Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 65 of 373
Found at i:19586063 original size:21 final size:23
Alignment explanation
Indices: 19586006--19586064 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
19585996 ATGCAATCTT
*
19586006 AGATATG-ATATGTAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
19586028 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
19586050 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
19586065 AATACACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 9 0.28
22 11 0.34
23 12 0.38
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.42
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:19590982 original size:40 final size:41
Alignment explanation
Indices: 19590914--19591029 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 41
19590904 GACTTTGTAT
* *
19590914 CAGTGA-TAT-TCGGGCTTTATTGCCTAGCAGGCTT-TGTGC
1 CAGTGATTATATCAGGC-TTATTGCCTAGCAGGCTTATATGC
19590953 CAGTGATTATATCAGGCTTATTGCCTAGCAGGCTTTATATGC
1 CAGTGATTATATCAGGCTTATTGCCTAGCAGGC-TTATATGC
* * *
19590995 CGGTGTATTATATTAGGCTTATTGCCTAGTAGGCT
1 CAGTG-ATTATATCAGGCTTATTGCCTAGCAGGCT
19591030 CTGTACTGGT
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
39 6 0.09
40 19 0.28
41 7 0.10
42 9 0.13
43 26 0.39
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (41 bp):
CAGTGATTATATCAGGCTTATTGCCTAGCAGGCTTATATGC
Found at i:19591019 original size:43 final size:42
Alignment explanation
Indices: 19590930--19591066 Score: 149
Period size: 41 Copynumber: 3.3 Consensus size: 42
19590920 TATTCGGGCT
* * *
19590930 TTATTGCCTAGCAGGC-TTTGTGCCAGTG-ATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTTATGCCGGTGTATTATATTAGGC
19590970 TTATTGCCTAGCAGGCTTTATATGCCGGTGTATTATATTAGGC
1 TTATTGCCTAGCAGGCTTT-TATGCCGGTGTATTATATTAGGC
* * * *
19591013 TTATTGCCTAGTAGGCTCTGTA--CTGGTGTATTATACTAGGC
1 TTATTGCCTAGCAGGCT-TTTATGCCGGTGTATTATATTAGGC
19591054 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
19591067 AATTTTATGT
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
40 17 0.20
41 29 0.35
42 8 0.10
43 29 0.35
44 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (42 bp):
TTATTGCCTAGCAGGCTTTTATGCCGGTGTATTATATTAGGC
Found at i:19591053 original size:41 final size:40
Alignment explanation
Indices: 19590930--19591066 Score: 152
Period size: 43 Copynumber: 3.3 Consensus size: 40
19590920 TATTCGGGCT
* *
19590930 TTATTGCCTAGCAGGCTTTGTGCCAGTG-ATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTACCGGTGTATTATAT-AGGC
*
19590970 TTATTGCCTAGCAGGCTTTATATGCCGGTGTATTATATTAGGC
1 TTATTGCCTAGCAGGCTTTGTA--CCGGTGTATTATA-TAGGC
* * *
19591013 TTATTGCCTAGTAGGCTCTGTACTGGTGTATTATACTAGGC
1 TTATTGCCTAGCAGGCTTTGTACCGGTGTATTATA-TAGGC
19591054 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
19591067 AATTTTATGT
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
40 21 0.25
41 27 0.33
42 5 0.06
43 29 0.35
44 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (40 bp):
TTATTGCCTAGCAGGCTTTGTACCGGTGTATTATATAGGC
Found at i:19597670 original size:43 final size:41
Alignment explanation
Indices: 19597586--19597723 Score: 181
Period size: 41 Copynumber: 3.3 Consensus size: 41
19597576 TATTCGGGCT
* *
19597586 TTATTGCCTAGCAAGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTATGCCGGTGTATTATATCAGGC
*
19597627 TTATTGCCTAGCAGGCTTTATATGCTGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGC-TT-TATGCCGGTGTATTATATCAGGC
* *
19597670 TTATTGCTTAGCAGGCTCTATGCCGGTGTATTATA-CTAGGC
1 TTATTGCCTAGCAGGCTTTATGCCGGTGTATTATATC-AGGC
19597711 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
19597724 AATGTTATGT
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
40 2 0.02
41 45 0.52
42 3 0.03
43 36 0.42
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTATGCCGGTGTATTATATCAGGC
Found at i:19602387 original size:47 final size:47
Alignment explanation
Indices: 19602313--19602466 Score: 263
Period size: 47 Copynumber: 3.3 Consensus size: 47
19602303 TCCTTCGGGA
*
19602313 CTTATCACATATATACACTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** * *
19602360 CTTATCACATATATACACTTTCACATTCATCACATTTGCTATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19602407 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19602454 CTTATCACATATA
1 CTTATCACATATA
19602467 CATATCTTGT
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 98 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19604336 original size:13 final size:13
Alignment explanation
Indices: 19604318--19604342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19604308 TACTAAATTT
19604318 TCATGGATTCAAA
1 TCATGGATTCAAA
19604331 TCATGGATTCAA
1 TCATGGATTCAA
19604343 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:19605131 original size:17 final size:17
Alignment explanation
Indices: 19605081--19605131 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
19605071 TGGAAACATG
*
19605081 ATCTTCGAAGATATGCA
1 ATCTTAGAAGATATGCA
*
19605098 ATCTTAGATATGATATGTA
1 ATCTTAGA-A-GATATGCA
19605117 ATCTTAGAAGATATG
1 ATCTTAGAAGATATG
19605132 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
ATCTTAGAAGATATGCA
Found at i:19605143 original size:23 final size:21
Alignment explanation
Indices: 19605103--19605161 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 21
19605093 ATGCAATCTT
*
19605103 AGATATGATATGTAATCTTAG
1 AGATATGATTTGTAATCTTAG
19605124 AAGATATGATTTTGTAATCTTAG
1 -AGATATGA-TTTGTAATCTTAG
*
19605147 AGATTTGATTTGTAA
1 AGATATGATTTGTAA
19605162 GATACCCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 7 0.21
22 15 0.44
23 12 0.35
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (21 bp):
AGATATGATTTGTAATCTTAG
Found at i:19606139 original size:16 final size:16
Alignment explanation
Indices: 19606118--19606148 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19606108 ATAATAATAC
19606118 AAAAATTAAAGATTTT
1 AAAAATTAAAGATTTT
*
19606134 AAAAATTAAATATTT
1 AAAAATTAAAGATTT
19606149 ATATATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAAATTAAAGATTTT
Found at i:19608100 original size:18 final size:18
Alignment explanation
Indices: 19608074--19608108 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19608064 GAATTATTCG
*
19608074 AATCGAGTTAATCGAATT
1 AATCAAGTTAATCGAATT
19608092 AATCAAGTTAATCGAAT
1 AATCAAGTTAATCGAAT
19608109 CAACTCGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (18 bp):
AATCAAGTTAATCGAATT
Found at i:19608507 original size:12 final size:12
Alignment explanation
Indices: 19608490--19608522 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
19608480 TATTTTTTAG
19608490 TTATTTACTCAC
1 TTATTTACTCAC
*
19608502 TTATTTATTCAC
1 TTATTTACTCAC
19608514 TTATTTACT
1 TTATTTACT
19608523 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:19608560 original size:16 final size:18
Alignment explanation
Indices: 19608529--19608561 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
19608519 TACTTCAATT
19608529 TTTTGTTGTATGAAAAAA
1 TTTTGTTGTATGAAAAAA
19608547 TTTT-TTGT-TGAAAAA
1 TTTTGTTGTATGAAAAA
19608562 TTACATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (18 bp):
TTTTGTTGTATGAAAAAA
Found at i:19611645 original size:72 final size:71
Alignment explanation
Indices: 19611566--19611757 Score: 296
Period size: 72 Copynumber: 2.7 Consensus size: 71
19611556 ATGCTAAACC
* *
19611566 AGTTTTATCAATAGTTATTTATGTTTGGTTATTGGATATTAAATTTATGTTCTACTTATTTATGT
1 AGTTTTATCAATAGTTGTTTATGTTTGGTT-TTGGATATTGAATTTATGTTCTACTTATTTATGT
19611631 GTAATCT
65 GTAATCT
* *
19611638 AGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTATGT
1 AGTTTTATCAATAGTTGTTTATGTTTGG-TTTTGGATATTGAATTTATGTTCTACTTATTTATGT
19611703 GTAATCT
65 GTAATCT
* *
19611710 TG-TTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATG
1 AGTTTTATCAATAGTTGTTTATGTTTGGT-TTTGGATATTGAATTTATG
19611758 GTACTAGTTT
Statistics
Matches: 110, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
70 1 0.01
71 41 0.37
72 66 0.60
73 2 0.02
ACGTcount: A:0.23, C:0.05, G:0.17, T:0.55
Consensus pattern (71 bp):
AGTTTTATCAATAGTTGTTTATGTTTGGTTTTGGATATTGAATTTATGTTCTACTTATTTATGTG
TAATCT
Found at i:19613282 original size:12 final size:12
Alignment explanation
Indices: 19613260--19613285 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19613250 TAATGATGAC
19613260 GATGATGATGGT
1 GATGATGATGGT
19613272 GATGATGATGGT
1 GATGATGATGGT
19613284 GA
1 GA
19613286 ATCAAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.31
Consensus pattern (12 bp):
GATGATGATGGT
Found at i:19614435 original size:40 final size:40
Alignment explanation
Indices: 19614346--19614452 Score: 119
Period size: 41 Copynumber: 2.6 Consensus size: 40
19614336 ATATATAAAT
* *
19614346 ATTATTTATTATATTTATTAAAAATTCTTTATTCTATCTAG
1 ATTATTTATTAAATTTATT-GAAATTCTTTATTCTATCTAG
*
19614387 ATTATTTATTAAATTTAGTTGAAATTCTTTATT-TATCTCG
1 ATTATTTATTAAATTTA-TTGAAATTCTTTATTCTATCTAG
* *
19614427 -TTAATTTATTAACTTCATTTGAAATT
1 ATT-ATTTATTAAATTTA-TTGAAATT
19614453 ATCTAGTCCT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.03
40 26 0.45
41 28 0.48
42 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (40 bp):
ATTATTTATTAAATTTATTGAAATTCTTTATTCTATCTAG
Found at i:19617981 original size:21 final size:21
Alignment explanation
Indices: 19617951--19617990 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19617941 TGGGCTTGCG
*
19617951 GGAGATAAAGG-ATTTGATTGA
1 GGAGACAAAGGTA-TTGATTGA
19617972 GGAGACAAAGGTATTGATT
1 GGAGACAAAGGTATTGATT
19617991 TACGTAACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.38, C:0.03, G:0.33, T:0.28
Consensus pattern (21 bp):
GGAGACAAAGGTATTGATTGA
Found at i:19620971 original size:13 final size:13
Alignment explanation
Indices: 19620953--19620978 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19620943 CTAGGGTCGG
19620953 CATAGATATTTTA
