Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 180 of 216
Found at i:56298877 original size:18 final size:19
Alignment explanation
Indices: 56298831--56298880 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
56298821 CTTCACATCT
* *
56298831 CATTTCATCATTTCATATTT
1 CATTTC-TCATCTCATATTA
*
56298851 CACTTCTCATCTCATA-TA
1 CATTTCTCATCTCATATTA
56298869 CATTTCTCATCT
1 CATTTCTCATCT
56298881 TTGCCATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 12 0.46
19 9 0.35
20 5 0.19
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (19 bp):
CATTTCTCATCTCATATTA
Found at i:56298903 original size:43 final size:43
Alignment explanation
Indices: 56298854--56298938 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
56298844 CATATTTCAC
* *
56298854 TTCTCATCTCATATACATTTCTCATCTTTGCCATTTCAATATT
1 TTCTCATCTCATATACATTTCTCATATTTGCCATTCCAATATT
*
56298897 TTCTCATCTCATATGCATTTCTCATATTTGCCATTCCAATAT
1 TTCTCATCTCATATACATTTCTCATATTTGCCATTCCAATAT
56298939 CAATCACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.24, C:0.26, G:0.04, T:0.47
Consensus pattern (43 bp):
TTCTCATCTCATATACATTTCTCATATTTGCCATTCCAATATT
Found at i:56303821 original size:25 final size:25
Alignment explanation
Indices: 56303787--56303840 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
56303777 TGAGCTACAT
*
56303787 GGCCTGGCACATGGGTGCATGACAC
1 GGCCTGGCACACGGGTGCATGACAC
**
56303812 GGCCTGGCACACGGGTGTGTGACAC
1 GGCCTGGCACACGGGTGCATGACAC
56303837 GGCC
1 GGCC
56303841 GTGTGACCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.17, C:0.30, G:0.39, T:0.15
Consensus pattern (25 bp):
GGCCTGGCACACGGGTGCATGACAC
Found at i:56305179 original size:25 final size:22
Alignment explanation
Indices: 56305140--56305184 Score: 63
Period size: 25 Copynumber: 1.9 Consensus size: 22
56305130 CAAATTTGAA
56305140 GCTAAGCACATACCAAGCATTAG
1 GCTAAGCACATACCAA-CATTAG
56305163 GCTAAGCTACCATACCAACATT
1 GCTAAGC-A-CATACCAACATT
56305185 GCCTAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 5 0.25
25 8 0.40
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.20
Consensus pattern (22 bp):
GCTAAGCACATACCAACATTAG
Found at i:56305190 original size:23 final size:23
Alignment explanation
Indices: 56305141--56305190 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
56305131 AAATTTGAAG
*
56305141 CTAAGCACATACCAAGCATTAGG
1 CTAAGCACATACCAAGCATTAGC
56305164 CTAAGCTACCATACCAA-CATT-GC
1 CTAAGC-A-CATACCAAGCATTAGC
56305187 CTAA
1 CTAA
56305191 ACTATAACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 11 0.46
24 5 0.21
25 8 0.33
ACGTcount: A:0.38, C:0.30, G:0.12, T:0.20
Consensus pattern (23 bp):
CTAAGCACATACCAAGCATTAGC
Found at i:56305722 original size:18 final size:19
Alignment explanation
Indices: 56305676--56305725 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
56305666 CTTCACATCT
* *
56305676 CATTTCATCATTTCATATTT
1 CATTTC-TCATCTCATATTA
*
56305696 CACTTCTCATCTCATA-TA
1 CATTTCTCATCTCATATTA
56305714 CATTTCTCATCT
1 CATTTCTCATCT
56305726 TTGCCATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 12 0.46
19 9 0.35
20 5 0.19
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (19 bp):
CATTTCTCATCTCATATTA
Found at i:56305748 original size:43 final size:43
Alignment explanation
Indices: 56305699--56305783 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
56305689 CATATTTCAC
* *
56305699 TTCTCATCTCATATACATTTCTCATCTTTGCCATTTCAATATT
1 TTCTCATCTCATATACATTTCTCATATTTGCCATTCCAATATT
*
56305742 TTCTCATCTCATATGCATTTCTCATATTTGCCATTCCAATAT
1 TTCTCATCTCATATACATTTCTCATATTTGCCATTCCAATAT
56305784 CAATCACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.24, C:0.26, G:0.04, T:0.47
Consensus pattern (43 bp):
TTCTCATCTCATATACATTTCTCATATTTGCCATTCCAATATT
Found at i:56315103 original size:13 final size:14
Alignment explanation
Indices: 56315085--56315115 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
56315075 ATTAGAGGTA
56315085 GTCAAAGTCATT-T
1 GTCAAAGTCATTAT
56315098 GTCAAAGTCATTAT
1 GTCAAAGTCATTAT
56315112 GTCA
1 GTCA
56315116 GACAATCTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (14 bp):
GTCAAAGTCATTAT
Found at i:56315225 original size:30 final size:31
Alignment explanation
Indices: 56315183--56315257 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 31
56315173 TCTTTAAGTT
*
56315183 TTTTTAAAAAATT-TTAGTTAGGCCCTTT-AAAA
1 TTTTT-AAAAATTATTA-TTAAG-CCTTTGAAAA
56315215 -TTTTAAAAATTATTATTAAGCCTTTGAAAA
1 TTTTTAAAAATTATTATTAAGCCTTTGAAAA
56315245 TTTTTAAAAATTA
1 TTTTTAAAAATTA
56315258 CAATTAAACT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
29 5 0.13
30 15 0.38
31 19 0.49
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (31 bp):
TTTTTAAAAATTATTATTAAGCCTTTGAAAA
Found at i:56315264 original size:31 final size:29
Alignment explanation
Indices: 56315206--56315264 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
56315196 TTAGTTAGGC
**
56315206 CCTTTAAAATTTTAAAAATTATTATTAAG
1 CCTTTAAAATTTTAAAAATTACAATTAAG
56315235 CCTTTGAAAATTTTTAAAAATTACAATTAA
1 CCTTT-AAAA-TTTTAAAAATTACAATTAA
56315265 ACTCTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 4 0.15
31 17 0.65
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.42
Consensus pattern (29 bp):
CCTTTAAAATTTTAAAAATTACAATTAAG
Found at i:56334133 original size:3 final size:3
Alignment explanation
Indices: 56334122--56334158 Score: 56
Period size: 3 Copynumber: 11.7 Consensus size: 3
56334112 CCCAAAACCC
56334122 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CCTT CT
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT -CTT CT
56334159 ACAGCTTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 26 0.81
4 6 0.19
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:56338071 original size:24 final size:24
Alignment explanation
Indices: 56338044--56338095 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
56338034 TTTCTAGAAG
* *
56338044 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
56338068 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
56338092 ATTT
1 ATTT
56338096 GACTTCGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:56340584 original size:25 final size:23
Alignment explanation
Indices: 56340528--56340669 Score: 92
Period size: 23 Copynumber: 6.0 Consensus size: 23
56340518 GTATAAAACG
* * *
56340528 ATACATGGTAACTTTAAATAATA
1 ATACATGATAAGTTAAAATAATA
*
56340551 ATAAATGATAAGTTAAAAAATAATA
1 ATACATGATAAGTT--AAAATAATA
*
56340576 ATACTTGAT-AGATTCAAAATGAA-A
1 ATACATGATAAG-TT-AAAAT-AATA
* *
56340600 ATACGTGATAAACTTAAAATAATA
1 ATACATGAT-AAGTTAAAATAATA
* * *
56340624 ATACATGATAAATTTAAATAATG
1 ATACATGATAAGTTAAAATAATA
* *
56340647 TTACATTG-TAAATTAAAATAATA
1 ATACA-TGATAAGTTAAAATAATA
56340670 TTGATGATAA
Statistics
Matches: 95, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
23 41 0.43
24 32 0.34
25 21 0.22
26 1 0.01
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (23 bp):
ATACATGATAAGTTAAAATAATA
Found at i:56340651 original size:23 final size:23
Alignment explanation
Indices: 56340529--56340696 Score: 108
Period size: 24 Copynumber: 7.1 Consensus size: 23
56340519 TATAAAACGA
* * * *
56340529 TACATGGTAACTTTAAATAATAA
1 TACATGATAAATTAAAATAATAT
* * *
56340552 TAAATGATAAGTTAAAAAATAATAA
1 TACATGATAAATT--AAAATAATAT
* * *
56340577 TACTTGATAGATTCAAAATGAA-AA
1 TACATGATAAATT-AAAAT-AATAT
* *
56340601 TACGTGATAAACTTAAAATAATAA
1 TACATGATAAA-TTAAAATAATAT
* *
56340625 TACATGATAAATTTAAATAATGT
1 TACATGATAAATTAAAATAATAT
56340648 TACATTG-TAAATTAAAATAATAT
1 TACA-TGATAAATTAAAATAATAT
*
56340671 T-GATGATAAATTTAAAAATAATAT
1 TACATGATAAA-TT-AAAATAATAT
56340695 TA
1 TA
56340697 AGCTTAAACA
Statistics
Matches: 117, Mismatches: 18, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.02
22 5 0.04
23 42 0.36
24 46 0.39
25 22 0.19
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (23 bp):
TACATGATAAATTAAAATAATAT
Found at i:56340727 original size:24 final size:24
Alignment explanation
Indices: 56340661--56340728 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
56340651 ATTGTAAATT
* **
56340661 AAAATAATATT-GATGATAAATTTA
1 AAAATAATATTAGAT-TTAAACATA
*
56340685 AAAATAATATTA-AGCTTAAACATA
1 AAAATAATATTAGA-TTTAAACATA
56340709 AAAATAATATTAGATTTAAA
1 AAAATAATATTAGATTTAAA
56340729 TATTTAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
24 35 0.97
25 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (24 bp):
AAAATAATATTAGATTTAAACATA
Found at i:56348245 original size:24 final size:24
Alignment explanation
Indices: 56348182--56348233 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
56348172 TTTCTAGAAG
* * *
56348182 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
56348206 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
56348230 ATTT
1 ATTT
56348234 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:56352779 original size:10 final size:10
Alignment explanation
Indices: 56352764--56352801 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
