Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 120 of 172
Found at i:34174488 original size:18 final size:17
Alignment explanation
Indices: 34174467--34174501 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34174457 TTATTATTAA
*
34174467 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
34174485 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
34174502 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:34174593 original size:15 final size:15
Alignment explanation
Indices: 34174565--34174605 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
34174555 ATAAAATATA
34174565 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
34174580 TATTAAATATATTAT
1 AATTAAATATATTAT
34174595 AATTAAA-ATAT
1 AATTAAATATAT
34174606 CATGAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:34174674 original size:121 final size:120
Alignment explanation
Indices: 34174450--34174739 Score: 471
Period size: 121 Copynumber: 2.4 Consensus size: 120
34174440 ATCATATTTA
34174450 AACATAATTATTATTAAATATATTTTAATTAAAATATAT-AATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATGAATTTAAT-AAATTCTTAATAATCA
*
34174514 ATATTCTTATATGAATTACTCAAATCATAATATATGATACTATAAAATATAAATT-
65 ATATTCTTATATGAATTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
34174569 AACATAATTATTATTAAATATATTATAATTAAAATATCATGAATTTAATAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTAATTAAAATAT-ATGAATTTAATAAATTCTTAATAATCA
*
34174634 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
65 ATATTCTTATATGAA-TTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
34174691 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATG-ACTTAATAAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATGAATTTAATAAA
34174740 ATTTAAAATA
Statistics
Matches: 160, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
119 45 0.28
120 35 0.22
121 78 0.49
122 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATGAATTTAATAAATTCTTAATAATCAA
TATTCTTATATGAATTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:34174788 original size:101 final size:92
Alignment explanation
Indices: 34174739--34174970 Score: 276
Period size: 91 Copynumber: 2.5 Consensus size: 92
34174729 GACTTAATAA
* *
34174739 AATTT-AAAATAATTATA-ACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTAT
1 AATTTCAAAA-AATTATACA-TAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTAA
*
34174802 TATTACATATAATTTAA-TAATAATATAT
64 TATTAAATATAATTTAATTAATAATATAT
* * * * *
34174830 AATTTCATAAAATTCTTCATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTATACATAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTAATA
*
34174895 TTAAATATAATTTAA-TAATGATATAT
66 TTAAATATAATTTAATTAATAATATAT
* * * *
34174921 AATTTCATAAAATTCTTA-ATAATAAAATATTCTTATATGAATTCATATAA
1 AATTTCAAAAAATT-ATACATAATAAATTA-TCTTATATGAATTTATATAA
34174971 GATAATTTAT
Statistics
Matches: 122, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
91 99 0.81
92 23 0.19
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (92 bp):
AATTTCAAAAAATTATACATAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTAATA
TTAAATATAATTTAATTAATAATATAT
Found at i:34174812 original size:26 final size:28
Alignment explanation
Indices: 34174783--34174843 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
34174773 TATGAATTTG
*
34174783 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
34174809 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
34174837 TAAAATT
1 TATAATT
34174844 CTTCATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:34174841 original size:47 final size:46
Alignment explanation
Indices: 34174790--34174933 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
34174780 TTGTATAATT
34174790 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
34174837 TAAAAT--TCT-TCA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
34174881 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
34174928 TAAAAT
1 TAAAAT
34174934 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:34174853 original size:91 final size:91
Alignment explanation
Indices: 34174758--34174963 Score: 331
Period size: 91 Copynumber: 2.3 Consensus size: 91
34174748 TAATTATAAC
* * * *
34174758 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
34174823 AATATATAATTTCATAAAATTCTTCA
66 AATATATAATTTCATAAAATTCTTAA
*
34174849 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
34174914 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
34174940 TAATAAAATATTCTTATATGAATT
1 TAATAAATTA-TCTTATATGAATT
34174964 CATATAAGAT
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 92 0.88
92 13 0.12
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (91 bp):
TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:34174925 original size:44 final size:43
Alignment explanation
Indices: 34174783--34174925 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
34174773 TATGAATTTG
* *
34174783 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
34174827 TATAATTTCATAAAATTCTTCATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
34174874 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
34174918 TATAATTT
1 TATAATTT
34174926 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:34174940 original size:47 final size:47
Alignment explanation
Indices: 34174808--34174946 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
34174798 TTATTATTAC
* *
34174808 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTCATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
34174855 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
34174899 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
34174946 A
1 A
34174947 ATATTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:34188110 original size:42 final size:42
Alignment explanation
Indices: 34188051--34188138 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
34188041 CTCTGAACCC
* * *
34188051 TGAATATTGAACCTTAAATTCCAAACCTTGAACATTGAATCT
1 TGAATATTAAACCTTAAACTCCAAACCTTAAACATTGAATCT
34188093 TGAATATTAAACCTTAAACTCCAAACCTTAAACATTGAATCT
1 TGAATATTAAACCTTAAACTCCAAACCTTAAACATTGAATCT
34188135 TGAA
1 TGAA
34188139 CCTTGACTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (42 bp):
TGAATATTAAACCTTAAACTCCAAACCTTAAACATTGAATCT
Found at i:34188221 original size:13 final size:14
Alignment explanation
Indices: 34188188--34188229 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
34188178 AACTTTGATC
34188188 CTCCAAACTTAAA-
1 CTCCAAACTTAAAT
34188201 CTCCAAACTTAAAT
1 CTCCAAACTTAAAT
*
