237 CATCGACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTCTTTTCCTTTCC
Found at i:4195213 original size:20 final size:20
Alignment explanation
Indices: 4195188--4195225 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4195178 AAAAAAAAAA
4195188 TTCTTTTCTTTTCCTTTCCT
1 TTCTTTTCTTTTCCTTTCCT
4195208 TTCTTTTCTTTTCCTTTC
1 TTCTTTTCTTTTCCTTTC
4195226 TTTTTCTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TTCTTTTCTTTTCCTTTCCT
Found at i:4213973 original size:11 final size:11
Alignment explanation
Indices: 4213944--4214006 Score: 50
Period size: 11 Copynumber: 6.3 Consensus size: 11
4213934 TTAAATAAAG
*
4213944 TATTTAAAATT
1 TATTAAAAATT
4213955 TA-TAAAAATT
1 TATTAAAAATT
4213965 TATTAAAAA--
1 TATTAAAAATT
*
4213974 TA-GAGAAAATT
1 TATTA-AAAATT
4213985 TA-T--AAATT
1 TATTAAAAATT
4213993 TATTAAAAATT
1 TATTAAAAATT
4214004 TAT
1 TAT
4214007 AAGTAATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
8 8 0.19
9 7 0.17
10 9 0.21
11 18 0.43
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (11 bp):
TATTAAAAATT
Found at i:4214001 original size:19 final size:18
Alignment explanation
Indices: 4213945--4214008 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
4213935 TAAATAAAGT
4213945 ATTTA-AAATTTATAAAA
1 ATTTATAAATTTATAAAA
** *
4213962 ATTTATTAAAAATAGAGAAA
1 ATTTA-TAAATTTATA-AAA
4213982 ATTTATAAATTTATTAAAA
1 ATTTATAAATTTA-TAAAA
4214001 ATTTATAA
1 ATTTATAA
4214009 GTAATTTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.14
19 23 0.62
20 9 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTTATAAATTTATAAAA
Found at i:4214133 original size:20 final size:19
Alignment explanation
Indices: 4214108--4214160 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
4214098 TACAATTGTA
*
4214108 ATAAATACAATTGAATAATT
1 ATAAATACAA-CGAATAATT
*
4214128 ATAAATTACAACGAATTATT
1 ATAAA-TACAACGAATAATT
4214148 AT-AATAC-ACGAAT
1 ATAAATACAACGAAT
4214161 TGATTGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 6 0.20
18 3 0.10
19 2 0.07
20 14 0.47
21 5 0.17
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (19 bp):
ATAAATACAACGAATAATT
Found at i:4214678 original size:13 final size:14
Alignment explanation
Indices: 4214660--4214688 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4214650 CTTATCTTTG
4214660 TTCAAACATAT-TT
1 TTCAAACATATATT
4214673 TTCAAACATATATT
1 TTCAAACATATATT
4214687 TT
1 TT
4214689 TATCTAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (14 bp):
TTCAAACATATATT
Found at i:4214720 original size:19 final size:20
Alignment explanation
Indices: 4214683--4214721 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4214673 TTCAAACATA
**
4214683 TATTTTTATCTAAACTTTTT
1 TATTTTTAAATAAACTTTTT
4214703 TATTTTTAAATAAA-TTTTT
1 TATTTTTAAATAAACTTTTT
4214722 GAATCGAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTTTAAATAAACTTTTT
Found at i:4215210 original size:22 final size:24
Alignment explanation
Indices: 4215185--4215228 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
4215175 ATATTATCGT
4215185 ATTTAAT-TTATT-TGAAAATAAA
1 ATTTAATATTATTGTGAAAATAAA
*
4215207 ATTTAATATTATTGTTAAAATA
1 ATTTAATATTATTGTGAAAATA
4215229 TATAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 5 0.26
24 7 0.37
