Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 13 of 216
Found at i:4190485 original size:30 final size:29
Alignment explanation
Indices: 4190423--4190491 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
4190413 TTTAATGTGC
* *
4190423 AATTGTATACATGAATTTTGATTTTGTGT
1 AATTTTATACATGAATTTTGATTTTGTCT
4190452 AATTTTATACATGGAATTTTGA-TTTGATCT
1 AATTTTATACAT-GAATTTTGATTTTG-TCT
4190482 AATTCTTATA
1 AATT-TTATA
4190492 AATTATTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 15 0.43
30 15 0.43
31 5 0.14
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (29 bp):
AATTTTATACATGAATTTTGATTTTGTCT
Found at i:4191214 original size:21 final size:21
Alignment explanation
Indices: 4191188--4191264 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 21
4191178 TCCAATTCAA
4191188 AATTTTTATGATTTTTTTTAT
1 AATTTTTATGATTTTTTTTAT
4191209 AATTTTTCTATGTTAATACTTTTTTTAT
1 AA-TTTT-TATG---AT--TTTTTTTAT
* *
4191237 AACTTTTATGACTTTTTTTAT
1 AATTTTTATGATTTTTTTTAT
4191258 -ATTTTTA
1 AATTTTTA
4191265 ATATGTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
20 6 0.13
21 11 0.24
22 4 0.09
23 5 0.11
26 6 0.13
27 3 0.07
28 11 0.24
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.66
Consensus pattern (21 bp):
AATTTTTATGATTTTTTTTAT
Found at i:4191273 original size:21 final size:20
Alignment explanation
Indices: 4191249--4191305 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
4191239 CTTTTATGAC
*
4191249 TTTTTTTATATTTTTAATATG
1 TTTTTTTA-ATTTTAAATATG
*
4191270 TTTTTATAAAATTTTAAATATG
1 TTTTT-T-TAATTTTAAATATG
*
4191292 TTTTATTAATTTTA
1 TTTTTTTAATTTTA
4191306 TAAAATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 16 0.53
23 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTTTTAATTTTAAATATG
Found at i:4191441 original size:19 final size:19
Alignment explanation
Indices: 4191376--4191462 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 19
4191366 TATTTTGATA
*
4191376 TTTT-TAATTTTT-TAATA
1 TTTTATAATTTTTCTAATT
* *
4191393 TTTAATAATTTTTCTGATT
1 TTTTATAATTTTTCTAATT
* *
4191412 TTTT-TGTATTTTTGTAATT
1 TTTTAT-AATTTTTCTAATT
4191431 TTTTATAA-TTTTCTACATT
1 TTTTATAATTTTTCTA-ATT
*
4191450 TTTCATAATTTTT
1 TTTTATAATTTTT
4191463 AAATATTTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
17 3 0.06
18 15 0.28
19 31 0.57
20 5 0.09
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTATAATTTTTCTAATT
Found at i:4191471 original size:19 final size:19
Alignment explanation
Indices: 4191427--4191471 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4191417 GTATTTTTGT
*
4191427 AATTTTTTATAATTTTCTA
1 AATTTTTCATAATTTTCTA
*
4191446 CATTTTTCATAATTTT-TA
1 AATTTTTCATAATTTTCTA
4191464 AATATTTT
1 AAT-TTTT
4191472 TATGGAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
AATTTTTCATAATTTTCTA
Found at i:4195050 original size:22 final size:22
Alignment explanation
Indices: 4195008--4195051 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4194998 ATAATATTTA
**
4195008 ATTTTGATAATAATACTCAAAT
1 ATTTTGATAATAATAAACAAAT
4195030 ATTTT-ATGAATAATAAACAAAT
1 ATTTTGAT-AATAATAAACAAAT
4195052 TCAAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.39
Consensus pattern (22 bp):
ATTTTGATAATAATAAACAAAT
Found at i:4196139 original size:29 final size:28
Alignment explanation
Indices: 4196107--4196170 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 28
4196097 TATAAGAATA
4196107 TAAAAA-A-TAATACGAATATAATATATATT
1 TAAAAATAGTAATA-GAAT-TAATA-ATATT
4196136 TAAAAATTATGTAATAGAATTAATAATATT
1 TAAAAA-TA-GTAATAGAATTAATAATATT
4196166 TAAAA
1 TAAAA
4196171 TATTATATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
29 6 0.19
30 10 0.32
31 6 0.19
32 4 0.13
33 5 0.16
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (28 bp):
TAAAAATAGTAATAGAATTAATAATATT
Found at i:4196167 original size:30 final size:34
Alignment explanation
Indices: 4196114--4196176 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 34
4196104 ATATAAAAAA
4196114 TAATACGAATATAATATATATTTAAAA-ATTATG
1 TAATACGAATATAATATATATTTAAAATATTATG
4196147 TAATA-GAAT-TAATA-ATATTTAAAATATTAT
1 TAATACGAATATAATATATATTTAAAATATTAT
4196177 ATTTAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 10 0.34
31 10 0.34
32 4 0.14
33 5 0.17
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (34 bp):
TAATACGAATATAATATATATTTAAAATATTATG
Found at i:4196494 original size:38 final size:38
Alignment explanation
Indices: 4196452--4196552 Score: 112
Period size: 47 Copynumber: 2.4 Consensus size: 38
4196442 TATTTAATTG
4196452 AAAATATTAAAAATATTTTACATATTAGATTAATTATT
1 AAAATATTAAAAATATTTTACATATTAGATTAATTATT
4196490 AAAATATTAAAAATATCTTGATTATTTTACATATTAGATTAATTATT
1 AAAATATT--AAA-A-----A-TATTTTACATATTAGATTAATTATT
*
4196537 AAGATATTAAAAATAT
1 AAAATATTAAAAATAT
4196553 CTGTTACGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
38 11 0.21
39 1 0.02
40 3 0.06
41 1 0.02
44 1 0.02
45 3 0.06
46 1 0.02
47 32 0.60
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.44
Consensus pattern (38 bp):
AAAATATTAAAAATATTTTACATATTAGATTAATTATT
Found at i:4196516 original size:47 final size:47
Alignment explanation
Indices: 4196465--4196554 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
4196455 ATATTAAAAA
4196465 TATTTTACATATTAGATTAATTATTAAAATATTAAAAATATCTTGAT
1 TATTTTACATATTAGATTAATTATTAAAATATTAAAAATATCTTGAT
*
4196512 TATTTTACATATTAGATTAATTATTAAGATATTAAAAATATCT
1 TATTTTACATATTAGATTAATTATTAAAATATTAAAAATATCT
4196555 GTTACGAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (47 bp):
TATTTTACATATTAGATTAATTATTAAAATATTAAAAATATCTTGAT
Found at i:4198570 original size:11 final size:11
Alignment explanation
Indices: 4198556--4198581 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4198546 ATTTTTTTCT
4198556 TGTTTTTATAG
1 TGTTTTTATAG
4198567 TGTTTTTATAG
1 TGTTTTTATAG
4198578 TGTT
1 TGTT
4198582 AATCGCCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.19, T:0.65
Consensus pattern (11 bp):
TGTTTTTATAG
Found at i:4199800 original size:24 final size:23
Alignment explanation
Indices: 4199750--4199820 Score: 124
Period size: 23 Copynumber: 3.0 Consensus size: 23
4199740 CTCACTTGTG
4199750 ATAAAGTTTATGTACTTTATTAC
1 ATAAAGTTTATGTACTTTATTAC
4199773 ATAAAGTTTATGTACTTTCATTAC
1 ATAAAGTTTATGTACTTT-ATTAC
*
4199797 ATAAAGCTTATGTACTTTATTAC
1 ATAAAGTTTATGTACTTTATTAC
4199820 A
1 A
4199821 AGGGATCTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 24 0.52
24 22 0.48
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.45
Consensus pattern (23 bp):
ATAAAGTTTATGTACTTTATTAC
Found at i:4209437 original size:15 final size:15
Alignment explanation
Indices: 4209417--4209447 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4209407 AGATGAGGTT
4209417 GAAGAAGAAGTAGGG
1 GAAGAAGAAGTAGGG
4209432 GAAGAAGAAGTAGGG
1 GAAGAAGAAGTAGGG
4209447 G
1 G
4209448 GTTTAGGAAG
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:0.45, C:0.00, G:0.48, T:0.06
Consensus pattern (15 bp):
GAAGAAGAAGTAGGG
Found at i:4212282 original size:23 final size:23
Alignment explanation
Indices: 4212234--4212284 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
4212224 GCCAATGACA
* *
4212234 AAAAAAAATATTATTAAATAATT
1 AAAAAAAATATAAATAAATAATT
*
4212257 AAAAAAACTATAAATAATATAA-T
1 AAAAAAAATATAAATAA-ATAATT
4212280 AAAAA
1 AAAAA
4212285 GGTTCCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAAAAAATATAAATAAATAATT
Found at i:4218339 original size:58 final size:59
Alignment explanation
Indices: 4218263--4218378 Score: 171
Period size: 59 Copynumber: 2.0 Consensus size: 59
4218253 AAAACAATTA
* * *
4218263 CAAATGGTATCAGCGTGCC-TCTTTATTGATAGGTCAAGTTTTTACAATTAAAGGGTTT
1 CAAATGGTATAAGCGTGCCTTCTTTATTGATAGGTCAAATTTTTACAATCAAAGGGTTT
* * *
4218321 CAAATGGTATAAGTGTGCCTTTTTTATTGATAGGTCAAATTTTTACAATCAAATGGTT
1 CAAATGGTATAAGCGTGCCTTCTTTATTGATAGGTCAAATTTTTACAATCAAAGGGTT
4218379 ATAAATAAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
58 17 0.33
59 34 0.67
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (59 bp):
CAAATGGTATAAGCGTGCCTTCTTTATTGATAGGTCAAATTTTTACAATCAAAGGGTTT
Found at i:4218622 original size:20 final size:22
Alignment explanation
Indices: 4218595--4218645 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
4218585 TCTTTTAGCT
4218595 TAAA-ATATTT-AATTTTAATA
1 TAAATATATTTAAATTTTAATA
*
4218615 -AAATATATTTAAATTTTGATA
1 TAAATATATTTAAATTTTAATA
*
4218636 TATATATATT
1 TAAATATATT
4218646 ATTAACATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 3 0.12
20 6 0.23
21 9 0.35
22 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TAAATATATTTAAATTTTAATA
Found at i:4219075 original size:104 final size:106
Alignment explanation
Indices: 4218956--4219149 Score: 254
Period size: 104 Copynumber: 1.8 Consensus size: 106
4218946 GGATTATTAA
* *
4218956 AATCTCCCTTTATAAATTTATTT-TCATAATAAAAATCAACATATAAATTTCATATAT-A-AATA
1 AATCTCCCTTTATAAATTTATTTCT-ATAATAAAAATAAACACAT-AATTTCA-ATATCAGAATA
4219018 AACT-TCTT-TTCAATATTTTTAAAAATGATTTTTTTACATTGT
63 AACTATCTTATTCAATATTTTTAAAAATGATTTTTTTACATTGT
* * * *
4219060 AATCTTCCTTTATAAATTTATTTCTATAATTAAAATAAACACATAATTTTAATATCAGAATGAAC
1 AATCTCCCTTTATAAATTTATTTCTATAATAAAAATAAACACATAATTTCAATATCAGAATAAAC
*
4219125 TAATTTTATTCAATATTTTTAAAAA
66 T-ATCTTATTCAATATTTTTAAAAA
4219150 AAAAGTTATT
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
102 4 0.05
103 7 0.09
104 45 0.58
105 1 0.01
106 3 0.04
107 17 0.22
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (106 bp):
AATCTCCCTTTATAAATTTATTTCTATAATAAAAATAAACACATAATTTCAATATCAGAATAAAC
TATCTTATTCAATATTTTTAAAAATGATTTTTTTACATTGT
Found at i:4219469 original size:30 final size:31
Alignment explanation
Indices: 4219416--4219473 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
4219406 TAAGCGAGTT
*
4219416 TGGTTAAATTTTTAGGTCTCATATTTTAAAC
1 TGGTCAAATTTTTAGGTCTCATATTTTAAAC
4219447 TGGTCAAATTTTTAGG-CTCATATTTTA
1 TGGTCAAATTTTTAGGTCTCATATTTTA
4219474 GACCAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (31 bp):
TGGTCAAATTTTTAGGTCTCATATTTTAAAC
Found at i:4220857 original size:15 final size:15
Alignment explanation
Indices: 4220839--4220871 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4220829 TTATTTTTTA
*
4220839 TTTTT-AAAATACTT
1 TTTTTAAAAATAATT
4220853 TTTTTAAAAATAATT
1 TTTTTAAAAATAATT
4220868 TTTT
1 TTTT
4220872 AGTGTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTTAAAAATAATT
Found at i:4221441 original size:21 final size:21
Alignment explanation
Indices: 4221415--4221458 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4221405 CCCTCTTTCA
*
4221415 ACTCCGACAAGAATAAAAATG
1 ACTCCGACAAGAACAAAAATG
**
4221436 ACTCCGACACTAACAAAAATG
1 ACTCCGACAAGAACAAAAATG
4221457 AC
1 AC
4221459 AATAGCAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.25, G:0.11, T:0.14