34188215 CT-TAAACCTTAAAT
1 CTCCAAA-CTTAAAT
34188229 C
1 C
34188230 CGAATCCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (14 bp):
CTCCAAACTTAAAT
Found at i:34194594 original size:92 final size:93
Alignment explanation
Indices: 34194383--34194610 Score: 277
Period size: 92 Copynumber: 2.5 Consensus size: 93
34194373 TGCTTGAGAC
* * * *
34194383 CCATCCAAA-AACAATCAGAAAGCACATAATTACTAAGCCCAAAGGTATCATATCACGACCCTCC
1 CCATCCAAACAA-AATCAGAAAGCACATAAGTGCTAAGCTCAAAGGCATCATATCACGACCCTCC
* *
34194447 AAACAGAACCATATTGCACATAAGTGCAT
65 AAACACAACCATATTACACATAAGTGCAT
* * * *
34194476 CCATCCAAACACAATCA-AAGAACACATAAGTGCTAAGCTCGAAGGCATCATATCAC-ATCCTTC
1 CCATCCAAACAAAATCAGAA-AGCACATAAGTGCTAAGCTCAAAGGCATCATATCACGA-CCCTC
*
34194539 C-AACACAACCATATTATACATGAA-TGCAT
64 CAAACACAACCATATTACACAT-AAGTGCAT
*
34194568 CCATCCAAACAAAACCAGAAAGCACATAAGTGCTAAGCTCAAA
1 CCATCCAAACAAAATCAGAAAGCACATAAGTGCTAAGCTCAAA
34194611 AGCTACAAAG
Statistics
Matches: 115, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
92 61 0.53
93 53 0.46
94 1 0.01
ACGTcount: A:0.43, C:0.28, G:0.11, T:0.18
Consensus pattern (93 bp):
CCATCCAAACAAAATCAGAAAGCACATAAGTGCTAAGCTCAAAGGCATCATATCACGACCCTCCA
AACACAACCATATTACACATAAGTGCAT
Found at i:34196445 original size:16 final size:16
Alignment explanation
Indices: 34196424--34196454 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34196414 ATCAAAATCT
34196424 CATAGATACTCGGGGC
1 CATAGATACTCGGGGC
34196440 CATAGATACTCGGGG
1 CATAGATACTCGGGG
34196455 AAAAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (16 bp):
CATAGATACTCGGGGC
Found at i:34196833 original size:33 final size:33
Alignment explanation
Indices: 34196796--34196885 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
34196786 TACTCTCTAT
*
34196796 TTGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* *
34196829 TTGGTGTGATGGTCGGTTTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* *
34196862 TTGGTGTGATGGATGGATTGGCTC
1 TTGGTGTGATGGTTGGATTAGCTC
34196886 AAGTGAGCGT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.14, C:0.11, G:0.36, T:0.39
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
Found at i:34198358 original size:20 final size:21
Alignment explanation
Indices: 34198333--34198380 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
34198323 AATTTTTTAA
34198333 CTTAAACCCTGAACTC-AAAT
1 CTTAAACCCTGAACTCTAAAT
* *
34198353 CTTAAAGCTTGAACTCTAAAT
1 CTTAAACCCTGAACTCTAAAT
34198374 CTTAAAC
1 CTTAAAC
34198381 TTGGCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.29
Consensus pattern (21 bp):
CTTAAACCCTGAACTCTAAAT
Found at i:34210719 original size:6 final size:6
Alignment explanation
Indices: 34210676--34210724 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
34210666 CCAAACACAC
* * *
34210676 CAGTGAA CAGTAA TCAGTAA CGGTAG CAGTAA CGGTAA CAGTAA CAGTA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
34210725 TTCAACACAC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.18
Consensus pattern (6 bp):
CAGTAA
Found at i:34210756 original size:39 final size:38
Alignment explanation
Indices: 34210711--34210864 Score: 139
Period size: 39 Copynumber: 3.8 Consensus size: 38
34210701 GCAGTAACGG
* *
34210711 TAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTATAACA
1 TAACAGTAACAGTATTCGACACACAAAGTGCCG-A---AT--CA
* * *
34210755 GTAACGGTAACAGTATTCGACACACAAAGTGCCGAGTCGG
1 -TAACAGTAACAGTATTCGACACACAAAGTGCCGAATC-A
*
34210795 TAACAGTAACAGTATTTGACACACAAAGTGCCGAATCA
1 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCA
* * *
34210833 GTAACAGTAACAGTAGTCGGCACA-TAAGTGCC
1 -TAACAGTAACAGTATTCGACACACAAAGTGCC
34210865 TGATCAGTAA
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
38 7 0.07
39 55 0.59
41 1 0.01
44 1 0.01
45 30 0.32
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.19
Consensus pattern (38 bp):
TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCA
Found at i:34210844 original size:45 final size:44
Alignment explanation
Indices: 34210702--34210847 Score: 169
Period size: 45 Copynumber: 3.4 Consensus size: 44
34210692 GTAACGGTAG
* * *
34210702 CAGTAACGGTAACAGTAACAGTATTCAACACACAAAGTGCTGAA
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA
*
34210746 CCTA-TAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG--
1 -C-AGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA
* *
34210789 -AGT--CGGTAACAGTAACAGTATTTGACACACAAAGTGCCGAA
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA
34210830 TCAGTAACAGTAACAGTA
1 -CAGTAACAGTAACAGTA
34210848 GTCGGCACAT
Statistics
Matches: 85, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
39 33 0.39
40 1 0.01
41 1 0.01
43 3 0.04
45 46 0.54
46 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (44 bp):
CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA
Found at i:34215029 original size:39 final size:39
Alignment explanation
Indices: 34214962--34215115 Score: 139
Period size: 39 Copynumber: 3.8 Consensus size: 39
34214952 TTACTGATCA
* * * * *
34214962 GGCAC-TTATGTGCCGACTACTGTTACTGTTATTGATTC
1 GGCACTTTGTGTGTCGAATACTATTACTGTTATAGATTC
** *
34215000 GGCACTTTGTGTGTCGAATACTATTACTGTTACCGACTC
1 GGCACTTTGTGTGTCGAATACTATTACTGTTATAGATTC
*
34215039 GGCACTTTGTGTGTCGAATACTGTTACCGTTACTGTTATAGGTTC
1 GGCACTTTGTGTGTCGAATAC---TA---TTACTGTTATAGATTC
* * *
34215084 AGCACTTTGTGTGTTGAATACTGTTACTGTTA
1 GGCACTTTGTGTGTCGAATACTATTACTGTTA
34215116 CCGTTACTGA
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
38 5 0.05
39 56 0.59
42 3 0.03
45 31 0.33
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (39 bp):
GGCACTTTGTGTGTCGAATACTATTACTGTTATAGATTC
Found at i:34215072 original size:45 final size:44
Alignment explanation
Indices: 34214983--34215127 Score: 147
Period size: 45 Copynumber: 3.4 Consensus size: 44
34214973 GCCGACTACT
**
34214983 GTTACTGTTATTGATTCGGCACTTTGTGTGTCGAATAC---TA-
1 GTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTAC
* *
34215023 -TTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTA-C
* * * *
34215067 GTTACTGTTATAGGTTCAGCACTTTGTGTGTTGAATACTGTTAC
1 GTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTAC
* *
34215111 TGTTACCGTTACTGATT
1 -GTTACTGTTACAGATT
34215128 ACTGTTCACT
Statistics
Matches: 85, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
39 34 0.40
42 2 0.02
44 1 0.01
45 48 0.56
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.41
Consensus pattern (44 bp):
GTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTAC
Found at i:34227465 original size:34 final size:32
Alignment explanation