56352754 TATGTTTAGT
56352764 TTTAATTAAG
1 TTTAATTAAG
56352774 TTTAATTAA-
1 TTTAATTAAG
56352783 TTTAATTAAG
1 TTTAATTAAG
*
56352793 ATTAATTAA
1 TTTAATTAA
56352802 TTACTAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (10 bp):
TTTAATTAAG
Found at i:56352788 original size:19 final size:19
Alignment explanation
Indices: 56352764--56352803 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
56352754 TATGTTTAGT
*
56352764 TTTAATTAAGTTTAATTAA
1 TTTAATTAAGATTAATTAA
56352783 TTTAATTAAGATTAATTAA
1 TTTAATTAAGATTAATTAA
56352802 TT
1 TT
56352804 ACTAACCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
TTTAATTAAGATTAATTAA
Found at i:56354041 original size:119 final size:120
Alignment explanation
Indices: 56353903--56354169 Score: 288
Period size: 120 Copynumber: 2.2 Consensus size: 120
56353893 GCTCGGACGA
* *
56353903 GTAACCTGATGTCAATTTAAAGGTTTAGACT-GAA-CATGTAACCTGACATGTATATA-TTTCAG
1 GTAACCTGATGTTATTTTAAAGGTTTAG-CTCGAATCA-GTAACCTGACATGTATATATTTTCAG
* ** * * * * ** *
56353965 CTCGGATGAGCAATTGATGTGTCGAGGATACTTAGGACATAGGTTTAGTCTGGATTG
64 CTAGGACAAACAATTGATGTGTCGAGAATACTTAGGACATAAGTTTAGCCTAAACTG
* * * * **
56354022 GTAACCTGATGTTGTTTTAAAGATTTAGCTCGAATGAGTAATCTGTTATGTATATATTTTCAGCT
1 GTAACCTGATGTTATTTTAAAGGTTTAGCTCGAATCAGTAACCTGACATGTATATATTTTCAGCT
** * *
56354087 AGGACAAATGATTGATGTTTCGAGAATACTTGGGACATAAGTTTAGCCTAAACTG
66 AGGACAAACAATTGATGTGTCGAGAATACTTAGGACATAAGTTTAGCCTAAACTG
*
56354142 GTAACCTGATGTTATTTTAAAAGTTTAG
1 GTAACCTGATGTTATTTTAAAGGTTTAG
56354170 TCCGGACGAA
Statistics
Matches: 120, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
118 2 0.02
119 43 0.36
120 75 0.62
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (120 bp):
GTAACCTGATGTTATTTTAAAGGTTTAGCTCGAATCAGTAACCTGACATGTATATATTTTCAGCT
AGGACAAACAATTGATGTGTCGAGAATACTTAGGACATAAGTTTAGCCTAAACTG
Found at i:56371831 original size:6 final size:6
Alignment explanation
Indices: 56371815--56371857 Score: 61
Period size: 6 Copynumber: 7.0 Consensus size: 6
56371805 ATACTTTTTT
56371815 TAAAAA T-AAAA TAAAAA TTCAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA -T-AAAAA TAAAAA TAAAAA TAAAAA
56371858 ATTTTAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.15
6 22 0.65
7 2 0.06
8 5 0.15
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:56371857 original size:19 final size:19
Alignment explanation
Indices: 56371816--56371859 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
56371806 TACTTTTTTT
*
56371816 AAAAATAAAATAAAAATTC
1 AAAAATAAAATAAAAATTA
56371835 AAAAATAAAAATAAAAA-TA
1 AAAAAT-AAAATAAAAATTA
56371854 AAAAAT
1 AAAAAT
56371860 TTTAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAATAAAATAAAAATTA
Found at i:56371858 original size:20 final size:19
Alignment explanation
Indices: 56371816--56371858 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
56371806 TACTTTTTTT
**
56371816 AAAAATAAAATAAAAATTC
1 AAAAATAAAATAAAAATAA
56371835 AAAAATAAAAATAAAAATAA
1 AAAAAT-AAAATAAAAATAA
56371855 AAAA
1 AAAA
56371859 TTTTAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAAATAAAATAAAAATAA
Found at i:56371866 original size:27 final size:25
Alignment explanation
Indices: 56371815--56371875 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 25
56371805 ATACTTTTTT
56371815 TAAAAATAAAATAAAAATTCAAAAA
1 TAAAAATAAAATAAAAATTCAAAAA
*
56371840 TAAAAATAAAAATAAAAAATTTTAAAATA
1 TAAAAAT-AAAAT-AAAAA-TTCAAAA-A
56371869 TAAAAAT
1 TAAAAAT
56371876 CCTCAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 7 0.23
26 5 0.16
27 5 0.16
28 6 0.19
29 8 0.26
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (25 bp):
TAAAAATAAAATAAAAATTCAAAAA
Found at i:56373559 original size:31 final size:30
Alignment explanation
Indices: 56373524--56373583 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
56373514 GGAGGTGGGA
* *
56373524 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTGAGGGGAAAAG
* *
56373555 TGGGAGGGAGTAAAAATTTGAGGGGAAAA
1 TGGGAGAGAATAAAAATTTGAGGGGAAAA
56373584 TAAAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.18
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTGAGGGGAAAAG
Found at i:56373811 original size:9 final size:9
Alignment explanation
Indices: 56373797--56373833 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
56373787 TATAGTTTGA
56373797 TATTCGAAT
1 TATTCGAAT
56373806 TATTCGAAT
1 TATTCGAAT
*
56373815 TATTCGAGT
1 TATTCGAAT
56373824 TATTCGAAT
1 TATTCGAAT
56373833 T
1 T
56373834 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:56380126 original size:20 final size:20
Alignment explanation
Indices: 56380080--56380119 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
56380070 TTTCCCTTTT
*
56380080 ATATAAAAATTAATTGATTG
1 ATATAAAAATTAATTGAGTG
*
56380100 ATATAAAAATTAATTTAGTG
1 ATATAAAAATTAATTGAGTG
56380120 TAATAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (20 bp):
ATATAAAAATTAATTGAGTG
Found at i:56390685 original size:56 final size:56
Alignment explanation
Indices: 56390567--56390713 Score: 215
Period size: 56 Copynumber: 2.6 Consensus size: 56
56390557 CACTGTCGCA
56390567 ATTATGGATTGACTTTTAATTTTTTCTCGGTTTAACAAAAGTATTTTAATTGGTTAT
1 ATTATGGATTGACTTTTAATTTTTTCTCGGTTTAACAAAAG-ATTTTAATTGGTTAT
* * * *
56390624 ATTATGGATTGACTTCTAAGTTTTTTCTCGGTTTGAGAGAAG-TTTTAATTGGTTAT
1 ATTATGGATTGACTTTTAA-TTTTTTCTCGGTTTAACAAAAGATTTTAATTGGTTAT
* *
56390680 ATTATGTATTGACTTTTAATTTTTTTTCGGTTTA
1 ATTATGGATTGACTTTTAATTTTTTCTCGGTTTA
56390714 GATAACATGG
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
55 13 0.16
56 31 0.38
57 18 0.22
58 19 0.23
ACGTcount: A:0.24, C:0.07, G:0.16, T:0.52
Consensus pattern (56 bp):
ATTATGGATTGACTTTTAATTTTTTCTCGGTTTAACAAAAGATTTTAATTGGTTAT
Found at i:56391653 original size:25 final size:26
Alignment explanation
Indices: 56391602--56391653 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
56391592 TTATTATTGT
*
56391602 TTTTATTAAAATATATTTAACAATAA
1 TTTTATTAAAATATATATAACAATAA
*
56391628 TTTTATTAAAATTTA-ATAACAATAA
1 TTTTATTAAAATATATATAACAATAA
56391653 T
1 T
56391654 CATCTACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTTATTAAAATATATATAACAATAA
Found at i:56391853 original size:16 final size:16
Alignment explanation
Indices: 56391801--56391855 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
56391791 TGAATTACTG
*
56391801 ATTATAGCTATATTCC
1 ATTATAGCTCTATTCC
* * *
56391817 ATTACAACTCTATTCA
1 ATTATAGCTCTATTCC
*
56391833 ATTATAGCCCTATTCC
1 ATTATAGCTCTATTCC
56391849 ATTATAG
1 ATTATAG
56391856 TGAACCAAAC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTATAGCTCTATTCC
Found at i:56396595 original size:32 final size:32
Alignment explanation
Indices: 56396553--56396634 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 32
56396543 TGTCAATCAT
*
56396553 TTCAATATCCAACAA-TCTTAAAACATAATAAA
1 TTCAAAATCCAACAAGT-TTAAAACATAATAAA
*
56396585 TTCAAAATCCAACAAGTTTAAAACATAATAAT
1 TTCAAAATCCAACAAGTTTAAAACATAATAAA
*
56396617 TTTAAAATCCAACAAGTT
1 TTCAAAATCCAACAAGTT
56396635 AATTTCAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 45 0.98
33 1 0.02
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.29
Consensus pattern (32 bp):
TTCAAAATCCAACAAGTTTAAAACATAATAAA
Found at i:56396607 original size:16 final size:16
Alignment explanation
Indices: 56396588--56396634 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
56396578 TAATAAATTC
56396588 AAAATCCAACAAGTTT
1 AAAATCCAACAAGTTT
* * *
56396604 AAAA-CATAATAATTTT
1 AAAATC-CAACAAGTTT
56396620 AAAATCCAACAAGTT
1 AAAATCCAACAAGTT
56396635 AATTTCAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.53, C:0.15, G:0.04, T:0.28
Consensus pattern (16 bp):
AAAATCCAACAAGTTT
Found at i:56400193 original size:5 final size:5
Alignment explanation
Indices: 56400183--56400213 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
56400173 GCTTGACATA
56400183 TCATC TCATC TCATC TCATC TCATC TCATC T
1 TCATC TCATC TCATC TCATC TCATC TCATC T
56400214 TTGTCATGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.39, G:0.00, T:0.42
Consensus pattern (5 bp):
TCATC
Found at i:56403976 original size:125 final size:126
Alignment explanation
Indices: 56403767--56404047 Score: 369
Period size: 125 Copynumber: 2.3 Consensus size: 126
56403757 TTATTTCGAG
* ** *
56403767 TTGACGTTTT-TG-GTCAGATAGTATAAAATCGCTTCTACCAGGATGCTATCAGAGAAGAAATTG
1 TTGACGTTTTCTGAG-CAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTA
* *
56403830 TGAAATCGTGCCCTCGTGGACGCCATTTCGGC-ACAGTTGGTCATGTCA-GAAATTATT-TTTT
65 TGAAATCGCGCCCTCGTGGACGCCATTTC-GCTACAGTTGGTCATGT-AGGAAATAATTATTTT
* *
56403891 TTGACGTTTTCTGAGCAAATAGTATAGAATCGCTGATACCAGGATTCTAT-ATGAGAAGAAATTA
1 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCA-GAGAAGAAATTA
* *
56403955 TGAAATTGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
65 TGAAATCGCGCCCTCGTGGACGCCATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
* *
56404017 TTGACG-TTTCTGAGCAAATAGTGTCAAATCG
1 TTGACGTTTTCTGAGCAAATAGTATAAAATCG
56404048 TGCCCTCGTG