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (24 bp):
ATTTAATATTATTGTGAAAATAAA
Found at i:4220222 original size:16 final size:16
Alignment explanation
Indices: 4220203--4220236 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4220193 ATCTTTTTAG
4220203 AAAAACGTTTTTTGTT
1 AAAAACGTTTTTTGTT
* *
4220219 AAAAACTTTTTTTTTT
1 AAAAACGTTTTTTGTT
4220235 AA
1 AA
4220237 TTTGTGAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (16 bp):
AAAAACGTTTTTTGTT
Found at i:4236346 original size:15 final size:15
Alignment explanation
Indices: 4236322--4236351 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4236312 CTCCGACTCT
4236322 TTGGTCTTAAGAATG
1 TTGGTCTTAAGAATG
*
4236337 TTGGTTTTAAGAATG
1 TTGGTCTTAAGAATG
4236352 AGTGATTGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.27, T:0.43
Consensus pattern (15 bp):
TTGGTCTTAAGAATG
Found at i:4241343 original size:19 final size:20
Alignment explanation
Indices: 4241319--4241357 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
4241309 TAAATTATTC
4241319 AATATTTTAAAT-ATAAAAA
1 AATATTTTAAATCATAAAAA
*
4241338 AATATTTTATATCATAAAAA
1 AATATTTTAAATCATAAAAA
4241358 TATTAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AATATTTTAAATCATAAAAA
Found at i:4242975 original size:17 final size:17
Alignment explanation
Indices: 4242926--4242975 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
4242916 TTGGTTGAAA
*
4242926 AAAATTGATTTGTTA-AT
1 AAAATT-ATTTGATATAT
* *
4242943 AATATTA-TTGAAATAT
1 AAAATTATTTGATATAT
4242959 AAAATTATTTGATATAT
1 AAAATTATTTGATATAT
4242976 TATTGAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
15 4 0.15
16 9 0.35
17 13 0.50
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (17 bp):
AAAATTATTTGATATAT
Found at i:4255916 original size:14 final size:13
Alignment explanation
Indices: 4255873--4255920 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 13
4255863 ATTTTAAAAT
4255873 TTAAAAGTATGATAA
1 TTAAAA-TATGA-AA
*
4255888 TTAAAATGATCAAA
1 TTAAAAT-ATGAAA
4255902 TTAAAATATAGAAA
1 TTAAAATAT-GAAA
4255916 TTAAA
1 TTAAA
4255921 TCCACAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 2 0.07
14 18 0.62
15 9 0.31
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.31
Consensus pattern (13 bp):
TTAAAATATGAAA
Found at i:4259734 original size:13 final size:13
Alignment explanation
Indices: 4259716--4259752 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
4259706 CAGCCCGCCC
4259716 ATATTAATTTTTA
1 ATATTAATTTTTA
4259729 ATATT-ATTTTT-
1 ATATTAATTTTTA
4259740 ATA-TAATTTTTA
1 ATATTAATTTTTA
4259752 A
1 A
4259753 ATATATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.05
11 9 0.41
12 7 0.32
13 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATATTAATTTTTA
Found at i:4259756 original size:13 final size:12
Alignment explanation
Indices: 4259720--4259757 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
4259710 CCGCCCATAT
4259720 TAATTTTTAATA
1 TAATTTTTAATA
*
4259732 TTATTTTT-ATA
1 TAATTTTTAATA
4259743 TAATTTTTAAATA
1 TAATTTTT-AATA
4259756 TA
1 TA
4259758 TATAATGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 10 0.45
12 7 0.32
13 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TAATTTTTAATA
Found at i:4261572 original size:20 final size:20