Consensus pattern (21 bp):
ACTCCGACAAGAACAAAAATG
Found at i:4221954 original size:66 final size:66
Alignment explanation
Indices: 4221877--4222010 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 66
4221867 CAACTGTTGA
*
4221877 AGAGGCCAGTTTGATCAAAAAGAAAAGACTGAAATTGGAAGAGATTGTAGTGTGTACTGGCATCA
1 AGAGGCCAGTTTGATCAAAAAGAAAAGACAGAAATTGGAAGAGATTGTAGTGTGTACTGGCATCA
4221942 T
66 T
**
4221943 AGAGGCCAGTTTGATCAGGAAGAAAAGACAGAAATTGGAAGAGATTGTAGTGTGTACTGGCATCA
1 AGAGGCCAGTTTGATCAAAAAGAAAAGACAGAAATTGGAAGAGATTGTAGTGTGTACTGGCATCA
4222008 T
66 T
4222009 AG
1 AG
4222011 TTTTTGCTTC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.37, C:0.10, G:0.29, T:0.23
Consensus pattern (66 bp):
AGAGGCCAGTTTGATCAAAAAGAAAAGACAGAAATTGGAAGAGATTGTAGTGTGTACTGGCATCA
T
Found at i:4225204 original size:21 final size:22
Alignment explanation
Indices: 4225171--4225214 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4225161 GATATTTTAT
*
4225171 TATAAAT-ATTTTAATTAATTA
1 TATAAATAATTTAAATTAATTA
* *
4225192 TATAATTAATTTAAATTATTTA
1 TATAAATAATTTAAATTAATTA
4225214 T
1 T
4225215 TAGATGTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATAAATAATTTAAATTAATTA
Found at i:4225248 original size:6 final size:6
Alignment explanation
Indices: 4225239--4225281 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
4225229 TTTATAATTA
*
4225239 TTATAT TTATAT TTATAT TCTAT-T ATATAT TTAATAT TTATAT
1 TTATAT TTATAT TTATAT T-TATAT TTATAT TT-ATAT TTATAT
4225282 GAATATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 3 0.09
6 20 0.62
7 9 0.28
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (6 bp):
TTATAT
Found at i:4225945 original size:18 final size:20
Alignment explanation
Indices: 4225903--4225945 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4225893 GAGACAAATA
4225903 TAAAACTAAACACACCATAC
1 TAAAACTAAACACACCATAC
* *
4225923 TAAAAGTAAATAC-CCAT-C
1 TAAAACTAAACACACCATAC
4225941 TAAAA
1 TAAAA
4225946 ATCCTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 4 0.19
20 11 0.52
ACGTcount: A:0.56, C:0.23, G:0.02, T:0.19
Consensus pattern (20 bp):
TAAAACTAAACACACCATAC
Found at i:4230620 original size:23 final size:23
Alignment explanation
Indices: 4230593--4230652 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
4230583 TCATATGTTT
*
4230593 ATGAATATGTTCGTTTAATGTT-C
1 ATGAATATGTTCGTTTAA-GTTAA
* * *
4230616 GTGAAAATGTTCGATTAAGTTAA
1 ATGAATATGTTCGTTTAAGTTAA
4230639 ATGAATATGTTCGT
1 ATGAATATGTTCGT
4230653 GAACATAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
22 3 0.10
23 26 0.90
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.42
Consensus pattern (23 bp):
ATGAATATGTTCGTTTAAGTTAA
Found at i:4231753 original size:17 final size:18
Alignment explanation
Indices: 4231731--4231778 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
4231721 AAAATTGTAA
4231731 AAATATATAAAAGAAT-T
1 AAATATATAAAAGAATAT
* * *
4231748 AAATATTTATAATGTATAT
1 AAATATATA-AAAGAATAT
4231767 AAATATATAAAA
1 AAATATATAAAA
4231779 CAACTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (18 bp):
AAATATATAAAAGAATAT
Found at i:4232602 original size:20 final size:20
Alignment explanation
Indices: 4232579--4232616 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4232569 ATTTATGAAC
4232579 ATTTT-TAATAATTTTTATTT
1 ATTTTATAA-AATTTTTATTT
4232599 ATTTTATAAAATTTTTAT
1 ATTTTATAAAATTTTTAT
4232617 GAATTACATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTATAAAATTTTTATTT
Found at i:4233531 original size:24 final size:23
Alignment explanation
Indices: 4233504--4233557 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
4233494 ATTAAACACC
4233504 AAAAAATTATTTTAATAAAAAAATA
1 AAAAAATTATTTTAA-AAAAAAA-A
* *
4233529 AAAAACAGTATTTTAAAAATAAAA
1 AAAAA-ATTATTTTAAAAAAAAAA
4233553 AAAAA
1 AAAAA
4233558 TAAAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 6 0.23
25 11 0.42
26 9 0.35
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (23 bp):
AAAAAATTATTTTAAAAAAAAAA
Found at i:4233533 original size:26 final size:24
Alignment explanation
Indices: 4233504--4233557 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
4233494 ATTAAACACC
*
4233504 AAAAAATTATTTTAATAAAAAAATAA
1 AAAAAAGTATTTTAA-AAAAAAA-AA
* *
4233530 AAAACAGTATTTTAAAAATAAAAA
1 AAAAAAGTATTTTAAAAAAAAAAA
4233554 AAAA
1 AAAA
4233558 TAAAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.24
25 6 0.24
26 13 0.52
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAAAAGTATTTTAAAAAAAAAAA
Found at i:4233562 original size:7 final size:7
Alignment explanation
Indices: 4233552--4233578 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4233542 TAAAAATAAA
4233552 AAAAAAT
1 AAAAAAT
4233559 AAAAAAT
1 AAAAAAT
4233566 AAAAAAT
1 AAAAAAT
4233573 AAAAAA
1 AAAAAA
4233579 ATTTATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:4244069 original size:38 final size:39
Alignment explanation
Indices: 4244017--4244097 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
4244007 TTTTTTGCTA
** *
4244017 ATTTGGATTTTTTAAAAT-CAGATTATTGCGTATAATGT
1 ATTTGGATACTTTAAAATGCAGATTATTGCATATAATGT
** * *
4244055 ATTTGGATACTTTAATCTGCTGATTATTGCATATAATTT
1 ATTTGGATACTTTAAAATGCAGATTATTGCATATAATGT
4244094 ATTT
1 ATTT
4244098 TGGTTTTTAG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
38 14 0.40
39 21 0.60
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (39 bp):
ATTTGGATACTTTAAAATGCAGATTATTGCATATAATGT
Found at i:4257111 original size:31 final size:28
Alignment explanation
Indices: 4257037--4257117 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
4257027 TAAGTCCTTG
* *
4257037 TATTTTTTATAAATTTAAAATTTAGTCAC
1 TATTTTTT-TAATTTTAAAATTTAATCAC
*
4257066 TATTTTTTTAATTTTAAGAATTTAATCTC
1 TATTTTTTTAATTTTAA-AATTTAATCAC
*
4257095 TATATTTTTTAGATTTTCAAATT
1 TAT-TTTTTTA-ATTTTAAAATT
4257118 CAGGTCCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 8 0.18
29 20 0.44
30 11 0.24
31 6 0.13
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (28 bp):
TATTTTTTTAATTTTAAAATTTAATCAC
Found at i:4260996 original size:12 final size:12
Alignment explanation
Indices: 4260975--4261013 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
4260965 GACCTGCCCG
*
4260975 TATTAATTTTTA
1 TATTATTTTTTA
4260987 TATTATTTTTTA
1 TATTATTTTTTA
* *
4260999 TATAATTTTTAA
1 TATTATTTTTTA
4261011 TAT
1 TAT
4261014 ATATATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:4270385 original size:16 final size:16
Alignment explanation
Indices: 4270364--4270398 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
4270354 TTCGCTGTAT
4270364 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
4270380 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
4270396 TGG
1 TGG
4270399 CAAATCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.06, G:0.40, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:4270471 original size:44 final size:45
Alignment explanation
Indices: 4270376--4270472 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 45
4270366 GAATAGAGGC
* *
4270376 GTAATGGAATAGAGGCGTAATGGCAAATCAATTGTTTGGTTGAAT
1 GTAATAGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAAT
* *
4270421 GTAATAGAATAGAGGCGTAATAG-TAATC-TTGTGTTTGGTTGAAT
1 GTAATAGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAAT
4270465 AG-AATAGA
1 -GTAATAGA
4270473 GGTGTAATAG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
43 1 0.02
44 23 0.50
45 22 0.48
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (45 bp):
GTAATAGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAAT
Found at i:4270743 original size:120 final size:119
Alignment explanation
Indices: 4270609--4270930 Score: 583
Period size: 120 Copynumber: 2.7 Consensus size: 119
4270599 TTAATCATAT
*
4270609 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
4270674 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTAAATGAATTTAATAAAATCATAATATATAATACTAT-AAATATAA
4270729 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA-T
*
4270794 TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAATATAA
65 TAAATATTCTTAAATGAATTTAATAAAATCATAATATATAATACTATAAATATAA
*
4270849 TTTATAATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
4270913 AAATATTCTTAAATGAAT
66 AAATATTCTTAAATGAAT
4270931 ACTTTTAAAT
Statistics
Matches: 197, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
118 20 0.10
119 30 0.15
120 101 0.51
121 46 0.23
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (119 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTAAATGAATTTAATAAAATCATAATATATAATACTATAAATATAA
Found at i:4270838 original size:21 final size:21
Alignment explanation
Indices: 4270814--4270857 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4270804 TAAATGAATT
4270814 TACTA-AAATCATAATATATAA
1 TACTATAAAT-ATAATATATAA
*
4270835 TACTATAAATATAATTTATAA
1 TACTATAAATATAATATATAA
4270856 TA
1 TA
4270858 ATTATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
TACTATAAATATAATATATAA
Found at i:4270909 original size:17 final size:17
Alignment explanation
Indices: 4270869--4270902 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4270859 TTATTATTAA
4270869 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4270886 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4270903 TCTTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4273559 original size:38 final size:34
Alignment explanation
Indices: 4273500--4273586 Score: 95
Period size: 38 Copynumber: 2.4 Consensus size: 34
4273490 GCAAATCGAC
*
4273500 AGAAAAGAAAAGAAGAGAAACAAAGGG-AGCAAAA
1 AGAAAAGAAAAGAAAAGAAACAAAGGGCAG-AAAA
* *
4273534 CGGGAGAAAAGAAAAGAAAATAAACAGAGGGCAGAAAA
1 ----AGAAAAGAAAAGAAAAGAAACAAAGGGCAGAAAA
4273572 AGAAAAGAAAAGAAA
1 AGAAAAGAAAAGAAA
4273587 TGGAGGGAGC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
34 15 0.33
38 28 0.62
39 2 0.04
ACGTcount: A:0.67, C:0.06, G:0.26, T:0.01
Consensus pattern (34 bp):
AGAAAAGAAAAGAAAAGAAACAAAGGGCAGAAAA
Found at i:4307225 original size:103 final size:103
Alignment explanation
Indices: 4307088--4307454 Score: 544
Period size: 103 Copynumber: 3.6 Consensus size: 103
4307078 TTGCATATAA
** *
4307088 AGGGGTTGCTGTGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
4307153 TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
66 TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
4307191 AGGGGTTGCTAAGTGCTGATTCCCCTAC-CTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AGGGGTTGCTAAGTGCTGATTCCCCTACTC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
* *
4307255 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCTG
65 TTAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
*
4307294 AGGGGTTGCTAAGTGCTGATTCCCCTAC-CTATTTGGTGGTTGCTAAGTGCTGATTCCACCGCAT
1 AGGGGTTGCTAAGTGCTGATTCCCCTACTC-A-TTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