1 CATAGATATTTTA
19620966 CATAGATATTTTA
1 CATAGATATTTTA
19620979 ACTTATATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
CATAGATATTTTA
Found at i:19625822 original size:23 final size:23
Alignment explanation
Indices: 19625778--19625822 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
19625768 TCTTTTCCAT
* *
19625778 TTTTTAACATGATTAAGCAAAGC
1 TTTTTAACATGATCAAGAAAAGC
19625801 TTTTTAACAT-ATCAAGTAAAAG
1 TTTTTAACATGATCAAG-AAAAG
19625823 AGAAAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (23 bp):
TTTTTAACATGATCAAGAAAAGC
Found at i:19626526 original size:14 final size:14
Alignment explanation
Indices: 19626485--19626539 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 14
19626475 AATAATACAA
*
19626485 AAAATAATAT-TAT
1 AAAATAATATAAAT
* * *
19626498 AATATATTATCAAT
1 AAAATAATATAAAT
19626512 AAAATAATATAAAT
1 AAAATAATATAAAT
*
19626526 AAATTAATA-AAAT
1 AAAATAATATAAAT
19626539 A
1 A
19626540 TATAAATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
13 13 0.38
14 21 0.62
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAATAATATAAAT
Found at i:19626539 original size:27 final size:29
Alignment explanation
Indices: 19626472--19626539 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 29
19626462 ATAGAAATAG
19626472 ATAAA-TAATACAA-AAAATAATATTATA
1 ATAAATTAATACAATAAAATAATATTATA
*
19626499 ATATATT-AT-CAATAAAATAATA-TA-A
1 ATAAATTAATACAATAAAATAATATTATA
*
19626524 ATAAATTAATAAAATA
1 ATAAATTAATACAATA
19626540 TATAAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
25 7 0.21
26 7 0.21
27 19 0.56
28 1 0.03
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (29 bp):
ATAAATTAATACAATAAAATAATATTATA
Found at i:19626544 original size:21 final size:22
Alignment explanation
Indices: 19626509--19626551 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
19626499 ATATATTATC
19626509 AATAAAATAATATAAATAAATT
1 AATAAAATAATATAAATAAATT
19626531 AATAAAAT-ATATAAATAAATT
1 AATAAAATAATATAAATAAATT
19626552 CTAATACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAAAATAATATAAATAAATT
Found at i:19632957 original size:43 final size:43
Alignment explanation
Indices: 19632833--19632986 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 43
19632823 CAATACCATA
* * * * **
19632833 TCCCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCCCTG
1 TCCCAGACATGGTCTTACACGTAATCTCAATA-CGATGCCAATG
* * *
19632876 TCCCAGACA-GTGTCTTACACGAAAT-TGATTAACGATGCCAATG
1 TCCCAGACATG-GTCTTACACGTAATCTCAAT-ACGATGCCAATG
*
19632919 TCCCAGACATGGTCTTACACGTAATCTCAATACAATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCTCAATACGATGCCAATG
*
19632962 TCCCAGACATGGTCTTACATGTAAT
1 TCCCAGACATGGTCTTACACGTAAT
19632987 TTCATCTCAA
Statistics
Matches: 92, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.01
43 86 0.93
44 5 0.05
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCTCAATACGATGCCAATG
Found at i:19636516 original size:10 final size:10
Alignment explanation
Indices: 19636497--19636530 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
19636487 TATATTTATT
19636497 AAAAAT-ATA
1 AAAAATAATA
19636506 AAAAATAATA
1 AAAAATAATA
19636516 AAAAATATATA
1 AAAAATA-ATA
19636527 AAAA
1 AAAA
19636531 TTTAGAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.26
10 10 0.43
11 7 0.30
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAATAATA
Found at i:19636790 original size:20 final size:21
Alignment explanation
Indices: 19636761--19636805 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
19636751 AAGTCAAAGT
19636761 AATG-TATAAAAA-TTAAAAA
1 AATGTTATAAAAATTTAAAAA
*
19636780 AATGTTATAAAAATTTTAAAA
1 AATGTTATAAAAATTTAAAAA
19636801 AATGT
1 AATGT
19636806 ATTTTAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 8 0.35
21 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
AATGTTATAAAAATTTAAAAA
Found at i:19639904 original size:15 final size:15
Alignment explanation
Indices: 19639880--19639909 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19639870 CACGGCCTAG
*
19639880 CACACGGGCGTGTGA
1 CACACAGGCGTGTGA
19639895 CACACAGGCGTGTGA
1 CACACAGGCGTGTGA
19639910 GGCCAGTTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.37, T:0.13
Consensus pattern (15 bp):
CACACAGGCGTGTGA
Found at i:19640596 original size:26 final size:26
Alignment explanation
Indices: 19640567--19640674 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
19640557 TGGTACAAAT
*
19640567 TGATAATGGGTTAGGTAAATGTTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
19640593 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19640619 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19640645 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19640671 TGAT
1 TGAT
19640675 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19642163 original size:28 final size:26
Alignment explanation
Indices: 19642121--19642196 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
19642111 AAAAGTAGCT
* * * *
19642121 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-GGA-GCA
*
19642149 AAATTACTGTTATACGCCTAGGAGCA
1 AAATTACTGTTATACCCCTAGGAGCA
*
19642175 AAATTACCGTTATACCCCTAGG
1 AAATTACTGTTATACCCCTAGG
19642197 GTTAATTTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.54
27 2 0.05
28 17 0.41
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGGAGCA
Found at i:19642341 original size:27 final size:26
Alignment explanation
Indices: 19642301--19642458 Score: 163
Period size: 27 Copynumber: 5.8 Consensus size: 26
19642291 GGAAGCGTCG
*
19642301 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGATC
* *
19642328 TAGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGATC
* *
19642355 TGGTGGCTATGCCATGATTATCTGATC
1 TGGTGGCTCTGCCA-CATTATCTGATC
* *
19642382 TGGTGGCTTTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGATC
*
19642409 TGGTGGCTCTGCCACGATTATCTATATC
1 TGGTGGCTCTGCCAC-ATTATCT-GATC
* * *
19642437 TAGTGACTCTGTCACATTATCT
1 TGGTGGCTCTGCCACATTATCT
19642459 ATTCTGGCAG
Statistics
Matches: 110, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
26 4 0.04
27 88 0.80
28 18 0.16
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATC
Found at i:19642388 original size:54 final size:54
Alignment explanation
Indices: 19642301--19642465 Score: 233
Period size: 54 Copynumber: 3.1 Consensus size: 54
19642291 GGAAGCGTCG
*
19642301 TGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACGATTATCTGATCTAGTGGCTCTGCCACATATATCTGTTC
* * *
19642355 TGGTGGCTATGCCATGATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACGATTATCTGATCTAGTGGCTCTGCCACATATATCTGTTC
* * * * *
19642409 TGGTGGCTCTGCCACGATTATCTATATCTAGTGACTCTGTCACAT-TATCTATTC
1 TGGTGGCTATGCCACGATTATCT-GATCTAGTGGCTCTGCCACATATATCTGTTC
19642463 TGG
1 TGG
19642466 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
54 82 0.84
55 16 0.16
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (54 bp):
TGGTGGCTATGCCACGATTATCTGATCTAGTGGCTCTGCCACATATATCTGTTC
Found at i:19642465 original size:81 final size:81
Alignment explanation
Indices: 19642301--19642458 Score: 187
Period size: 81 Copynumber: 2.0 Consensus size: 81
19642291 GGAAGCGTCG
* * *
19642301 TGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATG
1 TGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCTATTCTAGTGACTATG
*
19642366 CCATGATTATCTGATC
66 CCATCATTATCTGATC
* * *
19642382 TGGTGGCTTTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACGAT-TATCTATATCTAGTGACT
1 TGGTGGCTATGCCACAAT-TATCTGATCTAGTGGCTCTGCCAC-ATATATCTAT-TCTAGTGACT
* *
19642445 CTGTCA-CATTATCT
63 ATGCCATCATTATCT
19642459 ATTCTGGCAG
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
80 2 0.03
81 49 0.75
82 14 0.22
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (81 bp):
TGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCTATTCTAGTGACTATG
CCATCATTATCTGATC
Found at i:19644580 original size:17 final size:17
Alignment explanation
Indices: 19644558--19644595 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
19644548 TACTTTTATT
19644558 TTATAA-TATTAATATAA
1 TTATAATTA-TAATATAA
*
19644575 TTATAATTATAATATTA
1 TTATAATTATAATATAA
19644592 TTAT
1 TTAT
19644596 TAACAACTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAATTATAATATAA
Found at i:19651027 original size:13 final size:13
Alignment explanation
Indices: 19651009--19651033 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19650999 TAATAGTATA
19651009 TTGAATCCATGAT
1 TTGAATCCATGAT
19651022 TTGAATCCATGA
1 TTGAATCCATGA
19651034 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:19652937 original size:25 final size:25
Alignment explanation
Indices: 19652909--19652987 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
19652899 CTAATGGCCG
19652909 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * * *
19652934 ATGTGAT-AAGGCCGAATG-GCA-A-
1 ATGTGATGAATG-TGAAAGTGTATAT
19652956 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
19652981 ATGTGAT
1 ATGTGAT
19652988 AAGGCCTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:19652937 original size:47 final size:47
Alignment explanation
Indices: 19652884--19653037 Score: 272
Period size: 47 Copynumber: 3.3 Consensus size: 47
19652874 ACAAGATATG
19652884 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* **
19652931 TATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
19652978 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
19653025 TATATGTGATAAG
1 TATATGTGATAAG
19653038 TCCCGAAGGA
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:19655537 original size:20 final size:20
Alignment explanation
Indices: 19655512--19655549 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19655502 GTCACAAATA
19655512 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
19655532 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