Alignment explanation
Indices: 4261549--4261608 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
4261539 TTTTATTATC
4261549 ATTTTAGATATTTCGATATA
1 ATTTTAGATATTTCGATATA
* *
4261569 ATTTTA-AAAGTATT--ATTATT
1 ATTTTAGATA-T-TTCGA-TATA
4261589 ATTTTAGATATTTCGATATA
1 ATTTTAGATATTTCGATATA
4261609 GCATTAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
19 5 0.17
20 20 0.67
21 5 0.17
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (20 bp):
ATTTTAGATATTTCGATATA
Found at i:4261586 original size:40 final size:39
Alignment explanation
Indices: 4261533--4261608 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 39
4261523 TAATTAATGG
*
4261533 TTAAAATTTTATTATCATTTTAGATATTTCGATATAATT
1 TTAAAATATTATTATCATTTTAGATATTTCGATATAATT
*
4261572 TTAAAAGTATTATTATTATTTTAGATATTTCGATATA
1 TTAAAA-TATTATTATCATTTTAGATATTTCGATATA
4261609 GCATTAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 6 0.18
40 28 0.82
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.53
Consensus pattern (39 bp):
TTAAAATATTATTATCATTTTAGATATTTCGATATAATT
Found at i:4261738 original size:15 final size:15
Alignment explanation
Indices: 4261720--4261758 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4261710 AAATAATTTT
*
4261720 TTTTTAAATTGAGTC
1 TTTTTAAATTCAGTC
*
4261735 TTTTTAAATTCATTC
1 TTTTTAAATTCAGTC
*
4261750 TATTTAAAT
1 TTTTTAAAT
4261759 GTAAAGAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (15 bp):
TTTTTAAATTCAGTC
Found at i:4264821 original size:63 final size:65
Alignment explanation
Indices: 4264683--4264849 Score: 229
Period size: 63 Copynumber: 2.6 Consensus size: 65
4264673 TTTTTTCTTA
* *
4264683 TTTATTTATTTATTTATTATTATT--ATA-AATATAAATAAATATAAAATAATATTAATTTTATT
1 TTTATTTATTTATTTATTATTTTTGAATATAA-ATAAATAAATATAAAATAATATTAATTTTATG
4264745 T
65 T
*
4264746 TGTTATTTATTTATTTATTATTGTTTGAATATAAATAAATAAATGTAAAATAATATTAA-TTT-T
1 T-TTATTTATTTATTTATTATT-TTTGAATATAAATAAATAAATATAAAATAATATTAATTTTAT
4264809 GT
64 GT
4264811 TTTA-TTATTTATTTATTATTTTATGAATATAAATAAATA
1 TTTATTTATTTATTTATTATTTT-TGAATATAAATAAATA
4264850 GATAACAGAC
Statistics
Matches: 95, Mismatches: 3, Indels: 12
0.86 0.03 0.11
Matches are distributed among these distances:
62 2 0.02
63 33 0.35
64 23 0.24
65 5 0.05
66 3 0.03
67 27 0.28
68 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (65 bp):
TTTATTTATTTATTTATTATTTTTGAATATAAATAAATAAATATAAAATAATATTAATTTTATGT
Found at i:4269796 original size:22 final size:20
Alignment explanation
Indices: 4269768--4269809 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
4269758 TTGAATACTT
4269768 TTATTTTAAATTATAATATATA
1 TTATTTTAAA-TATAAT-TATA
*
4269790 TTATTTTTAATATAATTATA
1 TTATTTTAAATATAATTATA
4269810 AAAAGTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 6 0.32
22 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATTTTAAATATAATTATA
Found at i:4270646 original size:18 final size:19
Alignment explanation
Indices: 4270611--4270646 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4270601 TTTAATTTTT
4270611 TTTTAAGATTTCTTTATAA
1 TTTTAAGATTTCTTTATAA
*
4270630 TTTTAATATTT-TTTATA
1 TTTTAAGATTTCTTTATA
4270647 TTAAAATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTAAGATTTCTTTATAA
Found at i:4278523 original size:24 final size:24
Alignment explanation
Indices: 4278478--4278523 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
4278468 TTCATTGCAT
* *
4278478 TTTACACTCGTCAGTTTTTATACG
1 TTTACACTCGTCAGCTTATATACG
* *
4278502 TTTACGCTCGTTAGCTTATATA
1 TTTACACTCGTCAGCTTATATA
4278524 TATATATATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.46
Consensus pattern (24 bp):
TTTACACTCGTCAGCTTATATACG
Found at i:4302375 original size:82 final size:82
Alignment explanation
Indices: 4302220--4302380 Score: 236
Period size: 82 Copynumber: 2.0 Consensus size: 82
4302210 CAACGAAAAC
* *
4302220 AAGCTCCAACCACGAAGCTCGTTCTAAGTTTTCTTTTTTTTCCTCTGTGTATTTTCTTTCTTTCT
1 AAGCTCCAACCACGAAGCTCGTTCTAAGTTTTCTTTTTTTTCCTCTGTATATTTTCTTTCTCTCT
*
4302285 GGTAGGGGAAAAAGTAA
66 GCTAGGGGAAAAAGTAA
* *
4302302 AAGCTCCACCCACGAAGCTCGTTCTAAGTTTT-TTGTCTTTTTCCTCTGTATTTTTTCTTTCTCT
1 AAGCTCCAACCACGAAGCTCGTTCTAAGTTTTCTT-T-TTTTTCCTCTGTATATTTTCTTTCTCT
*
4302366 CTGCT-GGGGACAAAG
64 CTGCTAGGGGAAAAAG
4302381 GTTAACTCAA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
81 2 0.03
82 41 0.58
83 28 0.39
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (82 bp):
AAGCTCCAACCACGAAGCTCGTTCTAAGTTTTCTTTTTTTTCCTCTGTATATTTTCTTTCTCTCT
GCTAGGGGAAAAAGTAA
Found at i:4304646 original size:17 final size:16
Alignment explanation
Indices: 4304605--4304649 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
4304595 CTTTAAAAAA
4304605 ATAAATATATACTAAAT
1 ATAAATAT-TACTAAAT
*
4304622 ATATAATATTACTCTAAT
1 ATA-AATATTACT-AAAT
4304640 ATAAATATTA
1 ATAAATATTA
4304650 AAATAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAATATTACTAAAT
Found at i:4304710 original size:26 final size:24
Alignment explanation
Indices: 4304668--4304728 Score: 61
Period size: 26 Copynumber: 2.5 Consensus size: 24
4304658 TTAAGATGAC
*
4304668 TATATAAAA-ATTCAATAAATAAAA
1 TATATAAAATATTAAAT-AATAAAA
*
4304692 TATATAAAATTATTAAATATTAAAA
1 TATATAAAA-TATTAAATAATAAAA
*
4304717 TAAAATAAAATA
1 T-ATATAAAATA
4304729 AATATTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 9 0.29
25 9 0.29
26 13 0.42
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
TATATAAAATATTAAATAATAAAA
Found at i:4304746 original size:30 final size:30
Alignment explanation
Indices: 4304684--4304746 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
4304674 AAAATTCAAT
* *
4304684 AAATAAAATATATAAAATTATTAAATATTA
1 AAATAAAATAAATAAAATTATTAAATAATA
4304714 AAATAAAATAAAATAAATATT-TTAAA-AATA
1 AAATAAAAT-AAATAAA-ATTATTAAATAATA
4304744 AAA
1 AAA
4304747 AATAATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 15 0.52
31 11 0.38
32 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (30 bp):
AAATAAAATAAATAAAATTATTAAATAATA
Found at i:4327625 original size:126 final size:126
Alignment explanation
Indices: 4327400--4327659 Score: 333
Period size: 126 Copynumber: 2.1 Consensus size: 126
4327390 GTTGCATCGT
* * * **
4327400 GAGGAAGATGCCCGTACAGTCCCTTGCGGCCAAGCTCTTGATTGCTCGGTCCCTTCGTTGCCTCC
1 GAGGAAGATGCACGTAAAGTCCCTTGCGGCCAAGCTCTTGATTGCTCGCTCCCTTCACTGCCTCC
* * * * * *
4327465 TATGGCACGGAATGTAACTGCCCAGAGACTGTTCGATGAAAAGCCTGTTAGAGTTGCAACC
66 TACGCCACCGAATGTAACTGCCCAGAAACTGTTCGATGAAAAGACTGTTAGAGTTACAACC
* * * * * *