Statistics
Matches: 138, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
124 14 0.10
125 113 0.82
126 11 0.08
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.33
Consensus pattern (126 bp):
TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTAT
GAAATCGCGCCCTCGTGGACGCCATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
Found at i:56406453 original size:14 final size:15
Alignment explanation
Indices: 56406436--56406468 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
56406426 AATATTTATC
56406436 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
56406450 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
56406465 TAAA
1 TAAA
56406469 TTTTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:56406591 original size:11 final size:10
Alignment explanation
Indices: 56406560--56406611 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
56406550 GCCGTTGTTG
56406560 AAAATA-TTA
1 AAAATATTTA
56406569 AAAAT-TTTA
1 AAAATATTTA
*
56406578 AAATTATTTAA
1 AAAATATTT-A
**
56406589 AAAATAAATA
1 AAAATATTTA
56406599 AAAATATTTA
1 AAAATATTTA
56406609 AAA
1 AAA
56406612 TTTTCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
9 12 0.35
10 15 0.44
11 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATATTTA
Found at i:56406612 original size:31 final size:32
Alignment explanation
Indices: 56406567--56406631 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 32
56406557 TTGAAAATAT
56406567 TAAAAATTTTAAAA-TTATTTAAAAAAT-AAA
1 TAAAAATTTTAAAATTTATTTAAAAAATGAAA
*
56406597 TAAAAATATTTAAAATTTTCTTTAAAAAATGAAA
1 TAAAAAT-TTTAAAA-TTTATTTAAAAAATGAAA
56406631 T
1 T
56406632 TGAATGGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 7 0.23
31 7 0.23
33 12 0.40
34 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (32 bp):
TAAAAATTTTAAAATTTATTTAAAAAATGAAA
Found at i:56406719 original size:52 final size:52
Alignment explanation
Indices: 56406663--56406762 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
56406653 TATGGAGTTG
* * * * **
56406663 AGAGATTTTTTGAAGGAATTTGTGAGGGTTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGAGAGTTTA
*
56406715 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTTGAAGGAATTTGAGAG
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGAGAG
56406763 ATTTTTTGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGAGAGTTTA
Found at i:56406740 original size:22 final size:22
Alignment explanation
Indices: 56406715--56406783 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
56406705 TGAGAGTTTA
*
56406715 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
*
56406737 AGAGAATTTTTGAAGGAATTTG
1 AGAGAATTTTTGAAGGAAATTG
* *
56406759 AGAGATTTTTTGAATGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
56406781 AGA
1 AGA
56406784 TGGGATTTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (22 bp):
AGAGAATTTTTGAAGGAAATTG
Found at i:56416366 original size:2 final size:2
Alignment explanation
Indices: 56416359--56416395 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
56416349 AGACTTCGGA
56416359 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
56416396 CAGAAGTGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:56429425 original size:21 final size:21
Alignment explanation
Indices: 56429399--56429439 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56429389 CCTCCATTAT
56429399 TTATTT-ATTTATATCTTGTAA
1 TTATTTAATTT-TATCTTGTAA
*
56429420 TTATTTAATTTTATTTTGTA
1 TTATTTAATTTTATCTTGTA
56429440 TTTGGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (21 bp):
TTATTTAATTTTATCTTGTAA
Found at i:56435651 original size:21 final size:21
Alignment explanation
Indices: 56435626--56435669 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
56435616 CCAAACCTCC
* *
56435626 AAAAATGCTTTTATTCAAAAAA
1 AAAAAT-CTTTAAATCAAAAAA
56435648 AAAAATCTTTAAATCAAAAAA
1 AAAAATCTTTAAATCAAAAAA
56435669 A
1 A
56435670 CTTTGATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAATCTTTAAATCAAAAAA
Found at i:56436278 original size:15 final size:17
Alignment explanation
Indices: 56436258--56436289 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
56436248 TTAAAATATT
56436258 CATATAT-TA-TAAAAA
1 CATATATCTATTAAAAA
56436273 CATATATCTATTAAAAA
1 CATATATCTATTAAAAA
56436290 AATGCATGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.34
Consensus pattern (17 bp):
CATATATCTATTAAAAA
Found at i:56438878 original size:24 final size:24
Alignment explanation
Indices: 56438846--56438896 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
56438836 TATTTTTTAA
56438846 AAAATAATTAAAT-ATGAAAAAGAAT
1 AAAATAATTAAATAAT-AAAAA-AAT
*
56438871 AAAA-AATTAATTAATAAAAAAAT
1 AAAATAATTAAATAATAAAAAAAT
56438894 AAA
1 AAA
56438897 GAAAATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.25
24 12 0.50
25 6 0.25
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (24 bp):
AAAATAATTAAATAATAAAAAAAT
Found at i:56440461 original size:44 final size:44
Alignment explanation
Indices: 56440413--56440526 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
56440403 CTAATCCACT
* * * *
56440413 CCACTACAACTTTAGGGAGATAGGA-TTTGTTCATTTAGTCTGCC
1 CCACTACAACTTTAGGGAGATAAGACTTTCTT-ACTCAGTCTGCC
* *
56440457 CCACTACAA-TTTCAGGGGGATAAGACTTTCTTACTCAGTCTGCT
1 CCACTACAACTTT-AGGGAGATAAGACTTTCTTACTCAGTCTGCC
*
56440501 CCACTGCAACTTTAGGGAGATAAGAC
1 CCACTACAACTTTAGGGAGATAAGAC
56440527 CAGATGCGAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
43 3 0.05
44 48 0.81
45 8 0.14
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CCACTACAACTTTAGGGAGATAAGACTTTCTTACTCAGTCTGCC
Found at i:56440646 original size:44 final size:45
Alignment explanation
Indices: 56440544--56440652 Score: 134
Period size: 45 Copynumber: 2.4 Consensus size: 45
56440534 GATATGCTCT
** * *
56440544 CTGCAACTTCAGAGG-GATAAGATCTATGGTTTTAATCCGCTCTTA
1 CTGCAACTTCAG-GGAGATAAGATCTATGACTTTAATCCACTCTCA
*
56440589 CTGCAACTTCAGGGAGATAAGAT-TATTGACTTTAATCTACTC-CA
1 CTGCAACTTCAGGGAGATAAGATCTA-TGACTTTAATCCACTCTCA
56440633 CTGCAACTTCAGGGAGATAA
1 CTGCAACTTCAGGGAGATAA
56440653 AATTCTCAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
44 25 0.44
45 32 0.56
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (45 bp):
CTGCAACTTCAGGGAGATAAGATCTATGACTTTAATCCACTCTCA
Found at i:56440913 original size:44 final size:44
Alignment explanation
Indices: 56440795--56440915 Score: 156
Period size: 44 Copynumber: 2.8 Consensus size: 44
56440785 ATCTGTAATT
* * * *
56440795 TTCAACCCACTCCACTACTG-CTCAGGGAGACAGGATTCACAATC
1 TTCAACCTATTCCACTACTGCCT-AGGGAGATAGAATTCACAATC
*
56440839 TTTAACCTATTCCACTACTGACC-AGGGAGATAGAATTCACAATC
1 TTCAACCTATTCCACTACTG-CCTAGGGAGATAGAATTCACAATC
*
56440883 TTCAGCCTATTCCACTACTGCCTAGGGAGATAG
1 TTCAACCTATTCCACTACTGCCTAGGGAGATAG
56440916 GGCTGGGTCA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
43 2 0.03
44 64 0.96
46 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (44 bp):
TTCAACCTATTCCACTACTGCCTAGGGAGATAGAATTCACAATC
Found at i:56441080 original size:88 final size:88
Alignment explanation
Indices: 56440916--56441404 Score: 791
Period size: 88 Copynumber: 5.6 Consensus size: 88
56440906 AGGGAGATAG
* * * * *
56440916 GGCTGG-GTCATCGATCTGCTTCACTGTCGGTGTAGGAAGGCAAAATCTACTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
56440980 TCCGCTGTAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * *
56441003 GGTTGGTGTCTTTGATCTGCTTTGCTGTCAGTGCAGAAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
56441068 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
56441091 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
56441156 TCTGCTGCAACCCAGGTAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
56441179 GGCTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGTTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
56441244 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
56441267 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
56441332 TCTGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
56441355 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
56441405 TTATCTTCAC
Statistics
Matches: 370, Mismatches: 31, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
87 5 0.01
88 365 0.99
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:56441397 original size:44 final size:44
Alignment explanation
Indices: 56441080--56441399 Score: 175
Period size: 44 Copynumber: 7.3 Consensus size: 44
56441070 CGCTGCAACC
*
56441080 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
* * * ** * ****
56441124 CAGGAAGGCAAGATCTGCTAT-TTTTAACTTGC-TCTGCTG-CAACC
1 CAGGAAGGCAAG-GCTGGTGTCTTCGATC-TGCTTC-GCTGTCGGTG
* *
56441168 CAGGTAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
* * * * ** * * ****
56441212 CAGGAAGGCAAGATCTGTTATTTTTAACCTGCTCCGCTG-CAACC
1 CAGGAAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
*
56441256 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
* ** * * ** * * ****