19655550 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:19655602 original size:39 final size:39
Alignment explanation
Indices: 19655548--19655625 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
19655538 GCTCAGATCA
*
19655548 CATAGTTCCTAGTGATATGTCACTTGTATTCTAAACTAT
1 CATAGTTCCTAGTGATATGTCACTTGTATCCTAAACTAT
*
19655587 CATAGTTCCTTGTGATATGTCACTTGTATCCTAAACTAT
1 CATAGTTCCTAGTGATATGTCACTTGTATCCTAAACTAT
19655626 TTCTAAGGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (39 bp):
CATAGTTCCTAGTGATATGTCACTTGTATCCTAAACTAT
Found at i:19655715 original size:25 final size:25
Alignment explanation
Indices: 19655687--19655735 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19655677 CCAAAGGACC
* *
19655687 AATCATATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* *
19655712 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
19655736 GATAATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:19672022 original size:20 final size:20
Alignment explanation
Indices: 19671997--19672059 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
19671987 ATTTTGATAA
19671997 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
19672017 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
19672037 ACACGATATGTATGATATGC
1 ACATGATATGTATGATATGC
19672057 ACA
1 ACA
19672060 CGAGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:19672060 original size:20 final size:20
Alignment explanation
Indices: 19672001--19672067 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
19671991 TGATAAACAT
*
19672001 GATATGTATGATATGCACAT
1 GATATGTATGATATGCACAC
*
19672021 GACATGTATGATATGCACAC
1 GATATGTATGATATGCACAC
19672041 GATATGTATGATATGCACAC
1 GATATGTATGATATGCACAC
*
19672061 GAGATGT
1 GATATGT
19672068 TCATAAATGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.30
Consensus pattern (20 bp):
GATATGTATGATATGCACAC
Found at i:19672169 original size:24 final size:24
Alignment explanation
Indices: 19672113--19672241 Score: 192
Period size: 23 Copynumber: 5.4 Consensus size: 24
19672103 GAGGAAGTGC
19672113 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
19672137 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
19672160 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
19672184 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
19672207 AAAAAAGGGATT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
19672232 AAAAGAGGCT
1 AAAAG-GGCT
19672242 AGGGCTCCAG
Statistics
Matches: 96, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
23 50 0.52
24 26 0.27
25 12 0.12
26 8 0.08
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:19672182 original size:47 final size:48
Alignment explanation
Indices: 19672113--19672234 Score: 203
Period size: 47 Copynumber: 2.6 Consensus size: 48
19672103 GAGGAAGTGC
19672113 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT-
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTA
*
19672160 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT-A
*
19672209 AAAAGGGATT-TGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
19672235 AGAGGCTAGG
Statistics
Matches: 71, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
47 46 0.65
48 16 0.23
49 9 0.13
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTA
Found at i:19672483 original size:31 final size:31
Alignment explanation
Indices: 19672448--19672511 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
19672438 CGTTTACAAT
*
19672448 AAAGGCTTCGGTCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
19672479 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
19672510 AA
1 AA
19672512 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:19688465 original size:89 final size:89
Alignment explanation
Indices: 19688356--19689016 Score: 849
Period size: 89 Copynumber: 7.4 Consensus size: 89
19688346 AGCGGGTTGA
* * *
19688356 AGTAGCAAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGACTAAAGATAGCAGATCTGGTCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
19688421 TGAAGTTGCAGTGGAGCAGATCGG
66 TGAAGTTGCAGTGGAGCAGATCGG
* * *
19688445 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTAGAGCAGGCTGATGATAGCAGATCTGGTCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
*
19688510 TGAAGTTGCAGTAGAGCAGATCGG
66 TGAAGTTGCAGTGGAGCAGATCGG
* * * * * *
19688534 AGTAACGAGTGTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAAATAGCAGATTTGATCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
*
19688599 TGAAGTTGCAGTGGAGCAGATCAG
66 TGAAGTTGCAGTGGAGCAGATCGG
* * * * *
19688623 AGTAGCAAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTGAAGACAGCAGATCTGGCCTCCT
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
* *
19688688 TGAAGTTGCAGTGGAGTAGATCAG
66 TGAAGTTGCAGTGGAGCAGATCGG
* * * *
19688712 AGTAGCAAGTCTTATCTCCCTAAATTTTTAGTGGAGCAGACTGAAGATAGCAGATCTAGTCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
* *
19688777 TAAAGTTGCAGTGGAGCAGATCGA
66 TGAAGTTGCAGTGGAGCAGATCGG
* * *
19688801 AGTAACAAGTCTTATTTTCCTAAATTTGTAGTGGAGCA-AGCTGAAGATAGCAGATCTGGTCTCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGA-CTGAAGATAGCAGATCTGGTCTCC
* * *
19688865 CTGAAGTTGCAGTGGAGAAAATTGG
65 CTGAAGTTGCAGTGGAGCAGATCGG
* * * * * *
19688890 AGTAACGAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAAACTGAAGATAGCAGATCTGATCTCCT
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
**** *
19688955 TGAAGCAATAGT-GAGCAGATCGA
66 TGAAGTTGCAGTGGAGCAGATCGG
** ** * *
19688978 AGCCACAAACCTTATCTCCCTAAAGTTGCAGAGGAGCAG
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAG
19689017 GTTGAGGTCA
Statistics
Matches: 493, Mismatches: 77, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
88 37 0.08
89 455 0.92
90 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (89 bp):
AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
TGAAGTTGCAGTGGAGCAGATCGG
Found at i:19688967 original size:45 final size:45
Alignment explanation
Indices: 19688353--19688959 Score: 273
Period size: 45 Copynumber: 13.6 Consensus size: 45
19688343 TAGAGCGGGT
* * * *
19688353 TGAAG-TAGCA-AGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGAC
1 TGAAGATAGCAGA-TCTGATCTCCCTGAAGTTGTAGTGGAGAAAAC
* * * * *
19688397 TAAAGATAGCAGATCTGGTCTCCCTGAAGTTGCAGTGGAGCAGA-
1 TGAAGATAGCAGATCTGATCTCCCTGAAGTTGTAGTGGAGAAAAC
* * * * * * **
19688441 TCGGAG-TAACA-AGTCTTATCTCCCTAAAGTTGTAGTAGAGCAGGC
1 T-GAAGATAGCAGA-TCTGATCTCCCTGAAGTTGTAGTGGAGAAAAC
* * * * * *
19688486 TGATGATAGCAGATCTGGTCTCCCTGAAGTTGCAGTAGAGCAGA-
1 TGAAGATAGCAGATCTGATCTCCCTGAAGTTGTAGTGGAGAAAAC
* * * * * * * *
19688530 TCGGAG-TAAC-GAGTGTTATCTCCCTAAAGTTGCAGTGGAGCAGAC
1 T-GAAGATAGCAGA-TCTGATCTCCCTGAAGTTGTAGTGGAGAAAAC
* * * * *
19688575 TGAAAATAGCAGATTTGATCTCCCTGAAGTTGCAGTGGAGCAGA-
1 TGAAGATAGCAGATCTGATCTCCCTGAAGTTGTAGTGGAGAAAAC
* * * * * *
19688619 T-CAGAGTAGCA-AGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGAC
1 TGAAGA-TAGCAGA-TCTGATCTCCCTGAAGTTGTAGTGGAGAAAAC
* ** * * * *
19688664 TGAAGACAGCAGATCTGGCCTCCTTGAAGTTGCAGTGGAGTAGA-
1 TGAAGATAGCAGATCTGATCTCCCTGAAGTTGTAGTGGAGAAAAC
* * * * * * *
19688708 T-CAGAGTAGCA-AGTCTTATCTCCCTAAATTTTTAGTGGAGCAGAC
1 TGAAGA-TAGCAGA-TCTGATCTCCCTGAAGTTGTAGTGGAGAAAAC
* * * *
19688753 TGAAGATAGCAGATCT-AGTCTCCCTAAAGTTGCAGTGGAGCAGA-
1 TGAAGATAGCAGATCTGA-TCTCCCTGAAGTTGTAGTGGAGAAAAC
* * * * * * * *
19688797 TCGAAG-TAACA-AGTCTTATTTTCCTAAATTTGTAGTGGAGCAAGC
1 T-GAAGATAGCAGA-TCTGATCTCCCTGAAGTTGTAGTGGAGAAAAC
* * *
19688842 TGAAGATAGCAGATCTGGTCTCCCTGAAGTTGCAGTGGAGAAAAT
1 TGAAGATAGCAGATCTGATCTCCCTGAAGTTGTAGTGGAGAAAAC
* * * *
19688887 TGGAG-TAAC-GAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAAAC
1 TGAAGATAGCAGA-TCTGATCTCCCTGAAGTTGTAGTGGAGAAAAC
*
19688931 TGAAGATAGCAGATCTGATCTCCTTGAAG
1 TGAAGATAGCAGATCTGATCTCCCTGAAG
19688960 CAATAGTGAG
Statistics
Matches: 433, Mismatches: 98, Indels: 63
0.73 0.16 0.11
Matches are distributed among these distances:
43 13 0.03
44 194 0.45
45 211 0.49
46 15 0.03
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (45 bp):
TGAAGATAGCAGATCTGATCTCCCTGAAGTTGTAGTGGAGAAAAC
Found at i:19689335 original size:17 final size:18
Alignment explanation
Indices: 19689300--19689337 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
19689290 CCCAAATTCA
19689300 AAACCCAAAACATAGCCC
1 AAACCCAAAACATAGCCC
*
19689318 AAACCCAATACA-AGCCC
1 AAACCCAAAACATAGCCC
19689335 AAA
1 AAA
19689338 TAAACTTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.53, C:0.37, G:0.05, T:0.05
Consensus pattern (18 bp):
AAACCCAAAACATAGCCC
Found at i:19690560 original size:29 final size:29
Alignment explanation
Indices: 19690521--19690581 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
19690511 ATTTTAAATC
*
19690521 TTTTTTTGTATTATTCATTCTAAAATATT
1 TTTTTTTGTATTATTCATTCTAAAATAAT
19690550 TTTTTTTGTATTATTCATTCTAAAATAAT
1 TTTTTTTGTATTATTCATTCTAAAATAAT
19690579 TTT
1 TTT
19690582 ATTACTTAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (29 bp):
TTTTTTTGTATTATTCATTCTAAAATAAT
Found at i:19691529 original size:127 final size:126
Alignment explanation
Indices: 19691263--19691579 Score: 339
Period size: 127 Copynumber: 2.5 Consensus size: 126
19691253 GAAAGTTCCT
* * * * * * *
19691263 TAAAACCAATGCAATATTCGATGTTTGGAAATTTGGGGAATAGTGCCCTATCATGCTGGGTTTCG
1 TAAAA-CAAGGCAATGTTTGATATTTGGAAATTCGGGGAATAGTGCCCTATCATGCTAGGTTTCA
** * * *
19691328 ATTTCCCGTTTGTTCAAATAATCGAATATTCCTTTAGAATTTTACTCGTGTTTTCTAAATCC
65 ATTTCCCGTTTGCCCAAATAATCAAATATTACTTTAGAATTTCACTCGTGTTTTCTAAATCC
* *
19691390 TAAAACAAGGCAATGTTTGATATTTGGAAATTCGGGGAATCA-TGCCTTATCGTGCTAGGTTTCA
1 TAAAACAAGGCAATGTTTGATATTTGGAAATTCGGGGAAT-AGTGCCCTATCATGCTAGGTTTCA
* * * *
19691454 ATTTCCCGTTTGCCCAAAATAGTCAAATATTACTTTGGAATTTCACTTGTGTTTTCTAAATTC
65 ATTTCCCGTTTGCCC-AAATAATCAAATATTACTTTAGAATTTCACTCGTGTTTTCTAAATCC
* * ** * ** * * * *
19691517 TAAGATAAGGCAATGTTCAATGTTTACAAATTCAGGGAATCGTGCCCTACCATGCTGGGTTTC