4327526 GAGGAAGATGCACGTAAAGTCTCTTGCGGTCAAGCTGTTGATTGCTCGCTTCGTTCACTGCTTCC
1 GAGGAAGATGCACGTAAAGTCCCTTGCGGCCAAGCTCTTGATTGCTCGCTCCCTTCACTGCCTCC
* *
4327591 T-CGACCACCGATTGTAACTGCCCAGAAACTGTTCGATGAAAAGACTGTTATAGTTACAACC
66 TACG-CCACCGAATGTAACTGCCCAGAAACTGTTCGATGAAAAGACTGTTAGAGTTACAACC
4327652 GAGGAAGA
1 GAGGAAGA
4327660 CAAGGAAATT
Statistics
Matches: 114, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
125 1 0.01
126 113 0.99
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (126 bp):
GAGGAAGATGCACGTAAAGTCCCTTGCGGCCAAGCTCTTGATTGCTCGCTCCCTTCACTGCCTCC
TACGCCACCGAATGTAACTGCCCAGAAACTGTTCGATGAAAAGACTGTTAGAGTTACAACC
Found at i:4328920 original size:16 final size:16
Alignment explanation
Indices: 4328899--4328933 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4328889 AATGAAATGA
4328899 AAATAAATCTT-TAATT
1 AAATAAAT-TTATAATT
4328915 AAATAAATTTATAATT
1 AAATAAATTTATAATT
4328931 AAA
1 AAA
4328934 ATTTTTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 16 0.89
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATAAATTTATAATT
Found at i:4332383 original size:25 final size:26
Alignment explanation
Indices: 4332355--4332425 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
4332345 TAGTGACTTT
4332355 AAACTCTCATTTAATTAAAAT-AAAA
1 AAACTCTCATTTAATTAAAATAAAAA
***
4332380 AAACTCTCATTTAATTTTGATAAAAA
1 AAACTCTCATTTAATTAAAATAAAAA
*
4332406 AAACTCTTATTTAA-TAAAAT
1 AAACTCTCATTTAATTAAAAT
4332426 TTGGATTATC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 21 0.55
26 17 0.45
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.37
Consensus pattern (26 bp):
AAACTCTCATTTAATTAAAATAAAAA
Found at i:4339539 original size:28 final size:28
Alignment explanation
Indices: 4339474--4339541 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
4339464 TTTTAGATTT
* *
4339474 TTTTTGAAAATTTTATAATTTTTATAAA
1 TTTTTGAAAATTTAAAAATTTTTATAAA
*
4339502 TATTTT-AAAATTTAAAAATTATTT-TGAA
1 T-TTTTGAAAATTTAAAAATT-TTTATAAA
4339530 TTTTTGAAAATT
1 TTTTTGAAAATT
4339542 ATTTTGAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 4 0.12
28 23 0.68
29 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
TTTTTGAAAATTTAAAAATTTTTATAAA
Found at i:4339541 original size:20 final size:19
Alignment explanation
Indices: 4339474--4339551 Score: 72
Period size: 20 Copynumber: 4.1 Consensus size: 19
4339464 TTTTAGATTT
*
4339474 TTTTTGAAAATT-TTATAA
1 TTTTTGAAAATTATTTTAA
4339492 TTTTT-ATAAA-TATTTTAA
1 TTTTTGA-AAATTATTTTAA
** *
4339510 AATTTAAAAATTATTTTGAA
1 TTTTTGAAAATTATTTT-AA
4339530 TTTTTGAAAATTATTTTGAA
1 TTTTTGAAAATTATTTT-AA
4339550 TT
1 TT
4339552 ATTTTGTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
17 2 0.04
18 19 0.39
19 7 0.14
20 21 0.43
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTTTGAAAATTATTTTAA
Found at i:4346459 original size:4 final size:4
Alignment explanation
Indices: 4346450--4346488 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
4346440 AAATACAGAA
4346450 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
4346489 CACAGACAAT
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:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:4349426 original size:40 final size:40
Alignment explanation
