Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 165 of 349
Found at i:53435276 original size:40 final size:40
Alignment explanation
Indices: 53435239--53435462 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
53435229 GCTACTCGTT
* *
53435239 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
53435279 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
53435319 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
53435359 CAAATGCCTTC-GGATCTTAGTCCAGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
53435399 TAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
*
53435439 CAAA-GCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
53435463 CATCATTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
38 10 0.06
39 12 0.07
40 143 0.86
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:53443518 original size:39 final size:39
Alignment explanation
Indices: 53443475--53443554 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
53443465 TGAAGCTAGA
*
53443475 GATGTTTGAAAGAGATCTTCTGGTAGAGCATCTCAATCT
1 GATGTTTGAAAGAGATCTTCGGGTAGAGCATCTCAATCT
53443514 GATGTTTGAAAGAGATCTTCGGGTAGAGCATCTCAATCT
1 GATGTTTGAAAGAGATCTTCGGGTAGAGCATCTCAATCT
53443553 GA
1 GA
53443555 GTCAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (39 bp):
GATGTTTGAAAGAGATCTTCGGGTAGAGCATCTCAATCT
Found at i:53449679 original size:19 final size:19
Alignment explanation
Indices: 53449650--53449692 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
53449640 CGTTATGGGC
53449650 CTCGT-TGGGCCAAGATAGG
1 CTCGTGTGGGCCAA-ATAGG
*
53449669 C-CGTGTGGGCCCAATAGG
1 CTCGTGTGGGCCAAATAGG
53449687 CTCGTG
1 CTCGTG
53449693 GGCCCTACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.16, C:0.26, G:0.37, T:0.21
Consensus pattern (19 bp):
CTCGTGTGGGCCAAATAGG
Found at i:53450362 original size:28 final size:28
Alignment explanation
Indices: 53450309--53450362 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
53450299 CTGCACTGTT
* *
53450309 CTGATACTGAATTGGGCTTAGACCCATG
1 CTGATACTGAATAGGGCTAAGACCCATG
*
53450337 CTGATACTGAATAGGGCTAAGTCCCA
1 CTGATACTGAATAGGGCTAAGACCCA
53450363 GACTGTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (28 bp):
CTGATACTGAATAGGGCTAAGACCCATG
Found at i:53450380 original size:33 final size:33
Alignment explanation
Indices: 53450338--53450401 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
53450328 AGACCCATGC
*
53450338 TGATACTGAATAGGGCTAAGTCCCAGACTGTAT
1 TGATACTGAATAGGGCTAAGGCCCAGACTGTAT
* *
53450371 TGATACTGAATAGGGCTCAGGCCTAGACTGT
1 TGATACTGAATAGGGCTAAGGCCCAGACTGT
53450402 TACTGCATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (33 bp):
TGATACTGAATAGGGCTAAGGCCCAGACTGTAT
Found at i:53458048 original size:28 final size:29
Alignment explanation
Indices: 53458016--53458095 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 29
53458006 TTGGAGGAAG
53458016 TACTG-TATTAGTGGCTTTGCCACGTAAT
1 TACTGCTATTAGTGGCTTTGCCACGTAAT
* * *
53458044 TACTGCT-CTGGTGGCTTTGCCAC--ATT
1 TACTGCTATTAGTGGCTTTGCCACGTAAT
* * *
53458070 TACTGTTATTAGTAGCTTTGCTACGT
1 TACTGCTATTAGTGGCTTTGCCACGT
53458096 TATTGTTAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
26 8 0.20
27 12 0.30
28 19 0.47
29 1 0.03
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.41
Consensus pattern (29 bp):
TACTGCTATTAGTGGCTTTGCCACGTAAT
Found at i:53458299 original size:33 final size:34
Alignment explanation
Indices: 53458257--53458326 Score: 124
Period size: 33 Copynumber: 2.1 Consensus size: 34
53458247 TAGACCCACG
53458257 CTGATACTGAATAGGGCTAAGGCCCAGACTG-TA
1 CTGATACTGAATAGGGCTAAGGCCCAGACTGTTA
*
53458290 CTGATACTGAATAGGGCTCAGGCCCAGACTGTTA
1 CTGATACTGAATAGGGCTAAGGCCCAGACTGTTA
53458324 CTG
1 CTG
53458327 CATGCACGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 30 0.86
34 5 0.14
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (34 bp):
CTGATACTGAATAGGGCTAAGGCCCAGACTGTTA
Found at i:53459210 original size:16 final size:15
Alignment explanation
Indices: 53459186--53459215 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
53459176 AACTGTTCTA
53459186 TTACAAATTTCACTC
1 TTACAAATTTCACTC
53459201 TTACATAATTTCACT
1 TTACA-AATTTCACT
53459216 TACTTTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:53459484 original size:49 final size:49
Alignment explanation
Indices: 53459416--53459699 Score: 230
Period size: 49 Copynumber: 5.7 Consensus size: 49
53459406 ACCGAAGCTC
*
53459416 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAA
* * * * * *
53459465 TCCGGTTCACGTAGTAGCCTGCACTTACTACTACACATGTGACTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAA
* * * * * *
53459514 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGACATTG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACA--A
* ** * * *
53459565 TCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATAC-ATCCTAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CC-AACAA
* * * * * *
53459615 TCTGGTACACGTATTAGCCTGTACTTGGTACTACACCTGACCTA-CAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATG--CGACCAACAA
*** * *
53459665 TCTTAAACACATAGTAGCCTGCACATAGTACTACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACA
53459700 TATGTTTTCT
Statistics
Matches: 181, Mismatches: 47, Indels: 13
0.75 0.20 0.05
Matches are distributed among these distances:
49 81 0.45
50 62 0.34
51 34 0.19
52 3 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (49 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAA
Found at i:53462763 original size:20 final size:23
Alignment explanation
Indices: 53462714--53462764 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
53462704 GCTAAATTCA
53462714 TGAACCATTTTTAATGTATTAGTG
1 TGAA-CATTTTTAATGTATTAGTG
*
53462738 TAAACATTTTT-AT-TATT-GTG
1 TGAACATTTTTAATGTATTAGTG
53462758 TGAACAT
1 TGAACAT
53462765 ATAGATGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 9 0.36
21 4 0.16
22 2 0.08
23 7 0.28
24 3 0.12
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (23 bp):
TGAACATTTTTAATGTATTAGTG
Found at i:53466482 original size:19 final size:21
Alignment explanation
Indices: 53466460--53466506 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
53466450 CTAAAACTAT
53466460 CAAAACTTA-ATAAA-GAAAA
1 CAAAACTTATATAAAGGAAAA
*
53466479 CAAAACTAATATAAAGGAAAA
1 CAAAACTTATATAAAGGAAAA
53466500 -AAAACTT
1 CAAAACTT
53466507 GGTGAATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.33
20 11 0.46
21 5 0.21
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (21 bp):
CAAAACTTATATAAAGGAAAA
Found at i:53468880 original size:81 final size:81
Alignment explanation
Indices: 53468734--53468910 Score: 327
Period size: 81 Copynumber: 2.2 Consensus size: 81
53468724 TTTGTGTAAA
*
53468734 TGATCTTATGATATGGCTGTGGTTTGGCAAGAAAAGGGTTTGTAAATGATTAGCCATTGGAATGG
1 TGATGTTATG-TATGGCTGTGGTTTGGCAAGAAAAGGGTTTGTAAATGATTAGCCATTGGAATGG
53468799 CCAATCTAAGTCATATT
65 CCAATCTAAGTCATATT
*
53468816 TGATGTTATGTATGGCTGTGGTTTGGCACGAAAAGGGTTTGTAAATGATTAGCCATTGGAATGGC
1 TGATGTTATGTATGGCTGTGGTTTGGCAAGAAAAGGGTTTGTAAATGATTAGCCATTGGAATGGC
53468881 CAATCTAAGTCATATT
66 CAATCTAAGTCATATT
53468897 TGATGTTATGTATG
1 TGATGTTATGTATG
53468911 TTTAAAATGC
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
81 84 0.90
82 9 0.10
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.36
Consensus pattern (81 bp):
TGATGTTATGTATGGCTGTGGTTTGGCAAGAAAAGGGTTTGTAAATGATTAGCCATTGGAATGGC
CAATCTAAGTCATATT
Found at i:53481215 original size:43 final size:43
Alignment explanation
Indices: 53481139--53481281 Score: 146
Period size: 43 Copynumber: 3.3 Consensus size: 43
53481129 CCAGATATGT
* * * * * * *
53481139 TCTTACATGTTATCAC-ATATCGATTCCATTGTCCTAAATAGGG
1 TCTTACATGTAATCGCAATA-CGATGCCAATGTCCCAAACATGG
* *
53481182 TCTTACATGTAATTG-ATTAACGATGCCAATGTCCCAAACATGG
1 TCTTACATGTAATCGCAAT-ACGATGCCAATGTCCCAAACATGG
* * *
53481225 TCTTACACGTAATCGCAATACAATGCCAATGTCCCAGACATGG
1 TCTTACATGTAATCGCAATACGATGCCAATGTCCCAAACATGG
53481268 TCTTACATGTAATC
1 TCTTACATGTAATC
53481282 ACATCTCGGT
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
43 79 0.96
44 3 0.04
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (43 bp):
TCTTACATGTAATCGCAATACGATGCCAATGTCCCAAACATGG
Found at i:53483913 original size:13 final size:13
Alignment explanation
Indices: 53483895--53483919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53483885 CATTGCTCGT
53483895 TGACTACATTCGG
1 TGACTACATTCGG
53483908 TGACTACATTCG
1 TGACTACATTCG
53483920 CCTTTCTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGACTACATTCGG
Found at i:53489646 original size:8 final size:8
Alignment explanation
Indices: 53489633--53489666 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
53489623 CTTGTTCTTA
53489633 AAAAAAAT
1 AAAAAAAT
53489641 AAAAAAAT
1 AAAAAAAT
*
53489649 ATAAAAAT
1 AAAAAAAT
*
53489657 ATAAAAAT
1 AAAAAAAT
53489665 AA
1 AA
53489667 TTATATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
AAAAAAAT
Found at i:53494491 original size:21 final size:21
Alignment explanation
Indices: 53494467--53494506 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
53494457 TTAAATTTCA
53494467 AACTAAATTAGAAAATTTAGT
1 AACTAAATTAGAAAATTTAGT
53494488 AACTAAATTAGAAAATTTA
1 AACTAAATTAGAAAATTTA
53494507 ATTGTTCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (21 bp):
AACTAAATTAGAAAATTTAGT
Found at i:53494612 original size:15 final size:17
Alignment explanation
Indices: 53494594--53494625 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
53494584 TTAATGTTAC
53494594 TTTTAT-TA-AATTATT
1 TTTTATCTAGAATTATT
53494609 TTTTATCTAGAATTATT
1 TTTTATCTAGAATTATT
53494626 ATAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTATCTAGAATTATT
Found at i:53506929 original size:39 final size:39
Alignment explanation
Indices: 53506875--53507138 Score: 429
Period size: 39 Copynumber: 6.8 Consensus size: 39
53506865 TTTCCAACAA
53506875 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
*
53506914 GAATGCCTTCAGGACTTAGCCCGGATATAACACCAGCAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
* * * *
53506953 AAATACCTTCGAGACTTAGCCTGGATATAACACCAGCAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
*
53506992 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAT
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
* *
53507031 GAATGCCTTCGGGACTTAGCCCGGACATAACACCAGAAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
** *
53507070 GAATGCCTTCAAGACTTAGCCCGGATATAACACCAGTAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
53507109 GAATGCCTTCGGGACTTAGCCCGGATATAA
1 GAATGCCTTCGGGACTTAGCCCGGATATAA
53507139 ATCTTACACA
Statistics