Indices: 34227394--34227466 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 32
34227384 TATATAACTC
* * *
34227394 ATAAAAATTCAAAATTCATAATAATAAATATT
1 ATAAAAATTCAAAATTCAAAAAAAGAAATATT
*
34227426 TTAAAAATTCAATAAATTTCAAAAAAAGAAA-ATT
1 ATAAAAATTC-A-AAA-TTCAAAAAAAGAAATATT
34227460 ATAAAAA
1 ATAAAAA
34227467 ATTTTAGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
32 9 0.27
33 1 0.03
34 12 0.36
35 11 0.33
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.30
Consensus pattern (32 bp):
ATAAAAATTCAAAATTCAAAAAAAGAAATATT
Found at i:34228023 original size:6 final size:6
Alignment explanation
Indices: 34228012--34228039 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
34228002 CATCCGAAGA
34228012 TCCATT TCCATT TCCATT TCCATT TCCA
1 TCCATT TCCATT TCCATT TCCATT TCCA
34228040 ATTAAATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.46
Consensus pattern (6 bp):
TCCATT
Found at i:34229772 original size:25 final size:25
Alignment explanation
Indices: 34229744--34229794 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
34229734 CTGTACTGAT
34229744 ATTTTCTAGGATCACGTCTCCTTGC
1 ATTTTCTAGGATCACGTCTCCTTGC
34229769 ATTTTCTAGGATCACGTCTCCTTGC
1 ATTTTCTAGGATCACGTCTCCTTGC
34229794 A
1 A
34229795 ATAACCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (25 bp):
ATTTTCTAGGATCACGTCTCCTTGC
Found at i:34230654 original size:3 final size:3
Alignment explanation
Indices: 34230646--34230671 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34230636 ATTACATCCA
34230646 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
34230672 AACATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:34235006 original size:3 final size:3
Alignment explanation
Indices: 34234998--34235032 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
34234988 ATTACATCCA
34234998 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34235033 AACATGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:34242441 original size:19 final size:19
Alignment explanation
Indices: 34242390--34242443 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
34242380 TTATTGACTT
*
34242390 TATATTGATTGAATTG-ATA
1 TATATTGATT-ATTTGAATA
34242409 TATA-T-A-TATGTTGAATA
1 TATATTGATTAT-TTGAATA
34242426 TATATTGATTATTTGAAT
1 TATATTGATTATTTGAAT
34242444 TGAATTGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
15 1 0.03
16 4 0.14
17 8 0.28
18 2 0.07
19 11 0.38
20 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (19 bp):
TATATTGATTATTTGAATA
Found at i:34242655 original size:14 final size:15
Alignment explanation
Indices: 34242631--34242672 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
34242621 TCAAAAAAAA
34242631 AAAAATCTATTTTCT-
1 AAAAAT-TATTTTCTC
34242646 AAAAATTATTTT-TC
1 AAAAATTATTTTCTC
*
34242660 AAAAATTGTTTTC
1 AAAAATTATTTTC
34242673 AGTACAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 1 0.04
14 17 0.71
15 6 0.25
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (15 bp):
AAAAATTATTTTCTC
Found at i:34251158 original size:61 final size:59
Alignment explanation
Indices: 34251081--34251193 Score: 158
Period size: 61 Copynumber: 1.9 Consensus size: 59
34251071 CATATCCTCA
* *
34251081 TAATTATATTTATTAATTT-GTAAAAAGAATGAATCATATAATCAATTTCTAATTTAGTGTT
1 TAATTATATTTATTAATTTAATAAAAA-AATCAA-CAT-TAATCAATTTCTAATTTAGTGTT
34251142 TAATTA-ATTTATTTAATTTAATAAAAAAATCAACATTAATCAATTTCTAATT
1 TAATTATATTTA-TTAATTTAATAAAAAAATCAACATTAATCAATTTCTAATT
34251194 ATACAATGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
59 16 0.33
60 8 0.17
61 18 0.38
62 6 0.12
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (59 bp):
TAATTATATTTATTAATTTAATAAAAAAATCAACATTAATCAATTTCTAATTTAGTGTT
Found at i:34257196 original size:50 final size:50
Alignment explanation
Indices: 34257081--34257273 Score: 278
Period size: 50 Copynumber: 3.8 Consensus size: 50
34257071 GATAATAACA
* ** *
34257081 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * **
34257132 TGCCCATGCCATGTCCCAGACATGATCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
34257182 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
34257232 TGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
34257274 TTACCCAAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 94 0.75
51 32 0.25
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:34271003 original size:24 final size:24
Alignment explanation
Indices: 34270971--34271018 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
34270961 AGGTAGGGGA
34270971 GAAACTACTTAAAGAGATGAACCT
1 GAAACTACTTAAAGAGATGAACCT
34270995 GAAACTACTTAAAGAGATGAACCT
1 GAAACTACTTAAAGAGATGAACCT
34271019 TTCAACGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.21
Consensus pattern (24 bp):
GAAACTACTTAAAGAGATGAACCT
Found at i:34273598 original size:107 final size:107
Alignment explanation
Indices: 34273443--34273760 Score: 528
Period size: 107 Copynumber: 3.0 Consensus size: 107
34273433 TTTTTTTTCT
* *
34273443 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCTCTAACGTGCTGGGTTTCGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATT
34273508 TCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
66 TCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* * *
34273550 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACATGCCCTAACGTGTTGGGTTTCGACT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATT
*
34273615 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
66 TCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* * *
34273657 AAATAAGGCAATACTTCGAGTTTGGAAAATCGAGGAAATGTGCCCTAACGTGCTGGGTTTCGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATT
* * *
34273722 TCTCGTTCGACTAAATAGCCAAATATCCTCTTAAAACTT
66 TCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTT
34273761 CAAAGTATGG
Statistics
Matches: 195, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 195 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (107 bp):
AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATT
TCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
Found at i:34275573 original size:21 final size:22
Alignment explanation
Indices: 34275548--34275588 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
34275538 ACAATTTTAG
34275548 TAAATAAAAAAT-ATATAAAAT
1 TAAATAAAAAATAATATAAAAT
*
34275569 TAAATTAAAAATAATATAAA
1 TAAATAAAAAATAATATAAA
34275589 TATGTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAATAAAAAATAATATAAAAT
Found at i:34279309 original size:46 final size:46
Alignment explanation