Indices: 4349369--4349451 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
4349359 ATCCCACAGC
* *
4349369 ACTTCATTTATTCAGTATACATCCTCTGGTGT-CAAGTCAA
1 ACTTCATTTATTCAGTATACAACCTCCGGT-TCCAAGTCAA
* * *
4349409 ACTTTATTTATTTAGTATACAACTTCCGGTTCCAAGTCAA
1 ACTTCATTTATTCAGTATACAACCTCCGGTTCCAAGTCAA
4349449 ACT
1 ACT
4349452 CATGCTGAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.03
40 36 0.97
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.39
Consensus pattern (40 bp):
ACTTCATTTATTCAGTATACAACCTCCGGTTCCAAGTCAA
Found at i:4357010 original size:65 final size:65
Alignment explanation
Indices: 4356901--4357029 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 65
4356891 AACATTATAT
* * *
4356901 CAAACATCTCCCATACAAAAATTCAGTGCTAGAAAAGTATCCCTATGTACATAGAGTTAAACAGG
1 CAAACATCTCCCATACAAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAGG
* *
4356966 CAAACGTCTCCCATACTAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
1 CAAACATCTCCCATACAAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
4357030 CTACCGTTGT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.22
Consensus pattern (65 bp):
CAAACATCTCCCATACAAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAGG
Found at i:4359233 original size:16 final size:16
Alignment explanation
Indices: 4359212--4359243 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4359202 TTTGAAAAAA
4359212 ATTTCAAATATATATG
1 ATTTCAAATATATATG
*
4359228 ATTTCAAATTTATATG
1 ATTTCAAATATATATG
4359244 CTCTAACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTTCAAATATATATG
Found at i:4360363 original size:21 final size:19
Alignment explanation
Indices: 4360323--4360371 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
4360313 AAATTTATAT
* *
4360323 TTTAAAAAATTATAACATG
1 TTTAAAAAATTAAAAAATG
4360342 TTTAAAAAATTCTAAAAAATG
1 TTTAAAAAA-T-TAAAAAATG
*
4360363 TATAAAAAA
1 TTTAAAAAA
4360372 AAAGTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 1 0.04
21 15 0.60
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (19 bp):
TTTAAAAAATTAAAAAATG
Found at i:4360494 original size:16 final size:16
Alignment explanation
Indices: 4360473--4360504 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4360463 CTTTGAAAAA
4360473 ATTTCAAATATATATG
1 ATTTCAAATATATATG
*
4360489 ATTTCAAATTTATATG
1 ATTTCAAATATATATG
4360505 CTCTAACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTTCAAATATATATG
Found at i:4370485 original size:22 final size:22
Alignment explanation
Indices: 4370441--4370486 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
4370431 TAATTAATTT
*
4370441 TTAAAATTTTAAAAAAATTAAA
1 TTAAAATTTTAAAAAAATAAAA
*
4370463 TTAATAATTTTGAAAAAA-AAAA
1 TTAA-AATTTTAAAAAAATAAAA
4370485 TT
1 TT
4370487 GGAGTGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAAATTTTAAAAAAATAAAA
Found at i:4375832 original size:183 final size:184
Alignment explanation
Indices: 4375516--4375850 Score: 500
Period size: 183 Copynumber: 1.8 Consensus size: 184
4375506 AGAGGTCAAA
* * *
4375516 ACACCCAATAGACAAACACTAAACCTGAGCCCCAAAAACATGCCCAGTTTTCTATGTTCCCTAGG
1 ACACCCAATAGACAAACACTAAACCTGAGCCCCAAAAACAAGACCAGTTTTCTATGCTCCCTAGG
* * * *
4375581 TTTAACCACATGGAAACACTTTATCCCATTAACCCGATATTTTACCAAACTCTTCCTCACGACCC