Matches: 205, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 205 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
Found at i:53510564 original size:55 final size:54
Alignment explanation
Indices: 53510477--53510733 Score: 196
Period size: 55 Copynumber: 4.8 Consensus size: 54
53510467 ATTAGGGTTT
*
53510477 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGGTTTCTAAGGC
* * * *
53510532 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAA-GTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGGTT--TCTAAGGC
* * * *
53510587 AAAGG-T-CCAATGTAAGACCATACCAAGGCATGGCATTGGTGA-G-TTCATAAGGC
1 -AAGGATACC-ATGTAAGACCATGCCAAGACATGGAATTGGTAAGGTTTC-TAAGGC
* * * * *
53510640 AAGGATACCATGTAAAACCATGTCGAGACAT-GACAATGCT-AGGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGA-ATTGGTAAGGTTTCTAAGGC
* * * *
53510689 AAGGATACCAAGTATGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGGT
53510734 ACTCGTGTAT
Statistics
Matches: 163, Mismatches: 26, Indels: 31
0.74 0.12 0.14
Matches are distributed among these distances:
49 28 0.17
50 6 0.04
51 1 0.01
52 9 0.06
53 32 0.20
54 15 0.09
55 68 0.42
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGGTTTCTAAGGC
Found at i:53514426 original size:45 final size:45
Alignment explanation
Indices: 53514372--53514733 Score: 336
Period size: 45 Copynumber: 7.7 Consensus size: 45
53514362 ATGAGAGCTG
53514372 GTGTAAGACCATGTCTGGGACATGGCATCGGCTTAATATGTGTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCTTAATATGTGTCA
* * * *
53514417 GTGTAAGACCATGTCAT-GGACATGGCATCGGCACTGATAGATGAGAGCTA
1 GTGTAAGACCATGTC-TGGGACATGGCATCGG--CTTA-ATATGTG-TC-A
* * * *
53514467 GTGTAAGACCTTGTCTGGGACATGGCATCAGCTTGATATGTGTTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCTTAATATGTGTCA
* * *
53514512 GTGTAAGACCATGTCTGGGGCATGGTATCGGCACTGATAGATGA-GAGCTC-
1 GTGTAAGACCATGTCTGGGACATGGCATCGG--CT--TA-AT-ATGTG-TCA
* *
53514562 GTGTAAGACCATGTCTAGGG-CATGGCATCGGCTTGATATGTATCA
1 GTGTAAGACCATGTCT-GGGACATGGCATCGGCTTAATATGTGTCA
* * * *
53514607 GTGTAAGACCATGTCTGGGACATGGCATCGACACTGATAGATGAGATCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCG--GCTTA-ATATGTG-TC-A
* * *
53514657 GTGTAAGACCATGTCTAGGACATGGAATCGGCTTGATATGTGTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCTTAATATGTGTCA
*
53514702 ATGTAAGACCATGTCTGGGACATGGCATCGGC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC
53514734 CTGGATATAC
Statistics
Matches: 255, Mismatches: 39, Indels: 46
0.75 0.11 0.14
Matches are distributed among these distances:
44 6 0.02
45 116 0.45
46 4 0.02
47 17 0.07
48 15 0.06
49 5 0.02
50 87 0.34
51 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.27
Consensus pattern (45 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCTTAATATGTGTCA
Found at i:53514525 original size:95 final size:95
Alignment explanation
Indices: 53514357--53514832 Score: 611
Period size: 95 Copynumber: 5.0 Consensus size: 95
53514347 TGATGCTAGG
* * *
53514357 GATATATGAGAGCTGGTGTAAGACCATGTCTGGGACATGGCATCGGCTTAATATGTGTCAGTGTA
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTA
53514422 AGACCATGTCAT-GGACATGGCATCGGCACT
66 AGACCATGTC-TGGGACATGGCATCGGCACT
* * *
53514452 GATAGATGAGAGCTAGTGTAAGACCTTGTCTGGGACATGGCATCAGCTTGATATGTGTTAGTGTA
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTA
* *
53514517 AGACCATGTCTGGGGCATGGTATCGGCACT
66 AGACCATGTCTGGGACATGGCATCGGCACT
* *
53514547 GATAGATGAGAGCTCGTGTAAGACCATGTCTAGGG-CATGGCATCGGCTTGATATGTATCAGTGT
1 GATAGATGAGAGCTAGTGTAAGACCATGTCT-GGGACATGGCATCGGCTTGATATGTGTCAGTGT
*
53514611 AAGACCATGTCTGGGACATGGCATCGACACT
65 AAGACCATGTCTGGGACATGGCATCGGCACT
* * * *
53514642 GATAGATGAGATCTAGTGTAAGACCATGTCTAGGACATGGAATCGGCTTGATATGTGTCAATGTA
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTA
53514707 AGACCATGTCTGGGACATGGCATCGGC-CT
66 AGACCATGTCTGGGACATGGCATCGGCACT
* * * * * * * * *
53514736 GGATATACGAGAGGC-AGTGTAAG-CCATGTTTGGGACATGGTATCGACATTGGTGGGTGAGCCA
1 -GATAGATGAGA-GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAT--ATGTGTCA
* * *
53514799 ATGTAAGACCATGTCTGAGACATGGCGTCGGCAC
61 GTGTAAGACCATGTCTGGGACATGGCATCGGCAC
53514833 CTTACCCTAT
Statistics
Matches: 336, Mismatches: 36, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
94 25 0.07
95 271 0.81
96 4 0.01
97 35 0.10
98 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (95 bp):
GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTA
AGACCATGTCTGGGACATGGCATCGGCACT
Found at i:53520972 original size:23 final size:24
Alignment explanation
Indices: 53520943--53520988 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
53520933 TATATAACAC
53520943 ATCATTCATT-T-ATATATATTCAT
1 ATCATTCATTGTCATATAT-TTCAT
53520966 ATCATTCATTGTCATATATTTCA
1 ATCATTCATTGTCATATATTTCA
53520989 CATGTGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
24 5 0.24
25 6 0.29
ACGTcount: A:0.33, C:0.15, G:0.02, T:0.50
Consensus pattern (24 bp):
ATCATTCATTGTCATATATTTCAT
Found at i:53521247 original size:42 final size:44
Alignment explanation
Indices: 53521193--53521293 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 44
53521183 AACAAATATT
* * *
53521193 GATGCCACTGTCCCAAAAAAGGGCTTACACG-AAATCATATA-C
1 GATGCCAATGTCCCAAAAAAGGGCTTACACGTAAATCACAAATC
* * * * *
53521235 GATGCCAATGTCCTAGACATGGTCTTACACGTAAATCACAAATC
1 GATGCCAATGTCCCAAAAAAGGGCTTACACGTAAATCACAAATC
53521279 GATGCCAATGTCCCA
1 GATGCCAATGTCCCA
53521294 GATGTGGTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
42 25 0.52
43 8 0.17
44 15 0.31
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (44 bp):
GATGCCAATGTCCCAAAAAAGGGCTTACACGTAAATCACAAATC
Found at i:53521289 original size:44 final size:42
Alignment explanation
Indices: 53521193--53521308 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 42
53521183 AACAAATATT
* * * * * * *
53521193 GATGCCACTGTCCCAAAAAAGGGCTTACACGAAATCATATAC
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAAAC
*
53521235 GATGCCAATGTCCTAGACATGGTCTTACACGTAAATCACAAATC
1 GATGCCAATGTCCCAGACATGGTCTTACACG-AAATCACAAA-C
**
53521279 GATGCCAATGTCCCAGATGTGGTCTTACAC
1 GATGCCAATGTCCCAGACATGGTCTTACAC
53521309 AATAACACAT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 25 0.41
43 8 0.13
44 28 0.46
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAAAC
Found at i:53525054 original size:50 final size:50
Alignment explanation
Indices: 53524939--53525217 Score: 301
Period size: 50 Copynumber: 5.5 Consensus size: 50
53524929 TGAGAACACA
* * *** *
53524939 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGTCACG
* * * *
53524991 TGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
* * * * *
53525041 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ACAACTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGA-TAGTT-AGGTCACG
* * *
53525092 TGTGTAGTACTAACTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
* ** *
53525142 TGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
53525192 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
53525218 TGCCTACCCG
Statistics
Matches: 187, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
49 1 0.01
50 114 0.61
51 39 0.21
52 33 0.18
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
Found at i:53525129 original size:101 final size:101
Alignment explanation
Indices: 53524986--53525167 Score: 292
Period size: 101 Copynumber: 1.8 Consensus size: 101
53524976 TGGTTTTAGG
* * *
53524986 TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAACTGCAGGCTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTAC
*
53525051 TAAGTGCAGGCTACTATGCGTACCCAACAACTTCAA
66 AAAGTGCAGGCTACTATGCGTACCCAACAACTTCAA
* * * *
53525087 TCACGTGTGTAGTACTAACTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAACTGCAGGCTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTAC
53525152 AAAGTGCAGGCTACTA
66 AAAGTGCAGGCTACTA
53525168 CGTGTACCAG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAACTGCAGGCTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTAC
AAAGTGCAGGCTACTATGCGTACCCAACAACTTCAA
Found at i:53525215 original size:151 final size:152
Alignment explanation
Indices: 53524939--53525231 Score: 471
Period size: 151 Copynumber: 1.9 Consensus size: 152
53524929 TGAGAACACA
** * * *
53524939 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAACTGCAGGCTACTACGTGTATAAGATGG-TTTAGGTCACGTGTGTAGTACAAA
*
53525004 GTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
65 GTGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
*
53525069 CGTACCCAACAACTTCAATCACG
130 CCTACCCAACAACTTCAATCACG
*
53525092 TGTGTAGTACTAACTGCAGGCTACTACGTGTATCAGATGG-TTAGGTCACGTGTGTAGTACAAAG
1 TGTGTAGTACTAACTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACAAAG
* *
53525156 TGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGC
66 TGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
*
53525221 CTACCCGACAA
131 CTACCCAACAA
53525232 GGTACGGACA
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
151 94 0.73
153 35 0.27
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (152 bp):
TGTGTAGTACTAACTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACAAAG
TGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
CTACCCAACAACTTCAATCACG
Found at i:53526578 original size:133 final size:132
Alignment explanation
Indices: 53526337--53526601 Score: 467
Period size: 133 Copynumber: 2.0 Consensus size: 132
53526327 TAACAAAACA
*
53526337 TGTAACTTGTGTTCATTTTGTTCTTGGTTGCCGAAATTAAAGAAAGAAAAGCTAGGTTCTTGTGT
1 TGTAACTTGTGTTCATTTTGTTCTTGGTCGCCGAAATTAAAGAAAGAAAAGCTAGGTTCTTGTGT
*
53526402 TTAGATATTCACCTACTTCCAAGCTTGATTAAGGTATGGTTTTGACTCAGTTTTTGATAACTTCT
66 TTAGATATTCAACTACTTCCAAGCTTGATTAAGGTATGGTTTTGACTCAGTTTTTGATAACTTCT
53526467 AC
131 AC
* *
53526469 TGTAATTTGTGTTCATTTTGTTCTTGGTCGCTGAAATTAAAGAAAGAAAAGCTAAGGTTCTTGTG
1 TGTAACTTGTGTTCATTTTGTTCTTGGTCGCCGAAATTAAAGAAAGAAAAGCT-AGGTTCTTGTG
* *
53526534 TTTAGATATTCAACTACTTCGAAGCTTGATTAAGGTATGGTTTTGACTCAGTTTTTGATAATTTC
65 TTTAGATATTCAACTACTTCCAAGCTTGATTAAGGTATGGTTTTGACTCAGTTTTTGATAACTTC
53526599 TAC
130 TAC
53526602 GTTTTTCTAA
Statistics
Matches: 126, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
132 50 0.40
133 76 0.60
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (132 bp):
TGTAACTTGTGTTCATTTTGTTCTTGGTCGCCGAAATTAAAGAAAGAAAAGCTAGGTTCTTGTGT
TTAGATATTCAACTACTTCCAAGCTTGATTAAGGTATGGTTTTGACTCAGTTTTTGATAACTTCT
AC
Found at i:53527481 original size:43 final size:43
Alignment explanation
Indices: 53527311--53527482 Score: 149
Period size: 43 Copynumber: 4.0 Consensus size: 43
53527301 ACATAAGATC
* *
53527311 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGACATTGGCAT
1 CGATATTTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
**
53527354 CGACT-TACGATTTACGTGTAAGACCACG-CTTGGGACGTTGGCAT
1 CGA-TATTTGA-TTACGTGTAAGACCACGTC-TGGGACGTTGGCAT
** * *
53527398 CG-TATTTGATTTTGTGTAAGATCC-TGTCTAGGACAG-TGGCAT
1 CGATATTTGATTACGTGTAAGA-CCACGTCTGGGAC-GTTGGCAT
* * *
53527440 CGATATTTTATTACGAGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
53527483 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 16, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
42 28 0.27
43 41 0.40
44 30 0.29
45 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:53527636 original size:33 final size:33
Alignment explanation
Indices: 53527594--53527666 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
53527584 GTAAATTTGA
53527594 ATTGTATACCATCTTTGAGGTTGAAAGGTAAGT
1 ATTGTATACCATCTTTGAGGTTGAAAGGTAAGT
53527627 ATTGTATACCATCTTTGAGGTTGAAAGGTAAGT
1 ATTGTATACCATCTTTGAGGTTGAAAGGTAAGT
53527660 ATATGTA
1 AT-TGTA
53527667 CCTTGATGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
33 35 0.90
34 4 0.10
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (33 bp):
ATTGTATACCATCTTTGAGGTTGAAAGGTAAGT
Found at i:53538168 original size:40 final size:40
Alignment explanation
Indices: 53538089--53538266 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
53538079 AAACCAAGTA
* *
53538089 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
53538128 CCTTCGGGACTTAGCCCGGATTTAGTAACCCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
53538168 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
53538208 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
53538248 CCTTCGGGACCTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
53538267 TTATCATCCG
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
39 15 0.12
40 107 0.88
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:53539656 original size:19 final size:20
Alignment explanation
Indices: 53539624--53539661 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
53539614 TTCTTTCACC
*
53539624 CATTTTCTTCATTTAATTAT
1 CATTTCCTTCATTTAATTAT
*
53539644 CATTTCCTT-ATTTTATTA
1 CATTTCCTTCATTTAATTA
53539662 CATCATCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.61
Consensus pattern (20 bp):
CATTTCCTTCATTTAATTAT
Found at i:53540427 original size:25 final size:25
Alignment explanation
Indices: 53540393--53540442 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
53540383 CAACACATAA
*
53540393 TGTTATTTACGTTTGACATCACTTT
1 TGTTATTTACATTTGACATCACTTT
53540418 TGTTATTTACATTTGACATCACTTT
1 TGTTATTTACATTTGACATCACTTT
53540443 CTTATATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (25 bp):
TGTTATTTACATTTGACATCACTTT
Found at i:53540452 original size:24 final size:25
Alignment explanation
Indices: 53540395--53540452 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
53540385 ACACATAATG
* *
53540395 TTATTTACGTTTGACATCACTTTTG
1 TTATTTACATTTGACATCACTTTTC
53540420 TTATTTACATTTGACATCAC-TTTC
1 TTATTTACATTTGACATCACTTTTC
*
53540444 TTATATACA
1 TTATTTACA
53540453 ATATCATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.26, C:0.17, G:0.07, T:0.50
Consensus pattern (25 bp):
TTATTTACATTTGACATCACTTTTC
Found at i:53540520 original size:23 final size:23
Alignment explanation
Indices: 53540494--53540537 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
53540484 GGCAAGATAT
*
53540494 ATTTTCAAGTATAATAGCAATAG
1 ATTTTCAAGTATAATAACAATAG
53540517 ATTTTCAAGTATAATAACAAT
1 ATTTTCAAGTATAATAACAAT
53540538 GGCATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTTTCAAGTATAATAACAATAG
Found at i:53552649 original size:17 final size:18
Alignment explanation
Indices: 53552615--53552649 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
53552605 TTTGAACTCG
*
53552615 ATTTTTGATGATTTTTAC
1 ATTTTTGATGATTGTTAC
53552633 ATTTTTGAT-ATTGTTAC
1 ATTTTTGATGATTGTTAC
53552650 TTAGTAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (18 bp):
ATTTTTGATGATTGTTAC
Found at i:53554100 original size:9 final size:9
Alignment explanation
Indices: 53554086--53554110 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
53554076 ACTTTTGGAT
53554086 TGATTTGAA
1 TGATTTGAA
53554095 TGATTTGAA
1 TGATTTGAA
53554104 TGATTTG
1 TGATTTG
53554111 GTGAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (9 bp):
TGATTTGAA
Found at i:53554578 original size:43 final size:42
Alignment explanation
Indices: 53554432--53554578 Score: 140
Period size: 42 Copynumber: 3.4 Consensus size: 42
53554422 TATGTGTTTT
* * *
53554432 CGTGTAAGACCACGTCTGGGACATTGGTATC-A-ACTTATGATTTA
1 CGTGTAAGACCACGTCTGAGA-AGTGGCATCGATA-TT-TGA-TTA
* * *
53554476 CGTGTAAGACCACGTCTAAGACGTTGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGAGAAG-TGGCATCGATATTTGATTA
53554518 CGTGTAAGACC-CTGTCTGAGATAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGAGA-AGTGGCATCGATATTTGATTA
*
53554561 CATGTAAGACCACGTCTG
1 CGTGTAAGACCACGTCTG
53554579 TGACATTGGC
Statistics
Matches: 86, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
41 1 0.01
42 28 0.33
43 28 0.33
44 28 0.33
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGAGAAGTGGCATCGATATTTGATTA
Found at i:53554589 original size:43 final size:43
Alignment explanation
Indices: 53554432--53554590 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
53554422 TATGTGTTTT
* *
53554432 CGTGTAAGACCACGTCTGGGACATTGGTATC-A-ACTTATGATTTA
1 CGTGTAAGACCACGTCTGAGACATTGGCATCGATA-TT-TGA-TTA
* * *
53554476 CGTGTAAGACCACGTCTAAGACGTTGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGAGACATTGGCATCGATATTTGATTA
* *
53554518 CGTGTAAGACC-CTGTCTGAGATAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGAGACATTGGCATCGATATTTGATTA
* *
53554561 CATGTAAGACCACGTCTGTGACATTGGCAT
1 CGTGTAAGACCACGTCTGAGACATTGGCAT
53554591 TGTATGAGCT
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 36 0.38
44 30 0.31
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGAGACATTGGCATCGATATTTGATTA
Found at i:53563820 original size:40 final size:40
Alignment explanation
Indices: 53563635--53563820 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
53563625 GCTCCTCGTT
* * *
53563635 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
53563675 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
53563715 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
** * * *
53563755 CAAATGCCTT-TAGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
53563796 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53563821 CATCATTCAA
Statistics
Matches: 122, Mismatches: 15, Indels: 18
0.79 0.10 0.12
Matches are distributed among these distances:
39 3 0.02
40 105 0.86
41 13 0.11
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:53571759 original size:40 final size:40
Alignment explanation
Indices: 53571574--53571759 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
53571564 GCTCCTCGTT
* *
53571574 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
53571614 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
53571654 CAAATGCCTTTGGGACTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
53571694 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
53571735 CAAA-GCCTTCGGGACATAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53571760 CATCATTCAA
Statistics
Matches: 125, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 3 0.02
40 110 0.88
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:53578579 original size:30 final size:30
Alignment explanation
Indices: 53578543--53578602 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
53578533 TTCCCAAGCC
*
53578543 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
53578573 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
53578603 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:53581192 original size:43 final size:42
Alignment explanation
Indices: 53581115--53581232 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
53581105 TTGATTTATG
* * * *
53581115 TGTAAGACCACATCTTGGACACTGGCATCGTATTTGATTTCA
1 TGTAAAACCACGTCTGGGACACTGGCATCGTATTTGATTACA
*
53581157 TGTAAAACC-CTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAAACCAC-GTCTGGGACACTGGCATCG-TATTTGATTACA
* * * *
53581200 TGTAAGACCACGTCTGTGACATTGGCATTGTAT
1 TGTAAAACCACGTCTGGGACACTGGCATCGTAT
53581233 GAGCTTTTCG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 27 0.42
43 35 0.55
44 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (42 bp):
TGTAAAACCACGTCTGGGACACTGGCATCGTATTTGATTACA
Found at i:53582573 original size:21 final size:23
Alignment explanation
Indices: 53582542--53582593 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
53582532 TGTAAGGGAC
53582542 TTTGT-AATGATG-TATG-ATTA
1 TTTGTGAATGATGTTATGAATTA
*
53582562 TTTGTGAATGATGTTTGTGAATTA
1 TTTGTGAATGATG-TTATGAATTA
53582586 TTTGTGAA
1 TTTGTGAA
53582594 ATGTTTCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 5 0.19
21 7 0.26
23 3 0.11
24 12 0.44
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (23 bp):
TTTGTGAATGATGTTATGAATTA
Found at i:53585222 original size:30 final size:30
Alignment explanation
Indices: 53585186--53585242 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
53585176 AACCCTATGT
*
53585186 TCGATGGTCAAAACCATCCTTTTTCATTAA
1 TCGATGGTCAAAACCATCCCTTTTCATTAA
**
53585216 TCGATGGTCATCACCATCCCTTTTCAT
1 TCGATGGTCAAAACCATCCCTTTTCAT
53585243 AGTTGGTGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.37
Consensus pattern (30 bp):
TCGATGGTCAAAACCATCCCTTTTCATTAA
Found at i:53585283 original size:29 final size:29
Alignment explanation
Indices: 53585198--53585283 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
53585188 GATGGTCAAA
* * *
53585198 ACCATCCTTTTTCATTAATCGATGGTCATC
1 ACCATCCCTTTTCA-TAATCGATGGCCGTC
* * *
53585228 ACCATCCCTTTTCATAGTTGGTGGCCGTC
1 ACCATCCCTTTTCATAATCGATGGCCGTC
*
53585257 ACCATCCCTTTTCATAATCGATAGCCG
1 ACCATCCCTTTTCATAATCGATGGCCG
53585284 AAGCTATCCT
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
29 33 0.72
30 13 0.28
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (29 bp):
ACCATCCCTTTTCATAATCGATGGCCGTC
Found at i:53597101 original size:95 final size:90
Alignment explanation
Indices: 53596902--53597131 Score: 243
Period size: 95 Copynumber: 2.5 Consensus size: 90
53596892 CACATAGTAA
*
53596902 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAGATCGAAGCTAATAGCCCAGC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAGATCGAAGCCAATAGCCCAGC
* *
53596967 TATGGTCTTACACGATGTATCATATC
66 TATGGTCTTACACGA-GGATCATACC
* * *
53596993 GATGCCAATGCCATATCCTAGATATGGTCTTACAAGGGATCA-ATATC-AATGCCAATGCCATGT