Indices: 34279256--34279524 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
34279246 TTTGAGTACT
* **
34279256 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
34279302 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
34279354 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
34279400 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
34279452 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
34279498 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
34279525 GCTACACTTA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 114 0.57
52 85 0.43
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:34279376 original size:98 final size:98
Alignment explanation
Indices: 34279256--34279524 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
34279246 TTTGAGTACT
*
34279256 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
34279321 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
34279354 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
34279419 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
34279452 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
34279517 GATAAGTG
65 GAAAAGTG
34279525 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:34279532 original size:37 final size:37
Alignment explanation
Indices: 34279488--34279596 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
34279478 GATAGCTTTA
34279488 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
34279525 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
34279562 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
34279597 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:34282251 original size:88 final size:91
Alignment explanation
Indices: 34282083--34282287 Score: 283
Period size: 88 Copynumber: 2.3 Consensus size: 91
34282073 TTGATTTTAG
* *
34282083 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* *
34282148 ATTTAATATTAATTATTTTAAATGGTA
65 ATGTAATATTAATTATTTTAAATGATA
34282175 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAA-T-TATAT-ATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
34282237 TGTAATAATT-ATTATTTTAAATTATA
66 TGTAAT-ATTAATTATTTTAAATGATA
* * * *
34282263 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
34282288 GTTATAATTA
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
88 54 0.52
89 8 0.08
90 1 0.01
91 24 0.23
92 16 0.16
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATATTAATTATTTTAAATGATA
Found at i:34282329 original size:47 final size:49
Alignment explanation
Indices: 34282205--34282330 Score: 114
Period size: 47 Copynumber: 2.6 Consensus size: 49
34282195 TATTATCAAG
* * *
34282205 AATTTTATGAAATTATATATTATTAAATTATATGTAATAATTATTATTTTA
1 AATTTTATCAAATCATATATT-TT-AATTATATGTAATAATAATTATTTTA
* * * * * *
34282256 AATTATA-CAAATTCATAAAATATAATT-TAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTATATGTAATAATAATTATTTTA
*
34282303 AATTTTATTAAATCATATATTTTAATTA
1 AATTTTATCAAATCATATATTTTAATTA
34282331 AAATATATTT
Statistics
Matches: 58, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
47 32 0.55
48 6 0.10
49 4 0.07
50 4 0.07
51 12 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (49 bp):
AATTTTATCAAATCATATATTTTAATTATATGTAATAATAATTATTTTA
Found at i:34282463 original size:15 final size:15
Alignment explanation
Indices: 34282428--34282479 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
34282418 TTAAGAATTT
*
34282428 TATTAAATTAT-ATA
1 TATTTAATTATAATA
34282442 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
34282456 TATTTAATAATAAT-
1 TATTTAATTATAATA
34282470 TATGTTAATT
1 TAT-TTAATT
34282480 TATTTTTACA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:34282533 original size:119 final size:119
Alignment explanation
Indices: 34282303--34282596 Score: 511
Period size: 119 Copynumber: 2.5 Consensus size: 119
34282293 AATTATTTTA
* * *
34282303 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTTCTTT
*
34282367 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
34282423 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTAT-TTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTT-TCTTTT
34282487 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
34282542 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAA
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAA
34282597 AATATGATTA
Statistics
Matches: 168, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
119 118 0.70
120 48 0.29
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTTCTTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:34282582 original size:15 final size:15
Alignment explanation
Indices: 34282547--34282588 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34282537 TTAAGAATTT
*
34282547 TATTAAATTAT-ATA
1 TATTTAATTATAATA
34282561 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
34282575 TATTTAATAATAAT
1 TATTTAATTATAAT
34282589 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:34282730 original size:39 final size:39
Alignment explanation
Indices: 34282687--34282789 Score: 109
Period size: 45 Copynumber: 2.5 Consensus size: 39
34282677 CAAATTTATG
34282687 CTATTACACCTCTATTCCATTCAACCAAACA-TAAGATTA
1 CTATTACACCTCTATTCCATTCAACCAAACAGTAA-ATTA
** *
34282726 CTATTACGTCTCTATTCCATTACATTCAACCAAACAGTTAATTTA
1 CTATTACACCTCTATT-C----CATTCAACCAAACAG-TAAATTA
34282771 CTATTACACCTCTATTCCA
1 CTATTACACCTCTATTCCA
34282790 ATACACCTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
39 14 0.27
40 3 0.06
44 15 0.29
45 17 0.33
46 3 0.06
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (39 bp):
CTATTACACCTCTATTCCATTCAACCAAACAGTAAATTA
Found at i:34282784 original size:45 final size:44
Alignment explanation
Indices: 34282704--34282794 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 44
34282694 ACCTCTATTC
** *
34282704 CATTCAACCAAACATAAGATTACTATTACGTCTCTATTCCATTA
1 CATTCAACCAAACATAAGATTACTATTACACCTCTATTCCAATA
*
34282748 CATTCAACCAAACAGTTAA-TTTACTATTACACCTCTATTCCAATA
1 CATTCAACCAAACA--TAAGATTACTATTACACCTCTATTCCAATA
34282793 CA
1 CA
34282795 CCTCTAATTC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
44 14 0.34
45 24 0.59
46 3 0.07
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.33
Consensus pattern (44 bp):
CATTCAACCAAACATAAGATTACTATTACACCTCTATTCCAATA
Found at i:34282796 original size:16 final size:16
Alignment explanation
Indices: 34282775--34282810 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
34282765 AATTTACTAT
34282775 TACACCTCT-ATTCCAA
1 TACACCTCTAATT-CAA
34282791 TACACCTCTAATTCAA
1 TACACCTCTAATTCAA