66 TTTAAACACATGAAAACACTTTACCCCATTAACCCAATATTTTACCAAACTCTTCCTCACGACCC
*
4375646 TACAAAACTCA-TTCCTTTACAAAGATGCCACAAAAATTACCTAACTCTTCCTC
131 TACAAAACTCATTTCCTATACAAAGATGCCACAAAAATTACCTAACTCTTCCTC
* *
4375699 ACACCCAATAGACAAGCACTAAA-CTCGAG-CCCAAAAACAAGAGCAGTTTTCTATGCTCCCTAG
1 ACACCCAATAGACAAACACTAAACCT-GAGCCCCAAAAACAAGACCAGTTTTCTATGCTCCCTAG
*
4375762 GTTTAAACA-ATTGAAATACATTTTACCCCATTAACCCAATATTTTACCAAACTCTTCCTCAC-A
65 GTTTAAACACA-TGAAA-ACACTTTACCCCATTAACCCAATATTTTACCAAACTCTTCCTCACGA
4375825 CCCCTACAAAACTCATTTCCTATACA
128 -CCCTACAAAACTCATTTCCTATACA
4375851 GAGACCCCAT
Statistics
Matches: 136, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
181 1 0.01
182 45 0.33
183 81 0.60
184 9 0.07
ACGTcount: A:0.36, C:0.31, G:0.07, T:0.26
Consensus pattern (184 bp):
ACACCCAATAGACAAACACTAAACCTGAGCCCCAAAAACAAGACCAGTTTTCTATGCTCCCTAGG
TTTAAACACATGAAAACACTTTACCCCATTAACCCAATATTTTACCAAACTCTTCCTCACGACCC
TACAAAACTCATTTCCTATACAAAGATGCCACAAAAATTACCTAACTCTTCCTC
Found at i:4380810 original size:3 final size:3
Alignment explanation
Indices: 4380802--4380829 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4380792 CCATTTTCCT
4380802 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
4380830 TGTTTTACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:4408059 original size:12 final size:12
Alignment explanation
Indices: 4408037--4408070 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4408027 TACCTTTACC
4408037 TTTATTCTTTGTT
1 TTTATT-TTTGTT
*
4408050 TTTGTTTTTGTT
1 TTTATTTTTGTT
4408062 TTTATTTTT
1 TTTATTTTT
4408071 ACTTTTTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.06, C:0.03, G:0.09, T:0.82
Consensus pattern (12 bp):
TTTATTTTTGTT
Found at i:4409272 original size:22 final size:23
Alignment explanation
Indices: 4409247--4409292 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4409237 ATAGTTCATG
*
4409247 TTTAAAAAGTA-TATTTTTAAAA
1 TTTAAAAAGTAGTAGTTTTAAAA
* *
4409269 TTTAGAATGTAGTAGTTTTAAAA
1 TTTAAAAAGTAGTAGTTTTAAAA
4409292 T
1 T
4409293 ATTTTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (23 bp):
TTTAAAAAGTAGTAGTTTTAAAA
Found at i:4412440 original size:27 final size:27
Alignment explanation
Indices: 4412386--4412440 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
4412376 ATTTTTATTA
* **
4412386 ATTTAATATTAAAATAATCATTTTAAT
1 ATTTAATAATAAAATAATCATTAAAAT
4412413 ATTTAATTAATAAAATAAT-ATTAAAAT
1 ATTTAA-TAATAAAATAATCATTAAAAT
4412440 A
1 A
4412441 AGTATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTTAATAATAAAATAATCATTAAAAT
Found at i:4419332 original size:223 final size:222
Alignment explanation
Indices: 4418941--4419386 Score: 664
Period size: 223 Copynumber: 2.0 Consensus size: 222
4418931 CCAACGATTC
* * * *
4418941 GACATTGGGTGGGTTGAGTCCAAATATTGTTGGAATTGCTAAATATTACAAAGGAATAAGAAAGA
1 GACATTGGGTGGGTCGAATCCAAATATTGTTGGAATTGCTAAATATTACAAAAGAAAAAGAAAGA
*
4419006 AATATGAAAAAAAAAATAAAGAGAAAGAAATAATGTAAAGGCAAATAAAAGAACTAAAACTAACA
66 AATATGAAAAAAAAAATAAAGAGAAAGAAATAATGTAAAGGCAAATAAAAGAACTAAAAATAACA
* *
4419071 TTTTGATGTAAAATGAGTAACGAAAAAATAATGTAGGTATCA-ATTGTGACAAAAAAAAAAATTA
131 TTTTGATATAAAATGAGTAACGAAAAAATAACGTAGGTA-CATATTGTGAC--AAAAAAAAATTA
**
4419135 GTGTCAACTTGGGAAAAAGAATTTTGTTTA
193 GTACCAACTTGGGAAAAAGAATTTTGTTTA
*