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAGATCGAA-GCCAAT---A-G-
*
53597056 CCCAGAC-ATGGTCTTACATG-GGATCAAATACC
60 CCCAG-CTATGGTCTTACACGAGGATC--ATACC
* * **
53597088 GATGCAAATGCCATGTCCCAGACGTGGTCTTACATGGGATCACA
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACA
53597132 CATAACCCTA
Statistics
Matches: 116, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
89 2 0.02
90 9 0.08
91 40 0.34
93 5 0.04
94 1 0.01
95 57 0.49
96 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (90 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAGATCGAAGCCAATAGCCCAGC
TATGGTCTTACACGAGGATCATACC
Found at i:53597116 original size:48 final size:48
Alignment explanation
Indices: 53596902--53597129 Score: 204
Period size: 48 Copynumber: 4.9 Consensus size: 48
53596892 CACATAGTAA
* * * * *
53596902 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAAATACC
* * * * *
53596950 GAAGCTAAT---A-G-CCCAG-CTATGGTCTTACACGATGTATC--ATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATG--GGATCAAATACC
* * * * *
53596993 GATGCCAATGCCATATCCTAGATATGGTCTTACAAGGGATC-AATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAAATACC
*
53597040 AATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAAATACC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAAATACC
* *
53597088 GATGCAAATGCCATGTCCCAGACGTGGTCTTACATGGGATCA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
53597130 CACATAACCC
Statistics
Matches: 146, Mismatches: 23, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
43 28 0.19
45 5 0.03
46 5 0.03
47 41 0.28
48 67 0.46
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAAATACC
Found at i:53598263 original size:324 final size:324
Alignment explanation
Indices: 53597674--53598305 Score: 1167
Period size: 324 Copynumber: 2.0 Consensus size: 324
53597664 CCTTTTTAGC
53597674 CATTTTCACTAGAAATCACTTAGTAAAAGATGTTTATCACACATCAAACATTCATATACTGTAAC
1 CATTTTCACTAGAAATCACTTAGTAAAAGATGTTTATCACACATCAAACATTCATATACTGTAAC
*
53597739 GCCCCAAATTTGGGGCCTGGAAGTATTAGGTCTTGAGCACGGGAACAATTAGGAGGTTGCACATA
66 GCCCCAAATTTGGGGCCTGGAAGTATTAGGTCTTGAGCACGGGAACAATTAGGAGATTGCACATA
53597804 AATGTTTAGTTGTGCAAGAAAGTGACACAATTGTCTGTCTGCCTCAGTGTTTATGTGTTTTGGGA
131 AATGTTTAGTTGTGCAAGAAAGTGACACAATTGTCTGTCTGCCTCAGTGTTTATGTGTTTTGGGA
53597869 AGTGTTTGAGAAGTCTTGGGTTCAAGCCTGGGGATGTGCAAAAAGTTTTGTTTTTAAAGGTTAAA
196 AGTGTTTGAGAAGTCTTGGGTTCAAGCCTGGGGATGTGCAAAAAGTTTTGTTTTTAAAGGTTAAA
53597934 GCTCTATCGATAGTTAATAGGCTTATAAATAAACGTGGGTAAAAGATGTTTATCGCACATCAAA
261 GCTCTATCGATAGTTAATAGGCTTATAAATAAACGTGGGTAAAAGATGTTTATCGCACATCAAA
* * *
53597998 CATTTTCACTAGAAATCACTTAGTTAAAGATGTTTATCACACATCAAACATTCATATTCTGTAAT
1 CATTTTCACTAGAAATCACTTAGTAAAAGATGTTTATCACACATCAAACATTCATATACTGTAAC
*
53598063 GCCCCAAATTTGGGGCCTGGAAGTATTAGGTCTTGAGCATGGGAACAATTAGGAGATTGCACATA
66 GCCCCAAATTTGGGGCCTGGAAGTATTAGGTCTTGAGCACGGGAACAATTAGGAGATTGCACATA
*
53598128 AATGTTTAGTTGTGCAAGAAAGTGACACAATTGTTTGTCTGCCTCAGTGTTTATGTGTTTTGGGA
131 AATGTTTAGTTGTGCAAGAAAGTGACACAATTGTCTGTCTGCCTCAGTGTTTATGTGTTTTGGGA
53598193 AGTGTTTGAGAAGTCTTGGGTTCAAGCCTGGGGATGTG-AGAAAAGTTTTGTTTTTAAAGGTTAA
196 AGTGTTTGAGAAGTCTTGGGTTCAAGCCTGGGGATGTGCA-AAAAGTTTTGTTTTTAAAGGTTAA
* * *
53598257 AGCTCTATCGATAGTTAGTAGGCTTATAAATAAATGTGGTTAAAAGATG
260 AGCTCTATCGATAGTTAATAGGCTTATAAATAAACGTGGGTAAAAGATG
53598306 ACAGAAAGGG
Statistics
Matches: 298, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
323 1 0.00
324 297 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (324 bp):
CATTTTCACTAGAAATCACTTAGTAAAAGATGTTTATCACACATCAAACATTCATATACTGTAAC
GCCCCAAATTTGGGGCCTGGAAGTATTAGGTCTTGAGCACGGGAACAATTAGGAGATTGCACATA
AATGTTTAGTTGTGCAAGAAAGTGACACAATTGTCTGTCTGCCTCAGTGTTTATGTGTTTTGGGA
AGTGTTTGAGAAGTCTTGGGTTCAAGCCTGGGGATGTGCAAAAAGTTTTGTTTTTAAAGGTTAAA
GCTCTATCGATAGTTAATAGGCTTATAAATAAACGTGGGTAAAAGATGTTTATCGCACATCAAA
Found at i:53603918 original size:40 final size:40
Alignment explanation
Indices: 53603867--53604143 Score: 464
Period size: 40 Copynumber: 6.9 Consensus size: 40
53603857 ATAACCGCAA
* * * * *
53603867 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
53603907 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
53603947 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
53603987 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
53604027 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
53604067 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
53604107 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
53604144 ATGCTCATGC
Statistics
Matches: 222, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 222 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:53611390 original size:55 final size:54
Alignment explanation
Indices: 53611261--53611457 Score: 254
Period size: 54 Copynumber: 3.6 Consensus size: 54
53611251 TTGGTAAGAT
* * *
53611261 AAGGATATCATGTAAGACCATGACAAGACATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
53611315 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * * * *
53611370 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGATTTC-ATAAGTC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
*
53611423 AAGGATACCATGTAAAACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
53611458 ATGGTAAGCT
Statistics
Matches: 125, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.26
54 43 0.34
55 42 0.34
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:53613970 original size:27 final size:27
Alignment explanation
Indices: 53613946--53614032 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
53613936 AACAAAGCTG
*
53613946 CTAGTAACAATATATGTGGCAAAGCCA
1 CTAGTAACAATAAATGTGGCAAAGCCA
* *
53613973 CTAGTATCAGTAAATGTGGCAAAGCCA
1 CTAGTAACAATAAATGTGGCAAAGCCA
* * *
53614000 CTAGTAACAGTAATTGTGGCAGAGCCA
1 CTAGTAACAATAAATGTGGCAAAGCCA
*
53614027 CCAGTA
1 CTAGTA
53614033 CAGTACTTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
CTAGTAACAATAAATGTGGCAAAGCCA
Found at i:53619885 original size:30 final size:31
Alignment explanation
Indices: 53619844--53619904 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
53619834 TTTCTGAGCC
*
53619844 TAGGGGCAAAATTGTAATTCTGT-AAAGTTT
1 TAGGGGAAAAATTGTAATTCTGTCAAAGTTT
*
53619874 TAGGGGAAAAATTGTAATTTTGTCAAAGTTT
1 TAGGGGAAAAATTGTAATTCTGTCAAAGTTT
53619905 GAGTTAGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (31 bp):
TAGGGGAAAAATTGTAATTCTGTCAAAGTTT
Found at i:53621638 original size:27 final size:27
Alignment explanation
Indices: 53621608--53621864 Score: 316
Period size: 27 Copynumber: 9.5 Consensus size: 27
53621598 TCAGTTTACC
53621608 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
53621635 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
53621662 AAATCACCAAAATACCCGTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
53621689 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
53621716 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
53621743 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
53621770 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
53621797 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
53621824 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
53621851 AAATTACTAAAATA
1 AAATTACCAAAATA
53621865 ACCTCGACCT
Statistics
Matches: 200, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 200 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:53621673 original size:54 final size:54
Alignment explanation
Indices: 53621608--53621864 Score: 361
Period size: 54 Copynumber: 4.8 Consensus size: 54
53621598 TCAGTTTACC
53621608 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * * *
53621662 AAATCACCAAAATACCCGTAGTTTGTAAAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
53621716 AAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * ** * *
53621770 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
53621824 AAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATA
53621865 ACCTCGACCT
Statistics
Matches: 180, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 180 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:53621882 original size:54 final size:54
Alignment explanation
Indices: 53621608--53621915 Score: 302
Period size: 54 Copynumber: 5.7 Consensus size: 54
53621598 TCAGTTTACC
* * *
53621608 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATAACCTTGATTTATA
* * * * *
53621662 AAATCACCAAAATACCCGT-AGTTTGTAAAATTACCAAAAT-ACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAATAACC-TTGATTTATA
* *
53621716 AAATTACCAAAATA-CCCTTAGTTTGTAAAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAATAACC-TTGATTTATA
* * * * * * *
53621770 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATAACCTTGATTTATA
* * ** *
53621824 AAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATAACCTCGACCTGTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATAACCTTGATTTATA
*** *
53621878 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACTAAA
53621916 GTACCATTAA
Statistics
Matches: 213, Mismatches: 34, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
53 10 0.05
54 194 0.91
55 9 0.04
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATAACCTTGATTTATA
Found at i:53621920 original size:27 final size:27
Alignment explanation
Indices: 53621608--53621920 Score: 258
Period size: 27 Copynumber: 11.6 Consensus size: 27
53621598 TCAGTTTACC
* *
53621608 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACTAAAATACCCCTGATTTGTA
* * *
53621635 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACTAAAATACCCCTGATTTGTA
* * *
53621662 AAATCACCAAAATACCCGT-AGTTTGTA
1 AAATTACTAAAATACCCCTGA-TTTGTA
* ** * **
53621689 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACTAAAATACCCCTGATTTGTA
* *
53621716 AAATTACCAAAATA-CCCTTAGTTTGTA
1 AAATTACTAAAATACCCCTGA-TTTGTA
* *
53621743 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACTAAAATACCC-CTGATTTGTA
* *
53621770 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACTAAAATACCCCTGATTTGTA
* * *
53621797 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACTAAAATACCCCTGATTTGTA
* *
53621824 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACTAAAATACCCCTGATTTGTA
* **
53621851 AAATTACTAAAATA-ACCTCGACCTGTA
1 AAATTACTAAAATACCCCT-GATTTGTA
* * *
53621878 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACTAAAATACCCCT-GATTTGTA
*
53621905 AAATTACTAAAGTACC
1 AAATTACTAAAATACC
53621921 ATTAATTTAC
Statistics
Matches: 235, Mismatches: 43, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
26 7 0.03
27 224 0.95
28 3 0.01
29 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACTAAAATACCCCTGATTTGTA
Found at i:53621993 original size:27 final size:27
Alignment explanation
Indices: 53621963--53622150 Score: 272
Period size: 27 Copynumber: 7.0 Consensus size: 27
53621953 TTTACAAAAT
53621963 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
53621990 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
53622017 TACCGAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * * * *
53622044 TACTGAAATACCCCTATAGGATAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
53622071 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
53622098 TACCGAAATACCCCTGTAGGATAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
53622125 TACCGAGATA-CCTTGTAGGGTA-AAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
53622150 T
1 T
53622151 TACCATTTTA
Statistics
Matches: 144, Mismatches: 17, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
25 3 0.02
26 10 0.07
27 131 0.91
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:53622624 original size:22 final size:22
Alignment explanation
Indices: 53622599--53622645 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
53622589 GGCTTTATGT
53622599 CAACCT-ACATATGGCTCTGTGC
1 CAACCTGA-ATATGGCTCTGTGC
* *
53622621 CAACCTGATTATGGCTGTGTGC
1 CAACCTGAATATGGCTCTGTGC
53622643 CAA
1 CAA
53622646 ACGTATTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (22 bp):
CAACCTGAATATGGCTCTGTGC
Found at i:53622834 original size:27 final size:27
Alignment explanation
Indices: 53622804--53622905 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
53622794 ATTCTGTTAA
* *
53622804 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* * *
53622831 GTGGCTATGCAACAAATATCTG-TTCTA
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
53622858 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
53622885 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
53622906 ATAACTGAGC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 8 0.13
27 48 0.76
28 7 0.11
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:53623081 original size:6 final size:6
Alignment explanation
Indices: 53623072--53623198 Score: 91
Period size: 6 Copynumber: 20.7 Consensus size: 6
53623062 TACCTGATAA
* * *
53623072 TGATTC TGATTT TGATTC TG-TTACC TGATAC CGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC
* * * * *
53623121 TG-TCACC TAATAC TGATTC TGATTC TGATTC T-ATCACC TAATTC TGATTC
1 TGAT--TC TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC
53623171 TGATTC TGATTC TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGA-TTC TGAT
53623199 AATGTTTCTT
Statistics
Matches: 96, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
5 6 0.06
6 78 0.81
7 8 0.08
8 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (6 bp):
TGATTC
Found at i:53623097 original size:31 final size:31
Alignment explanation
Indices: 53623063--53623184 Score: 172
Period size: 31 Copynumber: 3.9 Consensus size: 31
53623053 TAATTTTGTT
* * * *
53623063 ACCTGATAATGATTCTGATTTTGATTCTGTT
1 ACCTAATACTGATTCTGATTCTGATTCTGTC
* *
53623094 ACCTGATACCGATTCTGATTCTGATTCTGTC
1 ACCTAATACTGATTCTGATTCTGATTCTGTC
*
53623125 ACCTAATACTGATTCTGATTCTGATTCTATC
1 ACCTAATACTGATTCTGATTCTGATTCTGTC
*
53623156 ACCTAATTCTGATTCTGATTCTGATTCTG
1 ACCTAATACTGATTCTGATTCTGATTCTG
53623185 ATTCTAGTTC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 82 1.00
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.43
Consensus pattern (31 bp):
ACCTAATACTGATTCTGATTCTGATTCTGTC
Found at i:53623925 original size:55 final size:54
Alignment explanation
Indices: 53623841--53623991 Score: 191
Period size: 55 Copynumber: 2.8 Consensus size: 54
53623831 GGGGTGTTAC
**
53623841 ACTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGCT
1 ACTATAAGGCAAGGATCTCATGTAAGACCATGTCAAGACATGGCATTGATGAG-T
* * *
53623896 ACTATAAGGCAAAGG-TCTCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGT
1 ACTATAAGGC-AAGGATCTCATGTAAGACCATGTCAAGACATGGCATTGATGAGT
* *
53623950 TC-ATAAGGCAAGGATAC-CACGTAAGACCATGTCAAGACATGG
1 ACTATAAGGCAAGGAT-CTCATGTAAGACCATGTCAAGACATGG
53623992 TAATGGTAAG
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
52 4 0.05
53 30 0.36
54 3 0.04
55 43 0.51
56 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (54 bp):
ACTATAAGGCAAGGATCTCATGTAAGACCATGTCAAGACATGGCATTGATGAGT
Found at i:53623979 original size:53 final size:53
Alignment explanation
Indices: 53623844--53624005 Score: 184
Period size: 53 Copynumber: 3.0 Consensus size: 53
53623834 GTGTTACACT
* * * *
53623844 ATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGCTAC
1 ATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAG-TTC
* *
53623898 TATAAGGCAAAGG-T-CTCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC
1 -ATAAGGC-AAGGATAC-CATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTC
* * * *
53623952 ATAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGTAATGGTAAGTTC
1 ATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTC
53624005 A
1 A
53624006 AAATGGAAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
52 4 0.04
53 41 0.45
54 3 0.03
55 39 0.43
56 4 0.04
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
ATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTC
Found at i:53628725 original size:27 final size:27
Alignment explanation
Indices: 53628695--53628873 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
53628685 ATAGAATAAA
53628695 TGTTTTGCCCTTATGTGGTAAAATGAC
1 TGTTTTGCCCTTATGTGGTAAAATGAC
** *
53628722 TGTTTTGCCCTTATACGATAAAATGAC
1 TGTTTTGCCCTTATGTGGTAAAATGAC
* **
53628749 TATTTTGCCCTTATACGGTAAAATGAC
1 TGTTTTGCCCTTATGTGGTAAAATGAC
* * * *
53628776 TATTTTTCCCTTATGAGGTAAAATGAT
1 TGTTTTGCCCTTATGTGGTAAAATGAC
* *
53628803 TGTTTGGCCCTTATGTGGTAAAATGAT
1 TGTTTTGCCCTTATGTGGTAAAATGAC
* * * * *
53628830 TGTTTTACCTTTTTATGGTAAGATGAC
1 TGTTTTGCCCTTATGTGGTAAAATGAC
* *
53628857 TGTTTTACCCCTATGTG
1 TGTTTTGCCCTTATGTG
53628874 ATGTATGTTT
Statistics
Matches: 128, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (27 bp):
TGTTTTGCCCTTATGTGGTAAAATGAC
Found at i:53628741 original size:54 final size:54
Alignment explanation
Indices: 53628675--53628835 Score: 182
Period size: 54 Copynumber: 3.0 Consensus size: 54
53628665 CGTACCTGGA
* *
53628675 CCCTTA-ATCGATAGAATAAATGTTTTGCCCTTATGTGGTAAAATGACTGTTTTG
1 CCCTTATA-CGATAAAATGAATGTTTTGCCCTTATGTGGTAAAATGACTGTTTTG
* * ** * *
53628729 CCCTTATACGATAAAATGACTATTTTGCCCTTATACGGTAAAATGACTATTTTT
1 CCCTTATACGATAAAATGAATGTTTTGCCCTTATGTGGTAAAATGACTGTTTTG
* * * *
53628783 CCCTTATGA-GGTAAAATGATTGTTTGGCCCTTATGTGGTAAAATGATTGTTTT
1 CCCTTAT-ACGATAAAATGAATGTTTTGCCCTTATGTGGTAAAATGACTGTTTT
53628836 ACCTTTTTAT
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
54 87 0.98
55 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (54 bp):
CCCTTATACGATAAAATGAATGTTTTGCCCTTATGTGGTAAAATGACTGTTTTG
Found at i:53629171 original size:18 final size:18
Alignment explanation
Indices: 53629148--53629209 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
53629138 TGGACTTGTA
* *
53629148 TACTGTTACTGCACGGTT
1 TACTGTTACTACACTGTT
*
53629166 TACTGTTATTACACTG-T
1 TACTGTTACTACACTGTT
* *
53629183 TACTATTACTACATTGTT
1 TACTGTTACTACACTGTT
53629201 TACTGTTAC
1 TACTGTTAC
53629210 CACAATAGGC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
17 14 0.39
18 22 0.61
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (18 bp):
TACTGTTACTACACTGTT
Found at i:53631447 original size:79 final size:81
Alignment explanation
Indices: 53631345--53631528 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
53631335 GCTCCTCGTT
* *
53631345 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
53631407 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
53631425 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
53631489 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
53631505 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53631529 CAGCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:53631462 original size:39 final size:41
Alignment explanation
Indices: 53631345--53631528 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
53631335 GCTCCTCGTT
* *
53631345 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
53631385 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
53631425 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
53631464 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
53631505 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53631529 CAGCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:53635306 original size:36 final size:38
Alignment explanation
Indices: 53635232--53635314 Score: 134
Period size: 40 Copynumber: 2.2 Consensus size: 38
53635222 TTGGGCCATG
53635232 GTGGGCCGAAATAGGTCCTGTGGGCCCGCCCCACGTGTAT
1 GTGGGCCGAAATAGGTCCTGTGGG--CGCCCCACGTGTAT
53635272 GTGGGCCGAAATAGGTCCTGT-GG-GCCCCACGTGTAT
1 GTGGGCCGAAATAGGTCCTGTGGGCGCCCCACGTGTAT
53635308 GTGGGCC
1 GTGGGCC
53635315 CTACACGGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 20 0.47
39 2 0.05
40 21 0.49
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.20
Consensus pattern (38 bp):
GTGGGCCGAAATAGGTCCTGTGGGCGCCCCACGTGTAT
Found at i:53635553 original size:27 final size:27
Alignment explanation
Indices: 53635523--53635669 Score: 186
Period size: 27 Copynumber: 5.4 Consensus size: 27
53635513 TAATTGATAG
53635523 AATGACTATTTTGCCCTTATGTGGTAA
1 AATGACTATTTTGCCCTTATGTGGTAA
* * *
53635550 AATGACTGTTTTGCCCTTATGAGGTGA
1 AATGACTATTTTGCCCTTATGTGGTAA
* * * *
53635577 AATGAATTTTTTGCTCTTATGAGGTAA
1 AATGACTATTTTGCCCTTATGTGGTAA
53635604 AATGACTATTTTGCCCTTATGTGGTAA
1 AATGACTATTTTGCCCTTATGTGGTAA
* * *
53635631 AATGACTATTTTTCCCTTTTATGGTAA
1 AATGACTATTTTGCCCTTATGTGGTAA
* *
53635658 GATGACTGTTTT
1 AATGACTATTTT
53635670 ACCCCTATAT
Statistics
Matches: 104, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (27 bp):
AATGACTATTTTGCCCTTATGTGGTAA
Found at i:53639812 original size:40 final size:40
Alignment explanation
Indices: 53639746--53639981 Score: 330
Period size: 40 Copynumber: 5.8 Consensus size: 40
53639736 AAATAGGGCT
* *
53639746 TTAGCGGCG-TTTTAGTAAAAAACGCCGCTAAAAACTGATCA
1 TTAGCGGCGCTTTTGGT--AAAACGCCGCTAAAAACTGAGCA
*
53639787 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACTGAGCA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACTGAGCA
* *
53639827 TTAGCAGCGCTTTTGGTAAAACGCCGCTAAAGACTGAGCA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACTGAGCA
* * *
53639867 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGGGCA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAA-AACTGAGCA
*