34282807 TACA
1 TACA
34282811 GCAAACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATTCAA
Found at i:34286715 original size:20 final size:21
Alignment explanation
Indices: 34286682--34286720 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
34286672 TGAAATACTG
34286682 TTTAAAAAGAAAAA-AAAAGT
1 TTTAAAAAGAAAAAGAAAAGT
34286702 TTTAAAAA-ATAAAAGAAAA
1 TTTAAAAAGA-AAAAGAAAA
34286721 TATTTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 12 0.71
21 4 0.24
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (21 bp):
TTTAAAAAGAAAAAGAAAAGT
Found at i:34286802 original size:15 final size:14
Alignment explanation
Indices: 34286762--34286802 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
34286752 TTAAGAACGG
34286762 AAAAAATTTT-T-A
1 AAAAAATTTTCTAA
34286774 AAAAAATGTTTCTAA
1 AAAAAAT-TTTCTAA
34286789 AATAAAATTTTCTA
1 AA-AAAATTTTCTA
34286803 TATATTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 7 0.28
13 3 0.12
14 1 0.04
15 9 0.36
16 5 0.20
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (14 bp):
AAAAAATTTTCTAA
Found at i:34288127 original size:29 final size:30
Alignment explanation
Indices: 34288085--34288143 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
34288075 AAAATAGATC
* ** *
34288085 AAATCAAAATTTCATGTGTAAAATTACACA
1 AAATCAAAAGTTCAAATATAAAATTACACA
34288115 AAATC-AAAGTTCAAATATAAAATTACACA
1 AAATCAAAAGTTCAAATATAAAATTACACA
34288144 TTAGATCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (30 bp):
AAATCAAAAGTTCAAATATAAAATTACACA
Found at i:34297578 original size:27 final size:27
Alignment explanation
Indices: 34297548--34297615 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
34297538 AGGAGAGTAA
*
34297548 CCCATAGGCGGCACCAAAGGTGCCATT
1 CCCATGGGCGGCACCAAAGGTGCCATT
* * *
34297575 CCCATGGGCAGCACCAATGGTGCCTTT
1 CCCATGGGCGGCACCAAAGGTGCCATT
*
34297602 CCCATGGGTGGCAC
1 CCCATGGGCGGCAC
34297616 TGCCCATGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.18
Consensus pattern (27 bp):
CCCATGGGCGGCACCAAAGGTGCCATT
Found at i:34297683 original size:10 final size:10
Alignment explanation
Indices: 34297668--34297789 Score: 51
Period size: 10 Copynumber: 12.2 Consensus size: 10
34297658 GAAGGAGAGG
34297668 GAAAGAAGAA
1 GAAAGAAGAA
34297678 GAAAG-A-AA
1 GAAAGAAGAA
*
34297686 GAAAGAAAAA
1 GAAAGAAGAA
34297696 GAAAGAA-AA
1 GAAAGAAGAA
* *
34297705 GGAAAGGAGAG
1 -GAAAGAAGAA
*
34297716 GGAAGAAAGAA
1 GAAAG-AAGAA
*
34297727 -AAAGATGGAA
1 GAAAGA-AGAA
*
34297737 -AGGAGAAGAA
1 GA-AAGAAGAA
* *
34297747 CAAAAAAGAAA
1 GAAAGAAG-AA
34297758 GAAA-AAGAA
1 GAAAGAAGAA
34297767 GGAAAGAA-AA
1 -GAAAGAAGAA
*
34297777 GGAAAGGAGAA
1 -GAAAGAAGAA
34297788 GA
1 GA
34297790 GAAAAAAAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 24
0.70 0.10 0.19
Matches are distributed among these distances:
8 7 0.08
9 7 0.08
10 56 0.64
11 17 0.20
ACGTcount: A:0.67, C:0.01, G:0.31, T:0.01
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:34297685 original size:14 final size:14
Alignment explanation
Indices: 34297668--34297774 Score: 69
Period size: 14 Copynumber: 7.5 Consensus size: 14
34297658 GAAGGAGAGG
34297668 GAAAGAAGAAGAAA
1 GAAAGAAGAAGAAA
34297682 GAAAGAAAGAA-AAA
1 GAAAG-AAGAAGAAA
34297696 GAAAGAA-AAGGAAA
1 GAAAGAAGAA-GAAA
* *
34297710 G-GAGAGGGAAGAAA
1 GAAAGA-AGAAGAAA
*
34297724 GAAA-AAGATGGAAA
1 GAAAGAAGA-AGAAA
* *
34297738 GGAGAAGAACAAAAAA
1 -GA-AAGAAGAAGAAA
* *
34297754 GAAAGAAAAAGAAG
1 GAAAGAAGAAGAAA
34297768 GAAAGAA
1 GAAAGAA
34297775 AAGGAAAGGA
Statistics
Matches: 72, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
12 2 0.03
13 7 0.10
14 43 0.60
15 12 0.17
16 5 0.07
17 3 0.04
ACGTcount: A:0.68, C:0.01, G:0.30, T:0.01
Consensus pattern (14 bp):
GAAAGAAGAAGAAA
Found at i:34297721 original size:24 final size:24
Alignment explanation
Indices: 34297654--34297829 Score: 94
Period size: 24 Copynumber: 7.1 Consensus size: 24
34297644 GGGTGAGGGG
*
34297654 AAGAGAAGGAGAGGGAA-AGAAGAAGA
1 AAGA-AAGGAAAGGGAAGA-AAGAA-A
**
34297680 AAGAAA-GAAAGAAAAAGAAAGAAA
1 AAGAAAGGAAAG-GGAAGAAAGAAA
* *
34297704 AGGAAAGGAGAGGGAAGAAAGAAA
1 AAGAAAGGAAAGGGAAGAAAGAAA
*
34297728 AAG-ATGGAAAGGAGAAGAACA-AAA
1 AAGAAAGGAAAGG-GAAGAA-AGAAA
**
34297752 AAGAAA-GAAAAAGAAGGAAAGAAA
1 AAGAAAGGAAAGGGAA-GAAAGAAA
* * * *
34297776 AGGAAAGGAGAAGAGAAAAAAAAAA
1 AAGAAAGGA-AAGGGAAGAAAGAAA
*
34297801 AAGAAGGAGAAGAGGGAAAGAAA-AAA
1 AAGAAAG-GAA-AGGG-AAGAAAGAAA
34297827 AAG
1 AAG
34297830 GTAAATTTTT
Statistics
Matches: 116, Mismatches: 21, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
23 11 0.09
24 49 0.42
25 29 0.25
26 22 0.19
27 5 0.04
ACGTcount: A:0.67, C:0.01, G:0.32, T:0.01
Consensus pattern (24 bp):
AAGAAAGGAAAGGGAAGAAAGAAA
Found at i:34297766 original size:44 final size:45
Alignment explanation
Indices: 34297718--34297805 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 45
34297708 AAGGAGAGGG
* * *
34297718 AAGAAAGAAA-AAGATGGAAAGGAGAAGA-ACAAAAAAGAAAGAAA
1 AAGAAAGAAAGAA-AAGGAAAGGAGAAGAGAAAAAAAAAAAAGAAA
*
34297762 AAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAAAGAA
1 AAGAAAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAAAGAA
34297806 GGAGAAGAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 23 0.61
45 15 0.39
ACGTcount: A:0.72, C:0.01, G:0.26, T:0.01
Consensus pattern (45 bp):
AAGAAAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAAAGAAA
Found at i:34297772 original size:48 final size:49
Alignment explanation
Indices: 34297720--34297826 Score: 125
Period size: 48 Copynumber: 2.2 Consensus size: 49
34297710 GGAGAGGGAA
* *
34297720 GAAAGAAAAAGATGGAAAGGAGAAGA-ACAAAAAAGAAAGAA-A-AAGAAG
1 GAAAGAAAAA-A-GGAAAGGAGAAGAGAAAAAAAAAAAAGAAGAGAAGAAG
*
34297768 GAAAG--AAAAGGAAAGGAGAAGAGAAAAAAAAAAAAGAAGGAGAAGAGG
1 GAAAGAAAAAAGGAAAGGAGAAGAGAAAAAAAAAAAAGAA-GAGAAGAAG
34297816 GAAAGAAAAAA
1 GAAAGAAAAAA
34297827 AAGGTAAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
44 13 0.26
45 14 0.28
46 3 0.06
47 1 0.02
48 15 0.30
50 4 0.08
ACGTcount: A:0.69, C:0.01, G:0.29, T:0.01
Consensus pattern (49 bp):
GAAAGAAAAAAGGAAAGGAGAAGAGAAAAAAAAAAAAGAAGAGAAGAAG
Found at i:34297775 original size:14 final size:13
Alignment explanation
Indices: 34297735--34297796 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 13
34297725 AAAAAGATGG
34297735 AAAGGAGAAGAACAA
1 AAAGGA-AAGAA-AA
*
34297750 AAAAGAAAGAAAA
1 AAAGGAAAGAAAA
34297763 AGAAGGAAAGAAAA
1 A-AAGGAAAGAAAA
34297777 GGAAAGGAGAAGAGAAA
1 --AAAGGA-AAGA-AAA
34297794 AAA
1 AAA
34297797 AAAAAAGAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 3 0.08