4419165 GACATTGGGTGGGTCGAATCCGAATATTGTTGGAATTGCTAAATATTACAAAAGAAAAAGAAAGA
1 GACATTGGGTGGGTCGAATCCAAATATTGTTGGAATTGCTAAATATTACAAAAGAAAAAGAAAGA
* * *
4419230 AATATG-GAAAAAAAATAAAGAGAAAGAAATAATGTAAAGGCAAATAAAAGAATTAAAAATAATA
66 AATATGAAAAAAAAAATAAAGAGAAAGAAATAATGTAAAGGCAAATAAAAGAACTAAAAATAACA
** * ***
4419294 TTTTGATATAAAAT-AGGTAACGAATGAATAGCGTAGGTACATATTGTGACAAAAAAGTTTTAGT
131 TTTTGATATAAAATGA-GTAACGAAAAAATAACGTAGGTACATATTGTGACAAAAAAAAATTAGT
4419358 ACCAACTTGGGAAAAAGAATTTTGTTTA
195 ACCAACTTGGGAAAAAGAATTTTGTTTA
4419386 G
1 G
4419387 GTACTAGTTT
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
221 38 0.19
222 3 0.01
223 94 0.47
224 66 0.33
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.25
Consensus pattern (222 bp):
GACATTGGGTGGGTCGAATCCAAATATTGTTGGAATTGCTAAATATTACAAAAGAAAAAGAAAGA
AATATGAAAAAAAAAATAAAGAGAAAGAAATAATGTAAAGGCAAATAAAAGAACTAAAAATAACA
TTTTGATATAAAATGAGTAACGAAAAAATAACGTAGGTACATATTGTGACAAAAAAAAATTAGTA
CCAACTTGGGAAAAAGAATTTTGTTTA
Found at i:4424211 original size:60 final size:60
Alignment explanation
Indices: 4424110--4424372 Score: 268
Period size: 60 Copynumber: 4.4 Consensus size: 60
4424100 ATTTGGGGTA
*
4424110 TTGGCCATCAAAT-GACTGACACATCCCTTTTCTCGAGAAAAAAATTTTAAATTTTTTTGGTG
1 TTGGCCATCAAATGGTC-GACAC--CCCTTTTCTCGAGAAAAAAATTTTAAATTTTTTTGGTG
* * *
4424172 TTGGCCATCAAATAGTCGACACCCCTTTTTCTCGA-AAAAAAA--TTATA-TTTTTGGGTG
1 TTGGCCATCAAATGGTCGACACCCC-TTTTCTCGAGAAAAAAATTTTAAATTTTTTTGGTG
* *** * *
4424229 TTGGTCATTTGATGGCCGACACCCCCTATTCTCGAG-AAAAAATTTTAAATTTTTTTGGTG
1 TTGGCCATCAAATGGTCGACA-CCCCTTTTCTCGAGAAAAAAATTTTAAATTTTTTTGGTG
** * * *
4424289 TCAGCCATCAAATGGTCGACATCCCCTTTGCTCGAGAAAAAAAATTCAAATTTTTTTGGTG
1 TTGGCCATCAAATGGTCGACA-CCCCTTTTCTCGAGAAAAAAATTTTAAATTTTTTTGGTG
** *
4424350 TTGGCCATGTAATGGCCGACACC
1 TTGGCCATCAAATGGTCGACACC
4424373 AACTTTTCCT
Statistics
Matches: 164, Mismatches: 29, Indels: 18
0.78 0.14 0.09
Matches are distributed among these distances:
57 38 0.23
58 8 0.05
59 4 0.02
60 47 0.29
61 47 0.29
62 18 0.11
63 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (60 bp):
TTGGCCATCAAATGGTCGACACCCCTTTTCTCGAGAAAAAAATTTTAAATTTTTTTGGTG
Found at i:4424213 original size:117 final size:115
Alignment explanation
Indices: 4424092--4424332 Score: 277
Period size: 117 Copynumber: 2.1 Consensus size: 115
4424082 GAGAATTTGT
* * *
4424092 AAAAAAAAATTTGGGGTATTGGCCATCAAATGACTGACACATCCCTTTTCTCGAGAAAAAAATTT
1 AAAAAAAAATTTGGGGTATTGGCCATCAAATGACCGACAC-CCCCTATTCTCGAG-AAAAAATTT
** *
4424157 TAAATTTTTTTGGTGTTGGCCATCAAATAGTCGACA-CCCCTTTTTCTCGAAA
64 TAAATTTTTTTGGTGTCAGCCATCAAATAGTCGACATCCCC-TTTGCTCGAAA
* * * * * *** *
4424209 AAAAATTATATTTTTGGGTGTTGGTCATTTGATGGCCGACACCCCCTATTCTCGAGAAAAAATTT
1 AAAAA--AAAATTTGGGGTATTGGCCATCAAATGACCGACACCCCCTATTCTCGAGAAAAAATTT
* *
4424274 TAAATTTTTTTGGTGTCAGCCATCAAATGGTCGACATCCCCTTTGCTCGAGA
64 TAAATTTTTTTGGTGTCAGCCATCAAATAGTCGACATCCCCTTTGCTCGAAA
4424326 AAAAAAA
1 AAAAAAA
4424333 TTCAAATTTT
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
115 1 0.01
117 61 0.59
118 16 0.16
119 25 0.24
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (115 bp):
AAAAAAAAATTTGGGGTATTGGCCATCAAATGACCGACACCCCCTATTCTCGAGAAAAAATTTTA
AATTTTTTTGGTGTCAGCCATCAAATAGTCGACATCCCCTTTGCTCGAAA
Done.