* * *
4307358 CTGAAATGT-GAAGGGGGTTGCTAAGTGCTGATTCCCCCA
64 TTTAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
** * * * *
4307397 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGG-TGCTAAGTGCGGAATCCACC
1 AGGGGTTGCTAAGTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACC
4307455 AACAACGGTT
Statistics
Matches: 244, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
101 18 0.07
102 8 0.03
103 179 0.73
104 39 0.16
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:4307305 original size:27 final size:27
Alignment explanation
Indices: 4307268--4307319 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
4307258 AATGTGAAAG
4307268 GGGGTTGCTAAGTGCTGATTCCCCTGA
1 GGGGTTGCTAAGTGCTGATTCCCCTGA
4307295 GGGGTTGCTAAGTGCTGATTCCCCT
1 GGGGTTGCTAAGTGCTGATTCCCCT
4307320 ACCTATTTGG
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:0.13, C:0.23, G:0.33, T:0.31
Consensus pattern (27 bp):
GGGGTTGCTAAGTGCTGATTCCCCTGA
Found at i:4309408 original size:10 final size:11
Alignment explanation
Indices: 4309391--4309442 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
4309381 GGCCCATTTT
4309391 TATTTTAAAAA
1 TATTTTAAAAA
4309402 T-TTTT-AAAA
1 TATTTTAAAAA
**
4309411 -ATTAAAAAAA
1 TATTTTAAAAA
4309421 GTATTTTAAAAA
1 -TATTTTAAAAA
4309433 TATTTTAAAA
1 TATTTTAAAA
4309443 TTAAAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
9 6 0.18
10 8 0.24
11 11 0.33
12 8 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:4309457 original size:8 final size:9
Alignment explanation
Indices: 4309439--4309567 Score: 62
Period size: 9 Copynumber: 13.6 Consensus size: 9
4309429 AAAATATTTT
4309439 AAAATTAAA
1 AAAATTAAA
4309448 AAAATTAAA
1 AAAATTAAA
***
4309457 AAAAGTATTTT
1 AAAA-T-TAAA
4309468 AAAATTAAA
1 AAAATTAAA
4309477 AAAATTAAAA
1 AAAATT-AAA
4309487 AAAGTATTTTAAA
1 AAA--A--TTAAA
* **
4309500 AATATTTTA
1 AAAATTAAA
*
4309509 AAATTTAAA
1 AAAATTAAA
4309518 AAAATTAAA
1 AAAATTAAA
*
4309527 AAAAGTAAA
1 AAAATTAAA
**
4309536 AGTATGTAAA
1 AAAAT-TAAA
* **
4309546 AATATT-TT
1 AAAATTAAA
4309554 AAAATTAAA
1 AAAATTAAA
4309563 AAAAT
1 AAAAT
4309568 AAATATATTT
Statistics
Matches: 87, Mismatches: 24, Indels: 18
0.67 0.19 0.14
Matches are distributed among these distances:
8 5 0.06
9 52 0.60
10 16 0.18
11 6 0.07
12 1 0.01
13 5 0.06
14 2 0.02
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAATTAAA
Found at i:4309460 original size:29 final size:29
Alignment explanation
Indices: 4309428--4309500 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
4309418 AAAGTATTTT
4309428 AAAAA-TATTTTAAAATTAAAAAAATTAA
1 AAAAAGTATTTTAAAATTAAAAAAATTAA
4309456 AAAAAGTATTTTAAAATTAAAAAAATTAA
1 AAAAAGTATTTTAAAATTAAAAAAATTAA
4309485 AAAAAGTATTTTAAAA
1 AAAAAGTATTTTAAAA
4309501 ATATTTTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 5 0.11
29 39 0.89
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAAAGTATTTTAAAATTAAAAAAATTAA
Found at i:4309547 original size:69 final size:66
Alignment explanation
Indices: 4309407--4309533 Score: 218
Period size: 69 Copynumber: 1.9 Consensus size: 66
4309397 AAAAATTTTT
4309407 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAAGTA---TAAAA
4309472 TTAA
63 TTAA
4309476 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAATTAAAAAAAGTA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA-TTAAAAAAATTAAAAAAAGTA
4309534 AAAGTATGTA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
69 36 0.63
70 21 0.37
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (66 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAAGTATAAAATTA
A
Found at i:4309565 original size:29 final size:28
Alignment explanation
Indices: 4309462--4309567 Score: 63
Period size: 29 Copynumber: 3.7 Consensus size: 28
4309452 TTAAAAAAAG
*
4309462 TATTTTAAAATTAAAAAAATTAAAAAAA
1 TATTTTAAAATTAAAAAAATTATAAAAA
***
4309490 GTATTTTAAAAATATTTTAAAATT-TAAAAA
1 -TATTTT-AAAAT-TAAAAAAATTATAAAAA
* ** * ** *
4309520 AATTAAAAAAAGTAAAAGTA-TGTAAAAA
1 TATT-TTAAAATTAAAAAAATTATAAAAA
4309548 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTAAAAAAAT
4309568 AAATATATTT
Statistics
Matches: 53, Mismatches: 19, Indels: 11
0.64 0.23 0.13
Matches are distributed among these distances:
27 11 0.21
28 12 0.23
29 13 0.25
30 10 0.19
31 7 0.13
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (28 bp):
TATTTTAAAATTAAAAAAATTATAAAAA
Found at i:4314862 original size:30 final size:30
Alignment explanation
Indices: 4314821--4314885 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
4314811 ATTTCCGAGC
*
4314821 TTGGGGACAAAAATGTAATTATGCAAAAGT
1 TTGGGGACAAAAATGTAATTATGCAAAACT
* * * *
4314851 TTGGGGGCAAAATTGTAATTTTTCAAAACT
1 TTGGGGACAAAAATGTAATTATGCAAAACT
4314881 TTGGG
1 TTGGG
4314886 TGGAGGATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.32
Consensus pattern (30 bp):
TTGGGGACAAAAATGTAATTATGCAAAACT
Found at i:4315253 original size:33 final size:32
Alignment explanation
Indices: 4315216--4315360 Score: 104
Period size: 33 Copynumber: 4.3 Consensus size: 32
4315206 GGGTTGTTGT
4315216 GTGCTGATTCCCCTATTCATTGGTGGTTGCTAA
1 GTGCTGATTCCCCTA-TCATTGGTGGTTGCTAA
* *
4315249 GTGCTGATTCCACCGTATTTTAAATGTGGAAGGGGTTGCTAA
1 GTGCTGATTCC-CC-TA---T-CAT-T-G--GTGGTTGCTAA
*
4315291 GTGCTGATTCCCC---GA--GG-GGTTGCTAA
1 GTGCTGATTCCCCTATCATTGGTGGTTGCTAA
*
4315317 GTGCTGATTCCCCTACCTATTGGTGGTTGCTAA
1 GTGCTGATTCCCCTATC-ATTGGTGGTTGCTAA
4315350 GTGCTGATTCC
1 GTGCTGATTCC
4315361 ACCGTATTTT
Statistics
Matches: 92, Mismatches: 4, Indels: 32
0.72 0.03 0.25
Matches are distributed among these distances:
26 22 0.24
27 1 0.01
29 1 0.01
30 1 0.01
32 2 0.02
33 32 0.35
34 2 0.02
35 2 0.02
37 2 0.02
38 2 0.02
39 1 0.01
40 1 0.01
41 2 0.02
42 21 0.23
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.34
Consensus pattern (32 bp):
GTGCTGATTCCCCTATCATTGGTGGTTGCTAA
Found at i:4315315 original size:26 final size:26
Alignment explanation
Indices: 4315279--4315329 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
4315269 TAAATGTGGA
4315279 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
4315305 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
4315330 TACCTATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.24, G:0.33, T:0.27
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:4315383 original size:101 final size:101
Alignment explanation
Indices: 4315216--4315568 Score: 514
Period size: 101 Copynumber: 3.5 Consensus size: 101
4315206 GGGTTGTTGT
* *
4315216 GTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGGAAG
1 GTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAG
4315281 GGGTTGCTAAGTGCTGATTCCCCGAGGGGTTGCTAA
66 GGGTTGCTAAGTGCTGATTCCCCGAGGGGTTGCTAA
4315317 GTGCTGATTCCCCTAC-CTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAA
1 GTGCTGATTCCCCTACTC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAA
4315381 GGGGGTTGCTAAGTGCTGATTCCCCTGAGGGGTTGCTAA
65 -GGGGTTGCTAAGTGCTGATTCCCC-GAGGGGTTGCTAA
* * *
4315420 GTGCTGATTCCCCTAC-CTATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAA
1 GTGCTGATTCCCCTACTC-A-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAA
* * **
4315484 GGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTGT
64 AGGGGTTGCTAAGTGCTGATT-CCCCGAGGGGTTGCTAA
* * * *
4315523 GTGCTGATTCCCCGATTCATTGGTGG-TGCTAAGTGCGGAATCCACC
1 GTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACC
4315569 AACAACGGTT
Statistics
Matches: 233, Mismatches: 13, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
100 1 0.00
101 78 0.33
102 31 0.13
103 77 0.33
104 46 0.20
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (101 bp):
GTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAG
GGGTTGCTAAGTGCTGATTCCCCGAGGGGTTGCTAA
Found at i:4315419 original size:27 final size:27
Alignment explanation
Indices: 4315382--4315433 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
4315372 AATGTGAAAG
4315382 GGGGTTGCTAAGTGCTGATTCCCCTGA
1 GGGGTTGCTAAGTGCTGATTCCCCTGA
4315409 GGGGTTGCTAAGTGCTGATTCCCCT
1 GGGGTTGCTAAGTGCTGATTCCCCT
4315434 ACCTATTTGG
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:0.13, C:0.23, G:0.33, T:0.31
Consensus pattern (27 bp):
GGGGTTGCTAAGTGCTGATTCCCCTGA
Found at i:4315486 original size:103 final size:101
Alignment explanation
Indices: 4315216--4315568 Score: 516
Period size: 103 Copynumber: 3.5 Consensus size: 101
4315206 GGGTTGTTGT
*
4315216 GTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGGAA-
1 GTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGT-GAAG
4315280 GGGGTTGCTAAGTGCTGATTCCCCGAGGGGTTGCTAA
65 GGGGTTGCTAAGTGCTGATTCCCCGAGGGGTTGCTAA
4315317 GTGCTGATTCCCCTAC-CTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAA
1 GTGCTGATTCCCCTACTC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG-AA
4315381 GGGGGTTGCTAAGTGCTGATTCCCCTGAGGGGTTGCTAA
64 GGGGGTTGCTAAGTGCTGATTCCCC-GAGGGGTTGCTAA
* * *
4315420 GTGCTGATTCCCCTAC-CTATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAA
1 GTGCTGATTCCCCTACTC-A-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAA
* **
4315484 GGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTGT
64 GGGGGTTGCTAAGTGCTGATT-CCCCGAGGGGTTGCTAA
* * * *
4315523 GTGCTGATTCCCCGATTCATTGGTGG-TGCTAAGTGCGGAATCCACC
1 GTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACC
4315569 AACAACGGTT
Statistics
Matches: 234, Mismatches: 11, Indels: 14
0.90 0.04 0.05
Matches are distributed among these distances:
100 2 0.01
101 77 0.33
102 31 0.13
103 80 0.34
104 44 0.19
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (101 bp):
GTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGG
GGGTTGCTAAGTGCTGATTCCCCGAGGGGTTGCTAA
Found at i:4325795 original size:86 final size:86
Alignment explanation
Indices: 4325650--4325822 Score: 319
Period size: 86 Copynumber: 2.0 Consensus size: 86
4325640 CATGGTGTAG
4325650 TGTCTTGGTCTTTGTTTTGTGAAGTAAACTAGGGGACATTATATAATTGTTTTAGGTGGGGGGAT
1 TGTCTTGGTCTTTGTTTTGTGAAGTAAACTAGGGGACATTATATAATTGTTTTAGGTGGGGGGAT
4325715 TTGGACTGCTCTTGGTCAGCC
66 TTGGACTGCTCTTGGTCAGCC
* *
4325736 TGTCTTGGTCTTTGTTTTGTGAAGTAAACTAGTGGCCATTATATAATTGTTTTAGGTGGGGGGAT
1 TGTCTTGGTCTTTGTTTTGTGAAGTAAACTAGGGGACATTATATAATTGTTTTAGGTGGGGGGAT
*
4325801 TTGGACTGTTCTTGGTCAGCC
66 TTGGACTGCTCTTGGTCAGCC
4325822 T
1 T
4325823 AAATACAATC
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.41
Consensus pattern (86 bp):
TGTCTTGGTCTTTGTTTTGTGAAGTAAACTAGGGGACATTATATAATTGTTTTAGGTGGGGGGAT
TTGGACTGCTCTTGGTCAGCC
Found at i:4328939 original size:49 final size:49
Alignment explanation
Indices: 4328862--4328958 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
4328852 GTATGTCTGT
* * *
4328862 TTTATGGTTTATGTTTAGAGTTCGTGGCTG-CCTCTTCTAACAATGTTGC
1 TTTATGATTTATGTTTAGAATTCATGGCTGTCC-CTTCTAACAATGTTGC
*