1 TAAAACAAGGCAATGTTTGATATTTGGAAATTCGGGGAATAGTGCCCTATCATGCTAGGTTTC
19691580 GGTTTTTCGT
Statistics
Matches: 156, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
126 61 0.39
127 95 0.61
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (126 bp):
TAAAACAAGGCAATGTTTGATATTTGGAAATTCGGGGAATAGTGCCCTATCATGCTAGGTTTCAA
TTTCCCGTTTGCCCAAATAATCAAATATTACTTTAGAATTTCACTCGTGTTTTCTAAATCC
Found at i:19696284 original size:40 final size:40
Alignment explanation
Indices: 19696239--19696418 Score: 238
Period size: 40 Copynumber: 4.5 Consensus size: 40
19696229 GATTTCGATA
19696239 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
* * *
19696279 TATATATAGCACTTAGTGTGCAATTCAAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
* * *
19696319 TATATATGGCATTTAGTGTGTGATTCG-GAATAGCTTTGGC
1 TATATATGGCACTTAGTGTGCGATTCGAG-ATAGCTTCGGC
* *
19696359 TATATATGGCACTTGGTGTGCAAGA-CCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGC--GATTCGAGATAGCTTCGGC
*
19696400 TATATAAGGCACTTAGTGT
1 TATATATGGCACTTAGTGT
19696419 AACAGCCCGA
Statistics
Matches: 120, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 87 0.73
41 29 0.24
42 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
Found at i:19697687 original size:43 final size:43
Alignment explanation
Indices: 19697640--19697779 Score: 158
Period size: 43 Copynumber: 3.3 Consensus size: 43
19697630 TGAGATTACA
* * *
19697640 TGTAAGACCATGTCTGGGACATTGTCATTG-TATTGTGATTAT-G
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-TATGATT-TCG
19697683 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
* * * * ** *
19697726 TGTAAGACCCTGTCTGGGACAATGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
19697769 TGTAAGACCAT
1 TGTAAGACCAT
19697780 ATCTAGGATA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.01
43 81 0.96
44 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
Found at i:19699444 original size:27 final size:27
Alignment explanation
Indices: 19699427--19699605 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
19699417 ATATTAAGTC
19699427 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
19699454 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
19699482 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
19699509 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
19699536 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * * *
19699564 TGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
19699591 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
19699606 GCACAATTTA
Statistics
Matches: 142, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 91 0.64
28 51 0.36
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:19699511 original size:55 final size:54
Alignment explanation
Indices: 19699427--19699605 Score: 286
Period size: 55 Copynumber: 3.3 Consensus size: 54
19699417 ATATTAAGTC
* * * * *
19699427 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AATT
19699482 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAATT
*
19699536 CGCACACTTAGTGCTACATAGTCAAACTTGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAATT
19699591 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19699606 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
54 26 0.22
55 91 0.78
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAATT
Found at i:19699569 original size:82 final size:82
Alignment explanation
Indices: 19699427--19699605 Score: 295
Period size: 82 Copynumber: 2.2 Consensus size: 82
19699417 ATATTAAGTC
* *
19699427 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
19699492 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* * * *
19699509 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACTTGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
*
19699574 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAACT
19699591 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19699606 GCACAATTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 90 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:19703742 original size:10 final size:9
Alignment explanation
Indices: 19703719--19703744 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19703709 TTTGGTTTTG
19703719 GTTTTTGAT
1 GTTTTTGAT
19703728 GTTTTTGAT
1 GTTTTTGAT
19703737 GTTTTTGA
1 GTTTTTGA
19703745 GATCCTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:19704764 original size:46 final size:49
Alignment explanation
Indices: 19704620--19704886 Score: 258
Period size: 46 Copynumber: 5.7 Consensus size: 49
19704610 ATTGTGAGAT
* * *
19704620 AGTGTAAGA-CATGTCTGGGACA-AGCATCGGCC-AGATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTAGAGCC
* ** *
19704666 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
*
19704714 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
* *
19704760 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG-TTACGAGATGT---GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAGAGCC
* * *
19704804 AATGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-AGAGCC
* *
19704854 AGTGTAAGACCATGTTTAGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
19704887 ATTATACCCT
Statistics
Matches: 186, Mismatches: 22, Indels: 22
0.81 0.10 0.10
Matches are distributed among these distances:
44 10 0.05
45 15 0.08
46 76 0.41
47 27 0.15
48 25 0.13
49 1 0.01
50 32 0.17
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
Found at i:19704862 original size:94 final size:93
Alignment explanation
Indices: 19704622--19704890 Score: 309
Period size: 94 Copynumber: 2.9 Consensus size: 93
19704612 TGTGAGATAG
*
19704622 TGTAAGACATGTCTGGGACAAGCATCGGCCAGATTATG-AGAGCCAGTGTAAGACCATGTCTGGG
1 TGTAAGACATGTCTGGGACATGCATCGGCCAGA-TATGTAGAGCCAGTGTAAGACCATGTCTGGG
*
19704686 ACATGGCATCGGCATTAAGATGAGAGCTAG
65 ACATGGCATCGG-ATTAAGATGAGAGCTAA
* * *
19704716 TGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTA-AGCCAGTGTAAGA-CATGTCTGGG
1 TGTAAGACATGTCTGGGACATGCATCGGCC-AGATATGTAGAGCCAGTGTAAGACCATGTCTGGG
* *
19704779 ACAT-GCATCGG-TTACGA-GATGTG-TCAA
65 ACATGGCATCGGATTAAGATGA-GAGCT-AA
* *
19704806 TGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTAAGAGCCAGTGTAAGACCATGTTT
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC-CAGATATGT-AGAGCCAGTGTAAGACCATGTCT
*
19704871 AGGACATGGCATCGGCATTA
62 GGGACATGGCATCGG-ATTA
19704891 TACCCTATGT
Statistics
Matches: 150, Mismatches: 12, Indels: 22
0.82 0.07 0.12
Matches are distributed among these distances:
89 3 0.02
90 15 0.10
91 13 0.09
92 21 0.14
93 16 0.11
94 57 0.38
95 15 0.10
96 7 0.05
98 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (93 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCAGATATGTAGAGCCAGTGTAAGACCATGTCTGGGA
CATGGCATCGGATTAAGATGAGAGCTAA
Found at i:19707946 original size:15 final size:15
Alignment explanation
Indices: 19707919--19707962 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
19707909 TATAGTCCCG
19707919 TATCTTGGGATTTCTC
1 TATCTT-GGATTTCTC
*
19707935 TATCTTGGATTTCTT
1 TATCTTGGATTTCTC
*
19707950 TA-CTTGGTTTTCT
1 TATCTTGGATTTCT
19707963 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 10 0.38
15 10 0.38
16 6 0.23
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:19710589 original size:45 final size:47
Alignment explanation
Indices: 19710455--19710675 Score: 156
Period size: 46 Copynumber: 4.7 Consensus size: 47
19710445 ATATTATGAG
* * *
19710455 AGCCAGTGTAAGACCATGTCTGGGACATGACATCAGC-ATTGAGACG-A
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCTA-CGAGATGTA
** * * * *
19710502 GAGTTAATGTAA-AACATGTCTGAGACAT-GCATTGGCCT-CGAGATGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCA-TCG-CTACGAGATGTA
19710549 AGCCAGTGTAAGA-CATGTC-GGGACAT-GCATCGACTACGAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-CTACGAGATGTA
* * * *
19710593 -GTCATTGTAAGACCATGTCTGGGACATGGCATCGGTACGGATATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCTAC-GAGATGT-A
* *
19710641 GAGCTAGTGTAAGACCATGTCTGGGATATGGCATC
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
19710676 AGTATTATAC
Statistics
Matches: 136, Mismatches: 23, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
43 10 0.07
44 10 0.07
45 27 0.20
46 34 0.25
47 18 0.13
48 8 0.06
50 29 0.21
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCTACGAGATGTA
Found at i:19716401 original size:59 final size:58
Alignment explanation
Indices: 19716332--19716462 Score: 147
Period size: 58 Copynumber: 2.2 Consensus size: 58
19716322 ACTTATTTGA
* **
19716332 CCCTTCAACTT-TGCAAAAAAGTCATTTTAACCCTTCATTTACTTTTTTACCTCTTTCAG
1 CCCTTAAACTTATG-AAAAAAGTCA-AATAACCCTTCATTTACTTTTTTACCTCTTTCAG
****** *
19716391 CCCTTAAACTTATGTTGTTTGTCAAATCACCCTTCATTTACTTTTTTACCTCTTTCAG
1 CCCTTAAACTTATGAAAAAAGTCAAATAACCCTTCATTTACTTTTTTACCTCTTTCAG
19716449 CCCTTAAACTTATG
1 CCCTTAAACTTATG
19716463 TTGTTTGTCA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
58 45 0.74
59 14 0.23
60 2 0.03
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.44
Consensus pattern (58 bp):
CCCTTAAACTTATGAAAAAAGTCAAATAACCCTTCATTTACTTTTTTACCTCTTTCAG
Found at i:19716423 original size:29 final size:29
Alignment explanation
Indices: 19716391--19716481 Score: 73
Period size: 29 Copynumber: 3.1 Consensus size: 29
19716381 CCTCTTTCAG
19716391 CCCTTAAACTTATGTTGTTTGTCAAATCA
1 CCCTTAAACTTATGTTGTTTGTCAAATCA
* * * **
19716420 CCCTT-CATTTACT-TT-TTTACCTC-TTTCA
1 CCCTTAAACTTA-TGTTGTTT--GTCAAATCA
19716448 GCCCTTAAACTTATGTTGTTTGTCAAATCA
1 -CCCTTAAACTTATGTTGTTTGTCAAATCA
19716478 CCCT
1 CCCT
19716482 AAAATAGATG
Statistics
Matches: 44, Mismatches: 10, Indels: 16
0.63 0.14 0.23
Matches are distributed among these distances:
27 3 0.07
28 9 0.20
29 20 0.45
30 9 0.20
31 3 0.07
ACGTcount: A:0.22, C:0.26, G:0.08, T:0.44
Consensus pattern (29 bp):
CCCTTAAACTTATGTTGTTTGTCAAATCA