53639908 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAACTAGGGCA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCT-AAAAACT-GAGCA
*
53639950 TTAGCGGCGCTTTTAGTAAAACGCCGCTAAAA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
53639982 GTTATATAAC
Statistics
Matches: 179, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
40 90 0.50
41 48 0.27
42 41 0.23
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACTGAGCA
Found at i:53640160 original size:14 final size:14
Alignment explanation
Indices: 53640138--53640182 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
53640128 TTAATTATCA
*
53640138 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
53640152 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
53640166 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
53640180 TTA
1 TTA
53640183 AACAGGTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:53640770 original size:14 final size:14
Alignment explanation
Indices: 53640751--53640795 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
53640741 TTCATTATCA
53640751 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
53640765 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
53640779 GTAT-GATTTAGGGT
1 TTATAG-TTTAGGGT
53640793 TTA
1 TTA
53640796 ATTTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 1 0.04
14 27 0.96
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:53643244 original size:21 final size:21
Alignment explanation
Indices: 53643199--53643244 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
53643189 CATTTCATTG
*
53643199 TGTTTGGAAGAAACAAAGAAG
1 TGTTTGGAAGAAACAAAGAAA
* * *
53643220 TGTTTGGAATAAATAAATAAA
1 TGTTTGGAAGAAACAAAGAAA
53643241 TGTT
1 TGTT
53643245 GTCAGCATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.30
Consensus pattern (21 bp):
TGTTTGGAAGAAACAAAGAAA
Found at i:53652692 original size:48 final size:48
Alignment explanation
Indices: 53652629--53652808 Score: 245
Period size: 48 Copynumber: 3.8 Consensus size: 48
53652619 CTCTCACACT
* *
53652629 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGTAACACTCACCCG
1 AAGTGCTAATATCATGGCCCAAAGCCAAATCAATGTAACACTCACCCG
* * * *
53652677 AAGTGCTAATATCATGGACCGAAGCCAAATCAATGTAACA-TGCACTCA
1 AAGTGCTAATATCATGGCCCAAAGCCAAATCAATGTAACACT-CACCCG
* * * *
53652725 AAGTGCTAATATCATGGCCTAAAGCCAAAGCAATGTAACTCACACCCG
1 AAGTGCTAATATCATGGCCCAAAGCCAAATCAATGTAACACTCACCCG
*
53652773 AAGTGCTAATATCATCGCCCAAAGCCAAATCAATGT
1 AAGTGCTAATATCATGGCCCAAAGCCAAATCAATGT
53652809 TCCTTAATGA
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
47 1 0.01
48 114 0.99
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (48 bp):
AAGTGCTAATATCATGGCCCAAAGCCAAATCAATGTAACACTCACCCG
Found at i:53652798 original size:96 final size:96
Alignment explanation
Indices: 53652629--53652808 Score: 279
Period size: 96 Copynumber: 1.9 Consensus size: 96
53652619 CTCTCACACT
* * * *
53652629 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGTAACACTCACCCGAAGTGCTAATATCATGG
1 AAGTGCCAATATCATGGCCCAAAGCCAAAGCAATGTAACACACACCCGAAGTGCTAATATCATCG
*
53652694 ACCGAAGCCAAATCAATGTAACATGCACTCA
66 ACCAAAGCCAAATCAATGTAACATGCACTCA
* * *
53652725 AAGTGCTAATATCATGGCCTAAAGCCAAAGCAATGTAACTCACACCCGAAGTGCTAATATCATCG
1 AAGTGCCAATATCATGGCCCAAAGCCAAAGCAATGTAACACACACCCGAAGTGCTAATATCATCG
*
53652790 CCCAAAGCCAAATCAATGT
66 ACCAAAGCCAAATCAATGT
53652809 TCCTTAATGA
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 75 1.00
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (96 bp):
AAGTGCCAATATCATGGCCCAAAGCCAAAGCAATGTAACACACACCCGAAGTGCTAATATCATCG
ACCAAAGCCAAATCAATGTAACATGCACTCA
Found at i:53653401 original size:21 final size:20
Alignment explanation
Indices: 53653377--53653415 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
53653367 TTGTATAACT
*
53653377 ATCATCAAACATTCAAAATCA
1 ATCATAAAACA-TCAAAATCA
53653398 ATCATAAAACATCAAAAT
1 ATCATAAAACATCAAAAT
53653416 ACTCATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (20 bp):
ATCATAAAACATCAAAATCA
Found at i:53658281 original size:25 final size:25
Alignment explanation
Indices: 53658248--53658298 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
53658238 ATGAAAGATA
53658248 AAAAGTACATTAAGAGGTACTTTCT
1 AAAAGTACATTAAGAGGTACTTTCT
53658273 AAAAGTACATTAAGAGGTACTTTCT
1 AAAAGTACATTAAGAGGTACTTTCT
53658298 A
1 A
53658299 TAGTCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (25 bp):
AAAAGTACATTAAGAGGTACTTTCT
Found at i:53661214 original size:21 final size:21
Alignment explanation
Indices: 53661190--53661238 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
53661180 ACGAACTCGG
53661190 ACTCAACTCAACGAGTTCGAA
1 ACTCAACTCAACGAGTTCGAA
*
53661211 ACTCAACTCAACGAGTTTGAA
1 ACTCAACTCAACGAGTTCGAA
53661232 ACTCAAC
1 ACTCAAC
53661239 CATCCTAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.29, G:0.12, T:0.20
Consensus pattern (21 bp):
ACTCAACTCAACGAGTTCGAA
Found at i:53671153 original size:37 final size:37
Alignment explanation
Indices: 53671094--53671231 Score: 213
Period size: 37 Copynumber: 3.7 Consensus size: 37
53671084 AGCTCAGACG
* *
53671094 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
*
53671131 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
* * *
53671168 TACTCTCCACACATAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
*
53671205 TAATCTCCACACGTAGTCATCGGGTCT
1 AAATCTCCACACGTAGTCATCGGGTCT
53671232 CACCCGGAAT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 92 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
Found at i:53671191 original size:74 final size:74
Alignment explanation
Indices: 53671097--53671239 Score: 243
Period size: 74 Copynumber: 1.9 Consensus size: 74
53671087 TCAGACGAAA
* *
53671097 TCTCCACACGAAGTTATCGGGTCTTACCTGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 TCTCCACACGAAGTCATCGGGTCTTACCTGGACAAAATCTCCACACGTAGTCATCGGGTCTCACC
53671162 CGGACATAC
66 CGGACATAC
*
53671171 TCTCCACAC-ATAGTCATCGGGTCTTACCTGGACATAATCTCCACACGTAGTCATCGGGTCTCAC
1 TCTCCACACGA-AGTCATCGGGTCTTACCTGGACAAAATCTCCACACGTAGTCATCGGGTCTCAC
53671235 CCGGA
65 CCGGA
53671240 ATATATTTCC
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 1 0.02
74 64 0.98
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (74 bp):
TCTCCACACGAAGTCATCGGGTCTTACCTGGACAAAATCTCCACACGTAGTCATCGGGTCTCACC
CGGACATAC
Found at i:53671456 original size:47 final size:47
Alignment explanation
Indices: 53671402--53671587 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 47
53671392 TTTCACACTA
* * * * *
53671402 GCCATTCGGCTTTACCGCATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
53671449 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
53671496 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
53671543 GCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
53671588 AAAATCCTAA
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:53676487 original size:27 final size:27
Alignment explanation
Indices: 53676445--53676618 Score: 222
Period size: 27 Copynumber: 6.4 Consensus size: 27
53676435 ACTATAGTTC
*
53676445 ACCAAATTACCCTTGGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* *
53676472 ACTAAAATACCCTTGGTTTATAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
*
53676499 ACCAAAATACCATTGGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* * *
53676526 ACAAAAATACCCCTAGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* *
53676553 ACCAAAATACCCCTGATTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* * **
53676580 ACTAAAATACCCTCGACTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
*
53676607 ACCAAAGTACCC
1 ACCAAAATACCC
53676619 CCGATTTACA
Statistics
Matches: 128, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
ACCAAAATACCCTTGGTTTGTAAAATT
Found at i:53676619 original size:54 final size:54
Alignment explanation
Indices: 53676445--53676675 Score: 223
Period size: 54 Copynumber: 4.3 Consensus size: 54
53676435 ACTATAGTTC
* * * * * *
53676445 ACCAAATTACCCTTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATT
1 ACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATT
** * * *
53676499 ACCAAAATACCATTGGTTTGTAAAATTACAAAAATACCC-CTAGTTTGTAAAATT
1 ACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGA-TTTGTAAAATT
*
53676553 ACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGACTTGTAAAATT
1 ACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATT
* * ** * *** **
53676607 ACCAAAGTACCCCCGATTTACAGAATTA-TCATTTTACCCTCGATTTACAAAATT
1 ACCAAAATACCCCTGATTTGTAAAATTACT-AAAATACCCTCGATTTGTAAAATT
*
53676661 ACTAAAATACCCCTG
1 ACCAAAATACCCCTG
53676676 TAGGGTAGAA
Statistics
Matches: 147, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.01
54 144 0.98
55 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
ACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATT
Found at i:53676633 original size:27 final size:27
Alignment explanation
Indices: 53676466--53676673 Score: 121
Period size: 27 Copynumber: 7.7 Consensus size: 27
53676456 CTTGGTTTGT
* ** * *
53676466 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCCGATTTAC
*** * **
53676493 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCCCGATTTAC
* * **
53676520 AAAATTACAAAAATA-CCCCTAGTTTGT
1 AAAATTACCAAAATACCCCCGA-TTTAC
* **
53676547 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCCGATTTAC
* * * **
53676574 AAAATTACTAAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCCCGATTTAC
*
53676601 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACCAAAATACCCCCGATTTAC
* * *** *
53676628 AGAATTATCATTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCCCGATTTAC
*
53676655 AAAATTACTAAAATACCCC
1 AAAATTACCAAAATACCCC
53676674 TGTAGGGTAG
Statistics
Matches: 144, Mismatches: 35, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
26 1 0.01
27 139 0.97
28 4 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCCGATTTAC
Found at i:53676634 original size:81 final size:81
Alignment explanation
Indices: 53676462--53676672 Score: 212
Period size: 81 Copynumber: 2.6 Consensus size: 81
53676452 TACCCTTGGT
* * * * * * **
53676462 TTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCATTGGTTTGTAAAATTA
1 TTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACTAAAATACCCTCGACTTGTAAAATTA
*
53676527 CAAAAATACCCCTAGT
66 CAAAAATACCCCTAGA
*
53676543 TTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTA
1 TTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACTAAAATACCCTCGACTTGTAAAATTA
* * *
53676608 CCAAAGTACCCC-CGA
66 CAAAAATACCCCTAGA
* *** *
53676623 TT-TACAGAATTATCATTTTA-CCCTCGATTTACAAAATTACTAAAATACCC
1 TTGTA-A-AATTACCAAAATACCCCT-GATTTATAAAATTACTAAAATACCC