4328911 TTTATGATTTATGTTTGGAATTCATGGCTGTCCCTTCTAACAATGTTG
1 TTTATGATTTATGTTTAGAATTCATGGCTGTCCCTTCTAACAATGTTG
4328959 TCTTCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 41 0.95
50 2 0.05
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (49 bp):
TTTATGATTTATGTTTAGAATTCATGGCTGTCCCTTCTAACAATGTTGC
Found at i:4330985 original size:23 final size:23
Alignment explanation
Indices: 4330955--4330998 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
4330945 TAGGTTAATT
4330955 TTGATGAGATTGTATGAAAGTAC
1 TTGATGAGATTGTATGAAAGTAC
4330978 TTGATGAGATTGTATGAAAGT
1 TTGATGAGATTGTATGAAAGT
4330999 GCGTCCAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.36
Consensus pattern (23 bp):
TTGATGAGATTGTATGAAAGTAC
Found at i:4339135 original size:14 final size:14
Alignment explanation
Indices: 4339093--4339135 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
4339083 CTTATAATAG
4339093 GATTACTGGTCAAA
1 GATTACTGGTCAAA
*
4339107 GATT--T-GTCTAA
1 GATTACTGGTCAAA
4339118 GATTACTGGTCAAA
1 GATTACTGGTCAAA
4339132 GATT
1 GATT
4339136 TCATGACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 9 0.38
12 1 0.04
13 1 0.04
14 13 0.54
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (14 bp):
GATTACTGGTCAAA
Found at i:4340299 original size:57 final size:56
Alignment explanation
Indices: 4340191--4340325 Score: 164
Period size: 57 Copynumber: 2.4 Consensus size: 56
4340181 TGCTGGAAAT
* * * * *
4340191 TTGAAGAAATGGTTGTCCAAAATGACTGTTGTTTTCATAATATATTTTGTCTGACA
1 TTGAAGAAATGGTTGTCCAAAATGACTGCTATTTCCAGAATATATTATGTCTGACA
* * *
4340247 TATGAAGAAATGATTGTCTAAAATGGCTGCTATTTCCAGAACT-TATTATGTCTGACA
1 T-TGAAGAAATGGTTGTCCAAAATGACTGCTATTTCCAGAA-TATATTATGTCTGACA
*
4340304 TTTAAGAAATGGTTGTCCAAAA
1 TTGAAGAAATGGTTGTCCAAAA
4340326 CGACCGTCGT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
56 19 0.29
57 46 0.70
58 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (56 bp):
TTGAAGAAATGGTTGTCCAAAATGACTGCTATTTCCAGAATATATTATGTCTGACA
Found at i:4340349 original size:56 final size:56
Alignment explanation
Indices: 4340189--4340356 Score: 162
Period size: 57 Copynumber: 2.9 Consensus size: 56
4340179 CGTGCTGGAA
* * * *
4340189 ATTTGAAGAAATGGTTGTCCAAAATGACTGTTGTTTTCATAATATATTTTGTCTGAC
1 ATTT-AAGAAATGGTTGTCCAAAATGACTGTCGTTTTCGTAATTTATTATGTCTGAC
* * * * *
4340246 ATATGAAGAAATGATTGTCTAAAATGGCTG-C-TATTTCCAG-AACTTATTATGTCTGAC
1 AT-TTAAGAAATGGTTGTCCAAAATGACTGTCGT-TTT-C-GTAATTTATTATGTCTGAC
* *
4340303 ATTTAAGAAATGGTTGTCCAAAACGACCGTCGTTTTCGTAATTTATTATTGTCT
1 ATTTAAGAAATGGTTGTCCAAAATGACTGTCGTTTTCGTAATTTATTA-TGTCT
4340357 AAAATGGCTG
Statistics
Matches: 87, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
55 2 0.02
56 33 0.38
57 50 0.57
58 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (56 bp):
ATTTAAGAAATGGTTGTCCAAAATGACTGTCGTTTTCGTAATTTATTATGTCTGAC
Found at i:4341579 original size:6 final size:6
Alignment explanation
Indices: 4341570--4341598 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4341560 AAATAAAATT
4341570 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
4341599 GTCTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:4341651 original size:9 final size:9
Alignment explanation
Indices: 4341637--4341667 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
4341627 GTAGTGATTC
4341637 AATTCGGTT
1 AATTCGGTT
*
4341646 AATTCGGGT
1 AATTCGGTT
4341655 AATTCGGTT
1 AATTCGGTT
4341664 AATT
1 AATT
4341668 TTTAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:4343179 original size:24 final size:25
Alignment explanation
Indices: 4343125--4343184 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
4343115 ATCATACATC
*
4343125 ATTATTTTTAAATCTATTATGTATGC
1 ATTA-TTTTAAATCTATTATGTATGA
* *
4343151 A-TATTTTAATTGTATTATGTAT-A
1 ATTATTTTAAATCTATTATGTATGA
4343174 ATTATTTTAAA
1 ATTATTTTAAA
4343185 ATTCATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 25 0.86
25 2 0.07
26 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (25 bp):
ATTATTTTAAATCTATTATGTATGA
Found at i:4349785 original size:23 final size:21
Alignment explanation
Indices: 4349757--4349802 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
4349747 TTCGTCGATT
* *
4349757 TAATAAGTTCGATAAAGATATAA
1 TAATAAATTC-ATAAA-AAATAA
4349780 TAATAAATTCATAAAAAATAA
1 TAATAAATTCATAAAAAATAA
4349801 TA
1 TA
4349803 TTTAAGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 5 0.24
23 9 0.43
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (21 bp):
TAATAAATTCATAAAAAATAA
Found at i:4350946 original size:57 final size:56
Alignment explanation
Indices: 4350793--4350946 Score: 159
Period size: 56 Copynumber: 2.7 Consensus size: 56
4350783 TGTTGTTTTC
* *
4350793 ATCTGACATATGAAGAAATGATTGTCTAAAATGGCTGCTGTTTCCAGAACTTATTAT
1 ATCTGACATATGAAGAAATGGTTGTCTAAAAT-GCTGTTGTTTCCAGAACTTATTAT
* * * * * * *
4350850 ATCTGATAT-TTAAGAAATGGTTGTCCT-TAATGACCGTTGTTTTCATAATTTATTAT
1 ATCTGACATATGAAGAAATGGTTGT-CTAAAATG-CTGTTGTTTCCAGAACTTATTAT
* *
4350906 GTCTGACATACGAAGAAATGGTTGTCTAAAATAGCTGTTGT
1 ATCTGACATATGAAGAAATGGTTGTCTAAAAT-GCTGTTGT
4350947 ATTATGTGTG
Statistics
Matches: 77, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
55 1 0.01
56 43 0.56
57 32 0.42
58 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.38
Consensus pattern (56 bp):
ATCTGACATATGAAGAAATGGTTGTCTAAAATGCTGTTGTTTCCAGAACTTATTAT
Found at i:4353199 original size:57 final size:56
Alignment explanation
Indices: 4353120--4353315 Score: 208
Period size: 57 Copynumber: 3.6 Consensus size: 56
4353110 TGTTGGATAA
* *
4353120 ATGAAGAAATGGTTGTCCAAAATGACTGTTGTTTTCATAATATATTTTGTCTGACAT
1 ATGAAGAAATGGTTGTCCAAAATGGCTGTTGTTTTCATAAT-TATTATGTCTGACAT
* * * * * *
4353177 ATGAAGATATGATTGTCTAAAATGGCTGCTGTTTCCAGAACTTATTATGTCTGACAT
1 ATGAAGAAATGGTTGTCCAAAATGGCTGTTGTTTTCATAA-TTATTATGTCTGACAT
* * * *
4353234 -TTAAGAAATGGTTGTCCAAAACGGCCGTTGTTTTCAT-A--A-T-T-TCCGACAT
1 ATGAAGAAATGGTTGTCCAAAATGGCTGTTGTTTTCATAATTATTATGTCTGACAT
*
4353283 ATGAAGAAATGGTTGTCTAAAATGGCTGTTGTT
1 ATGAAGAAATGGTTGTCCAAAATGGCTGTTGTT
4353316 CGGTTATGGT
Statistics
Matches: 115, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
49 7 0.06
50 29 0.25
51 1 0.01
52 1 0.01
55 1 0.01
56 28 0.24
57 47 0.41
58 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (56 bp):
ATGAAGAAATGGTTGTCCAAAATGGCTGTTGTTTTCATAATTATTATGTCTGACAT
Found at i:4353510 original size:12 final size:12
Alignment explanation
Indices: 4353493--4353524 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
4353483 TTGGTTTAAT
4353493 TCGAATATGAAC
1 TCGAATATGAAC
4353505 TCGAATATGAAC
1 TCGAATATGAAC
4353517 TCGAATAT
1 TCGAATAT
4353525 TACACAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (12 bp):
TCGAATATGAAC
Found at i:4361740 original size:18 final size:17
Alignment explanation
Indices: 4361678--4361755 Score: 70
Period size: 17 Copynumber: 4.6 Consensus size: 17
4361668 CAATAATAAT
*
4361678 TTTTGAAAACACGAAGA
1 TTTTGAAAACACGAAAA
4361695 TTTTCG-AAACACG-AAA
1 TTTT-GAAAACACGAAAA
****
4361711 TTTTTTTGACACGAAAAA
1 TTTTGAAAACACG-AAAA
4361729 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
*
4361746 TTTCGAAAAC
1 TTTTGAAAAC
4361756 TTGAATTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
16 11 0.23
17 24 0.50
18 13 0.27
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:4361812 original size:19 final size:19
Alignment explanation
Indices: 4361790--4361889 Score: 71
Period size: 19 Copynumber: 5.1 Consensus size: 19
4361780 TTTTTTTAAA
4361790 AAAACACGAGAATTTTTTG
1 AAAACACGAGAATTTTTTG
**
4361809 AAAACACGAAAGCACGAAAATTTTG
1 AAAACAC----G-A-GAATTTTTTG
*
4361834 AAAACAC-AGGAATTTTTTT
1 AAAACACGA-GAATTTTTTG
*
4361853 AAAACACGA-AAATTTTTG
1 AAAACACGAGAATTTTTTG
*
4361871 -AAACATGAGAATTTTTTG
1 AAAACACGAGAATTTTTTG
4361889 A
1 A
4361890 CACGAAAATT
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
17 7 0.11
18 15 0.24
19 22 0.35
20 1 0.02
23 1 0.02
24 1 0.02
25 15 0.24
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (19 bp):
AAAACACGAGAATTTTTTG
Found at i:4361868 original size:17 final size:17
Alignment explanation
Indices: 4361821--4362099 Score: 83
Period size: 17 Copynumber: 16.4 Consensus size: 17
4361811 AACACGAAAG
*
4361821 CACGAAAATTTTGAAAA
1 CACGAAAATTTTTAAAA
**
4361838 CACAGGAATTTTTTTAAAA
1 CAC--GAAAATTTTTAAAA
*
4361857 CACGAAAATTTTTGAAA
1 CACGAAAATTTTTAAAA
* * **
4361874 CATGAGAATTTTT-TGA
1 CACGAAAATTTTTAAAA
**
4361890 CACGAAAATTTCGAAAA
1 CACGAAAATTTTTAAAA
* **
4361907 CATGAATTTTTTTTTAAAA
1 CACGAA--AATTTTTAAAA
* * *
4361926 TACG-AATTTTTTTAAA
1 CACGAAAATTTTTAAAA
* *
4361942 -A--AACA---TGAAAA
1 CACGAAAATTTTTAAAA
* *
4361953 CATGAAAATTTTGAAAA
1 CACGAAAATTTTTAAAA
*
4361970 CACGAAAATTTTTGAAA
1 CACGAAAATTTTTAAAA
* *
4361987 CATGAGAATTTTTTGAAAA
1 CACGA-AAATTTTT-AAAA
*
4362006 CACGAAAAAAATTTT-AAA
1 CACG--AAAATTTTTAAAA
* **
4362024 CATGGGAATTTTTGAAAA
1 CACGAAAATTTTT-AAAA
* *
4362042 CAAGAAATTTTTTTAAAAA
1 CACGAAA-ATTTTT-AAAA
*
4362061 CACGGAAA-TTTTAAAA
1 CACGAAAATTTTTAAAA
* * * *
4362077 CATGGAAACTTTAAAAA
1 CACGAAAATTTTTAAAA
4362094 CACGAA
1 CACGAA
4362100 TTTTTTTTTA
Statistics
Matches: 187, Mismatches: 55, Indels: 40
0.66 0.20 0.14
Matches are distributed among these distances:
11 4 0.02
12 1 0.01
14 4 0.02
15 1 0.01
16 36 0.19
17 70 0.37
18 21 0.11
19 43 0.23
20 6 0.03
21 1 0.01
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (17 bp):
CACGAAAATTTTTAAAA
Found at i:4362008 original size:36 final size:34
Alignment explanation
Indices: 4361950--4362054 Score: 122
Period size: 36 Copynumber: 3.0 Consensus size: 34
4361940 AAAAACATGA
*
4361950 AAACATGA-AAATTTTGAAAACACGAAAATTTTT
1 AAACATGAGAATTTTTGAAAACACGAAAATTTTT
*
4361983 GAAACATGAGAATTTTTTGAAAACACGAAAAAAATTTT
1 -AAACATGAGAA-TTTTTGAAAACACG--AAAATTTTT
* * *
4362021 AAACATGGGAATTTTTGAAAACAAGAAATTTTTT
1 AAACATGAGAATTTTTGAAAACACGAAAATTTTT
4362055 TAAAAACACG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
34 15 0.25
35 2 0.03
36 26 0.43
37 10 0.16
38 8 0.13
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (34 bp):
AAACATGAGAATTTTTGAAAACACGAAAATTTTT
Found at i:4362060 original size:19 final size:20
Alignment explanation
Indices: 4362032--4362072 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
4362022 AACATGGGAA
*
4362032 TTTTTGAAAACA-AGAAATT
1 TTTTTAAAAACACAGAAATT
*
4362051 TTTTTAAAAACACGGAAATT
1 TTTTTAAAAACACAGAAATT
4362071 TT
1 TT
4362073 AAAACATGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (20 bp):
TTTTTAAAAACACAGAAATT
Found at i:4362095 original size:52 final size:52
Alignment explanation
Indices: 4362014--4362115 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 52
4362004 AACACGAAAA
** *
4362014 AAATTTTAAACATGGGAATTTTTGAAAACAAGAAATTTTTTTAAAAACACGG
1 AAATTTTAAACATGGGAAACTTTAAAAACAAGAAATTTTTTTAAAAACACGG
* * *