56441300 CAGGAAGGCAAGATCTACTATTTTTAACCTAC-TCTGCTG-CAACC
1 CAGGAAGGCAAG-GCTGGTGTCTTCGATCTGCTTC-GCTGTCGGTG
* *
56441344 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
56441388 CAGGAAGGCAAG
1 CAGGAAGGCAAG
56441400 ATCTGTTATC
Statistics
Matches: 184, Mismatches: 80, Indels: 24
0.64 0.28 0.08
Matches are distributed among these distances:
43 43 0.23
44 97 0.53
45 44 0.24
ACGTcount: A:0.19, C:0.24, G:0.30, T:0.27
Consensus pattern (44 bp):
CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
Found at i:56450526 original size:15 final size:15
Alignment explanation
Indices: 56450506--56450536 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56450496 ATATATTCGA
56450506 TTTCAAATGATAACT
1 TTTCAAATGATAACT
*
56450521 TTTCAAATGATCACT
1 TTTCAAATGATAACT
56450536 T
1 T
56450537 GAACATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (15 bp):
TTTCAAATGATAACT
Found at i:56463916 original size:14 final size:14
Alignment explanation
Indices: 56463893--56463923 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
56463883 ATTCACAAAT
*
56463893 TAAAATAATAATGA
1 TAAAACAATAATGA
56463907 TAAAACAATAATGA
1 TAAAACAATAATGA
56463921 TAA
1 TAA
56463924 TAAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (14 bp):
TAAAACAATAATGA
Found at i:56468639 original size:31 final size:31
Alignment explanation
Indices: 56468572--56468639 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
56468562 TTAACAACCT
*
56468572 AGTGACTTAAATAAAAACTTTTGAATAGGTC
1 AGTGACTTAAATAAAAACTTTTGAATAAGTC
* * * *
56468603 GGTGACTTAAATGAAAATTTTTGAATAATTC
1 AGTGACTTAAATAAAAACTTTTGAATAAGTC
56468634 AGTGAC
1 AGTGAC
56468640 AAACAAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.34
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTGAATAAGTC
Found at i:56470723 original size:8 final size:8
Alignment explanation
Indices: 56470712--56470782 Score: 65
Period size: 8 Copynumber: 8.8 Consensus size: 8
56470702 ATTAATTTTT
56470712 TAAAATTA
1 TAAAATTA
56470720 TAAAATTA
1 TAAAATTA
**
56470728 TAAAAAAA
1 TAAAATTA
56470736 TAAATATTA
1 TAAA-ATTA
56470745 -AAAATT-
1 TAAAATTA
**
56470751 TTGAATTA
1 TAAAATTA
56470759 TTAATAATTA
1 -TAA-AATTA
56470769 TAAAATTA
1 TAAAATTA
56470777 TAAAAT
1 TAAAAT
56470783 ATTTTTTAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
7 7 0.14
8 32 0.64
9 6 0.12
10 5 0.10
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (8 bp):
TAAAATTA
Found at i:56473647 original size:19 final size:19
Alignment explanation
Indices: 56473614--56473661 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
56473604 ATGACAATGT
*
56473614 TGAGAAATG-AATATGATA
1 TGAGAAATGAAATATGAGA
*
56473632 TGAGAAATGAAATATGGGA
1 TGAGAAATGAAATATGAGA
56473651 TGATGAAATGA
1 TGA-GAAATGA
56473662 GATGTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 10 0.38
20 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (19 bp):
TGAGAAATGAAATATGAGA
Found at i:56474617 original size:42 final size:42
Alignment explanation
Indices: 56474571--56474657 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 42
56474561 GGCCTGGGAT
*
56474571 ACGGTCATGTGACCCAAGTTAGTGAGTTACACGGGCAGAGAC
1 ACGGTCATGTGACCCAAGTTAGTAAGTTACACGGGCAGAGAC
* * * * *
56474613 ACGGTCGTGTGTCTCAAGTTAGTAAGTTACACGGGCTGGGAC
1 ACGGTCATGTGACCCAAGTTAGTAAGTTACACGGGCAGAGAC
56474655 ACG
1 ACG
56474658 ATCGTATGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (42 bp):
ACGGTCATGTGACCCAAGTTAGTAAGTTACACGGGCAGAGAC
Found at i:56475054 original size:49 final size:49
Alignment explanation
Indices: 56474993--56475086 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
56474983 CCAAGAGGGA
56474993 ATAAATAATGATAAGAGTGTAGACAGTGGAAAACCAAGTTTAGCAATGT
1 ATAAATAATGATAAGAGTGTAGACAGTGGAAAACCAAGTTTAGCAATGT
* * * *
56475042 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGATCAATTTTAGCA
1 ATAAATAATGATAAGAGTGTAGACAGTGGAAAACCAAGTTTAGCA
56475087 TTGCATAGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (49 bp):
ATAAATAATGATAAGAGTGTAGACAGTGGAAAACCAAGTTTAGCAATGT
Found at i:56476008 original size:6 final size:6
Alignment explanation
Indices: 56475997--56476029 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
56475987 AAGACAATTA
56475997 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTA
56476030 TTAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:56477167 original size:67 final size:67
Alignment explanation
Indices: 56477059--56477188 Score: 197
Period size: 67 Copynumber: 1.9 Consensus size: 67
56477049 AACATACCAG
* * **
56477059 CTATGGGTTCAATCATCTTTAGAGCATAAGTCTCTGCTTATATCAAAGCAAATGAGTTACATATT
1 CTATGGGCTCAATCATCTTTAGAGCATAAGCCTCTAATTATATCAAAGCAAATGAGTTACATATT
56477124 AA
66 AA
* * *
56477126 CTATGGGCTCGATCATCTTTAGAGCATGAGCCTCTAATTATATCAAAGTAAATGAGTTACATA
1 CTATGGGCTCAATCATCTTTAGAGCATAAGCCTCTAATTATATCAAAGCAAATGAGTTACATA
56477189 CGCATGGTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (67 bp):
CTATGGGCTCAATCATCTTTAGAGCATAAGCCTCTAATTATATCAAAGCAAATGAGTTACATATT
AA
Found at i:56479655 original size:5 final size:5
Alignment explanation
Indices: 56479645--56479677 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
56479635 GAATGATTGT
56479645 ATGTG ATGTG ATGTG ATGTG ATGTG ATGTG ATG
1 ATGTG ATGTG ATGTG ATGTG ATGTG ATGTG ATG
56479678 CTTGTGTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.39
Consensus pattern (5 bp):
ATGTG
Found at i:56481274 original size:24 final size:25
Alignment explanation
Indices: 56481227--56481291 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 25
56481217 TGAGTATATA
56481227 AACATAAAAAATTAATAATCTAAAT
1 AACATAAAAAATTAATAATCTAAAT
* * *
56481252 AACAT-AATAATTAATTAT-TTAA-
1 AACATAAAAAATTAATAATCTAAAT
*
56481274 AA-TTAAAAAATTAATAAT
1 AACATAAAAAATTAATAAT
56481292 ATTTTTTAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.03
22 13 0.39
23 3 0.09
24 11 0.33
25 5 0.15
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.34
Consensus pattern (25 bp):
AACATAAAAAATTAATAATCTAAAT
Found at i:56481333 original size:35 final size:35
Alignment explanation
Indices: 56481274--56481348 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 35
56481264 AATTATTTAA
56481274 AATTAAAAAATTAATAATATTTTTTAACCATTTGT
1 AATTAAAAAATTAATAATATTTTTTAACCATTTGT
* *
56481309 AATTAAATAATTTAATAATATTTTTTTACCATTTGT
1 AATTAAA-AAATTAATAATATTTTTTAACCATTTGT
56481345 AATT
1 AATT
56481349 TAACATCGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
35 7 0.19
36 30 0.81
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (35 bp):
AATTAAAAAATTAATAATATTTTTTAACCATTTGT
Found at i:56511099 original size:21 final size:21
Alignment explanation
Indices: 56511075--56511117 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
56511065 ATATATTCTG
*
56511075 AAATTATAAAAAGACATTAAA
1 AAATTATAAAAAAACATTAAA
*
56511096 AAATTATAAAAAAATATTAAA
1 AAATTATAAAAAAACATTAAA
56511117 A
1 A
56511118 GTTTTCTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AAATTATAAAAAAACATTAAA
Found at i:56521587 original size:9 final size:9
Alignment explanation
Indices: 56521570--56521600 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
56521560 TCGAGTTGAT
56521570 TCGAATAAC
1 TCGAATAAC
*
56521579 TCGATTAAC
1 TCGAATAAC
56521588 TCGAATAAC
1 TCGAATAAC
56521597 TCGA
1 TCGA
56521601 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:56523283 original size:36 final size:35
Alignment explanation
Indices: 56523235--56523314 Score: 126
Period size: 36 Copynumber: 2.3 Consensus size: 35
56523225 ACAACAGACC
*
56523235 ATCAA-TTACACCATCATAAAAACTTTAATTTGAAT
1 ATCAAGTT-CACCATCATAAAAACCTTAATTTGAAT
56523270 ATCAAAGTTCACCATCATAAAAACCTTAATTTGAAT
1 ATC-AAGTTCACCATCATAAAAACCTTAATTTGAAT
56523306 ATCAAGTTC
1 ATCAAGTTC
56523315 CGTCGGTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 9 0.21
36 31 0.74
37 2 0.05
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.33
Consensus pattern (35 bp):
ATCAAGTTCACCATCATAAAAACCTTAATTTGAAT
Found at i:56539779 original size:50 final size:50
Alignment explanation
Indices: 56539665--56539913 Score: 282
Period size: 50 Copynumber: 4.8 Consensus size: 50
56539655 GATAATAACA
* * * ** *
56539665 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
56539716 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
56539766 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
56539816 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* * *
56539871 ATACCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
56539914 TTACCCGAAT
Statistics
Matches: 168, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
50 93 0.55
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.23
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:56539844 original size:100 final size:104
Alignment explanation
Indices: 56539664--56539913 Score: 337
Period size: 100 Copynumber: 2.4 Consensus size: 104
56539654 TGATAATAAC
* ** *
56539664 ATGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
56539729 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* * *