14 16 0.40
15 13 0.32
16 5 0.12
17 3 0.08
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (13 bp):
AAAGGAAAGAAAA
Found at i:34297778 original size:72 final size:73
Alignment explanation
Indices: 34297670--34297804 Score: 193
Period size: 72 Copynumber: 1.9 Consensus size: 73
34297660 AGGAGAGGGA
* * * * *
34297670 AAGAAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGGAG-AGGGAAGAAAGAAAAAGATG
1 AAGAACAAAAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAAAGATG
34297734 GAAAGGAG
66 GAAAGGAG
*
34297742 AAGAACAAAAAAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAAAGA
1 AAGAACAAAAAAGAAAGAAAGAA-AAAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAAAGA
34297805 AGGAGAAGAG
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
71 2 0.04
72 38 0.69
73 15 0.27
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.01
Consensus pattern (73 bp):
AAGAACAAAAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAAAGATG
GAAAGGAG
Found at i:34297779 original size:39 final size:40
Alignment explanation
Indices: 34297735--34297813 Score: 92
Period size: 39 Copynumber: 2.0 Consensus size: 40
34297725 AAAAAGATGG
*
34297735 AAAGGAGAAGAACAA-A-AAAGAAAGAAAAAGAAGGA-AAGA
1 AAAGGA-AAGAACAAGAGAAA-AAAAAAAAAGAAGGAGAAGA
* *
34297774 AAAGGAAAGGAGAAGAGAAAAAAAAAAAAGAAGGAGAAGA
1 AAAGGAAAGAACAAGAGAAAAAAAAAAAAGAAGGAGAAGA
34297814 GGGAAAGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
38 6 0.18
39 21 0.62
40 7 0.21
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.00
Consensus pattern (40 bp):
AAAGGAAAGAACAAGAGAAAAAAAAAAAAGAAGGAGAAGA
Found at i:34297825 original size:72 final size:73
Alignment explanation
Indices: 34297663--34297829 Score: 191
Period size: 72 Copynumber: 2.3 Consensus size: 73
34297653 GAAGAGAAGG
* * * *
34297663 AGAGGGAAAGAAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAGGGAAGAAAGAAA
1 AGAGGGAAAGAAAAAGAAAGAAAGAAAG-AAAAGAAAGAAAAGGAAAGGAGAGAGAAAAAAAAAA
*
34297728 AAGATGGAA
65 AAGAAGGAA
*
34297737 AG-GAG-AAGAACAAA-AAAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAA
1 AGAGGGAAAGAA-AAAGAAAGAAAGAAAGAA-AA-GAAAGAAAAGGAAAGGAG-AGAGAAAAAAA
34297798 AAAAAGAAGGAGA
62 AAAAAGAAGGA-A
34297811 AGAGGGAAAGAAAAA-AAAG
1 AGAGGGAAAGAAAAAGAAAG
34297830 GTAAATTTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
70 2 0.03
71 2 0.03
72 34 0.43
73 22 0.28
74 5 0.06
75 9 0.11
76 5 0.06
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.01
Consensus pattern (73 bp):
AGAGGGAAAGAAAAAGAAAGAAAGAAAGAAAAGAAAGAAAAGGAAAGGAGAGAGAAAAAAAAAAA
AGAAGGAA
Found at i:34299190 original size:319 final size:317
Alignment explanation
Indices: 34298161--34299568 Score: 2356
Period size: 320 Copynumber: 4.4 Consensus size: 317
34298151 GTATATTTAA
34298161 TAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTT
1 TAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTT
* * * *
34298226 AAAGTAATAAAATGAGGAGAAAATAATACGAACAAATGGCTAAAGT--A-AGTGTTTTACTAACT
66 AAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCAAAGTAAAGAGTGTTTTACTAACT
** * * ** * *
34298288 TTTTTAAAAATTCAAAAATAAGTAATACAAATATTTTTAATAAAATGTACTAAAATAATATAAAA
131 TTTTTAAAAATTCGGAAATAATTAATACAAAAATTTCAAACAAAATGTACTGAAATAATATAAAA
*
34298353 TAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAGCA
196 TAATAAAATACGAAAATAATATATTTTT-TTGGAAGTAATAAAATTCGGGAAAATAATACGAGCA
34298418 AATGGCAGGAATAAGGGTTTTTTTACACTAAATTAATTTAAAAAACACACTAAATCCC
260 AATGGCAGGAATAAGGGTTTTTTTACACTAAATTAATTTAAAAAACACACTAAATCCC
34298476 TAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTT
1 TAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTT
* *
34298541 AAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACT
66 AAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCAAAGTAAAGAGTGTTTTACTAACT
* * * *
34298606 TTTTTAAAAATTCGGAAATAATTAATAAAAAAATTTTAAACAAAATATACTGAAATAATCTAAAA
131 TTTTTAAAAATTCGGAAATAATTAATACAAAAATTTCAAACAAAATGTACTGAAATAATATAAAA
* *
34298671 TAATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCAGGAAAATAATATGAGCAA
196 TAATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAGCAA
* *
34298736 ATGGCAGGAATAAAGGTTTCTTATTTACGCTAAATTAATTTAAAAAACACACTAAATCCC
261 ATGGCAGGAAT-AAGGGTT-TT-TTTACACTAAATTAATTTAAAAAACACACTAAATCCC
*
34298796 TAAATTTCAAACATAATGCGCTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTT
1 TAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTT
* * *
34298861 AAAATAATAAAATGCGGAGAAAAAAATACAAACAAATGGTCAAATTAAAGAGTGTTTTACTAACT
66 AAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCAAAGTAAAGAGTGTTTTACTAACT
* *
34298926 TTTTTTAAAATTCGGGAATAATTAATACAAAAATTTCAAACAAAATGTACTGAAATAATATAAAA
131 TTTTTAAAAATTCGGAAATAATTAATACAAAAATTTCAAACAAAATGTACTGAAATAATATAAAA
* *
34298991 TAATAAAATACGAAAATAATAT-TTTTTTTGGAAGTAATAAATTTTGGGAAAATAATACGAGCAA
196 TAATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAGCAA
*
34299055 AGGGCAGGAATAAGGGTTTCTTTTTTACACTAAATTAATTTAAAAAACACACTAAATCCC
261 ATGGCAGGAATAAGGG--T-TTTTTTACACTAAATTAATTTAAAAAACACACTAAATCCC
34299115 TAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTT
1 TAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTT
* * *
34299180 AAATTAATAAAATGAGGAGAAAAAAAATACGAACAAATGGTCAAAGTAAAGAGTGTTTTACTAAC
66 AAAATAATAAAATGCGGAG-AAAAAAATACGAACAAATGGCCAAAGTAAAGAGTGTTTTACTAAC
34299245 TTTTTTAAAAATTCGGAAATAATTAATACAAAAATTTCAAACAAAATGTACTGAAATAATATAAA
130 TTTTTTAAAAATTCGGAAATAATTAATACAAAAATTTCAAACAAAATGTACTGAAATAATATAAA
34299310 ATAATAAAATACGAAAATAATATATATTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAGC
195 ATAATAAAATACGAAAATAATATAT-TTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAGC
*
34299375 AAAAGGCAGGAATAAGGGTTTTTTTACACTAAATTAATTTAAAAAACACACTAAATCCC
259 AAATGGCAGGAATAAGGGTTTTTTTACACTAAATTAATTTAAAAAACACACTAAATCCC
*
34299434 TAAATTTCAAACATAATGCACTAAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTT
1 TAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTT
* *
34299499 AAAATAATAAAATGCGGAGAAAAAAATTCGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACT
66 AAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCAAAGTAAAGAGTGTTTTACTAACT
34299564 TTTTT
131 TTTTT
34299569 TTCAACTTGT
Statistics
Matches: 1027, Mismatches: 54, Indels: 21
0.93 0.05 0.02
Matches are distributed among these distances:
315 107 0.10
317 46 0.04
318 156 0.15
319 288 0.28
320 374 0.36
321 2 0.00
322 54 0.05
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.31
Consensus pattern (317 bp):
TAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTT
AAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCAAAGTAAAGAGTGTTTTACTAACT
TTTTTAAAAATTCGGAAATAATTAATACAAAAATTTCAAACAAAATGTACTGAAATAATATAAAA
TAATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAGCAA
ATGGCAGGAATAAGGGTTTTTTTACACTAAATTAATTTAAAAAACACACTAAATCCC
Found at i:34304656 original size:40 final size:41
Alignment explanation
Indices: 34304589--34304688 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 41
34304579 AATAGTTTTA
* * * *
34304589 TACTCAAAATAATAGTAA-C-TAACAATAATAAATAGGGTTT
1 TACTAAAAATAATACTAACCATAATAATAAT-ACTAGGGTTT
**
34304629 TACTAAAAATAATAACTAACCATAATAATAATACTAGTTTTT
1 TACTAAAAATAAT-ACTAACCATAATAATAATACTAGGGTTT
*
34304671 TACTAACAATAATACTAA
1 TACTAAAAATAATACTAA
34304689 GTAACATCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
40 12 0.24
41 9 0.18
42 20 0.40
43 9 0.18
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (41 bp):
TACTAAAAATAATACTAACCATAATAATAATACTAGGGTTT
Found at i:34304719 original size:3 final size:3
Alignment explanation
Indices: 34304711--34304750 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
34304701 CCCTAAAAAC
34304711 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
34304751 TAAAACTACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:34305025 original size:27 final size:27
Alignment explanation
Indices: 34304987--34305054 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
34304977 AACACGAGTG
*
34304987 GTGCTGCCCATGGGAAAGGCACCATCA
1 GTGCCGCCCATGGGAAAGGCACCATCA
* * **
34305014 GTGCCGCCCATGGGAATGGCACCTTTG
1 GTGCCGCCCATGGGAAAGGCACCATCA
*
34305041 GTGCCGCCTATGGG
1 GTGCCGCCCATGGG
34305055 TTACCCTCCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.18, C:0.29, G:0.34, T:0.19
Consensus pattern (27 bp):
GTGCCGCCCATGGGAAAGGCACCATCA
Found at i:34305926 original size:11 final size:10
Alignment explanation
Indices: 34305901--34305925 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34305891 TCTGTTACCA
34305901 TTTTTAAAAT
1 TTTTTAAAAT
34305911 TTTTTAAAAT
1 TTTTTAAAAT
34305921 TTTTT
1 TTTTT
34305926 TGTTTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:34307227 original size:20 final size:20
Alignment explanation
Indices: 34307202--34307246 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34307192 AATTATATTT
*
34307202 TAAAATAATAATTTTATAAA
1 TAAAATAATAATCTTATAAA
**
34307222 TAAAATGTTAATCTTATAAA
1 TAAAATAATAATCTTATAAA
34307242 TAAAA
1 TAAAA
34307247 CAATTTAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:34308399 original size:27 final size:28
Alignment explanation
Indices: 34308368--34308428 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
34308358 ATTTTTTAAT
34308368 TATTTA-TAATGATAATAATTGAAAAATA
1 TATTTATTAAT-ATAATAATTGAAAAATA
* *
34308396 -ATTTATTAATTTAATAATTTAAAAATA
1 TATTTATTAATATAATAATTGAAAAATA
34308423 TATTTA
1 TATTTA
34308429 CAATTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (28 bp):
TATTTATTAATATAATAATTGAAAAATA
Found at i:34308433 original size:27 final size:27
Alignment explanation
Indices: 34308380--34308436 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
34308370 TTTATAATGA
*
34308380 TAATAATTGAAAAATAATTTATTAATT
1 TAATAATTGAAAAATAATTTATCAATT
*
34308407 TAATAATTTAAAAATATATTTA-CAATT
1 TAATAATTGAAAAATA-ATTTATCAATT
34308434 TAA
1 TAA
34308437 AAAATTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
TAATAATTGAAAAATAATTTATCAATT
Found at i:34309715 original size:24 final size:24
Alignment explanation
Indices: 34309668--34309714 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
34309658 TTATGTAATT
34309668 TTTTAATATATCTATAAAATTATA
1 TTTTAATATATCTATAAAATTATA
*
34309692 TTTTAAT-TAT-TATAAAAATATA
1 TTTTAATATATCTATAAAATTATA
34309714 T
1 T
34309715 AGCGCAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 3 0.14
24 7 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTTAATATATCTATAAAATTATA
Found at i:34309856 original size:5 final size:6
Alignment explanation
Indices: 34309842--34309866 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
34309832 GTATACATTC
34309842 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
34309867 TACAACTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:34322932 original size:147 final size:150
Alignment explanation
Indices: 34322726--34323119 Score: 419
Period size: 158 Copynumber: 2.6 Consensus size: 150
34322716 GGCGAGTCGG
* * *
34322726 GTTAGCATTTGAGGTTATATACTCTAATGCTTAATT-TCGTAATTTTTATGCTGAATTATTTGTG
1 GTTAGCATTTTAGGTGATAT-C-CTAATGCTTAATTAT-GTAATTCTTATGCTGAATTATTTGTG
* * *
34322790 ATTTAATGGA-TTACTCTTTATTTTCA-TTT-T-TTTCTCGTT-CAATTTAGTTTGATTATAAGC
63 GTTTAATGGATTTACTCTTTATTTTAATTTTGTGTTTATCGTTGC-ATTTAGTTTGATTATAAGC
34322850 TTATGAAGGAATTAA-ACGATTTCGCA
127 TTATGAAGGAA-TAAGACGATTT-G-A
* *
34322876 G-TAGCATTTTAGTTGATATCCTAATGCTTAATTATGTAATTCTTATGCTGAATTATTTGCGGTT
1 GTTAGCATTTTAGGTGATATCCTAATGCTTAATTATGTAATTCTTATGCTGAATTATTTGTGGTT
** *
34322940 TAATGGATTTTACTCTCTGTTCAATGCTAATTTTTGTGTTTATTGTTGCATTTAGTTTGATTATA
66 TAATGGA-TTTA--CTCT-TT--ATTTTAA-TTTTGTGTTTATCGTTGCATTTAGTTTGATTATA
* *
34323005 AGCTTATGATGGAATAAGGGCGATTTGA
124 AGCTTATGAAGGAATAA-GACGATTTGA
** * *
34323033 GTTTTCATTTTGGGTGATATCCTGAA-GCTTAATTATGTAATTCTTATGCTGAATGATTTGTGGT
1 GTTAGCATTTTAGGTGATATCCT-AATGCTTAATTATGTAATTCTTATGCTGAATTATTTGTGGT
34323097 TTAATGGATTTTACTCTTTATTT
65 TTAATGGA-TTTACTCTTTATTT
34323120 GCAAATTAGG
Statistics
Matches: 206, Mismatches: 21, Indels: 31
0.80 0.08 0.12
Matches are distributed among these distances:
147 46 0.22
148 2 0.01
149 18 0.09
150 1 0.00
151 4 0.02
152 2 0.01
153 2 0.01
154 4 0.02
155 2 0.01
156 7 0.03
157 6 0.03
158 103 0.50
159 9 0.04
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (150 bp):
GTTAGCATTTTAGGTGATATCCTAATGCTTAATTATGTAATTCTTATGCTGAATTATTTGTGGTT
TAATGGATTTACTCTTTATTTTAATTTTGTGTTTATCGTTGCATTTAGTTTGATTATAAGCTTAT
GAAGGAATAAGACGATTTGA
Found at i:34324605 original size:7 final size:7
Alignment explanation
Indices: 34324595--34324655 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
34324585 CCCTAAATCA
34324595 TAAATAT
1 TAAATAT
*
34324602 TAAATCT
1 TAAATAT
**
34324609 TAAACCT
1 TAAATAT
*
34324616 TAAATAC
1 TAAATAT
*
34324623 TAAATAC
1 TAAATAT
*
34324630 TAAATTT
1 TAAATAT
*
34324637 TAAATTT
1 TAAATAT
*
34324644 TAAATTT
1 TAAATAT
34324651 TAAAT
1 TAAAT
34324656 TCTAATATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (7 bp):
TAAATAT
Found at i:34324609 original size:28 final size:28
Alignment explanation
Indices: 34324573--34324640 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