4362066 AAATTTTAAAACAT-GGAAACTTTAAAAACACGAATTTTTTTTTAAAACAC
1 AAATTTT-AAACATGGGAAACTTTAAAAACAAGAAATTTTTTTAAAAACAC
4362116 AAGATTTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 37 0.86
53 6 0.14
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (52 bp):
AAATTTTAAACATGGGAAACTTTAAAAACAAGAAATTTTTTTAAAAACACGG
Found at i:4362114 original size:19 final size:21
Alignment explanation
Indices: 4362090--4362129 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
4362080 GGAAACTTTA
*
4362090 AAAACACGA-ATTTTT-TTTT
1 AAAACACAAGATTTTTATTTT
4362109 AAAACACAAGATTTTTATTTT
1 AAAACACAAGATTTTTATTTT
4362130 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (21 bp):
AAAACACAAGATTTTTATTTT
Found at i:4362275 original size:20 final size:20
Alignment explanation
Indices: 4362246--4362283 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4362236 GGGATTCTAA
4362246 TAAAACACGAGAATTTTTAT
1 TAAAACACGAGAATTTTTAT
* *
4362266 TAAAATACGAGGATTTTT
1 TAAAACACGAGAATTTTT
4362284 GAATATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (20 bp):
TAAAACACGAGAATTTTTAT
Found at i:4362553 original size:19 final size:19
Alignment explanation
Indices: 4362513--4362555 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4362503 AACACCATTT
*
4362513 AAATACATTAAATAAAATA
1 AAATACATTAAATAAAAAA
* *
4362532 AAATAGATTAAAAAGAAAAA
1 AAATACATTAAATA-AAAAA
4362552 AAAT
1 AAAT
4362556 TACCCGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (19 bp):
AAATACATTAAATAAAAAA
Found at i:4362751 original size:18 final size:18
Alignment explanation
Indices: 4362713--4362771 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
4362703 TGGGCTGCTG
*
4362713 TTTTTATTTT-TTTATTAC
1 TTTTTATTTTCTTT-TTTC
4362731 TTTTTATTTTCTTTTTTC
1 TTTTTATTTTCTTTTTTC
*
4362749 TTTCTTTTTTCTCTCTTTTTC
1 TTT-TTATTT-TCT-TTTTTC
4362770 TT
1 TT
4362772 CCTCTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 16 0.46
19 8 0.23
20 3 0.09
21 8 0.23
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTATTTTCTTTTTTC
Found at i:4362785 original size:20 final size:19
Alignment explanation
Indices: 4362732--4362790 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 19
4362722 TTTTATTACT
*
4362732 TTTTATTTTCTTTTTTCTTTC
1 TTTT-TTTTC-TTTTTCTTCC
4362753 TTTTTTCTCTCTTTTTCTTCC
1 TTTTTT-T-TCTTTTTCTTCC
*
4362774 TCTTTTTTTCTTCTTCT
1 T-TTTTTTTCTTTTTCT
4362791 CTTCTTCTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
20 10 0.30
21 16 0.48
22 7 0.21
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTTCTTTTTCTTCC
Found at i:4362788 original size:11 final size:11
Alignment explanation
Indices: 4362719--4362799 Score: 60
Period size: 11 Copynumber: 7.2 Consensus size: 11
4362709 GCTGTTTTTA
*
4362719 TTTTTTTATTAC
1 TTTTTTTCTT-C
4362731 TTTTTATT-TTC
1 TTTTT-TTCTTC
4362742 -TTTTTTCTT-
1 TTTTTTTCTTC
4362751 TCTTTTTTCTCTC
1 T-TTTTTTCT-TC
*
4362764 TTTTTCTTCCTC
1 TTTTT-TTCTTC
4362776 TTTTTTTCTTC
1 TTTTTTTCTTC
* *
4362787 TTCTCTTCTTC
1 TTTTTTTCTTC
4362798 TT
1 TT
4362800 GTCTCAAAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
9 2 0.03
10 6 0.10
11 25 0.43
12 19 0.33
13 6 0.10
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTTTCTTC
Found at i:4362798 original size:14 final size:14
Alignment explanation
Indices: 4362759--4362799 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4362749 TTTCTTTTTT
4362759 CTCTCTTTTTCTTC
1 CTCTCTTTTTCTTC
*
4362773 CTCTTTTTTTCTTC
1 CTCTCTTTTTCTTC
* *
4362787 TTCTCTTCTTCTT
1 CTCTCTTTTTCTT
4362800 GTCTCAAAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
CTCTCTTTTTCTTC
Found at i:4363505 original size:29 final size:29
Alignment explanation
Indices: 4363333--4363507 Score: 144
Period size: 30 Copynumber: 6.0 Consensus size: 29
4363323 GCAAAGCTTC
* * *
4363333 TGGGG-CAAAAGTGTAATTTTAGCAAAAATA
1 TGGGGTCAAAA-TGTAATTTTTG-AAAAGTT
* *
4363363 T-GGGCCAAAATGTAATTTCTTG-AGAGTT
1 TGGGGTCAAAATGTAATTT-TTGAAAAGTT
*
4363391 TAGGGGTCAAAGTG-AATTTTTGAGAAAGTCT
1 T-GGGGTCAAAATGTAATTTTTGA-AAAGT-T
** *
4363422 AAGGGTCAAAATGTAATTTTAG-AAAGTT
1 TGGGGTCAAAATGTAATTTTTGAAAAGTT
* *
4363450 TTGGGTCAAAATGTAAATTTTAGAAAAGTT
1 TGGGGTCAAAATGT-AATTTTTGAAAAGTT
*
4363480 TGGGGTTAAAATGTAATTTTTGAAAAGT
1 TGGGGTCAAAATGTAATTTTTGAAAAGT
4363508 ACAGGGGTTA
Statistics
Matches: 119, Mismatches: 16, Indels: 21
0.76 0.10 0.13
Matches are distributed among these distances:
28 20 0.17
29 42 0.35
30 49 0.41
31 8 0.07
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (29 bp):
TGGGGTCAAAATGTAATTTTTGAAAAGTT
Found at i:4363807 original size:75 final size:74
Alignment explanation
Indices: 4363716--4364752 Score: 620
Period size: 79 Copynumber: 13.7 Consensus size: 74
4363706 CTCGGCGTGC
* * * * *
4363716 GACCCGAGACTCAACTCACCTCTTG-AATTATGAGTTGATCTTCGAAAAACAAAAATCG-AAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTGAAAAACATAAATCGAAAAAT
4363779 ACC-TTGACATGT
65 ACCTTTG-C--GT
* * *
4363791 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATGAATTGAAAAATA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATCGAAAAATA
4363856 CCTTTGCGT
66 CCTTTGCGT
**
4363865 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAGA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACATAAA--TCGAA-A
** *
4363930 AATACCTCGGCAT
62 AATACCTTTGCGT
** * **
4363943 GGTCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATTTAAAAG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACATAAA--TCGAA-
* ** *
4364008 AAATACATCGGCAT
61 AAATACCTTTGCGT
** **
4364022 GGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACCATAAATTTAAAAG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAA-CATAAA--TCGAA-
** *
4364087 AAATACCTCAGCAT
61 AAATACCTTTGCGT
** **
4364101 GGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAGA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACATAAA--TCGAA-A
** *
4364166 AATACCTCGGCAT
62 AATACCTTTGCGT
** * **
4364179 GGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAATAGAAATTTAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAAACAT--AAA--TCG
* *
4364244 AAGAAATACC-TCGACAT
59 AA-AAATACCTTTG-CGT
** * * **
4364261 GGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACAGAAATTTAAAAG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--GAAAAACATAAA--TCGAA-
** *
4364326 AAATACCTCAGGGT
61 AAATACCTTTGCGT
** ** * ** ** *
4364340 GACGTGAGGCTCAACTCACCTCTCATATTATGAGTTGA-TTTAAAAAAGACAGGAAT-TAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACATAAATCGAAAAAT
**
4364403 ACCTCAGCGT
65 ACCTTTGCGT
* * *** * *
4364413 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA---AAAAAAAGACATGAAT-TAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACATAAATCGAAAAAT
**
4364473 ACCTCAGCGT
65 ACCTTTGCGT
* * *** * *
4364483 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA---AAAAAAAGACATGAAT-TAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACATAAATCGAAAAAT
**
4364543 ACCTCAGCGT
65 ACCTTTGCGT
*** ** * *
4364553 GACCCGAGGCTCAACTCACCTCT-GTGTTATGAGTTGATTTTAAAAAAGACAGAAAT-TAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACATAAATCGAAAAAT
**
4364616 ACCTCAGCGT
65 ACCTTTGCGT
* * * **
4364626 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAAAGCAGAAATTTAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG--AAAAA-CATAAATCGAAA
**
4364690 AATACCTCAGCGT
62 AATACCTTTGCGT
* *
4364703 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTCTTGCAAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTG-AAAAA
4364753 ACAGAATTTT
Statistics
Matches: 878, Mismatches: 57, Indels: 53
0.89 0.06 0.05
Matches are distributed among these distances:
70 137 0.16
72 13 0.01
73 100 0.11
74 45 0.05
75 65 0.07
76 35 0.04
77 69 0.08
78 126 0.14
79 209 0.24
80 13 0.01
81 7 0.01
82 59 0.07
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (74 bp):
GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATCGAAAAATA
CCTTTGCGT
Found at i:4364020 original size:79 final size:78
Alignment explanation
Indices: 4363794--4364380 Score: 864
Period size: 79 Copynumber: 7.5 Consensus size: 78
4363784 GACATGTGCC
* *
4363794 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACATGAA-TT-GAA-AAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAGAAAT
** * **
4363855 ACCTTTGCGTGAC
66 ACCTCGGCATGGT
4363868 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAGAAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAGAAAT
4363933 ACCTCGGCATGGT
66 ACCTCGGCATGGT
*
4363946 CCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATTTAAAAGAAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACATAAATTTAAAAGAAA
*
4364011 TACATCGGCATGGT
65 TACCTCGGCATGGT
4364025 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACCATAAATTTAAAAGAAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA-CATAAATTTAAAAGAAA
*
4364090 TACCTCAGCATGGT
65 TACCTCGGCATGGT
4364104 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAGAAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAGAAAT
4364169 ACCTCGGCATGGT
66 ACCTCGGCATGGT
*
4364182 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAATAGAAATTTAAAAG
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAAACAT--AAATTTAAAAG
*
4364247 AAATACCTCGACATGGT
62 AAATACCTCGGCATGGT
** *
4364264 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACAGAAATTTAAAAGAAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TGAAAAACATAAATTTAAAAGAAA
*
4364329 TACCTCAGG-GTGACGT
65 TACCTC-GGCATG--GT
** *
4364345 --GAGGCTCAACTCACCTCTCATATTATGAGTTGATTT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
4364381 AAAAAAGACA
Statistics
Matches: 475, Mismatches: 24, Indels: 23
0.91 0.05 0.04
Matches are distributed among these distances:
74 35 0.07
75 16 0.03
76 2 0.00
77 2 0.00
78 123 0.26
79 214 0.45
80 8 0.02
81 13 0.03
82 62 0.13
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (78 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAGAAAT
ACCTCGGCATGGT
Found at i:4364058 original size:157 final size:156
Alignment explanation
Indices: 4363794--4364380 Score: 864
Period size: 157 Copynumber: 3.7 Consensus size: 156
4363784 GACATGTGCC
* *
4363794 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACATGAA-TT-GAA-AAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAGAAAT
** * **
4363855 ACCTTTGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAA
66 ACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAA
4363920 ATTTAAAAGAAATACCTCGGCATGGT
131 ATTTAAAAGAAATACCTCGGCATGGT
*
4363946 CCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATTTAAAAGAAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACATAAATTTAAAAGAAA
*
4364011 TACATCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACCAT
65 TACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA-CAT
*
4364076 AAATTTAAAAGAAATACCTCAGCATGGT