56539766 -TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
56539830 CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* * *
56539871 ATACCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
56539914 TTACCCGAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
100 51 0.40
101 34 0.26
103 3 0.02
104 1 0.01
105 2 0.02
106 38 0.29
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:56540029 original size:13 final size:13
Alignment explanation
Indices: 56540008--56540039 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56539998 GCTTGGATCA
*
56540008 TCATCAAATAAAT
1 TCATAAAATAAAT
56540021 TCATAAAATAAAT
1 TCATAAAATAAAT
56540034 TCATAA
1 TCATAA
56540040 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:56540286 original size:30 final size:30
Alignment explanation
Indices: 56540251--56540308 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
56540241 CCTCGACTCT
*
56540251 AACTTTTTCAAAATTACGATTTTT-CCCCTA
1 AACTTTTACAAAATTAC-ATTTTTGCCCCTA
*
56540281 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACATTTTTGCCCC
56540309 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.29, C:0.24, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTTTTGCCCCTA
Found at i:56545998 original size:28 final size:28
Alignment explanation
Indices: 56545958--56546121 Score: 285
Period size: 28 Copynumber: 5.9 Consensus size: 28
56545948 TATTGAGTTG
56545958 TTGATTATATAGCACTAAGTGTGCGAGT
1 TTGATTATATAGCACTAAGTGTGCGAGT
*
56545986 TTGATTATGTAGCACTAAGTGTGCGAGT
1 TTGATTATATAGCACTAAGTGTGCGAGT
*
56546014 TTGATTATGTAGCACTAAGTGTGCGAGT
1 TTGATTATATAGCACTAAGTGTGCGAGT
*
56546042 TTGATTATGTAGCACTAAGTGTGCGAGT
1 TTGATTATATAGCACTAAGTGTGCGAGT
56546070 TTGATTATATAGCACTAAGTGTGCGAG-
1 TTGATTATATAGCACTAAGTGTGCGAGT
*
56546097 TTGATTATATAGCACTGAGTGTGCG
1 TTGATTATATAGCACTAAGTGTGCG
56546122 GACTTAATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 24 0.18
28 109 0.82
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.35
Consensus pattern (28 bp):
TTGATTATATAGCACTAAGTGTGCGAGT
Found at i:56550662 original size:50 final size:50
Alignment explanation
Indices: 56550548--56550796 Score: 300
Period size: 50 Copynumber: 4.8 Consensus size: 50
56550538 GATAATAACA
* * * ** *
56550548 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
56550599 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
56550649 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
56550699 TGCCCATGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
56550754 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
56550797 TTACCCGAAT
Statistics
Matches: 171, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
50 96 0.56
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:56550728 original size:100 final size:104
Alignment explanation
Indices: 56550547--56550796 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 104
56550537 TGATAATAAC
* * ** *
56550547 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTCTCATGTCGGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* * *
56550612 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAAACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
*
56550649 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
56550713 CCCAAACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 CCCAAACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
*
56550754 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
56550797 TTACCCGAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 41 0.31
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (104 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAAACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:56550912 original size:13 final size:13
Alignment explanation
Indices: 56550891--56550922 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56550881 GCTTGGATCA
*
56550891 TCATCAAATAAAT
1 TCATAAAATAAAT
56550904 TCATAAAATAAAT
1 TCATAAAATAAAT
56550917 TCATAA
1 TCATAA
56550923 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:56551169 original size:30 final size:30
Alignment explanation
Indices: 56551134--56551191 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
56551124 CCTCGACTCT
*
56551134 AACTTTTTCAAAATTACGATTTTT-CCCCTA
1 AACTTTTACAAAATTAC-ATTTTTGCCCCTA
*
56551164 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACATTTTTGCCCC
56551192 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.29, C:0.24, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTTTTGCCCCTA
Found at i:56563546 original size:13 final size:13
Alignment explanation
Indices: 56563528--56563552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56563518 TAAATTATAT
56563528 GTGTGAAAATTTC
1 GTGTGAAAATTTC
56563541 GTGTGAAAATTT
1 GTGTGAAAATTT
56563553 TTATCGTTTA
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:56568580 original size:40 final size:40
Alignment explanation
Indices: 56568505--56568644 Score: 108
Period size: 40 Copynumber: 3.5 Consensus size: 40
56568495 AACACACCAG
* * *
56568505 TTTGGCACCCAGTGCCTCATCGGAC-AATTCAAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGG-CTAATCCGAAGTAATAA
* *
56568545 TTTGACACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGCTAATCCGAAGTAATAA
* * * ** *
56568583 -TTGGCACCTAGTGCCTCATTGAATTAATCCGAAGTAGTAA
1 TTTGACACCCAGTGCCTCATCG-GCTAATCCGAAGTAATAA
* * *
56568623 ATTGACACCCAATGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
56568645 ACTCGAAGCT
Statistics
Matches: 77, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
37 17 0.22
38 12 0.16
39 2 0.03
40 30 0.39
41 16 0.21
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGCTAATCCGAAGTAATAA
Found at i:56568848 original size:24 final size:24
Alignment explanation
Indices: 56568803--56568859 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
56568793 TATATATACC
56568803 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
56568827 AATTC-ATCACATACTAAA-TCAATCA
1 AATTCAATCA-ATA-TAAATTCAAT-A
*
56568852 ATTTCAAT
1 AATTCAAT
56568860 TGAAAAACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 4 0.14
24 13 0.46
25 9 0.32
26 2 0.07
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:56569555 original size:15 final size:15
Alignment explanation
Indices: 56569526--56569583 Score: 71
Period size: 16 Copynumber: 3.7 Consensus size: 15
56569516 TTCTCCTTCA
56569526 TTTCTTTCATTTTTCT
1 TTTCTTTC-TTTTTCT
56569542 TTTCTTTCTTTTTCTT
1 TTTCTTTCTTTTTC-T
* *
56569558 TTTCTTTCTGTTTCG
1 TTTCTTTCTTTTTCT
*
56569573 TTTCTATCTTT
1 TTTCTTTCTTT
56569584 CTATCTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 15 0.41
16 22 0.59
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTCTTTCTTTTTCT
Found at i:56587837 original size:8 final size:8
Alignment explanation
Indices: 56587824--56587849 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
56587814 TCGGAGCAAT
56587824 AACATGGA
1 AACATGGA
56587832 AACATGGA
1 AACATGGA
56587840 AACATGGA
1 AACATGGA
56587848 AA
1 AA
56587850 ACGTCGTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.12, G:0.23, T:0.12
Consensus pattern (8 bp):
AACATGGA
Found at i:56596012 original size:234 final size:233
Alignment explanation
Indices: 56595595--56596054 Score: 812
Period size: 234 Copynumber: 2.0 Consensus size: 233
56595585 CCTGACTCCT
*
56595595 GAGTACTCTCTTCCCTCTAACCCTCTTCCTTGTTTTTTTTGCTACTAATTTCTTGGATGAAGTAG
1 GAGTACTCTCTTCCCTCTAACCCTCTTCCTTGTTTTTTTTGCTACTAATTTCTTGGATAAAGTAG
* *
56595660 TAGTGACCTCTTTGCCACGAGTTCTCTTTAGAATAGATGAGATGTCTATGTCATGAAGATTTGAG
66 TAGTGAACTCTTTGCCACGAGTTCTCTTTAGAATAGATGAGATGTCCATGTCATGAAGATTTGAG
* *
56595725 TGAGAAGGAAGTCATGTATCACCAATAAGAGAGTTAGCTCAACTGGGAGTAGAAGAGGAAGCTAT
131 TGAGAAGGAAGTCATGTATCACCAATAAAAGAGTTAGCTCAACTGGAAGTAGAAGAGGAAGCTAT
56595790 ATCAAGATTAGTGACGAGATTCTAATTTCAAGACCCCC
196 ATCAAGATTAGTGACGAGATTCTAATTTCAAGACCCCC
* *
56595828 GAGTGCTCTCTTCCCTCTAACCCTCTTCCTTGTTTTTTTTTGCTACTAATTTTTTGGATAAAGTA
1 GAGTACTCTCTTCCCTCTAACCCTCTTCCTTG-TTTTTTTTGCTACTAATTTCTTGGATAAAGTA
* *
56595893 GTAGTGAACTCTTTGCCACGAGTTTTCTTTAGAATAGATGAGATGTCCATGTCATGAAGGTTTGA
65 GTAGTGAACTCTTTGCCACGAGTTCTCTTTAGAATAGATGAGATGTCCATGTCATGAAGATTTGA
*
56595958 GTGAGAAGGAAGTCATGTATCACCAATAAAAGAGTTAGCTCGACTGGAAGTAGAAGAGGAAGCTA
130 GTGAGAAGGAAGTCATGTATCACCAATAAAAGAGTTAGCTCAACTGGAAGTAGAAGAGGAAGCTA
*
56596023 TATCAAGATTAGTGATGAGATTCTAATTTCAA
195 TATCAAGATTAGTGACGAGATTCTAATTTCAA
56596055 AGAGGAAAGC
Statistics
Matches: 215, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
233 31 0.14
234 184 0.86
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (233 bp):
GAGTACTCTCTTCCCTCTAACCCTCTTCCTTGTTTTTTTTGCTACTAATTTCTTGGATAAAGTAG
TAGTGAACTCTTTGCCACGAGTTCTCTTTAGAATAGATGAGATGTCCATGTCATGAAGATTTGAG
TGAGAAGGAAGTCATGTATCACCAATAAAAGAGTTAGCTCAACTGGAAGTAGAAGAGGAAGCTAT
ATCAAGATTAGTGACGAGATTCTAATTTCAAGACCCCC
Found at i:56597619 original size:15 final size:16
Alignment explanation