Found at i:19716428 original size:58 final size:58
Alignment explanation
Indices: 19716361--19716481 Score: 242
Period size: 58 Copynumber: 2.1 Consensus size: 58
19716351 AGTCATTTTA
19716361 ACCCTTCATTTACTTTTTTACCTCTTTCAGCCCTTAAACTTATGTTGTTTGTCAAATC
1 ACCCTTCATTTACTTTTTTACCTCTTTCAGCCCTTAAACTTATGTTGTTTGTCAAATC
19716419 ACCCTTCATTTACTTTTTTACCTCTTTCAGCCCTTAAACTTATGTTGTTTGTCAAATC
1 ACCCTTCATTTACTTTTTTACCTCTTTCAGCCCTTAAACTTATGTTGTTTGTCAAATC
19716477 ACCCT
1 ACCCT
19716482 AAAATAGATG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.21, C:0.27, G:0.07, T:0.45
Consensus pattern (58 bp):
ACCCTTCATTTACTTTTTTACCTCTTTCAGCCCTTAAACTTATGTTGTTTGTCAAATC
Found at i:19716604 original size:19 final size:19
Alignment explanation
Indices: 19716580--19716637 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
19716570 AAATTACAAA
19716580 ATTAAAAATATTAAAAAGT
1 ATTAAAAATATTAAAAAGT
* *
19716599 ATTAAAATTGTTAAAAAGT
1 ATTAAAAATATTAAAAAGT
19716618 A-TAAAAATCA-TAAAAA-T
1 ATTAAAAAT-ATTAAAAAGT
19716635 ATT
1 ATT
19716638 TTTTAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 2 0.06
18 13 0.39
19 18 0.55
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTAAAAATATTAAAAAGT
Found at i:19716615 original size:10 final size:9
Alignment explanation
Indices: 19716565--19716637 Score: 64
Period size: 9 Copynumber: 8.2 Consensus size: 9
19716555 ATTATTTTTT
19716565 TTAAAAA-A
1 TTAAAAATA
*
19716573 TTACAAA-A
1 TTAAAAATA
19716581 TTAAAAATA
1 TTAAAAATA
19716590 TTAAAAAGTA
1 TTAAAAA-TA
* *
19716600 TTAAAATTG
1 TTAAAAATA
19716609 TTAAAAAGTA
1 TTAAAAA-TA
19716619 -TAAAAATCA
1 TTAAAAAT-A
19716628 -TAAAAATA
1 TTAAAAATA
19716636 TT
1 TT
19716638 TTTTAAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
8 15 0.28
9 30 0.56
10 9 0.17
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (9 bp):
TTAAAAATA
Found at i:19716649 original size:10 final size:10
Alignment explanation
Indices: 19716631--19716663 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
19716621 AAAATCATAA
19716631 AAATATTTTTT
1 AAAT-TTTTTT
19716642 AAA-TTTTTT
1 AAATTTTTTT
19716651 AAATTTTTTT
1 AAATTTTTTT
19716661 AAA
1 AAA
19716664 ATTAATTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 9 0.43
11 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
AAATTTTTTT
Found at i:19717113 original size:3 final size:3
Alignment explanation
Indices: 19717105--19717133 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
19717095 TATCTAGTTT
19717105 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
19717134 TTCTATATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:19726672 original size:49 final size:47
Alignment explanation
Indices: 19726547--19726673 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 47
19726537 GGTATGATGC
* * **
19726547 CGACGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAATT
1 CGACGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGG
* *
19726594 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATCGAGG
1 CGACGCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATCAAGG
*
19726642 CTGACGTCATGTCCCAGACATGGTCTTACACT
1 C-GACGCCATGTCCCAGACATGGTCTTACACT
19726674 AGCTCTCACA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 3 0.04
47 33 0.48
48 5 0.07
49 28 0.41
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (47 bp):
CGACGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGG
Found at i:19726721 original size:99 final size:96
Alignment explanation
Indices: 19726548--19726958 Score: 248
Period size: 94 Copynumber: 4.3 Consensus size: 96
19726538 GTATGATGCC
* *
19726548 GACGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAATTCGATGCCATGTCCCAGACA
1 GACGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAATCCGATGCCATGTCCCAGACA
*
19726613 TGGTCTTACACTGACTATCGAAATCGAGGCT
66 TAGTCTTACACTGACTATCGAAATCGAGGCT
* ** * *
19726644 GACGTCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATCCGTGCCGATGTCATGTCTCA
1 GACGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-C--ATCAAT-CCGATGCCATGTCCCA
* * * *
19726708 GACATAGTCTTACACTGAC-ACCTCTATA-CG-TGCC
62 GACATAGTCTTACACTGACTA--TCGAAATCGAGGCT
* * * * * * *
19726742 AATGCAATGTCCTAGACATGGTCTTACACT-GACACAT-C-TCGTAGCCGATG-CATGTCCCAGA
1 GACGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCCATC-AATCCGATGCCATGTCCCAGA
* * ** *
19726803 CAT-GTCTTACATTGGCT-TAC-ATCTCGAGGCC
64 CATAGTCTTACACTGACTAT-CGAAATCGAGGCT
* * * * **
19726834 GATG-CATGTCCCAAACAT-GTCTTACACTAGCT-TTCGTC-TCAATGTCGATGCCATGTTTCAG
1 GACGCCATGTCCCAGACATGGTCTTACACTAGCTCATC--CATCAAT-CCGATGCCATGTCCCAG
* * * * *
19726895 ACATGGTCTTACACTGGCTCTC-ATAAT-GTGGCA
63 ACATAGTCTTACACTGACTATCGA-AATCGAGGCT
*
19726928 GATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 GACGCCATGTCCCAGACATGGTCTTACACTAGC
19726959 ACACAAATTA
Statistics
Matches: 250, Mismatches: 43, Indels: 46
0.74 0.13 0.14
Matches are distributed among these distances:
89 1 0.00
90 14 0.06
91 16 0.06
92 25 0.10
93 25 0.10
94 57 0.23
95 4 0.02
96 34 0.14
97 2 0.01
98 34 0.14
99 34 0.14
100 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (96 bp):
GACGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAATCCGATGCCATGTCCCAGACA
TAGTCTTACACTGACTATCGAAATCGAGGCT
Found at i:19726828 original size:46 final size:47
Alignment explanation
Indices: 19726553--19726955 Score: 239
Period size: 46 Copynumber: 8.5 Consensus size: 47
19726543 ATGCCGACGC
* **
19726553 CATGTCCCAGACATGGTCTTACACTGGC-T-CATCCATC-AATTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACAT-C-TCGTAGCCGATG
* ** * *
19726599 CCATGTCCCAGACATGGTCTTACACTGAC-TATCGAAATCG-AGGCTGACG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTA-C-ATCTCGTA-GCCGATG
* *
19726648 TCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCT-CGTAGCCGATG
* * * * *
19726698 TCATGTCTCAGACATAGTCTTACACTGAC--ACCTCTATACGT-GCCAATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTACATC--T-CGTAGCCGATG
* *
19726746 CAATGTCCTAGACATGGTCTTACACTGAC--ACATCTCGTAGCCGATG
1 C-ATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAGCCGATG
*
19726792 CATGTCCCAGACAT-GTCTTACATTGGCTTACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA-GCCGATG
* * * * * *
19726838 CATGTCCCAAACAT-GTCTTACACTAGCTTTCGTCTC-AATGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA-GCCGATG
** * * *
19726884 CCATGTTTCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCAGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGTAGCCGATG
19726932 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
19726956 AGCACACAAA
Statistics
Matches: 285, Mismatches: 48, Indels: 47
0.75 0.13 0.12
Matches are distributed among these distances:
44 11 0.04
45 16 0.06
46 74 0.26
47 52 0.18
48 61 0.21
49 32 0.11
50 34 0.12
51 4 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAGCCGATG
Found at i:19730150 original size:26 final size:26
Alignment explanation
Indices: 19730114--19730223 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
19730104 TGATACAAAT
19730114 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
19730140 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
19730166 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
19730192 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
19730218 TGATAA
1 TGATAA
19730224 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:19731884 original size:27 final size:27
Alignment explanation
Indices: 19731843--19731982 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
19731833 GAGGAAGCGT
*
19731843 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
19731870 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
19731897 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
19731924 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
19731952 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
19731978 TCTGG
1 TCTGG
19731983 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:19731928 original size:54 final size:55
Alignment explanation
Indices: 19731843--19731982 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
19731833 GAGGAAGCGT
* * *
19731843 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
19731897 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
19731952 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
19731983 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:19740137 original size:28 final size:28
Alignment explanation
Indices: 19740097--19740163 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
19740087 ATGAAAATTT
** *
19740097 CACTAAGCATGCGAGTTTGGTTAAT-GAG
1 CACTAAGTGTGCGAGTTTGATT-ATCGAG
19740125 CACTAAGTGTGCGAGTTTGATTATCGAG
1 CACTAAGTGTGCGAGTTTGATTATCGAG
19740153 CACTAAGTGTG
1 CACTAAGTGTG
19740164 TGAAGGAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 2 0.06
28 33 0.94
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTGATTATCGAG
Found at i:19749585 original size:40 final size:40
Alignment explanation
Indices: 19749419--19749634 Score: 208
Period size: 40 Copynumber: 5.7 Consensus size: 40
19749409 TTGAATGATG
* *
19749419 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* *
19749458 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
19749497 TTCGGGCTAAG--CCGAA-GCA-TTG-GCGAGATAC--AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19749530 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
19749569 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
19749610 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19749635 AACGAGGAGC
Statistics
Matches: 153, Mismatches: 12, Indels: 23
0.81 0.06 0.12
Matches are distributed among these distances:
33 13 0.08
34 14 0.09
35 6 0.04
36 6 0.04
37 13 0.08
39 39 0.25
40 54 0.35
41 8 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19759053 original size:39 final size:40
Alignment explanation