53676673 CTGTAGGGTA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
79 2 0.02
80 8 0.07
81 98 0.91
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACTAAAATACCCTCGACTTGTAAAATTA
CAAAAATACCCCTAGA
Found at i:53685169 original size:33 final size:34
Alignment explanation
Indices: 53685127--53685213 Score: 140
Period size: 36 Copynumber: 2.5 Consensus size: 34
53685117 AGTAGGCAAC
*
53685127 AACAAGCTATTTCCCATGTTGTTC-AAAAAAAAA
1 AACAAGCTATTGCCCATGTTGTTCAAAAAAAAAA
53685160 AACAAGCTATTGCCCATGTTGTTCAAAAAAAAAAAA
1 AACAAGCTATTGCCCATGTTGTTC--AAAAAAAAAA
53685196 AACAAGCTATTGCCCATG
1 AACAAGCTATTGCCCATG
53685214 AAGCTGGATA
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
33 23 0.46
36 27 0.54
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.24
Consensus pattern (34 bp):
AACAAGCTATTGCCCATGTTGTTCAAAAAAAAAA
Found at i:53690800 original size:43 final size:42
Alignment explanation
Indices: 53690718--53690865 Score: 140
Period size: 43 Copynumber: 3.5 Consensus size: 42
53690708 TGAGACATCG
* *
53690718 TGTAAGACCGTGTCTGGGACATAGGCCTCG-ATTGAGATTTACA
1 TGTAAGACCATGTCTGGGACATAGGCATCGTATT--GATTTACA
* *
53690761 TATAAGACCATGTCTGGGACATCA-GCATCGTATCTGATTT-CG
1 TGTAAGACCATGTCTGGGACAT-AGGCATCGTAT-TGATTTACA
* * * *
53690803 TGTAAGACCCTATCTGGGACAAAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACATAGGCATCG-TATTGATTTACA
* *
53690846 TGTAAGACCACGTCCGGGAC
1 TGTAAGACCATGTCTGGGAC
53690866 GTCGGCATTG
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.35
43 50 0.59
44 3 0.04
45 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATAGGCATCGTATTGATTTACA
Found at i:53696351 original size:28 final size:28
Alignment explanation
Indices: 53696319--53696388 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
53696309 TATGGTACTC
*
53696319 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
53696347 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
53696375 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
53696389 CGAATGATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:53702357 original size:22 final size:22
Alignment explanation
Indices: 53702332--53702373 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
53702322 TGCAAAGTTG
53702332 ATAAT-AAT-TAA-TATATATT
1 ATAATAAATATAATTATATATT
53702351 ATAATAAATATAATTATATATT
1 ATAATAAATATAATTATATATT
53702373 A
1 A
53702374 GTTATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 3 0.15
22 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATAAATATAATTATATATT
Found at i:53702360 original size:16 final size:15
Alignment explanation
Indices: 53702335--53702368 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
53702325 AAAGTTGATA
*
53702335 ATAATTAATATATATT
1 ATAATAAATATA-ATT
53702351 ATAATAAATATAATT
1 ATAATAAATATAATT
53702366 ATA
1 ATA
53702369 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:53704722 original size:10 final size:10
Alignment explanation
Indices: 53704701--53704767 Score: 82
Period size: 10 Copynumber: 6.6 Consensus size: 10
53704691 CATGAGATTT
53704701 TGATAT-ACA
1 TGATATGACA
53704710 TGATATGACA
1 TGATATGACA
53704720 TGATATGACA
1 TGATATGACA
53704730 TGATATGCACA
1 TGATATG-ACA
**
53704741 TGATATGTTA
1 TGATATGACA
*
53704751 TGAGATGCACA
1 TGATATG-ACA
53704762 TGATAT
1 TGATAT
53704768 ACTCATTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
9 6 0.12
10 27 0.55
11 16 0.33
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (10 bp):
TGATATGACA
Found at i:53704743 original size:21 final size:21
Alignment explanation
Indices: 53704701--53704767 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
53704691 CATGAGATTT
53704701 TGATAT-ACATGATATG-ACA
1 TGATATGACATGATATGCACA
53704720 TGATATGACATGATATGCACA
1 TGATATGACATGATATGCACA
** *
53704741 TGATATGTTATGAGATGCACA
1 TGATATGACATGATATGCACA
53704762 TGATAT
1 TGATAT
53704768 ACTCATTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 6 0.14
20 10 0.23
21 27 0.63
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
TGATATGACATGATATGCACA
Found at i:53704779 original size:32 final size:31
Alignment explanation
Indices: 53704707--53704779 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
53704697 ATTTTGATAT
** * *
53704707 ACATGATATGACATGATATGACATGATATGC
1 ACATGATATGTTATGAGATGACATGATATAC
53704738 ACATGATATGTTATGAGATGCACATGATATAC
1 ACATGATATGTTATGAGATG-ACATGATATAC
* *
53704770 TCATTATATG
1 ACATGATATG
53704780 CATGGGTTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 17 0.49
32 18 0.51
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (31 bp):
ACATGATATGTTATGAGATGACATGATATAC
Found at i:53704851 original size:25 final size:25
Alignment explanation
Indices: 53704813--53704866 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
53704803 GAGGAAGTGC
53704813 AAAAAAGGGCTTTGCCCCAGTTAAT
1 AAAAAAGGGCTTTGCCCCAGTTAAT
* * *
53704838 AAAAAAGGGTTTTGCGCCAGTTATT
1 AAAAAAGGGCTTTGCCCCAGTTAAT
53704863 AAAA
1 AAAA
53704867 GAGGATAGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (25 bp):
AAAAAAGGGCTTTGCCCCAGTTAAT
Found at i:53710065 original size:26 final size:27
Alignment explanation
Indices: 53710031--53710087 Score: 107
Period size: 26 Copynumber: 2.1 Consensus size: 27
53710021 AAGTATAATT
53710031 TTTTTTCCATGGATGAATATG-TAAAA
1 TTTTTTCCATGGATGAATATGCTAAAA
53710057 TTTTTTCCATGGATGAATATGCTAAAA
1 TTTTTTCCATGGATGAATATGCTAAAA
53710084 TTTT
1 TTTT
53710088 GAAATTTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.46
Consensus pattern (27 bp):
TTTTTTCCATGGATGAATATGCTAAAA
Found at i:53715137 original size:47 final size:47
Alignment explanation
Indices: 53715058--53715288 Score: 246
Period size: 47 Copynumber: 4.6 Consensus size: 47
53715048 TATTTGAATA
53715058 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
53715107 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG-----T----GA--T---G
53715168 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
53715215 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53715262 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53715289 TCCCGAAGGG
Statistics
Matches: 158, Mismatches: 10, Indels: 30
0.80 0.05 0.15
Matches are distributed among these distances:
47 95 0.60
49 12 0.08
50 1 0.01
52 3 0.02
56 3 0.02
58 1 0.01
61 43 0.27
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53715153 original size:14 final size:14
Alignment explanation
Indices: 53715134--53715162 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
53715124 ATGTGATAAG
53715134 GCCTAATGGCCGAT
1 GCCTAATGGCCGAT
53715148 GCCTAATGGCCGAT
1 GCCTAATGGCCGAT
53715162 G
1 G
53715163 TGATGAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (14 bp):
GCCTAATGGCCGAT
Found at i:53715155 original size:61 final size:61
Alignment explanation
Indices: 53715087--53715209 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
53715077 ATGTGATAAG
53715087 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
53715148 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
53715209 G
1 G
53715210 TGATGAATGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (61 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
Found at i:53721662 original size:104 final size:105
Alignment explanation
Indices: 53721386--53721755 Score: 624
Period size: 105 Copynumber: 3.6 Consensus size: 105
53721376 TTGTATATAA
** *
53721386 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
53721451 TGAAATGT-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
53721490 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
53721555 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
53721595 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATC-
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
53721658 TTGAAATGTG-AAA-GGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
53721697 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
53721756 ATAACGGTTA
Statistics
Matches: 255, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
102 80 0.31
103 3 0.01
104 81 0.32
105 90 0.35
106 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:53721712 original size:27 final size:27
Alignment explanation
Indices: 53721670--53721721 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
53721660 GAAATGTGAA
*
53721670 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
53721697 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
53721722 GATTCAGCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:53730371 original size:49 final size:47
Alignment explanation
Indices: 53730314--53730531 Score: 154
Period size: 42 Copynumber: 4.6 Consensus size: 47
53730304 TATTTGAATA
53730314 AATGTGAAAGTGATATATATAGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG-TATATAT-GTGATAAGGCCTAATGGCCGATGTGATG
*
53730363 AATGTGAAAGTGTTATATATGTGATCAAGCTAATGCCGATCCTATGG-CGATTGTGATG
1 AATGTGAAAGTG-TATATATGTGAT-AAG-----GCC--T--AATGGCCGA-TGTGATG
53730421 -ATGTGAAAGTGTATATATGTGA-AAGG-CTAAT-GCCGA-GTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
53730463 AATGTG-AAGTGTATAT-TGTGA-CA-G-CGAGTGGCCCACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53730505 -ATGTGGAAAGTGTATAAATGTGATAAG
1 AATGT-GAAAGTGTATATATGTGATAAG
53730532 CCCGAAGGGC
Statistics
Matches: 140, Mismatches: 9, Indels: 43
0.73 0.05 0.22
Matches are distributed among these distances:
40 4 0.03
41 14 0.10
42 23 0.16
43 15 0.11
44 10 0.07
45 1 0.01
46 1 0.01
48 6 0.04
49 23 0.16
54 6 0.04
56 12 0.09
57 14 0.10
58 11 0.08
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53730418 original size:58 final size:55
Alignment explanation
Indices: 53730348--53730456 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 55
53730338 ATAAGGCCTA
53730348 ATGGCCGATGTGATGAATGTGAAAGTGTTATATATGTGATCAA-GCTAATGCCGATCCT
1 ATGGCCGATGTGATG-ATGTGAAAGTG-TATATATGTGA--AAGGCTAATGCCGATCCT
53730406 ATGG-CGATTGTGATGATGTGAAAGTGTATATATGTGAAAGGCTAATGCCGA
1 ATGGCCGA-TGTGATGATGTGAAAGTGTATATATGTGAAAGGCTAATGCCGA
53730457 GTGATGAATG
Statistics
Matches: 49, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
54 2 0.04
55 11 0.22
56 11 0.22
57 14 0.29
58 11 0.22
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.30
Consensus pattern (55 bp):
ATGGCCGATGTGATGATGTGAAAGTGTATATATGTGAAAGGCTAATGCCGATCCT
Found at i:53734285 original size:28 final size:28
Alignment explanation
Indices: 53734245--53734298 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
53734235 GATACATTGG
53734245 TTGGCTTCGGGCCATGCATATC-TACTGA
1 TTGGCTTCGGGCCATG-ATATCATACTGA
53734273 TTGGCTTCGGGCCATGATATCATACT
1 TTGGCTTCGGGCCATGATATCATACT
53734299 TCGAAGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (28 bp):