Indices: 56597599--56597628 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56597589 ATTAAATTAA
56597599 TTAACC-AAATGCAAG
1 TTAACCTAAATGCAAG
56597614 TTAACCTAAATGCAA
1 TTAACCTAAATGCAA
56597629 ATGAAATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.23
Consensus pattern (16 bp):
TTAACCTAAATGCAAG
Found at i:56601969 original size:28 final size:28
Alignment explanation
Indices: 56601925--56602024 Score: 130
Period size: 28 Copynumber: 3.6 Consensus size: 28
56601915 GAACATGGTA
* *
56601925 GAAAATGGAAGCGTTTGTGGCAATCTAT
1 GAAAATGGAAGCCTTTGTGGTAATCTAT
*
56601953 GAAAATAGAAGCCTTTGTGGTAATCTAT
1 GAAAATGGAAGCCTTTGTGGTAATCTAT
* *
56601981 GAAAATGGAAGCCTTTCTGGTAATCTAA
1 GAAAATGGAAGCCTTTGTGGTAATCTAT
*
56602009 GGAAA-GGAAGGCCTTT
1 GAAAATGGAA-GCCTTT
56602025 ATGATAAATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
27 4 0.06
28 60 0.94
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (28 bp):
GAAAATGGAAGCCTTTGTGGTAATCTAT
Found at i:56602184 original size:27 final size:27
Alignment explanation
Indices: 56602144--56602207 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
56602134 ATCTTCGATG
* **
56602144 AACTCTGAATGGATAGCATGTATGGCA
1 AACTCTGAAAGGATAAAATGTATGGCA
*
56602171 AACTCTGAAAGGATAAAATGTGTGGCA
1 AACTCTGAAAGGATAAAATGTATGGCA
*
56602198 AACTTTGAAA
1 AACTCTGAAA
56602208 TAATGGTAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.25
Consensus pattern (27 bp):
AACTCTGAAAGGATAAAATGTATGGCA
Found at i:56604679 original size:38 final size:38
Alignment explanation
Indices: 56604637--56604719 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
56604627 TAAAGGGGTT
* *
56604637 TATGCAATTAATTAAACTAAATGATTCTATCCTATATG
1 TATGCAATTAATTAAAATAAATGATACTATCCTATATG
56604675 TATGCAATTAATTAAAATAAATGATACTATCCTATATG
1 TATGCAATTAATTAAAATAAATGATACTATCCTATATG
56604713 TATGCAA
1 TATGCAA
56604720 AATTTCAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.37
Consensus pattern (38 bp):
TATGCAATTAATTAAAATAAATGATACTATCCTATATG
Found at i:56622106 original size:16 final size:17
Alignment explanation
Indices: 56622079--56622110 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
56622069 GCTAGCCCAA
56622079 AATTATAACCCAAACCC
1 AATTATAACCCAAACCC
56622096 AATTA-AACCCAAACC
1 AATTATAACCCAAACC
56622111 TAATCTGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (17 bp):
AATTATAACCCAAACCC
Found at i:56623289 original size:23 final size:24
Alignment explanation
Indices: 56623235--56623292 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
56623225 ATTATTTTAT
* *
56623235 TATGTAGTATTATTTTAAGTTTCC
1 TATGTATTATTATTTTAAGTTTCA
*
56623259 TATATATTATTA-TTTAA-TTTCA
1 TATGTATTATTATTTTAAGTTTCA
56623281 TAATGTATTATT
1 T-ATGTATTATT
56623293 TTATATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 5 0.17
23 14 0.48
24 10 0.34
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.57
Consensus pattern (24 bp):
TATGTATTATTATTTTAAGTTTCA
Found at i:56627625 original size:6 final size:6
Alignment explanation
Indices: 56627626--56627659 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
56627616 AAAAACAAAA
56627626 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
56627660 AAAGAAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:56627627 original size:9 final size:10
Alignment explanation
Indices: 56627610--56627662 Score: 61
Period size: 12 Copynumber: 4.9 Consensus size: 10
56627600 GGGTTCAGAT
56627610 TCAAAAAAAA
1 TCAAAAAAAA
*
56627620 ACAAAAAAAA
1 TCAAAAAAAA
56627630 TCAAAATCAAAA
1 TCAAAA--AAAA
56627642 TCAAAATCAAAA
1 TCAAAA--AAAA
56627654 TCAAAAAAA
1 TCAAAAAAA
56627663 GAAAAGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
10 17 0.44
12 22 0.56
ACGTcount: A:0.75, C:0.13, G:0.00, T:0.11
Consensus pattern (10 bp):
TCAAAAAAAA
Found at i:56627695 original size:28 final size:29
Alignment explanation
Indices: 56627644--56627717 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
56627634 AATCAAAATC
*
56627644 AAAATCAAAATCAAAAAAAGAAAAGA-AA
1 AAAATCAAAGTCAAAAAAAGAAAAGAGAA
*
56627672 AAAATCAAAGTCAAAAGCAA-AAAAGAGAA
1 AAAATCAAAGTCAAAA-AAAGAAAAGAGAA
*
56627701 ATCAATCAAAGTCAAAA
1 A-AAATCAAAGTCAAAA
56627718 TAAAATATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 21 0.52
29 5 0.12
30 14 0.35
ACGTcount: A:0.70, C:0.11, G:0.09, T:0.09
Consensus pattern (29 bp):
AAAATCAAAGTCAAAAAAAGAAAAGAGAA
Found at i:56627722 original size:28 final size:27
Alignment explanation
Indices: 56627644--56627722 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 27
56627634 AATCAAAATC
*
56627644 AAAATCAAAATCAAAAAAAGAAAAGAAA
1 AAAATCAAAGTCAAAAAAA-AAAAGAAA
56627672 AAAATCAAAGTCAAAAGCAAAAAAGAGAAA
1 AAAATCAAAGTCAAAA--AAAAAA-AGAAA
** *
56627702 TCAATCAAAGTCAAAATAAAA
1 AAAATCAAAGTCAAAAAAAAA
56627723 TATGAAAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
28 19 0.43
29 3 0.07
30 22 0.50
ACGTcount: A:0.71, C:0.10, G:0.09, T:0.10
Consensus pattern (27 bp):
AAAATCAAAGTCAAAAAAAAAAAGAAA
Found at i:56628602 original size:7 final size:7
Alignment explanation
Indices: 56628590--56628623 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
56628580 CACTCTGAAA
56628590 AAAAATG
1 AAAAATG
56628597 AAAAATG
1 AAAAATG
56628604 -AAAATG
1 AAAAATG
56628610 AAAAATG
1 AAAAATG
*
56628617 GAAAATG
1 AAAAATG
56628624 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:56628609 original size:13 final size:14
Alignment explanation
Indices: 56628591--56628623 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
56628581 ACTCTGAAAA
56628591 AAAATGAAAAAT-G
1 AAAATGAAAAATGG
56628604 AAAATGAAAAATGG
1 AAAATGAAAAATGG
56628618 AAAATG
1 AAAATG
56628624 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (14 bp):
AAAATGAAAAATGG
Found at i:56630212 original size:50 final size:50
Alignment explanation
Indices: 56630157--56630607 Score: 270
Period size: 50 Copynumber: 9.0 Consensus size: 50
56630147 CCCCAAGCGA
*
56630157 TGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCCAGACAT
1 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCAGACAT
** * * * * * * * * **
56630207 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCGGGCGG
1 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCAGACAT
* * *
56630257 TGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCAGACAT
** * * * * * *
56630307 TGCAGTTAAAAAGATTAAAGCTAC-TACAGCGAATCTTACTCCCCA-AGCAA
1 TGCAGTGGAAAAGATTAAAGCCACAT-CGGTGAATCTTGCTTCCCAGA-CAT
*
56630357 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCC-GACAT
1 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGC-TTCCCAGACAT
* ** * * * * * * *
56630407 TGCGGTTAAAAAGATTGAAGCTACAAT-AGCGAATCTTACTTCCCTGGCGA-
1 TGCAGTGGAAAAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCAGAC-AT
* * *
56630457 TGTAGT-GAAGCAGATTAAAGCCACATTGGTGAATCTTGCTTTCCC-GACAT
1 TGCAGTGGAA-AAGATTAAAGCCACATCGGTGAATCTTGC-TTCCCAGACAT
* * * *** ** * ** *
56630507 TGCAGT-TAAAAGGATTAAAGTCACAACGACAAATCTCACTCTCTCAGTTAG
1 TGCAGTGGAAAA-GATTAAAGCCACATCGGTGAATCTTGCT-TCCCAGACAT
* ** * *
56630558 TGCAGTAGAGCAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCAGACAT
56630608 CACAGTTAAG
Statistics
Matches: 293, Mismatches: 92, Indels: 32
0.70 0.22 0.08
Matches are distributed among these distances:
49 14 0.05
50 233 0.80
51 44 0.15
52 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (50 bp):
TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCAGACAT
Found at i:56630262 original size:100 final size:99
Alignment explanation
Indices: 56630132--56630616 Score: 609
Period size: 100 Copynumber: 4.8 Consensus size: 99
56630122 CCGAAGAATT
* * *
56630132 ACAGCAAATCTTACTCCCCAAGCGATGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCT
1 ACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCT
56630197 TCCCAGACATTGCAGTTAAAAAGATTAAAGCTACA
66 TCCC-GACATTGCAGTTAAAAAGATTAAAGCTACA
* * *
56630232 ACAGCGAATCTTACTCCCCGGGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCT
1 ACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCT
*
56630297 TCCCCGACATTGCAGTTAAAAAGATTAAAGCTACT
66 T-CCCGACATTGCAGTTAAAAAGATTAAAGCTACA
* *
56630332 ACAGCGAATCTTACTCCCCAAGCAATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCT
1 ACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGC-
* *
56630397 TTCCCGACATTGCGGTTAAAAAGATTGAAGCTACA
65 TTCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
* * * * *
56630432 ATAGCGAATCTTACTTCCCTGGCGATGTAGT-GAAGCAGATTAAAGCCACATTGGTGAATCTTGC
1 ACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAA-CAGATTAAAGCCACATCGGTGAATCTTGC
*
56630496 TTTCCCGACATTGCAGTTAAAAGGATTAAAG-TCACA
65 -TTCCCGACATTGCAGTTAAAAAGATTAAAGCT-ACA
* * * ** * * *
56630532 AC-GACAAATCTCACTCTCTCA-GTTAGTGCAGTAGAGCAGATTAAAGCCACAACGGTGAATCTT
1 ACAG-CGAATCTTACTC-CCCAGGCGA-TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTT
**
56630595 GCTTCCCCGACATCACAGTTAA
63 GCTT-CCCGACATTGCAGTTAA
56630617 GCAGATTTAC
Statistics
Matches: 337, Mismatches: 39, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