Indices: 19758905--19759399 Score: 814
Period size: 39 Copynumber: 12.6 Consensus size: 40
19758895 CATTTGAATG
19758905 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
19758945 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
19758985 ATATCCGGG-TAAGA-CCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
19759023 ATATCCGGG-TAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
19759062 ATATCCGGG-TAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
19759101 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
19759140 ATATCCGGG-TAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
19759179 ATATCC-GG-TAAGA-CCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
19759216 ATATCCGGGATAAGA-CCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
19759255 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
19759295 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
19759335 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
19759375 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
19759400 ATTGAGCTTG
Statistics
Matches: 433, Mismatches: 14, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
37 30 0.07
38 52 0.12
39 184 0.42
40 166 0.38
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:19766529 original size:40 final size:40
Alignment explanation
Indices: 19766475--19766978 Score: 868
Period size: 40 Copynumber: 12.6 Consensus size: 40
19766465 CATTTGAATG
19766475 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
19766515 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
19766555 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
19766595 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
19766635 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
19766675 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
19766715 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
19766755 ATATCCGGGATAAGA-CCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
19766794 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
19766834 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
19766874 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
19766914 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
19766954 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
19766979 ATTGAGCTTG
Statistics
Matches: 442, Mismatches: 19, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
39 41 0.09
40 400 0.90
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:19771304 original size:9 final size:9
Alignment explanation
Indices: 19771290--19771314 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
19771280 AACCATTCAA
19771290 TCATTCATT
1 TCATTCATT
19771299 TCATTCATT
1 TCATTCATT
19771308 TCATTCA
1 TCATTCA
19771315 AAATAATCCA
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:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (9 bp):
TCATTCATT
Found at i:19791007 original size:39 final size:41
Alignment explanation
Indices: 19790912--19791095 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
19790902 TTGAATGATG
*
19790912 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
19790951 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
*
19790991 TCCGGGCTAAG-CCCGAAGGAATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
19791030 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
19791070 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19791096 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
39 53 0.43
40 60 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:19791117 original size:79 final size:79
Alignment explanation
Indices: 19790964--19791128 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
19790954 GGACTAAGAT
* ** *
19790964 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGAATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGAATTTGAACGAGTGACTAA
*
19791029 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
19791043 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGAATTTGAACGAGTGA-
* *
19791105 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
19791122 CCGAAGG
1 CCGAAGG
19791129 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.63
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGAATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:19798950 original size:39 final size:41
Alignment explanation
Indices: 19798855--19799038 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
19798845 TTGAATGATG
*
19798855 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
19798894 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
19798934 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
19798973 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* * *
19799013 ACCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19799039 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 19
0.81 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 60 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:19798990 original size:79 final size:81
Alignment explanation
Indices: 19798855--19799038 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
19798845 TTGAATGATG
19798855 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
19798918 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
19798933 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
19798994 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* * *
19799013 ACCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19799039 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 11 0.12
79 57 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:19799060 original size:79 final size:79
Alignment explanation
Indices: 19798907--19799071 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
19798897 GGACTAAGAT
* * ** *
19798907 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
19798972 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
19798986 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCAGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCAGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
19799048 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
19799065 CCGAAGG
1 CCGAAGG
19799072 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:19806568 original size:7 final size:7
Alignment explanation
Indices: 19806558--19806652 Score: 58
Period size: 7 Copynumber: 14.0 Consensus size: 7
19806548 TTTTATATAC
19806558 TAATAAA
1 TAATAAA
19806565 TAATAAA
1 TAATAAA
*
19806572 TAATGTAA
1 TAAT-AAA
*
19806580 TAATATA
1 TAATAAA
19806587 TAATAAA
1 TAATAAA
**
19806594 -AGGAAGA
1 TAATAA-A
19806601 TAAT--A
1 TAATAAA
*
19806606 TAAGAAA
1 TAATAAA
*
19806613 TAATATA
1 TAATAAA
19806620 TAAT-AA
1 TAATAAA
*
19806626 -AATATA
1 TAATAAA
19806632 TAATGAAA
1 TAAT-AAA
19806640 T-ATAAA
1 TAATAAA
19806646 TAATAAA
1 TAATAAA
19806653 ATAACATATA
Statistics
Matches: 65, Mismatches: 14, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
5 7 0.11
6 9 0.14
7 39 0.60
8 10 0.15
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.29
Consensus pattern (7 bp):
TAATAAA
Found at i:19806622 original size:19 final size:18
Alignment explanation
Indices: 19806600--19806679 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 18
19806590 TAAAAGGAAG
19806600 ATAATATAAGAAATAATAT
1 ATAATATAA-AAATAATAT
19806619 ATAATA-AAATATATAATGAAAT
1 ATAATATAAA-A-ATAAT---AT
*
19806641 ATAA-ATAATAAAATAACAT
1 ATAATAT-A-AAAATAATAT
19806660 ATAAT-TAAAAATAATAT
1 ATAATATAAAAATAATAT
19806677 ATA
1 ATA
19806680 CTATTTTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
17 13 0.26
18 4 0.08
19 18 0.36
21 1 0.02
22 10 0.20
23 2 0.04
24 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (18 bp):
ATAATATAAAAATAATAT
Found at i:19806632 original size:26 final size:26
Alignment explanation
Indices: 19806603--19806655 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
19806593 AAGGAAGATA
*
19806603 ATATAA-GAAATAATATATAATAAAAT
1 ATATAATGAAAT-ATAAATAATAAAAT
19806629 ATATAATGAAATATAAATAATAAAAT
1 ATATAATGAAATATAAATAATAAAAT
19806655 A
1 A
19806656 ACATATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (26 bp):
ATATAATGAAATATAAATAATAAAAT
Found at i:19806654 original size:14 final size:12
Alignment explanation
Indices: 19806614--19806655 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
19806604 TATAAGAAAT
19806614 AATATATAATAA
1 AATATATAATAA
19806626 AATATATAATGAA
1 AATATATAAT-AA
*
19806639 ATATAAATAATAA
1 A-ATATATAATAA
19806652 AATA
1 AATA
19806656 ACATATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 13 0.48
13 6 0.22
14 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AATATATAATAA
Found at i:19808337 original size:44 final size:44
Alignment explanation
Indices: 19808246--19808553 Score: 361
Period size: 44 Copynumber: 7.0 Consensus size: 44
19808236 TCAGGAATGT
* * * * * ***
19808246 CAAATCTGCTATCTTTGATTTGCTCCCTGACAATACGGAGGTTC
1 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* *
19808290 CAAACCTACTATCTTCGATCTTCTCTCTGACAATACAGAGACGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * *
19808334 CAAATCTATTATCTTCGATCTTCTCTCTAACAATACAGAGACGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* *
19808378 TAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * ** *
19808422 CAAATCTTCTATC-TCTGATCTGCTCTCCGTTAATACAGAGATGC
1 CAAATCTACTATCTTC-GATCTGCTCTCTGACAATACAGAGACGC
* * * * *
19808466 CAGATGT-C-ATCTTCGATCTGCTCTCTGTCAATACAAAGATGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
19808508 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
19808552 CA
1 CA
19808554 GATGTCACCG
Statistics
Matches: 226, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
42 33 0.15
43 6 0.03
44 187 0.83
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (44 bp):
CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
Found at i:19808534 original size:130 final size:131
Alignment explanation
Indices: 19808246--19808553 Score: 368
Period size: 130 Copynumber: 2.4 Consensus size: 131
19808236 TCAGGAATGT
* * * * ***
19808246 CAAATCTGCTATCTTTGATTTGCTCCCTGACAATACGGAGGTTCCAAACCTACTATCTTCGATCT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAACCTACTATCTTCGATCT
* * * * *
19808311 TCTCTCTGACAATACAGAGACGCCAAATCTATTATCTTCGATCTTCTCTCTAACAATACAGAGAC
66 GCTCTCCGACAATACAGAGACGCCAAA-CTATCATCTTCGATCTGCTCTCTAACAATACAAAGAC
19808376 GC
130 GC
* * *
19808378 TAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTTCTATC-TCTGATC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAACCTACTATCTTC-GATC
** * * * ** *
19808442 TGCTCTCCGTTAATACAGAGATGCCAGA-TGTCATCTTCGATCTGCTCTCTGTCAATACAAAGAT
65 TGCTCTCCGACAATACAGAGACGCCAAACTATCATCTTCGATCTGCTCTCTAACAATACAAAGAC
19808506 GC
130 GC
*
19808508 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCA
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCA
19808554 GATGTCACCG
Statistics
Matches: 150, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
130 75 0.50
131 2 0.01
132 73 0.49
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (131 bp):
CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAACCTACTATCTTCGATCT
GCTCTCCGACAATACAGAGACGCCAAACTATCATCTTCGATCTGCTCTCTAACAATACAAAGACG
C
Found at i:19808570 original size:86 final size:86
Alignment explanation
Indices: 19808300--19808560 Score: 353
Period size: 86 Copynumber: 3.0 Consensus size: 86
19808290 CAAACCTACT
* * * *
19808300 ATCTTCGATCTTCTCTCTGACAATACAGAGACGCCAAATCTATTATCTTCGATCTTCTCTCTAAC
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* * *
19808365 AATACAGAGACGCTAAATCTGC
66 AATACAGAGACGCCAGATGT-C
* *
19808387 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTTCTATC-TCTGATCTGCTCTCCG
1 -ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTC-GATCTGCTCTCTG
** *
19808451 TTAATACAGAGATGCCAGATGTC
64 ACAATACAGAGACGCCAGATGTC
* * *
19808474 ATCTTCGATCTGCTCTCTGTCAATACAAAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
19808539 AATACAGAGACGCCAGATGTC
66 AATACAGAGACGCCAGATGTC
19808560 A
1 A
19808561 CCGGTGATCT
Statistics
Matches: 151, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
86 76 0.50
87 5 0.03
88 70 0.46
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (86 bp):
ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
AATACAGAGACGCCAGATGTC
Found at i:19814889 original size:29 final size:29
Alignment explanation
Indices: 19814826--19814893 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
19814816 TAATCAACCG
*
19814826 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
19814855 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
19814884 CGCACACTTA
1 CGCACACTTA
19814894 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:19815063 original size:29 final size:29
Alignment explanation
Indices: 19815000--19815067 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
19814990 TAATCAACCG
19815000 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
19815029 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
19815058 CGCACACTTA
1 CGCACACTTA
19815068 CCTTTTCTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:19815208 original size:29 final size:30
Alignment explanation
Indices: 19815169--19815247 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
19815159 CTTAATAATC
19815169 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
19815199 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
19815228 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
19815248 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:19815241 original size:174 final size:174
Alignment explanation
Indices: 19814715--19815216 Score: 923
Period size: 174 Copynumber: 2.9 Consensus size: 174
19814705 AACTCAAGGT
* * *
19814715 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTCTA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
19814780 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
19814845 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
19814889 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * *
19814954 GAAAATATATATTGGGTTCCCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
19815019 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
19815063 ACTTACCTTTTCTGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
19815128 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
19815193 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
19815217 TGTACAATTT
Statistics
Matches: 316, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 316 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:19824012 original size:7 final size:7
Alignment explanation
Indices: 19824002--19824096 Score: 58
Period size: 7 Copynumber: 14.0 Consensus size: 7
19823992 TTTTATATAC
19824002 TAATAAA
1 TAATAAA
19824009 TAATAAA
1 TAATAAA
*
19824016 TAATGTAA
1 TAAT-AAA
*
19824024 TAATATA
1 TAATAAA
19824031 TAATAAA
1 TAATAAA
**
19824038 -AGGAAGA
1 TAATAA-A
19824045 TAAT--A
1 TAATAAA
*
19824050 TAAGAAA
1 TAATAAA
*
19824057 TAATATA
1 TAATAAA
19824064 TAAT-AA
1 TAATAAA
*
19824070 -AATATA
1 TAATAAA
19824076 TAATGAAA
1 TAAT-AAA
19824084 T-ATAAA
1 TAATAAA
19824090 TAATAAA
1 TAATAAA
19824097 ATAACATATA
Statistics
Matches: 65, Mismatches: 14, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
5 7 0.11
6 9 0.14
7 39 0.60
8 10 0.15
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.29
Consensus pattern (7 bp):
TAATAAA
Found at i:19824066 original size:19 final size:18
Alignment explanation
Indices: 19824044--19824123 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 18
19824034 TAAAAGGAAG
19824044 ATAATATAAGAAATAATAT
1 ATAATATAA-AAATAATAT
19824063 ATAATA-AAATATATAATGAAAT
1 ATAATATAAA-A-ATAAT---AT
*
19824085 ATAA-ATAATAAAATAACAT
1 ATAATAT-A-AAAATAATAT
19824104 ATAAT-TAAAAATAATAT
1 ATAATATAAAAATAATAT
19824121 ATA
1 ATA
19824124 CTATTTTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
17 13 0.26
18 4 0.08
19 18 0.36
21 1 0.02
22 10 0.20
23 2 0.04
24 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (18 bp):
ATAATATAAAAATAATAT
Found at i:19824076 original size:26 final size:26
Alignment explanation
Indices: 19824047--19824099 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
19824037 AAGGAAGATA
*
19824047 ATATAA-GAAATAATATATAATAAAAT
1 ATATAATGAAAT-ATAAATAATAAAAT
19824073 ATATAATGAAATATAAATAATAAAAT
1 ATATAATGAAATATAAATAATAAAAT
19824099 A
1 A
19824100 ACATATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (26 bp):
ATATAATGAAATATAAATAATAAAAT
Found at i:19824098 original size:14 final size:12
Alignment explanation
Indices: 19824058--19824099 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
19824048 TATAAGAAAT
19824058 AATATATAATAA
1 AATATATAATAA
19824070 AATATATAATGAA
1 AATATATAAT-AA
*
19824083 ATATAAATAATAA
1 A-ATATATAATAA
19824096 AATA
1 AATA
19824100 ACATATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 13 0.48
13 6 0.22
14 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AATATATAATAA
Found at i:19829063 original size:33 final size:33
Alignment explanation
Indices: 19829021--19829084 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
19829011 TTAAGCCCAA
* * *
19829021 ACTATTACTGTATAGGGCTAAGGCCTAGACTAT
1 ACTAATACTGAATAGGGCTAAGGCCCAGACTAT
*
19829054 ACTAATACTGAATAGGGCTCAGGCCCAGACT
1 ACTAATACTGAATAGGGCTAAGGCCCAGACT
19829085 GTTACTACGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (33 bp):
ACTAATACTGAATAGGGCTAAGGCCCAGACTAT
Found at i:19838426 original size:47 final size:47
Alignment explanation
Indices: 19838375--19838612 Score: 386
Period size: 47 Copynumber: 5.1 Consensus size: 47
19838365 TTCCACGTTT
* **
19838375 ATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
19838422 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
19838469 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
19838516 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * **
19838563 ATCACATTGGCCATTAGGCCTTATCTCATATATACACATTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
19838610 ATC
1 ATC
19838613 TCATAAAATC
Statistics
Matches: 180, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 180 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:19838449 original size:22 final size:22
Alignment explanation
Indices: 19838422--19838543 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
19838412 GTTCACATTC
19838422 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
19838444 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
19838468 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
19838491 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
19838515 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
19838538 ATCACA
1 ATCACA
19838544 CATATGCATG
Statistics
Matches: 74, Mismatches: 10, Indels: 32
0.64 0.09 0.28
Matches are distributed among these distances:
22 22 0.30
23 18 0.24
24 18 0.24
25 16 0.22
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:19846464 original size:12 final size:12
Alignment explanation
Indices: 19846447--19846471 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19846437 ATGTAAGTGA
19846447 TCTTGATGATTT
1 TCTTGATGATTT
19846459 TCTTGATGATTT
1 TCTTGATGATTT
19846471 T
1 T
19846472 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:19850864 original size:40 final size:40
Alignment explanation
Indices: 19850833--19850963 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
19850823 GGACTAAGAT
19850833 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
19850873 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
19850913 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