129 AAATTTAAAAGAAATACCTCGGCATGGT
4364104 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAGAAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAGAAAT
*
4364169 ACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAT
66 ACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAAACAT
*
4364234 AGAAATTTAAAAGAAATACCTCGACATGGT
129 --AAATTTAAAAGAAATACCTCGGCATGGT
** *
4364264 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACAGAAATTTAAAAGAAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TGAAAAACATAAATTTAAAAGAAA
* ** *
4364329 TACCTCAGG-GTGACGT--GAGGCTCAACTCACCTCTCATATTATGAGTTGATTT
65 TACCTC-GGCATG--GTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
4364381 AAAAAAGACA
Statistics
Matches: 399, Mismatches: 22, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
152 34 0.09
154 16 0.04
155 2 0.01
156 2 0.01
157 135 0.34
158 73 0.18
159 5 0.01
160 69 0.17
161 59 0.15
162 2 0.01
163 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (156 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAGAAAT
ACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAA
ATTTAAAAGAAATACCTCGGCATGGT
Found at i:4364473 original size:239 final size:233
Alignment explanation
Indices: 4363794--4364662 Score: 723
Period size: 236 Copynumber: 3.8 Consensus size: 233
4363784 GACATGTGCC
* *
4363794 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--GAAAAACATG-AA-TT-GAA-AA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACA-GAAATTTAAAAGAA
** ** * * **
4363853 ATACCTTTGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-ACA
65 ATACCTCAGCGTGACGTGAGGCTCAACTCACCTCTCGTATTATGAGTTGA-TTTTAAAAAAGACA
* * * ** * * *
4363917 TAAATTTAAAAGAAATACCTCGGCATGGTCCAAGGCTCAACTCACCTCTCGCAATATGAGTTG-A
129 GAAA-TT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGAA
****** * *
4363981 TTTTTTTG-AAAAACATAAATTTAAAAGAAATACATCGGCATGGT
189 AAGACATGAAAAAAAATAAATTTAAAAGAAATACATCGACATGGT
** * *
4364025 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACCATAAATTTAAAAGAAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACAGAAATTTAAAAGAAA
* * * **
4364090 TACCTCAGCATG--GTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-AC
66 TACCTCAGCGTGACGT--GAGGCTCAACTCACCTCTCGTATTATGAGTTGA-TTTTAAAAAAGAC
* * * ** * *
4364152 ATAAATTTAAAAGAAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-
128 AGAAA-TT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA
****** *
4364216 ATTTTTTTGAAAAAAAATAGAAATTTAAAAGAAATACCTCGACATGGT
188 AAAGACATGAAAAAAAAT--AAATTTAAAAGAAATACATCGACATGGT
4364264 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACAGAAATTTAAAAGAAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACAGAAATTTAAAAGAAA
* * *
4364329 TACCTCAGGGTGACGTGAGGCTCAACTCACCTCTCATATTATGAGTTGA-TTTAAAAAAGACAGG
66 TACCTCAGCGTGACGTGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTAAAAAAGACAGA
4364393 AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTG--AA-A-A-
131 AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAAAAGACAT
* * * * * **
4364453 -AAAAGACATGAA-TT--AA-AAATACCTC-AGCGTGAC
196 GAAAAAAAATAAATTTAAAAGAAATACATCGA-CATGGT
* *
4364486 CCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-----AAAAAAAGACATG-AA-TT--AA-A
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAA-ACA-GAAATTTAAAAGA
** *
4364540 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTGTTATGAGTTGATTTTAAAAAAGACA
64 AATACCTCAGCGTGACGTGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTAAAAAAGACA
4364604 GAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
129 GAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
4364663 TTTTTTGAAA
Statistics
Matches: 569, Mismatches: 50, Indels: 55
0.84 0.07 0.08
Matches are distributed among these distances:
212 12 0.02
213 104 0.18
214 2 0.00
216 9 0.02
217 5 0.01
218 1 0.00
221 13 0.02
222 32 0.06
223 2 0.00
225 2 0.00
226 2 0.00
228 7 0.01
231 40 0.07
233 19 0.03
234 35 0.06
235 4 0.01
236 130 0.23
237 16 0.03
238 5 0.01
239 127 0.22
241 2 0.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (233 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACAGAAATTTAAAAGAAA
TACCTCAGCGTGACGTGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTAAAAAAGACAGA
AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAAAAGACAT
GAAAAAAAATAAATTTAAAAGAAATACATCGACATGGT
Found at i:4364482 original size:70 final size:70
Alignment explanation
Indices: 4364264--4364740 Score: 611
Period size: 70 Copynumber: 6.5 Consensus size: 70
4364254 TCGACATGGT
* *
4364264 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAA-ACAGAAATTTAAAAGAA
1 CCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA----TAAAAAAAGACAG-AA-TT--AA-AA
*
4364328 ATACCTCAGGGTGAC
56 ATACCTCAGCGTGAC
** * *
4364343 GTGAGGCTCAACTCACCTCTCATATTATGAGTTGATTTAAAAAAGACAGGAATTAAAAATACCTC
1 CCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-TAAAAAAAGACA-GAATTAAAAATACCTC
4364408 AGCGTGAC
63 AGCGTGAC
4364416 CCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-AAAAAAAGACATGAATTAAAAATACCTCAG
1 CCGAGGCTCAACTCACCTCTGTATTATGAGTTGATAAAAAAAGACA-GAATTAAAAATACCTCAG
4364480 CGTGAC
65 CGTGAC
4364486 CCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-AAAAAAAGACATGAATTAAAAATACCTCAG
1 CCGAGGCTCAACTCACCTCTGTATTATGAGTTGATAAAAAAAGACA-GAATTAAAAATACCTCAG
4364550 CGTGAC
65 CGTGAC
* *
4364556 CCGAGGCTCAACTCACCTCTGTGTTATGAGTTGATTTTAAAAAAGACAGAAATTAAAAATACCTC
1 CCGAGGCTCAACTCACCTCTGTATTATGAGTTGA--TAAAAAAAGACAG-AATTAAAAATACCTC
4364621 AGCGTGAC
63 AGCGTGAC
4364629 CCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAAG-CAGAAATTTAAAAAT
1 CCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-----T-AAAAAAAGACAG-AA-TTAAAAAT
4364693 ACCTCAGCGTGAC
58 ACCTCAGCGTGAC
4364706 CCGAGGCTCAACTCACCTCTGTATTATGAGTTGAT
1 CCGAGGCTCAACTCACCTCTGTATTATGAGTTGAT
4364741 TTCTTGCAAA
Statistics
Matches: 371, Mismatches: 16, Indels: 29
0.89 0.04 0.07
Matches are distributed among these distances:
70 137 0.37
72 15 0.04
73 100 0.27
74 2 0.01
76 19 0.05
77 67 0.18
78 1 0.00
79 30 0.08
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (70 bp):
CCGAGGCTCAACTCACCTCTGTATTATGAGTTGATAAAAAAAGACAGAATTAAAAATACCTCAGC
GTGAC
Found at i:4364575 original size:213 final size:214
Alignment explanation
Indices: 4364326--4364739 Score: 665
Period size: 213 Copynumber: 1.9 Consensus size: 214
4364316 AATTTAAAAG
* **
4364326 AAATACCTCAGGGTGACGTGAGGCTCAACTCACCTCTCATATTATGAGTTGA-TTTAAAAAAGAC
1 AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-ATATTATGAGTTGATTTTAAAAAAGAC
*
4364390 AGGAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-AAAA
65 AGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATAAAA
4364454 AAAGACATG-AA-TTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGT
130 AAAG-CA-GAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGT
4364517 TGAAAAAAAAGACATGAATTAA
193 TGAAAAAAAAGACATGAATTAA
* *
4364539 AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTGTTATGAGTTGATTTTAAAAAAGACA
1 AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTATATTATGAGTTGATTTTAAAAAAGACA
4364604 GAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTT
66 GAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-----T
4364669 GAAAAAAAGCAGAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATG
126 -AAAAAAAGCAGAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATG
4364734 AGTTGA
190 AGTTGA
4364740 TTTCTTGCAA
Statistics
Matches: 185, Mismatches: 6, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
212 12 0.06
213 105 0.57
218 1 0.01
219 4 0.02
220 63 0.34
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (214 bp):
AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTATATTATGAGTTGATTTTAAAAAAGACA
GAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATAAAAA
AAGCAGAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
AAAAAAAGACATGAATTAA
Found at i:4364621 original size:143 final size:143
Alignment explanation
Indices: 4364264--4364742 Score: 655
Period size: 143 Copynumber: 3.3 Consensus size: 143
4364254 TCGACATGGT
* * *
4364264 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACAGAAATTTAAAAGAAA
1 CCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-TTTTAAAAAAGACAGAAA-TT--AA-AAA
* ** * *
4364329 TACCTCAGGGTGACGTGAGGCTCAACTCACCTCTCATATTATGAGTTGATTTAAAAAAGACAGGA
60 TACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-TAAAAAAAGACA-GA
4364394 ATTAAAAATACCTCAGCGTGAC
122 ATTAAAAATACCTCAGCGTGAC
*
4364416 CCGAGGCTCAACTCACCTCTGTATTATGAGTTGA---AAAAAAAGACATG-AATTAAAAATACCT
1 CCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTAAAAAAGACA-GAAATTAAAAATACCT
4364477 CAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-AAAAAAAGACATGAATTAAAA
65 CAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATAAAAAAAGACA-GAATTAAAA
4364541 ATACCTCAGCGTGAC
129 ATACCTCAGCGTGAC
*
4364556 CCGAGGCTCAACTCACCTCTGTGTTATGAGTTGATTTTAAAAAAGACAGAAATTAAAAATACCTC
1 CCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTAAAAAAGACAGAAATTAAAAATACCTC
4364621 AGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAAG-CAGAAAT
66 AGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-----T-AAAAAAAGACAG-AA-
4364685 TTAAAAATACCTCAGCGTGAC
123 TTAAAAATACCTCAGCGTGAC
4364706 CCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTT
1 CCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTT
4364743 CTTGCAAAAA
Statistics
Matches: 300, Mismatches: 13, Indels: 30
0.87 0.04 0.09
Matches are distributed among these distances:
140 67 0.22
142 14 0.05
143 101 0.34
144 2 0.01
146 2 0.01
147 11 0.04
148 2 0.01
149 4 0.01
150 65 0.22
151 12 0.04
152 20 0.07
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (143 bp):
CCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTAAAAAAGACAGAAATTAAAAATACCTC
AGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATAAAAAAAGACAGAATTAAAAAT
ACCTCAGCGTGAC
Found at i:4365647 original size:9 final size:9
Alignment explanation
Indices: 4365624--4365675 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
4365614 TTGATTTTTC
*
4365624 TTTTTCTTT
1 TTTTTGTTT
*
4365633 TCTTTGTTT
1 TTTTTGTTT
4365642 TTTTTGTTTTT
1 TTTTTG--TTT
4365653 GTTTTTGTTT
1 -TTTTTGTTT
4365663 TTTTTGTTT
1 TTTTTGTTT
4365672 TTTT
1 TTTT
4365676 GTCCCTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 25 0.68
10 3 0.08
11 3 0.08
12 6 0.16
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.87
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:4365652 original size:30 final size:30
Alignment explanation
Indices: 4365618--4365675 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4365608 TTCATCTTGA
4365618 TTTTTCTTTTTCTTTTCTTTGTTTTTTTTG
1 TTTTTCTTTTTCTTTTCTTTGTTTTTTTTG
* * *
4365648 TTTTTGTTTTTGTTTTTTTTGTTTTTTT