99 5 0.01
100 276 0.82
101 54 0.16
102 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (99 bp):
ACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCT
TCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
Found at i:56630971 original size:16 final size:17
Alignment explanation
Indices: 56630944--56630975 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
56630934 GCTAGCCCAA
56630944 AATTATAACCCAAACCC
1 AATTATAACCCAAACCC
56630961 AATTA-AACCCAAACC
1 AATTATAACCCAAACC
56630976 TAATCTGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (17 bp):
AATTATAACCCAAACCC
Found at i:56631225 original size:22 final size:22
Alignment explanation
Indices: 56631181--56631222 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
56631171 ATGGAAACAA
* *
56631181 AAAATAGCAAAGAATAGAAAAG
1 AAAATAGAAAAGAAGAGAAAAG
56631203 AAAATAGAAAAG-AGAGAAAA
1 AAAATAGAAAAGAAGAGAAAA
56631223 AGAGATGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.71, C:0.02, G:0.19, T:0.07
Consensus pattern (22 bp):
AAAATAGAAAAGAAGAGAAAAG
Found at i:56632151 original size:23 final size:24
Alignment explanation
Indices: 56632097--56632154 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
56632087 ATTATTTTAT
* *
56632097 TATGTAGTATTATTTTAAGTTTCC
1 TATGTATTATTATTTTAAGTTTCA
*
56632121 TATATATTATTA-TTTAA-TTTCA
1 TATGTATTATTATTTTAAGTTTCA
56632143 TAATGTATTATT
1 T-ATGTATTATT
56632155 TTATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 5 0.17
23 14 0.48
24 10 0.34
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.57
Consensus pattern (24 bp):
TATGTATTATTATTTTAAGTTTCA
Found at i:56640814 original size:24 final size:24
Alignment explanation
Indices: 56640785--56640855 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
56640775 TTCCCAAATA
* *
56640785 ATTGGCTCTCTAGAGCTTTCCGAT
1 ATTGGCTCTCTAGAGCTTCCCGAC
56640809 ATTGGCTCTCTAGAGCTTCCCGAC
1 ATTGGCTCTCTAGAGCTTCCCGAC
* * *
56640833 ATTGGCTCACTTGAACTTCCCGA
1 ATTGGCTCTCTAGAGCTTCCCGA
56640856 TTATGGCTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.32
Consensus pattern (24 bp):
ATTGGCTCTCTAGAGCTTCCCGAC
Found at i:56640856 original size:48 final size:48
Alignment explanation
Indices: 56640785--56640878 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 48
56640775 TTCCCAAATA
* * * *
56640785 ATTGGCTCTCTAGAGCTTTCCGA-TATTGGCTCTCTA-GAGCTTCCCGAC
1 ATTGGCTCACTAGAACTTCCCGATTA-TGGCTCT-TATAAGCTTCCCGAC
*
56640833 ATTGGCTCACTTGAACTTCCCGATTATGGCTCTTATAAGCTTCCCG
1 ATTGGCTCACTAGAACTTCCCGATTATGGCTCTTATAAGCTTCCCG
56640879 TTATACAGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
47 2 0.05
48 35 0.90
49 2 0.05
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.34
Consensus pattern (48 bp):
ATTGGCTCACTAGAACTTCCCGATTATGGCTCTTATAAGCTTCCCGAC
Found at i:56640914 original size:25 final size:25
Alignment explanation
Indices: 56640892--56640948 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
56640882 TACAGCTCGA
*
56640892 ATGAGCTT-CCTATTACATGGCTCAC
1 ATGAGCTTCCCGATTA-ATGGCTCAC
*
56640917 ATGAGCTTCCCGATTAATGGCTCTC
1 ATGAGCTTCCCGATTAATGGCTCAC
*
56640942 TTGAGCT
1 ATGAGCT
56640949 ACCTGTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 22 0.79
26 6 0.21
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCGATTAATGGCTCAC
Found at i:56644781 original size:23 final size:24
Alignment explanation
Indices: 56644727--56644798 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 24
56644717 CACATATATT
* *
56644727 TTCAATTCAATCACAATTTCTCACACT
1 TTCAATTCAAT--C-ATTTTTCACACC
56644754 TTCAATTCAATCATTTTTC-CACC
1 TTCAATTCAATCATTTTTCACACC
*
56644777 TTCAA-TCAATAATTATTTCACA
1 TTCAATTCAATCATT-TTTCACA
56644799 AATTCACACA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 8 0.20
23 12 0.30
24 8 0.20
25 1 0.03
27 11 0.28
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.40
Consensus pattern (24 bp):
TTCAATTCAATCATTTTTCACACC
Found at i:56644947 original size:3 final size:3
Alignment explanation
Indices: 56644939--56644985 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
56644929 ATTCCCACTC
* * * *
56644939 ATA ATA ATA ATA ATA ATA CTA ATA ATA A-A TTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56644986 CTTACCTCAC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:56644987 original size:12 final size:12
Alignment explanation
Indices: 56644939--56644985 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
56644929 ATTCCCACTC
*
56644939 ATAATAATAATA
1 ATAATATTAATA
*
56644951 ATAATACTAATA
1 ATAATATTAATA
56644963 ATAA-ATTAATA
1 ATAATATTAATA
*
56644974 CTAATATTAATA
1 ATAATATTAATA
56644986 CTTACCTCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 9 0.29
12 22 0.71
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAATATTAATA
Found at i:56652005 original size:20 final size:20
Alignment explanation
Indices: 56651977--56652015 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
56651967 TTACATATCA
56651977 CATTTATTCCATC-TATATG
1 CATTTATTCCATCATATATG
56651996 CATTTCATTCCATCATATAT
1 CATTT-ATTCCATCATATAT
56652016 ATATTCCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.28, C:0.23, G:0.03, T:0.46
Consensus pattern (20 bp):
CATTTATTCCATCATATATG
Found at i:56652963 original size:30 final size:30
Alignment explanation
Indices: 56652929--56652987 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
56652919 CTTAATAAGC
56652929 AAATGCCTCTAAAATAATAACAAAATTAAT
1 AAATGCCTCTAAAATAATAACAAAATTAAT
* *
56652959 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
56652988 CAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAT
Found at i:56653572 original size:18 final size:18
Alignment explanation
Indices: 56653549--56653585 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
56653539 TTGGTATACA
56653549 ATTATTCAAACTAATGGT
1 ATTATTCAAACTAATGGT
56653567 ATTATTCAAACTAATGGT
1 ATTATTCAAACTAATGGT
56653585 A
1 A
56653586 ATCTTAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (18 bp):
ATTATTCAAACTAATGGT
Found at i:56665398 original size:38 final size:37
Alignment explanation
Indices: 56665356--56665469 Score: 89
Period size: 38 Copynumber: 3.2 Consensus size: 37
56665346 CTTTGATTAG
56665356 AAAAATTGAGGAATTCCCTAACTCTTAATTTAATTTCT
1 AAAAATTGAGGAATT-CCTAACTCTTAATTTAATTTCT
* * * **
56665394 AAAAAAT-AGG-A-T--TGA-TTTTAATTTTAA-TTAG
1 AAAAATTGAGGAATTCCTAACTCTTAA-TTTAATTTCT
*
56665425 AAAAATCGAGGAATTTCCTAACTCTTAATTTAATTTCT
1 AAAAATTGAGGAA-TTCCTAACTCTTAATTTAATTTCT
56665463 GAAAAAT
1 -AAAAAT
56665470 AGGATTGATT
Statistics
Matches: 55, Mismatches: 11, Indels: 19
0.65 0.13 0.22
Matches are distributed among these distances:
31 12 0.22
32 10 0.18
33 1 0.02
35 2 0.04
36 1 0.02
37 10 0.18
38 13 0.24
39 6 0.11
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.39
Consensus pattern (37 bp):
AAAAATTGAGGAATTCCTAACTCTTAATTTAATTTCT
Found at i:56665462 original size:69 final size:69
Alignment explanation
Indices: 56665351--56665487 Score: 238
Period size: 69 Copynumber: 2.0 Consensus size: 69
56665341 ATTTCCTTTG
* *
56665351 ATTAGAAAAATTGAGGAATTCCCTAACTCTTAATTTAATTTCTAAAAAATAGGATTGATTTTAAT
1 ATTAGAAAAATCGAGGAATTCCCTAACTCTTAATTTAATTTCTAAAAAATAGGATTGATTGTAAT
56665416 TTTA
66 TTTA
* *
56665420 ATTAGAAAAATCGAGGAATTTCCTAACTCTTAATTTAATTTCTGAAAAATAGGATTGATTGTAAT
1 ATTAGAAAAATCGAGGAATTCCCTAACTCTTAATTTAATTTCTAAAAAATAGGATTGATTGTAAT
56665485 TTT
66 TTT
56665488 GACTTGTGAG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (69 bp):
ATTAGAAAAATCGAGGAATTCCCTAACTCTTAATTTAATTTCTAAAAAATAGGATTGATTGTAAT
TTTA
Found at i:56670592 original size:38 final size:39
Alignment explanation
Indices: 56670499--56670592 Score: 129
Period size: 39 Copynumber: 2.4 Consensus size: 39
56670489 GTTTGGACAA
* *
56670499 AAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAAAT-GAGCATTAGCGGCGCTTTTTGG
*
56670539 AAAACGCCGCTAAAAATGAGCATTAGCGGCG-TTTTTTG
1 AAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTTTGG
56670577 AAAAGCGCCGC-AAAAA
1 AAAA-CGCCGCTAAAAA
56670593 GCCTAAGCCC
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
38 15 0.30
39 19 0.38
40 16 0.32
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTTTGG
Found at i:56670690 original size:41 final size:41
Alignment explanation
Indices: 56670628--56670868 Score: 290
Period size: 41 Copynumber: 5.9 Consensus size: 41
56670618 TGAGTTTTTG
* * *
56670628 GGGCATTTAGCGGCGTTTTTGAAAAAGTACCTCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
*** * *
56670669 GGGCCTTTAGCGATATTTTTGAAAAAG-AGACGCCAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCA-CCGCTAATGCTC
* * **
56670710 AGGCCTTTAGCGGCGTTTTTGAAAAGGTGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
* * *
56670751 GGGCCTTTAGCGGCGTTTTTGGAAATGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
56670792 GGGCCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
* *
56670833 AGGCCTTTAGCGGC-ATTTTGAAAAAG-AGCCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCA-CCGCTAAT