19850953 CCGAAGGCATT
1 CCGAAGGCATT
19850964 GTATGAGTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 81 0.99
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:19858811 original size:40 final size:40
Alignment explanation
Indices: 19858727--19858910 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
19858717 TTGAATGCTG
* * * *
19858727 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
19858766 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
19858807 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
19858847 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
19858887 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
19858911 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:19858864 original size:80 final size:81
Alignment explanation
Indices: 19858727--19858907 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
19858717 TTGAATGCTG
* *
19858727 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
19858791 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
19858807 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
19858868 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
19858887 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
19858908 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:19882793 original size:9 final size:9
Alignment explanation
Indices: 19882779--19882864 Score: 118
Period size: 9 Copynumber: 9.6 Consensus size: 9
19882769 ATAAGTATAA
19882779 AATTAACCG
1 AATTAACCG
*
19882788 AATTAACCA
1 AATTAACCG
*
19882797 AATTAATCG
1 AATTAACCG
*
19882806 AATTAATCG
1 AATTAACCG
*
19882815 AATTACCCG
1 AATTAACCG
*
19882824 AATTACCCG
1 AATTAACCG
*
19882833 AATTACCCG
1 AATTAACCG
19882842 AATTAACCG
1 AATTAACCG
19882851 AATTAACCG
1 AATTAACCG
19882860 AATTA
1 AATTA
19882865 TTTGTATAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 71 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:19882895 original size:6 final size:6
Alignment explanation
Indices: 19882884--19882936 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
19882874 AATTATATGT
* * *
19882884 TTTTTA TTTTTA TTTTTA GTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA
19882934 TTT
1 TTT
19882937 ATTAAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 33 0.80
7 7 0.17
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:19882985 original size:18 final size:18
Alignment explanation
Indices: 19882962--19882999 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
19882952 ATTTTTATGA
19882962 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
19882980 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
19882998 TT
1 TT
19883000 AATATATATT
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:0.11, C:0.00, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:19882999 original size:13 final size:13
Alignment explanation
Indices: 19882961--19882985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19882951 AATTTTTATG
19882961 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
19882974 ATTGGGTTGGGT
1 ATTGGGTTGGGT
19882986 TGGGTAATTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:19883113 original size:18 final size:18
Alignment explanation
Indices: 19883090--19883124 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
19883080 TTTTATTAAT
19883090 TTTTTTCGGTTAACCGAA
1 TTTTTTCGGTTAACCGAA
19883108 TTTTTTCGGTTAACCGA
1 TTTTTTCGGTTAACCGA
19883125 CCAGTTTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (18 bp):
TTTTTTCGGTTAACCGAA
Found at i:19887102 original size:21 final size:21
Alignment explanation
Indices: 19887068--19887108 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19887058 AATTAACTAC
*
19887068 TTTTAGATTATTTATTTTAAT
1 TTTTAGATTATTTAATTTAAT
19887089 TTTTA-ATTATTTTAATTTAA
1 TTTTAGATTA-TTTAATTTAA
19887109 AATATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTAGATTATTTAATTTAAT
Found at i:19906393 original size:5 final size:5
Alignment explanation
Indices: 19906385--19906415 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
19906375 CAATTATTAG
19906385 TATAA TATAA TATAA TATAA TATAA TA-AA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TA
19906416 ATAAAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:19910230 original size:19 final size:18
Alignment explanation
Indices: 19910206--19910248 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
19910196 CCCTTAATTT
19910206 ATATATATAATTTTGTTAA
1 ATATATATAATTTT-TTAA
* *
19910225 ATATATTTTATTTTTTAA
1 ATATATATAATTTTTTAA
*
19910243 AAATAT
1 ATATAT
19910249 CAGTTAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
ATATATATAATTTTTTAA
Found at i:19910442 original size:106 final size:106
Alignment explanation
Indices: 19910263--19910464 Score: 275
Period size: 106 Copynumber: 1.9 Consensus size: 106
19910253 TAATTTTTTT
* * ** *
19910263 ATATAAATTTTATATGTTAAATATTTATTTTTCATGTACATTATGAGTATGGTAAATTCTAATAT
1 ATATAAATTTTATATGTGAAATATTTATTTTCCACATACATTATGAGTATGATAAATTCTAATAT
19910328 AAAAATC-AATGAATTACTTCAAAAATCATTAATTTTAGTAA
66 AAAAATCAAAT-AATTACTTCAAAAATCATTAATTTTAGTAA
* * *
19910369 ATATAATTTTTATATGTGAAATA-TT-TTTTCCACATACATTGTGAGTATGATAGATTCTAATAT
1 ATATAAATTTTATATGTGAAATATTTATTTTCCACATACATTATGAGTATGATAAATTCTAATA-
*
19910432 TATAAAATCAAATAATTACTTCAAATATCATTA
65 TA-AAAATCAAATAATTACTTCAAAAATCATTA
19910465 TTATTTTTAT
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
104 31 0.37
105 4 0.05
106 46 0.55
107 3 0.04
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (106 bp):
ATATAAATTTTATATGTGAAATATTTATTTTCCACATACATTATGAGTATGATAAATTCTAATAT
AAAAATCAAATAATTACTTCAAAAATCATTAATTTTAGTAA
Found at i:19910895 original size:28 final size:29
Alignment explanation
Indices: 19910851--19910923 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
19910841 ATGAAAAATA
* *
19910851 AATTAAAAAACTTAAAAGCA-A-GTTTATT
1 AATT-AAAAACTTAAAAGAATATGTTTAAT
*
19910879 AATTAAAAACTTGAAAATAATATGTTTAAT
1 AATTAAAAACTT-AAAAGAATATGTTTAAT
19910909 AATTAAAAACATTAA
1 AATTAAAAAC-TTAA
19910924 TTAAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 8 0.21
28 9 0.24
29 1 0.03
30 18 0.47
31 2 0.05
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (29 bp):
AATTAAAAACTTAAAAGAATATGTTTAAT
Found at i:19915977 original size:9 final size:9
Alignment explanation
Indices: 19915963--19916039 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 9
19915953 TTTATACAAA
19915963 TAATTCGAT
1 TAATTCGAT
*
19915972 TAATTCGGT
1 TAATTCGAT
19915981 TAATTC-AGT
1 TAATTCGA-T
*
19915990 TAATTC-AGG
1 TAATTCGA-T
**
19915999 TAATTCGGG
1 TAATTCGAT
*
19916008 TAATTCGGT
1 TAATTCGAT
*
19916017 TAATTCTAT
1 TAATTCGAT
*
19916026 TAATTCGGT
1 TAATTCGAT
19916035 TAATT
1 TAATT
19916040 TTATATTTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (9 bp):
TAATTCGAT
Found at i:19915986 original size:18 final size:18
Alignment explanation
Indices: 19915963--19916039 Score: 95
Period size: 18 Copynumber: 4.3 Consensus size: 18
19915953 TTTATACAAA
19915963 TAATTCGATTAATTCGGT
1 TAATTCGATTAATTCGGT
19915981 TAATTC-AGTTAATTCAGG-
1 TAATTCGA-TTAATTC-GGT
**
19915999 TAATTCGGGTAATTCGGT
1 TAATTCGATTAATTCGGT
*
19916017 TAATTCTATTAATTCGGT
1 TAATTCGATTAATTCGGT
19916035 TAATT
1 TAATT
19916040 TTATATTTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
17 3 0.06
18 45 0.90
19 2 0.04
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (18 bp):
TAATTCGATTAATTCGGT
Found at i:19916002 original size:27 final size:27
Alignment explanation
Indices: 19915963--19916039 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
19915953 TTTATACAAA
* *
19915963 TAATTCGATTAATTCGGTTAATTCAGT
1 TAATTCTAGTAATTCGGTTAATTCAGT
* *
19915990 TAATTC-AGGTAATTCGGGTAATTCGGT
1 TAATTCTA-GTAATTCGGTTAATTCAGT
*
19916017 TAATTCTATTAATTCGGTTAATT
1 TAATTCTAGTAATTCGGTTAATT
19916040 TTATATTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 41 0.95
28 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (27 bp):
TAATTCTAGTAATTCGGTTAATTCAGT
Found at i:19916922 original size:14 final size:14
Alignment explanation
Indices: 19916903--19916932 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19916893 CTATATCGAG
19916903 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
19916917 ACCAATCCAATTCA
1 ACCAATCCAAATCA
19916931 AC
1 AC
19916933 ATATTTCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:19923877 original size:14 final size:15
Alignment explanation
Indices: 19923832--19923874 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
19923822 TTGGGTTGAG
19923832 AAAATT-ATTTAATT
1 AAAATTAATTTAATT
19923846 AAAATTTAA-TTAATT
1 AAAA-TTAATTTAATT
19923861 AAAATTAATTTAAT
1 AAAATTAATTTAAT
19923875 AAATAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.31
15 17 0.65
16 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATTAATTTAATT
Found at i:19930904 original size:34 final size:34
Alignment explanation
Indices: 19930861--19930929 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
19930851 ATTAGGTGTT
19930861 AGATTGCATTTTACCCATTCTACTAAAAAAATAG
1 AGATTGCATTTTACCCATTCTACTAAAAAAATAG
19930895 AGATTGCATTTTACCCATTCTACTAAAAAAATAG
1 AGATTGCATTTTACCCATTCTACTAAAAAAATAG
19930929 A
1 A
19930930 AATATTAGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (34 bp):
AGATTGCATTTTACCCATTCTACTAAAAAAATAG
Found at i:19939200 original size:26 final size:27
Alignment explanation
Indices: 19939143--19939199 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
19939133 TTAATTTGAT
19939143 AAAAGGACCTAATTACAAAAAAATGCA
1 AAAAGGACCTAATTACAAAAAAATGCA
19939170 AAAAGGACCTAATTACAAAAAAATGCA
1 AAAAGGACCTAATTACAAAAAAATGCA
19939197 AAA
1 AAA
19939200 GATGTGTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.61, C:0.14, G:0.11, T:0.14
Consensus pattern (27 bp):
AAAAGGACCTAATTACAAAAAAATGCA
Done.