1 TTTTTCTTTTTCTTTTCTTTGTTTTTTT
4365676 GTCCCTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (30 bp):
TTTTTCTTTTTCTTTTCTTTGTTTTTTTTG
Found at i:4371528 original size:18 final size:18
Alignment explanation
Indices: 4371474--4371532 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
4371464 ACAATAATAA
**
4371474 TTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAATT
4371492 TTTTTG-AAACACGAAATT
1 TTTTTGAAAACACG-AATT
*
4371510 TTTTTGAAAACACGGATT
1 TTTTTGAAAACACGAATT
4371528 TTTTT
1 TTTTT
4371533 TTGAACATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 7 0.19
18 22 0.61
19 7 0.19
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (18 bp):
TTTTTGAAAACACGAATT
Found at i:4371529 original size:17 final size:18
Alignment explanation
Indices: 4371474--4371531 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
4371464 ACAATAATAA
4371474 TTTTTGAAAACACGAAGA-
1 TTTTTGAAAACACG-AGAT
*
4371492 TTTTTG-AAACACGAAATT
1 TTTTTGAAAACACGAGA-T
4371510 TTTTTGAAAACACG-GAT
1 TTTTTGAAAACACGAGAT
4371527 TTTTT
1 TTTTT
4371532 TTTGAACATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 2 0.06
17 13 0.37
18 13 0.37
19 7 0.20
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (18 bp):
TTTTTGAAAACACGAGAT
Found at i:4371532 original size:36 final size:38
Alignment explanation
Indices: 4371456--4371530 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 38
4371446 ACACGAGAAC
4371456 TTTGAAACACAATAATAATTTTTGAAAACACGAAGATT
1 TTTGAAACACAATAATAATTTTTGAAAACACGAAGATT
* *
4371494 TTTGAAACACGA-AAT-TTTTTTGAAAACACG--GATT
1 TTTGAAACACAATAATAATTTTTGAAAACACGAAGATT
4371528 TTT
1 TTT
4371531 TTTTGAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 7 0.20
36 14 0.40
37 3 0.09
38 11 0.31
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (38 bp):
TTTGAAACACAATAATAATTTTTGAAAACACGAAGATT
Found at i:4371551 original size:20 final size:20
Alignment explanation
Indices: 4371492--4371551 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 20
4371482 AACACGAAGA
*
4371492 TTTTTG-AAAC-ACGAAATT
1 TTTTTGAAAACAAGGAAATT
* **
4371510 TTTTTGAAAACACGGATTTT
1 TTTTTGAAAACAAGGAAATT
* *
4371530 TTTTTGAACATAAGGAAATT
1 TTTTTGAAAACAAGGAAATT
4371550 TT
1 TT
4371552 CGATACATGA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
18 6 0.19
19 4 0.13
20 21 0.68
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.43
Consensus pattern (20 bp):
TTTTTGAAAACAAGGAAATT
Found at i:4371598 original size:17 final size:18
Alignment explanation
Indices: 4371572--4371608 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
4371562 GAATTTTTTG
*
4371572 ACACGAAAAATTTTGAAA
1 ACACGAAAAATTTCGAAA
4371590 ACACG-AAAATTTCGAAA
1 ACACGAAAAATTTCGAAA
4371607 AC
1 AC
4371609 TTGAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.54, C:0.16, G:0.11, T:0.19
Consensus pattern (18 bp):
ACACGAAAAATTTCGAAA
Found at i:4371637 original size:18 final size:17
Alignment explanation
Indices: 4371605--4371641 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
4371595 AAAATTTCGA
*
4371605 AAACTTGAATTTTTTTT
1 AAACATGAATTTTTTTT
4371622 AAACATGAATTTTTTTT
1 AAACATGAATTTTTTTT
4371639 AAA
1 AAA
4371642 AAACACAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (17 bp):
AAACATGAATTTTTTTT
Found at i:4371663 original size:19 final size:19
Alignment explanation
Indices: 4371641--4371740 Score: 53
Period size: 19 Copynumber: 5.1 Consensus size: 19
4371631 TTTTTTTTAA
4371641 AAAACACAAGAATTTTTTG
1 AAAACACAAGAATTTTTTG
**
4371660 AAAACACGAAAGCATGAAAATTTTG
1 AAAACAC---A--A-GAATTTTTTG
** *
4371685 AAAACACGGGAATTTTTTT
1 AAAACACAAGAATTTTTTG
4371704 AAAACACGAA-AA-TTTTTG
1 AAAACAC-AAGAATTTTTTG
**
4371722 -AAACATGAGAATTTTTTG
1 AAAACACAAGAATTTTTTG
4371740 A
1 A
4371741 CACGAAAATT
Statistics
Matches: 59, Mismatches: 12, Indels: 20
0.65 0.13 0.22
Matches are distributed among these distances:
16 1 0.02
17 7 0.12
18 11 0.19
19 23 0.39
22 1 0.02
24 1 0.02
25 15 0.25
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (19 bp):
AAAACACAAGAATTTTTTG
Found at i:4371719 original size:17 final size:17
Alignment explanation
Indices: 4371675--4371976 Score: 83
Period size: 17 Copynumber: 16.6 Consensus size: 17
4371665 ACGAAAGCAT
*
4371675 GAAAATTTTGAAAACAC
1 GAAAATTTTTAAAACAC
**
4371692 GGGAATTTTTTTAAAACAC
1 --GAAAATTTTTAAAACAC
* *
4371711 GAAAATTTTTGAAACAT
1 GAAAATTTTTAAAACAC
* **
4371728 GAGAATTTTT-TGACAC
1 GAAAATTTTTAAAACAC
** *
4371744 GAAAATTTCGAAAACAT
1 GAAAATTTTTAAAACAC
** *
4371761 GAATTTTTTTTAAAATAC
1 GAA-AATTTTTAAAACAC
**
4371779 GAATTTTTTTAAAAACAC
1 GAAAATTTTT-AAAACAC
*
4371797 GAGAATTTTTTTGAAAACAC
1 GA-AA-ATTTTT-AAAACAC
4371817 GAAAACATGAAAATTTTGAAAACAC
1 G-AAA-AT-----TTTT-AAAACAC
* *
4371842 GAAAATTTTTGAAACAT
1 GAAAATTTTTAAAACAC
*
4371859 GAGAATTTTTTGAAAACAC
1 GA-AAATTTTT-AAAACAC
*
4371878 GAAAAAAATTTT-AAACAC
1 G--AAAATTTTTAAAACAC
** *
4371896 GGGAATTTTTGAAAACAA
1 GAAAATTTTT-AAAACAC
*
4371914 GAAATTTTTTTTTAAAAACAC
1 GAAA---ATTTTT-AAAACAC
* *
4371935 GGAAA-TTTTAAAACAT
1 GAAAATTTTTAAAACAC
* *
4371951 GGAAA-CTTTAACAACAC
1 GAAAATTTTTAA-AACAC
4371968 G-AAATTTTT
1 GAAAATTTTT
4371977 TTTTAAAACA
Statistics
Matches: 211, Mismatches: 50, Indels: 46
0.69 0.16 0.15
Matches are distributed among these distances:
16 35 0.17
17 54 0.26
18 44 0.21
19 21 0.10
20 23 0.11
21 16 0.08
23 2 0.01
24 3 0.01
25 13 0.06
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (17 bp):
GAAAATTTTTAAAACAC
Found at i:4371719 original size:18 final size:18
Alignment explanation
Indices: 4371675--4371943 Score: 95
Period size: 17 Copynumber: 14.5 Consensus size: 18
4371665 ACGAAAGCAT
*
4371675 GAAAA-TTTTGAAAACAC
1 GAAAATTTTTTAAAACAC
* *
4371692 GGGAATTTTTTTAAAACAC
1 -GAAAATTTTTTAAAACAC
* *
4371711 GAAAA-TTTTTGAAACAT
1 GAAAATTTTTTAAAACAC
* *
4371728 GAGAATTTTTT--GACAC
1 GAAAATTTTTTAAAACAC
** *
4371744 GAAAA-TTTCGAAAACAT
1 GAAAATTTTTTAAAACAC
** *
4371761 GAATTTTTTTTAAAATAC
1 GAAAATTTTTTAAAACAC
*
4371779 G-AATTTTTTTAAAAACAC
1 GAAAATTTTTT-AAAACAC
*
4371797 GAGAATTTTTTTGAAAACAC
1 GA-AAATTTTTT-AAAACAC
*
4371817 GAAAACATGAAAATTTTGAAAACAC
1 G-AAA-AT-----TTTTTAAAACAC
* *
4371842 GAAAA-TTTTTGAAACAT
1 GAAAATTTTTTAAAACAC
*
4371859 GAGAATTTTTTGAAAACAC
1 GAAAATTTTTT-AAAACAC
**
4371878 GAAAAAAATTTT-AAACAC
1 G-AAAATTTTTTAAAACAC
** * *
4371896 GGGAATTTTTGAAAACAA
1 GAAAATTTTTTAAAACAC
*
4371914 GAAATTTTTTTTTAAAAACAC
1 GAAA--ATTTTTT-AAAACAC
*
4371935 GGAAATTTT
1 GAAAATTTT
4371944 AAAACATGGA
Statistics
Matches: 181, Mismatches: 48, Indels: 43
0.67 0.18 0.16
Matches are distributed among these distances:
15 3 0.02
16 7 0.04
17 46 0.25
18 46 0.25
19 21 0.12
20 31 0.17
21 11 0.06
23 1 0.01
24 3 0.02
25 8 0.04
26 4 0.02
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (18 bp):
GAAAATTTTTTAAAACAC
Found at i:4371759 original size:33 final size:34
Alignment explanation
Indices: 4371675--4371882 Score: 112
Period size: 36 Copynumber: 6.1 Consensus size: 34
4371665 ACGAAAGCAT
* *
4371675 GAAAATTTTGAAAACACGGGAATTTTTTTAAAACAC
1 GAAAATTTTGAAAACATGAGAA-TTTTTT-AAACAC
*
4371711 GAAAATTTTTG-AAACATGAGAATTTTTT-GACAC
1 GAAAA-TTTTGAAAACATGAGAATTTTTTAAACAC
* * *
4371744 GAAAATTTCGAAAACATGA-ATTTTTTTTAAAATAC
1 GAAAATTTTGAAAACATGAGA-ATTTTTT-AAACAC
** * * *
4371779 GAATTTTTTTAAAAACACGAGAATTTTTT-----T
1 GAA-AATTTTGAAAACATGAGAATTTTTTAAACAC
*** * **
4371809 GAAAA-CACGAAAACATGAAAATTTTGAAAACAC
1 GAAAATTTTGAAAACATGAGAATTTTTTAAACAC
4371842 GAAAATTTTTG-AAACATGAGAATTTTTTGAAAACAC
1 GAAAA-TTTTGAAAACATGAGAATTTTTT--AAACAC
4371878 GAAAA
1 GAAAA
4371883 AAATTTTAAA
Statistics
Matches: 125, Mismatches: 31, Indels: 32
0.66 0.16 0.17
Matches are distributed among these distances:
28 14 0.11
30 3 0.02
32 5 0.04
33 28 0.22
34 14 0.11
35 13 0.10
36 42 0.34
37 6 0.05
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (34 bp):
GAAAATTTTGAAAACATGAGAATTTTTTAAACAC
Found at i:4371802 original size:20 final size:20
Alignment explanation
Indices: 4371761--4371818 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
4371751 TCGAAAACAT
* *
4371761 GAATTTTTTTTAAAATAC--
1 GAATTTTTTTAAAAACACGA
4371779 GAATTTTTTTAAAAACACGA
1 GAATTTTTTTAAAAACACGA
*
4371799 GAATTTTTTTGAAAACACGA
1 GAATTTTTTTAAAAACACGA
4371819 AAACATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
18 16 0.46
20 19 0.54
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (20 bp):
GAATTTTTTTAAAAACACGA
Found at i:4371876 original size:150 final size:149
Alignment explanation
Indices: 4371590--4371873 Score: 423
Period size: 150 Copynumber: 1.9 Consensus size: 149
4371580 AATTTTGAAA
*
4371590 ACACGAAAATTTCGAAAACTTGAATTTTTTTTAAACATGAATTTTTTTTAAAAAACACAAGAATT
1 ACACGAAAATTTCGAAAACATGAATTTTTTTTAAACATGAATTTTTTTTAAAAAACACAAGAATT
* **
4371655 TTTTGAAAACACGAAAGCATGAAAATTTTGAAAACACGGGAATTTTTTTAAAACACGAAAATTTT
66 TTTTGAAAACACGAAAACATGAAAATTTTGAAAACAC-GGAAAATTTTTAAAACACGAAAATTTT
4371720 TGAAACATGAGAATTTTTTG
130 TGAAACATGAGAATTTTTTG
*
4371740 ACACGAAAATTTCGAAAACATGAATTTTTTTTAAA-ATACGAA-TTTTTTT-AAAAACACGAGAA
1 ACACGAAAATTTCGAAAACATGAATTTTTTTTAAACAT--GAATTTTTTTTAAAAAACACAAGAA
* * *
4371802 TTTTTTTGAAAACACGAAAACATGAAAATTTTGAAAACAC-GAAAATTTTTGAAACATGAGAATT
64 -TTTTTTGAAAACACGAAAACATGAAAATTTTGAAAACACGGAAAATTTTTAAAACACGA-AAAT
4371866 TTTTGAAA
127 TTTTGAAA
4371874 ACACGAAAAA
Statistics
Matches: 122, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
148 15 0.12
149 25 0.20
150 79 0.65
151 3 0.02
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.34
Consensus pattern (149 bp):
ACACGAAAATTTCGAAAACATGAATTTTTTTTAAACATGAATTTTTTTTAAAAAACACAAGAATT
TTTTGAAAACACGAAAACATGAAAATTTTGAAAACACGGAAAATTTTTAAAACACGAAAATTTTT
GAAACATGAGAATTTTTTG
Found at i:4371877 original size:36 final size:34
Alignment explanation
Indices: 4371830--4371923 Score: 107
Period size: 36 Copynumber: 2.6 Consensus size: 34
4371820 AACATGAAAA
*
4371830 TTTTGAAAACACGAAAATTTTTGAAACATGAGAATT
1 TTTTGAAAACACGAAAATTTTT-AAACACGAGAA-T
* *
4371866 TTTTGAAAACACGAAAAAAATTTTAAACACGGGAAT
1 TTTTGAAAACACG--AAAATTTTTAAACACGAGAAT
* *
4371902 TTTTGAAAACAAGAAATTTTTT
1 TTTTGAAAACACGAAAATTTTT
4371924 TTTAAAAACA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
34 7 0.14
36 26 0.52
37 9 0.18
38 8 0.16
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.33
Consensus pattern (34 bp):
TTTTGAAAACACGAAAATTTTTAAACACGAGAAT
Found at i:4371931 original size:21 final size:22
Alignment explanation
Indices: 4371901--4371943 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
4371891 AACACGGGAA
*
4371901 TTTTTGAAAACA-AGAAATTTT
1 TTTTTAAAAACACAGAAATTTT
*
4371922 TTTTTAAAAACACGGAAATTTT
1 TTTTTAAAAACACAGAAATTTT
4371944 AAAACATGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (22 bp):
TTTTTAAAAACACAGAAATTTT
Found at i:4371949 original size:16 final size:16
Alignment explanation