56670869 AATAATAAAA
Statistics
Matches: 173, Mismatches: 24, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 20 0.12
41 152 0.88
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
Found at i:56670858 original size:123 final size:122
Alignment explanation
Indices: 56670628--56670868 Score: 324
Period size: 123 Copynumber: 2.0 Consensus size: 122
56670618 TGAGTTTTTG
* * *
56670628 GGGCATTTAGCGGCGTTTTTGAAAAAGTACCTCTAATGCTCGGGCCTTTAGCGATATTTTTGAAA
1 GGGCATTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCGGGCCTTTAGCGACATTTTTGAAA
* *
56670693 AAGAGACGCCAATGCTCAGGCCTTTAGCGGCGTTTTTGAAAAGGTGCCGCTAATGCTC
66 AAGAGACGCCAATGCTCAGGCCTTTAGCGGCGATTTTGAAAA-GAGCCGCTAATGCTC
* * * * * *
56670751 GGGCCTTTAGCGGCGTTTTTGGAAATGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAA
1 GGGCATTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCGGGCCTTTAGCGACATTTTTGAAA
* *
56670816 AAGCA-CCGCTAATGCTCAGGCCTTTAGCGGC-ATTTTGAAAAAGAGCCGCTAAT
66 AAG-AGACGCCAATGCTCAGGCCTTTAGCGGCGATTTTG-AAAAGAGCCGCTAAT
56670869 AATAATAAAA
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
122 15 0.15
123 87 0.84
124 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (122 bp):
GGGCATTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCGGGCCTTTAGCGACATTTTTGAAA
AAGAGACGCCAATGCTCAGGCCTTTAGCGGCGATTTTGAAAAGAGCCGCTAATGCTC
Found at i:56671990 original size:14 final size:15
Alignment explanation
Indices: 56671963--56671994 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
56671953 AGGTTTATAA
56671963 ATTATGGAATTAGGG
1 ATTATGGAATTAGGG
56671978 ATTATGG-ATTAGGG
1 ATTATGGAATTAGGG
56671992 ATT
1 ATT
56671995 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (15 bp):
ATTATGGAATTAGGG
Found at i:56672300 original size:14 final size:14
Alignment explanation
Indices: 56672257--56672307 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
56672247 TAAATAAGGT
56672257 TTAAGGGTTAGTGG
1 TTAAGGGTTAGTGG
* * *
56672271 TTAGGGGTTTGGGG
1 TTAAGGGTTAGTGG
*
56672285 TTAAGAGTTAGTGG
1 TTAAGGGTTAGTGG
*
56672299 TTTAGGGTT
1 TTAAGGGTT
56672308 TAGATATTCG
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (14 bp):
TTAAGGGTTAGTGG
Found at i:56672609 original size:150 final size:148
Alignment explanation
Indices: 56672447--56672749 Score: 470
Period size: 150 Copynumber: 2.0 Consensus size: 148
56672437 AATAAAATAT
*
56672447 TTTTAGCATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGC-AGCGTTTTTTGT
1 TTTTAGCATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGA-CG-TTTTTAT
* *
56672511 GAAAAACGCCGCAA-AAAGTAAGCAATAGCGGCGTTTTTATAAAAAAACGCCACAAAA-AATCAT
64 GAAAAACACCGCAATAAA-TAAGCAATAGCGGCGTTTTTAT-AAAAAACGCCACAAAATAA--AA
*
56672574 TTTAC-TTTAAAAAAATAGCGCCC
125 TTTACTTTTAAAAAAATAGCGCCA
56672597 TTTTAGCATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGACGTTTTTATGA
1 TTTTAGCATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGACGTTTTTATGA
*
56672662 AAAACACCGCAATAAATAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAAAATTTCCT
66 AAAACACCGCAATAAATAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAAAATTTACT
*
56672727 TTTAAAAAAATAGTGCCA
131 TTTAAAAAAATAGCGCCA
56672745 TTTTA
1 TTTTA
56672750 TAAAATTCCC
Statistics
Matches: 143, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
147 5 0.03
148 37 0.26
149 43 0.30
150 57 0.40
151 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (148 bp):
TTTTAGCATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGACGTTTTTATGA
AAAACACCGCAATAAATAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAAAATTTACT
TTTAAAAAAATAGCGCCA
Found at i:56673090 original size:16 final size:16
Alignment explanation
Indices: 56673069--56673100 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56673059 ATAACCCTTT
56673069 GTTTAGGCATCTCAAA
1 GTTTAGGCATCTCAAA
56673085 GTTTAGGCATCTCAAA
1 GTTTAGGCATCTCAAA
56673101 CCCTTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (16 bp):
GTTTAGGCATCTCAAA
Found at i:56674351 original size:44 final size:43
Alignment explanation
Indices: 56674301--56674439 Score: 147
Period size: 43 Copynumber: 3.2 Consensus size: 43
56674291 ACGTCGCTAA
*
56674301 CTTTAGCGGCGTTTTCAAAAATAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGTTTTC-ACAATAAACGCCGCTAAAGACCATGAC
* * *
56674345 CTTTAGCGGTGCTTTTCTCACT-AACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCG-TTTTCACAATAAACGCCGCTAAAGACCATGAC
* * * * * *
56674388 CTTTAACGGCACTTTT-ACGACAAACGCCGCTAAAGATCAGGAC
1 CTTTAGCGGC-GTTTTCACAATAAACGCCGCTAAAGACCATGAC
56674431 CTTTAGCGG
1 CTTTAGCGG
56674440 TGCTTCTACC
Statistics
Matches: 78, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 1 0.01
43 60 0.77
44 12 0.15
45 5 0.06
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTCACAATAAACGCCGCTAAAGACCATGAC
Found at i:56674375 original size:43 final size:43
Alignment explanation
Indices: 56674323--56674458 Score: 184
Period size: 43 Copynumber: 3.2 Consensus size: 43
56674313 TTTCAAAAAT
56674323 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTT-CTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTAC-CAC
* * ** *
56674366 TAACGCCGCTAAAGACCATGACCTTTAACGGCACTTTTACGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTACCAC
* * *
56674409 AAACGCCGCTAAAGATCAGGACCTTTAGCGGTGCTTCTACCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTACCAC
56674452 AAACGCC
1 AAACGCC
56674459 ACTATAGGTC
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 78 0.99
44 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTACCAC
Found at i:56678431 original size:125 final size:124
Alignment explanation
Indices: 56678271--56678499 Score: 327
Period size: 125 Copynumber: 1.8 Consensus size: 124
56678261 AAGAACTTAA
* ** * * * *
56678271 TTAATATATAAATTAAAAATACTAATTAATTTAAACTTTAAACCCTAACCCGATCTC-GAATCTC
1 TTAATATATAAATTAAAAATACTAATTAATCTAAACCCTAAACCCTAA-CCGAACACTAAATCTA
56678335 TAAATCC-TAAATCACTAACTCTTAACCTCTAACCCCTAACTATTAACCCCTAAACTTTAT
65 TAAA-CCTTAAATCACTAACTCTTAACCTCTAACCCCTAACTATTAACCCCTAAACTTTAT
*
56678395 TTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAACCTAACACTAAATCTA
1 TTAATATATAAATT-AAAAATACTAATTAATCTAAACCCTAAACCCTAACCGAACACTAAATCTA
* *
56678460 TAAACCTTAAATCCCTAACTCTTAATCTCTAACCCCTAAC
65 TAAACCTTAAATCACTAACTCTTAACCTCTAACCCCTAAC
56678500 CCCTAAATCA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
124 21 0.23
125 71 0.77
ACGTcount: A:0.42, C:0.25, G:0.01, T:0.31
Consensus pattern (124 bp):
TTAATATATAAATTAAAAATACTAATTAATCTAAACCCTAAACCCTAACCGAACACTAAATCTAT
AAACCTTAAATCACTAACTCTTAACCTCTAACCCCTAACTATTAACCCCTAAACTTTAT
Found at i:56678538 original size:14 final size:15
Alignment explanation
Indices: 56678521--56678557 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
56678511 AACCCTTAAA
56678521 CCATAATCCCTAA-T
1 CCATAATCCCTAATT
56678535 CCATAATCCCTAATT
1 CCATAATCCCTAATT
56678550 CCATAATC
1 CCATAATC
56678558 TATAAACCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.30
Consensus pattern (15 bp):
CCATAATCCCTAATT
Found at i:56678793 original size:30 final size:30
Alignment explanation
Indices: 56678758--56678827 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
56678748 ATTTTAAAAT
56678758 TATTTTAAATAATAGTATTTT-AAT-TTTTTC
1 TATTTTAAATAA-A-TATTTTCAATGTTTTTC
* * * *
56678788 TATTTTTAACAAATATTTTCTATGTTTTTT
1 TATTTTAAATAAATATTTTCAATGTTTTTC
56678818 TATTTTAAAT
1 TATTTTAAAT
56678828 TATTTCTACG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
28 6 0.19
29 3 0.09
30 23 0.72
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.61
Consensus pattern (30 bp):
TATTTTAAATAAATATTTTCAATGTTTTTC
Found at i:56679020 original size:40 final size:40
Alignment explanation
Indices: 56678954--56679064 Score: 161
Period size: 40 Copynumber: 2.7 Consensus size: 40
56678944 AAATGTTTTT
* *
56678954 GCGGCGCTTTAACAAAAACGCTGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTT-TCAAAAACGCCGCTAAAGCTCTGAGCATTA
56678995 GCGGCGCTTTTCAAAAACGCCGCTAAAAG-TCTGAGCATTA
1 GCGGCGCTTTTCAAAAACGCCGCT-AAAGCTCTGAGCATTA
*
56679035 GCGGCGCTTTTTTAAAAACGCCGCTAAAGC
1 GCGGCGC-TTTTCAAAAACGCCGCTAAAGC
56679065 CCCAAAATGT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
40 34 0.53
41 30 0.47
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (40 bp):
GCGGCGCTTTTCAAAAACGCCGCTAAAGCTCTGAGCATTA
Found at i:56679200 original size:40 final size:39
Alignment explanation
Indices: 56679122--56679230 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 39
56679112 AAAAAAAATA
* **
56679122 CCGCTAATGCTC-ATTTTTAGTGGCGCTTTGCTGTAAGCG
1 CCGCTAATGCTCGATTTTTAGCGGCG-TTTTATGTAAGCG
*
56679161 CCGCTAATGCTCGATCTTTAGCGGCGTTTTATGTGAAGCG
1 CCGCTAATGCTCGATTTTTAGCGGCGTTTTATGT-AAGCG
*
56679201 CCGCTAATGCTCGATTTTTAACGGCGTTTT
1 CCGCTAATGCTCGATTTTTAGCGGCGTTTT
56679231 TTATCCAAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
39 18 0.29
40 44 0.71
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.36
Consensus pattern (39 bp):
CCGCTAATGCTCGATTTTTAGCGGCGTTTTATGTAAGCG
Done.