TTGGCTTCGGGCCATGATATCATACTGA
Found at i:53736146 original size:28 final size:27
Alignment explanation
Indices: 53736109--53736168 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
53736099 AATTCCGAGC
53736109 TTGGGACAAAAGTGTAATTATGCAAAAG
1 TTGGGACAAAAGTGTAATT-TGCAAAAG
* * *
53736137 TTGGGGCAAAATTGTAATTTTCAAAAG
1 TTGGGACAAAAGTGTAATTTGCAAAAG
53736164 TTGGG
1 TTGGG
53736169 TGGTGATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 12 0.41
28 17 0.59
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (27 bp):
TTGGGACAAAAGTGTAATTTGCAAAAG
Found at i:53736706 original size:100 final size:101
Alignment explanation
Indices: 53736487--53736818 Score: 537
Period size: 99 Copynumber: 3.3 Consensus size: 101
53736477 TGTTGTATAA
**
53736487 AGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 AGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT-GTGCTATGTGCGTGATCCACCATATCTTT
*
53736552 GAAATGTAAAAAGGGGTTGCTATGTGCTGATTCCCCCG
65 GAAATGTGAAAA-GGGTTGCTATGTGCTGATTCCCCCG
53736590 AGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGTGCTATGTGCGTGATCCACCATATC-TTG
1 AGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGTGCTATGTGCGTGATCCACCATATCTTTG
53736654 AAATGTGAAAAGGGTTGC-ATGTGCTGATTCCCCCG
66 AAATGTGAAAAGGGTTGCTATGTGCTGATTCCCCCG
* * *
53736689 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGTGCTAAGTGCAT-ATCCACCAT-TCTTT
1 A-GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGTGCTATGTGCGTGATCCACCATATCTTT
* *
53736752 GAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCA
65 GAAATGTGAAAAGGGTTGCTATGTGCTGATTCCCCCG
53736789 AGGGTTGCTAAGTGCTGATTCCCCGATTCA
1 AGGGTTGCTAAGTGCTGATTCCCCGATTCA
53736819 GCGGTGGTGC
Statistics
Matches: 217, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
98 2 0.01
99 75 0.35
100 68 0.31
101 13 0.06
102 26 0.12
103 33 0.15
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (101 bp):
AGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGTGCTATGTGCGTGATCCACCATATCTTTG
AAATGTGAAAAGGGTTGCTATGTGCTGATTCCCCCG
Found at i:53736757 original size:99 final size:102
Alignment explanation
Indices: 53736487--53736846 Score: 536
Period size: 100 Copynumber: 3.6 Consensus size: 102
53736477 TGTTGTATAA
** * *
53736487 AGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 AGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCATGATCCACCATATCTTT
*
53736552 GAAATGTAAAAAGGGGTTGCTATGTGCTGATTCCCCCG
66 GAAATGTGAAAA-GGGTTGCTATGTGCTGATTCCCCCG
* *
53736590 AGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT-GTGCTATGTGCGTGATCCACCATATC-TT
1 AGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCATGATCCACCATATCTTT
53736653 GAAATGTGAAAAGGGTTGC-ATGTGCTGATTCCCCCG
66 GAAATGTGAAAAGGGTTGCTATGTGCTGATTCCCCCG
*
53736689 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGT-GTGCTAAGTGCAT-ATCCACCAT-TCTT
1 A-GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCATGATCCACCATATCTT
* *
53736751 TGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCA
65 TGAAATGTGAAAAGGGTTGCTATGTGCTGATTCCCCCG
**
53736789 AGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCA-GAATCCACCA
1 AGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCATG-ATCCACCA
53736847 ATAACGGTTA
Statistics
Matches: 240, Mismatches: 11, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
98 2 0.01
99 78 0.32
100 80 0.33
101 21 0.09
102 26 0.11
103 33 0.14
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (102 bp):
AGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCATGATCCACCATATCTTT
GAAATGTGAAAAGGGTTGCTATGTGCTGATTCCCCCG
Found at i:53741663 original size:40 final size:40
Alignment explanation
Indices: 53741569--53741713 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
53741559 TACTCGAATG
*
53741569 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
53741610 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
53741650 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
53741690 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
53741714 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:53749717 original size:40 final size:41
Alignment explanation
Indices: 53749592--53749767 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 41
53749582 ACTCGAATGG
53749592 TATCCGGGCTAAG-TCCCGAAGGC-TTT-TGCTAAGCGA-TA
1 TATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAAGCGACTA
*
53749630 TATCCGGGCT---A---GAAGGCTTTTGTGCTAAGCGACTA
1 TATCCGGGCTAAGATCCGAAGGCATTTGTGCTAAGCGACTA
* *
53749665 CATCCGGACTAAGATCCGAAGGCATTTGTGCT-AGCGACTA
1 TATCCGGGCTAAGATCCGAAGGCATTTGTGCTAAGCGACTA
* * *
53749705 TATCCGGGCTAAG-TCCCGAAGGCATTTATGCT-AGTGACCA
1 TATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAAGCGACTA
* *
53749745 TATCCGGGTTAAGACCCGAAGGC
1 TATCCGGGCTAAGATCCGAAGGC
53749768 CTTGTGCGAG
Statistics
Matches: 116, Mismatches: 10, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
32 6 0.05
33 3 0.03
34 10 0.09
35 10 0.09
38 11 0.09
39 1 0.01
40 61 0.53
41 14 0.12
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
TATCCGGGCTAAGATCCGAAGGCATTTGTGCTAAGCGACTA
Found at i:53752225 original size:18 final size:18
Alignment explanation
Indices: 53752202--53752239 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
53752192 TGTTATGAAA
53752202 ATCCATATTATAATATTT
1 ATCCATATTATAATATTT
53752220 ATCCATATTATAATATTT
1 ATCCATATTATAATATTT
53752238 AT
1 AT
53752240 TTTTATACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
ATCCATATTATAATATTT
Found at i:53752472 original size:30 final size:28
Alignment explanation
Indices: 53752432--53752499 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
53752422 TATCTTATAT
* *
53752432 TATA-TATATAAGATCAAAATCCATTAATA
1 TATATTATATAACAT-AAAAT-CATGAATA
* *
53752461 TATATTATATAACATAAAGTCATGCATA
1 TATATTATATAACATAAAATCATGAATA
53752489 TATATTATATA
1 TATATTATATA
53752500 GAATAAAGCC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 17 0.50
29 8 0.24
30 9 0.26
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (28 bp):
TATATTATATAACATAAAATCATGAATA
Found at i:53752521 original size:28 final size:28
Alignment explanation
Indices: 53752462--53752527 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
53752452 CCATTAATAT
* *
53752462 ATATTATATAACATAAAGTCATGCATAT
1 ATATTATATAACATAAAGCCATGCATAC
*
53752490 ATATTATATAGA-ATAAAGCCATGCATGC
1 ATATTATATA-ACATAAAGCCATGCATAC
*
53752518 ATATAATATA
1 ATATTATATA
53752528 TGTATAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (28 bp):
ATATTATATAACATAAAGCCATGCATAC
Found at i:53752528 original size:30 final size:28
Alignment explanation
Indices: 53752458--53752515 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
53752448 AAATCCATTA
*
53752458 ATATATATTATATAACATAAAGTCATGC
1 ATATATATTATATAACATAAAGCCATGC
53752486 ATATATATTATATAGA-ATAAAGCCATGC
1 ATATATATTATATA-ACATAAAGCCATGC
53752514 AT
1 AT
53752516 GCATATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (28 bp):
ATATATATTATATAACATAAAGCCATGC
Found at i:53752582 original size:34 final size:34
Alignment explanation
Indices: 53752544--53752656 Score: 107
Period size: 32 Copynumber: 3.5 Consensus size: 34
53752534 ATCACCCACG
53752544 TATATATATGTATATATATACAACTCCACTCATA
1 TATATATATGTATATATATACAACTCCACTCATA
* * *
53752578 TATAT-TATATATGTATATTACCAACTCC-CCCAT-
1 TATATATATGTATATATA-TA-CAACTCCACTCATA
*
53752611 T-TATATAT-TATATATATA-ACAC-CCACTAATA
1 TATATATATGTATATATATACA-ACTCCACTCATA
53752642 TATATAT-TGTATATA
1 TATATATATGTATATA
53752657 AAATAAAGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
29 3 0.05
30 5 0.08
31 4 0.06
32 21 0.32
33 14 0.22
34 11 0.17
35 7 0.11
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.41
Consensus pattern (34 bp):
TATATATATGTATATATATACAACTCCACTCATA
Found at i:53752623 original size:36 final size:37
Alignment explanation
Indices: 53752546--53752625 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 37
53752536 CACCCACGTA
*
53752546 TATATATGTATATATATACAACTCCACTCATATATAT
1 TATATATGTATATATATACAACTCCACCCATATATAT
*
53752583 TATATATGTATAT-TA-CCAACTCC-CCCATTTATATAT
1 TATATATGTATATATATACAACTCCACCCA--TATATAT
53752619 TATATAT
1 TATATAT
53752626 ATAACACCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
34 3 0.08
35 7 0.18
36 16 0.41
37 13 0.33
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (37 bp):
TATATATGTATATATATACAACTCCACCCATATATAT
Found at i:53753665 original size:19 final size:19
Alignment explanation
Indices: 53753632--53753671 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
53753622 TTAAAAATGA
* *
53753632 AAAATAAATGGAAAGAAGC
1 AAAATAAAAGCAAAGAAGC
*
53753651 AAAATAAAAGCAAAGAGGC
1 AAAATAAAAGCAAAGAAGC
53753670 AA
1 AA
53753672 TGGGTGTGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.07, G:0.20, T:0.07
Consensus pattern (19 bp):
AAAATAAAAGCAAAGAAGC
Found at i:53754046 original size:65 final size:65
Alignment explanation
Indices: 53753965--53754095 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
53753955 AAAATTCGAT
*
53753965 TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACTCGATTTTCGAGATGTGACATTTG
1 TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACCCGATTTTCGAGATGTGACATTTG
53754030 TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACCCGATTTTCGAGATGTGACATTTG
1 TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACCCGATTTTCGAGATGTGACATTTG
53754095 T
1 T
53754096 ATCCAAATCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (65 bp):
TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACCCGATTTTCGAGATGTGACATTTG
Found at i:53754740 original size:51 final size:51
Alignment explanation
Indices: 53754684--53754791 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
53754674 CCAAACATCT
* * *
53754684 ATTCATATGAAATAAT-AGTTCTTACCAAATGAC-ATCTCATTCAAAATAATA
1 ATTCATATGAAAT-ATCAGTTCATACCAAATAACAAT-TCATGCAAAATAATA
*
53754735 GTTCATATGAAATATCAGTTCATACCAAATAACAATTCATGCAAAATAATA
1 ATTCATATGAAATATCAGTTCATACCAAATAACAATTCATGCAAAATAATA
53754786 ATTCAT
1 ATTCAT
53754792 GCTCCATCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
50 2 0.04
51 46 0.92
52 2 0.04
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (51 bp):
ATTCATATGAAATATCAGTTCATACCAAATAACAATTCATGCAAAATAATA
Found at i:53754792 original size:17 final size:17
Alignment explanation
Indices: 53754761--53754793 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53754751 AGTTCATACC
53754761 AAATAACAATTCATGCA
1 AAATAACAATTCATGCA
*
53754778 AAATAATAATTCATGC
1 AAATAACAATTCATGC
53754794 TCCATCATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (17 bp):
AAATAACAATTCATGCA
Done.