Indices: 4371923--4371975 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
4371913 AGAAATTTTT
4371923 TTTTAAAAACACGGAAA
1 TTTT-AAAACACGGAAA
*
4371940 TTTTAAAACATGGAAA
1 TTTTAAAACACGGAAA
*
4371956 CTTTAACAACAC-GAAA
1 TTTTAA-AACACGGAAA
4371972 TTTT
1 TTTT
4371976 TTTTTAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 23 0.74
17 8 0.26
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.30
Consensus pattern (16 bp):
TTTTAAAACACGGAAA
Found at i:4371994 original size:20 final size:22
Alignment explanation
Indices: 4371957--4372001 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 22
4371947 ACATGGAAAC
4371957 TTTAACAACACGAAATTTTT-T
1 TTTAACAACACGAAATTTTTAT
4371978 TTTAA-AACAC-AAGATTTTTAT
1 TTTAACAACACGAA-ATTTTTAT
4371999 TTT
1 TTT
4372002 TTTTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 11 0.50
21 9 0.41
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (22 bp):
TTTAACAACACGAAATTTTTAT
Found at i:4372149 original size:20 final size:20
Alignment explanation
Indices: 4372120--4372157 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4372110 GGGATTCTAA
4372120 TAAAACACGAGAATTTTTAT
1 TAAAACACGAGAATTTTTAT
* *
4372140 TAAAATACGAGGATTTTT
1 TAAAACACGAGAATTTTT
4372158 GAATATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (20 bp):
TAAAACACGAGAATTTTTAT
Found at i:4372613 original size:23 final size:23
Alignment explanation
Indices: 4372583--4372627 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
4372573 GGGCTGCTGT
4372583 TTTTATTTTTTTATTACTTTTTA
1 TTTTATTTTTTTATTACTTTTTA
* *
4372606 TTTTATTTTTTTCTTTCTTTTT
1 TTTTATTTTTTTATTACTTTTT
4372628 TCTCTCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTATTTTTTTATTACTTTTTA
Found at i:4372646 original size:14 final size:14
Alignment explanation
Indices: 4372629--4372669 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4372619 TTTCTTTTTT
4372629 CTCTCTTTTTCTTC
1 CTCTCTTTTTCTTC
*
4372643 CTCTTTTTTTCTTC
1 CTCTCTTTTTCTTC
* *
4372657 TTCTCTTCTTCTT
1 CTCTCTTTTTCTT
4372670 GTCTCAAAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
CTCTCTTTTTCTTC
Found at i:4372658 original size:11 final size:11
Alignment explanation
Indices: 4372588--4372669 Score: 60
Period size: 11 Copynumber: 7.2 Consensus size: 11
4372578 GCTGTTTTTA
*
4372588 TTTTTTTATTAC
1 TTTTTTTCTT-C
*
4372600 TTTTTATT-TTA
1 TTTTT-TTCTTC
4372611 TTTTTTTCTT-
1 TTTTTTTCTTC
4372621 TCTTTTTTCTCTC
1 T-TTTTTTCT-TC
*
4372634 TTTTTCTTCCTC
1 TTTTT-TTCTTC
4372646 TTTTTTTCTTC
1 TTTTTTTCTTC
* *
4372657 TTCTCTTCTTC
1 TTTTTTTCTTC
4372668 TT
1 TT
4372670 GTCTCAAAGC
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
10 3 0.05
11 31 0.53
12 19 0.32
13 6 0.10
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTTCTTC
Found at i:4373339 original size:30 final size:29
Alignment explanation
Indices: 4373299--4373392 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 29
4373289 GTAAGGGTCG
4373299 AAATGT-AATTTTATAAAGTTTTGGGGTTA
1 AAATGTAAATTTTA-AAAGTTTTGGGGTTA
*
4373328 AAATGTAAATTTTAGAAAAG-TTTGGGGTCA
1 AAATGTAAATTTT--AAAAGTTTTGGGGTTA
* * * *
4373358 AATTGTAAATTTTGAGAAGTATAGGGGTTA
1 AAATGTAAATTTT-AAAAGTTTTGGGGTTA
4373388 AAATG
1 AAATG
4373393 CAAAAAAGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
29 11 0.20
30 38 0.70
31 4 0.07
32 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.23, T:0.37
Consensus pattern (29 bp):
AAATGTAAATTTTAAAAGTTTTGGGGTTA
Found at i:4373787 original size:57 final size:56
Alignment explanation
Indices: 4373726--4373916 Score: 165
Period size: 57 Copynumber: 3.6 Consensus size: 56
4373716 ATATATTTTA
* *
4373726 TCTGACATGTGAAGAAATGATTGTCTAAAATGGCTGCTGTTTCCAGAACTTATCATG
1 TCTGACAT-TGAAGAAATGGTTGTCTAAAATGGCTGCTGTTTCCAGAACTTATTATG
* * * * *
4373783 TCTGACATTTAAGAAATGGTTGTCCAAAATGAACT--TGTTTTCATAACTTATTATG
1 TCTGACATTGAAGAAATGGTTGTCTAAAATG-GCTGCTGTTTCCAGAACTTATTATG
* *
4373838 TCTG--A-T------AT--TTGTCTAAAATGGCTGCTCTTTCCTGAACTTATTATG
1 TCTGACATTGAAGAAATGGTTGTCTAAAATGGCTGCTGTTTCCAGAACTTATTATG
* *
4373883 TCTGATATATGAAGAAACGGTTGTCTAAAATGGC
1 TCTGACAT-TGAAGAAATGGTTGTCTAAAATGGC
4373917 GTTGCTTGGT
Statistics
Matches: 105, Mismatches: 14, Indels: 30
0.70 0.09 0.20
Matches are distributed among these distances:
43 2 0.02
44 11 0.10
45 20 0.19
46 2 0.02
47 1 0.01
49 1 0.01
52 1 0.01
53 1 0.01
55 22 0.21
56 20 0.19
57 24 0.23
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (56 bp):
TCTGACATTGAAGAAATGGTTGTCTAAAATGGCTGCTGTTTCCAGAACTTATTATG
Found at i:4373813 original size:56 final size:55
Alignment explanation
Indices: 4373726--4373847 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 55
4373716 ATATATTTTA
* * *
4373726 TCTGACATGTGAAGAAATGATTGTCTAAAATG-GCTGCTGTTTCCAGAACTTATCATG
1 TCTGACAT-TTAAGAAATGATTGTCCAAAATGAACT--TGTTTCCAGAACTTATCATG
* * * *
4373783 TCTGACATTTAAGAAATGGTTGTCCAAAATGAACTTGTTTTCATAACTTATTATG
1 TCTGACATTTAAGAAATGATTGTCCAAAATGAACTTGTTTCCAGAACTTATCATG
*
4373838 TCTGATATTT
1 TCTGACATTT
4373848 GTCTAAAATG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
55 26 0.46
56 20 0.36
57 10 0.18
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (55 bp):
TCTGACATTTAAGAAATGATTGTCCAAAATGAACTTGTTTCCAGAACTTATCATG
Found at i:4373841 original size:55 final size:54
Alignment explanation
Indices: 4373695--4373847 Score: 146
Period size: 57 Copynumber: 2.7 Consensus size: 54
4373685 TTTCTAGCAG
* * * *
4373695 AAAATGACTGTTGTTTTCATAA-TATATTTTATCTGACATGTGAAGAAATGATTGTCT
1 AAAATGAC--TTGTTTTCATAACT-TATTATGTCTGACAT-TTAAGAAATGATTGTCC
* * * * *
4373752 AAAATGGCTGCTGTTTCCAGAACTTATCATGTCTGACATTTAAGAAATGGTTGTCC
1 AAAATGACT--TGTTTTCATAACTTATTATGTCTGACATTTAAGAAATGATTGTCC
*
4373808 AAAATGAACTTGTTTTCATAACTTATTATGTCTGATATTT
1 AAAATG-ACTTGTTTTCATAACTTATTATGTCTGACATTT
4373848 GTCTAAAATG
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
55 27 0.35
56 20 0.26
57 30 0.38
58 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (54 bp):
AAAATGACTTGTTTTCATAACTTATTATGTCTGACATTTAAGAAATGATTGTCC
Found at i:4373856 original size:44 final size:45
Alignment explanation
Indices: 4373802--4373890 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
4373792 TAAGAAATGG
4373802 TTGTCCAAAATGAACTTG-T-TTTCAT-AACTTATTATGTCTGATAT
1 TTGTCCAAAATG-AC-TGCTCTTTCATGAACTTATTATGTCTGATAT
* * *
4373846 TTGTCTAAAATGGCTGCTCTTTCCTGAACTTATTATGTCTGATAT
1 TTGTCCAAAATGACTGCTCTTTCATGAACTTATTATGTCTGATAT
4373891 ATGAAGAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
42 2 0.05
43 2 0.05
44 16 0.41
45 19 0.49
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (45 bp):
TTGTCCAAAATGACTGCTCTTTCATGAACTTATTATGTCTGATAT
Found at i:4374218 original size:50 final size:49
Alignment explanation
Indices: 4374163--4374257 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
4374153 TATCTAAAAA
*
4374163 TCTAAATAAAAAAATATAAAATTACGTCGTTTTGATAAATATTTACTTCC
1 TCTAAA-AAAAAAAGATAAAATTACGTCGTTTTGATAAATATTTACTTCC
** * *
4374213 TCTAAAATTAAAAGGTAAAATTACGTTGTTTTGATAAATATTTAC
1 TCTAAAAAAAAAAGATAAAATTACGTCGTTTTGATAAATATTTAC
4374258 CCATCAACCT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
49 34 0.85
50 6 0.15
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.39
Consensus pattern (49 bp):
TCTAAAAAAAAAAGATAAAATTACGTCGTTTTGATAAATATTTACTTCC
Found at i:4380613 original size:66 final size:66
Alignment explanation
Indices: 4380537--4380666 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
4380527 AACTCTTGAG
*
4380537 TCGTCCCCCCACTCTCTTGTAGGGCTTTGACCAAC-TCCGGATTATCAATTTGAACTATTCTTTA
1 TCGTCCCCCCACTCTCTTGTAGGGCTTTGACC-ACTTCCGGATTATCAATTTGAACTACTCTTTA
4380601 CT
65 CT
*
4380603 TCGTCCCCCCACTCTTTTGTAGGGCTTTGACCACTTCCGGATTATCAATTTGAACTACTCTTTA
1 TCGTCCCCCCACTCTCTTGTAGGGCTTTGACCACTTCCGGATTATCAATTTGAACTACTCTTTA
4380667 TTTTATGTCT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
65 2 0.03
66 59 0.97
ACGTcount: A:0.19, C:0.30, G:0.14, T:0.37
Consensus pattern (66 bp):
TCGTCCCCCCACTCTCTTGTAGGGCTTTGACCACTTCCGGATTATCAATTTGAACTACTCTTTAC
T
Found at i:4385138 original size:19 final size:19
Alignment explanation
Indices: 4385106--4385153 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
4385096 AAACTTTTTC
4385106 TTGTTGTT-TTTCACTATT
1 TTGTTGTTATTTCACTATT
4385124 TTGTTGTTATTTCACTATT
1 TTGTTGTTATTTCACTATT
*
4385143 ATGTTGTTATT
1 TTGTTGTTATT
4385154 GTTTGGATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 8 0.29
19 20 0.71
ACGTcount: A:0.15, C:0.08, G:0.12, T:0.65
Consensus pattern (19 bp):
TTGTTGTTATTTCACTATT
Found at i:4391820 original size:91 final size:91
Alignment explanation
Indices: 4391655--4391835 Score: 249
Period size: 91 Copynumber: 2.0 Consensus size: 91
4391645 CTCTTACGTG
4391655 GGAACAATTACCTAGTTCAAGCACTAACATGAGAACAATTACCAAGTTTAAGGATTAACTTGAAC
1 GGAACAATTACCTAGTTCAAGCACTAACATGAGAACAATTACCAAGTTTAAGGATTAACTTGAAC
*
4391720 AAAAAAAAAGTCCATACCCCAATGTA
66 AAAAAAAAAGTCCAAACCCCAATGTA
* * * * * *
4391746 GGAACAATTATCTAGTTCAAGC-CTTAACATGTGAACAATTCCCAAGTTTATGGATTAAATTTGG
1 GGAACAATTACCTAGTTCAAGCAC-TAACATGAGAACAATTACCAAGTTTAAGGATT-AACTTGA
**
4391810 AC-AAAAAAAAGTTTAAACCCCAATGT
64 ACAAAAAAAAAGTCCAAACCCCAATGT
4391836 GAGAATTTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
90 1 0.01
91 71 0.90
92 7 0.09
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (91 bp):
GGAACAATTACCTAGTTCAAGCACTAACATGAGAACAATTACCAAGTTTAAGGATTAACTTGAAC
AAAAAAAAAGTCCAAACCCCAATGTA
Found at i:4397937 original size:38 final size:37
Alignment explanation
Indices: 4397868--4397940 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
4397858 TTTTCATAAT
* *
4397868 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
4397905 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
4397941 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:4397971 original size:23 final size:22
Alignment explanation
Indices: 4397928--4397971 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
4397918 TTTCAAGTCA
4397928 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
4397951 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
4397972 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:4398085 original size:23 final size:23
Alignment explanation
Indices: 4398059--4398180 Score: 199
Period size: 23 Copynumber: 5.3 Consensus size: 23
4398049 ATAAGTGCCA
4398059 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
4398082 CACTGAAATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4398105 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
4398128 CACTGATATGTAGCCAAAGATAC
1 CACTGATATGTAGCCGAAGCTAC
*
4398151 CGCTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4398174 CACTGAT
1 CACTGAT
4398181 CAATAACACT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 89 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Done.