34324563 ATCCTACATC
* *
34324573 CTAAGTCTTATACCCTAAAT-CATAAATA
1 CTAAATCTTAAACCCTAAATAC-TAAATA
* *
34324601 TTAAATCTTAAACCTTAAATACTAAATA
1 CTAAATCTTAAACCCTAAATACTAAATA
*
34324629 CTAAATTTTAAA
1 CTAAATCTTAAA
34324641 TTTTAAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.35
Consensus pattern (28 bp):
CTAAATCTTAAACCCTAAATACTAAATA
Found at i:34324619 original size:21 final size:21
Alignment explanation
Indices: 34324595--34324654 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
34324585 CCCTAAATCA
34324595 TAAATATTAAATCTTAAACCT
1 TAAATATTAAATCTTAAACCT
* **
34324616 TAAATACTAAATAC-TAAATTT
1 TAAATATTAAAT-CTTAAACCT
* *
34324637 TAAATTTTAAATTTTAAA
1 TAAATATTAAATCTTAAA
34324655 TTCTAATATT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATATTAAATCTTAAACCT
Found at i:34324656 original size:7 final size:7
Alignment explanation
Indices: 34324630--34324656 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
34324620 TACTAAATAC
34324630 TAAATTT
1 TAAATTT
34324637 TAAATTT
1 TAAATTT
34324644 TAAATTT
1 TAAATTT
34324651 TAAATT
1 TAAATT
34324657 CTAATATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAAATTT
Found at i:34326772 original size:32 final size:31
Alignment explanation
Indices: 34326731--34326840 Score: 87
Period size: 32 Copynumber: 3.5 Consensus size: 31
34326721 TTCATGGAGT
34326731 AAGAGTAAGCCTGTCAAAGTGCAAGTCTGTTG
1 AAGAGTAAGCCTGTCAAAGTGCAAG-CTGTTG
*** * * * *
34326763 AAGAGTAAGCC-AAAAAAGTGTAGGCCTATCG
1 AAGAGTAAGCCTGTCAAAGTGCAAG-CTGTTG
* * *
34326794 AAGAGTGAGCCTGTCAAAATGCAAGCATGTTA
1 AAGAGTAAGCCTGTCAAAGTGCAAGC-TGTTG
*
34326826 AAGAGCAAGCCTGTC
1 AAGAGTAAGCCTGTC
34326841 GAAAAACAAG
Statistics
Matches: 56, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
31 23 0.41
32 33 0.59
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.20
Consensus pattern (31 bp):
AAGAGTAAGCCTGTCAAAGTGCAAGCTGTTG
Found at i:34326932 original size:28 final size:28
Alignment explanation
Indices: 34326882--34326969 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 28
34326872 TTGGTGAAAG
* * * *
34326882 CCAAAGTGGCGGACAATCTAAGTGCAAA
1 CCAAAATGACGGACAGTCCAAGTGCAAA
** *
34326910 CCAAAATGGTGGACAGTTCAAGT--AAA
1 CCAAAATGACGGACAGTCCAAGTGCAAA
* *
34326936 GCCAAAATGACGGGCAGTCCAAGTGCAAG
1 -CCAAAATGACGGACAGTCCAAGTGCAAA
34326965 CCAAA
1 CCAAA
34326970 GTGGCAGGTA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
26 3 0.06
27 19 0.40
28 23 0.49
29 2 0.04
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.14
Consensus pattern (28 bp):
CCAAAATGACGGACAGTCCAAGTGCAAA
Found at i:34327287 original size:45 final size:45
Alignment explanation
Indices: 34327230--34327342 Score: 154
Period size: 45 Copynumber: 2.5 Consensus size: 45
34327220 GGCAGCTCAA
* * *
34327230 GTGCAAGCCAAAGTGGCGGATAATCTAAATGCAAGCCAAAAGTGG
1 GTGCAAGCCAAAGTGGCAGACAATCTAAATACAAGCCAAAAGTGG
* * *
34327275 GTGTAATCCAAAGTGGCAGACAGTCTAAATACAAGCCAAAAGTGG
1 GTGCAAGCCAAAGTGGCAGACAATCTAAATACAAGCCAAAAGTGG
* *
34327320 GTGCAAGCCAAAATGACAGACAA
1 GTGCAAGCCAAAGTGGCAGACAA
34327343 CCCAAGTGAA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.15
Consensus pattern (45 bp):
GTGCAAGCCAAAGTGGCAGACAATCTAAATACAAGCCAAAAGTGG
Found at i:34327292 original size:73 final size:72
Alignment explanation
Indices: 34327147--34327319 Score: 202
Period size: 73 Copynumber: 2.3 Consensus size: 72
34327137 CAAAATGAGG
* * *
34327147 GACAGTTCAAGTTCAAGCCAAAGTGGCAGACAATCTAAATGTAAGCCAAAAGTGAGTGCAAGCTA
1 GACAG-TCAAGTACAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTGAGTGCAAGCCA
34327212 AAATGGCA
65 AAATGGCA
* * * * * * *
34327220 GGCAGCTCAAGTGCAAGCCAAAGTGGCGGATAATCTAAATGCAAGCCAAAAGTGGGTGTAATCCA
1 GACAG-TCAAGTACAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTGAGTGCAAGCCA
*
34327285 AAGTGGCA
65 AAATGGCA
*
34327293 GACAGTCTAAATACAAGCCAAAAGTGG
1 GACAGTC-AAGTACAAGCC-AAAGTGG
34327320 GTGCAAGCCA
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
72 2 0.02
73 75 0.89
74 7 0.08
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.17
Consensus pattern (72 bp):
GACAGTCAAGTACAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTGAGTGCAAGCCAA
AATGGCA
Found at i:34327375 original size:118 final size:118
Alignment explanation
Indices: 34327164--34327387 Score: 313
Period size: 118 Copynumber: 1.9 Consensus size: 118
34327154 CAAGTTCAAG
** * * * * *
34327164 CCAAAGTGGCAGACAATCTAAATGTAAGCCAAAAGTGAGTGCAAGCTAAAATGGCAGGCAGCTCA
1 CCAAAGTGGCAGACAATCTAAATACAAGCCAAAAGTGAGTGCAAGCCAAAATGACAGACAACCCA
* ** * *
34327229 AGTGCAAGCCAAAGTGGCGGATAATCTAAATGCAAGCCAAAAGTGGGTGTAAT
66 AGTGAAAGCCAAAGCAGCAGACAATCTAAATGCAAGCCAAAAGTGGGTGTAAT
* *
34327282 CCAAAGTGGCAGACAGTCTAAATACAAGCCAAAAGTGGGTGCAAGCCAAAATGACAGACAACCCA
1 CCAAAGTGGCAGACAATCTAAATACAAGCCAAAAGTGAGTGCAAGCCAAAATGACAGACAACCCA
*
34327347 AGTGAAAGCCAAAGCAGCAGACAGTCTAAATGCAAGCCAAA
66 AGTGAAAGCCAAAGCAGCAGACAATCTAAATGCAAGCCAAA
34327388 GTTGGTGCCA
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
118 91 1.00
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.14
Consensus pattern (118 bp):
CCAAAGTGGCAGACAATCTAAATACAAGCCAAAAGTGAGTGCAAGCCAAAATGACAGACAACCCA
AGTGAAAGCCAAAGCAGCAGACAATCTAAATGCAAGCCAAAAGTGGGTGTAAT
Found at i:34333286 original size:28 final size:28
Alignment explanation
Indices: 34333245--34333300 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
34333235 ATAGTCTAAA
34333245 TGCAAGCCAAAGTGGCAGACAATCCAAG
1 TGCAAGCCAAAGTGGCAGACAATCCAAG
* *
34333273 TGCAAGCCAGAGTGGCAGACAGTCCAAG
1 TGCAAGCCAAAGTGGCAGACAATCCAAG
34333301 CAAAAGACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.25, G:0.29, T:0.11
Consensus pattern (28 bp):
TGCAAGCCAAAGTGGCAGACAATCCAAG
Found at i:34336743 original size:23 final size:23
Alignment explanation
Indices: 34336682--34336743 Score: 56
Period size: 23 Copynumber: 2.6 Consensus size: 23
34336672 ATTTTTGTCA
*
34336682 TAAAATATATAATTAATAAAAATAC
1 TAAAATATAT--TAAATAAAAATAC
*
34336707 TAAAAT-TTTGTAAATAAAATATAC
1 TAAAATATAT-TAAATAAAA-ATAC
34336731 -AAAATATATTAAA
1 TAAAATATATTAAA
34336744 AATACACAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 17 0.55
24 8 0.26
25 6 0.19
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (23 bp):
TAAAATATATTAAATAAAAATAC
Found at i:34336803 original size:19 final size:19
Alignment explanation
Indices: 34336775--34336826 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
34336765 TAAATTAAAC
* **
34336775 AAAATTTTGGTATCTTTTA
1 AAAATATTGGTATCAATTA
34336794 AAAATATTGGTATTCAATTA
1 AAAATATTGGTA-TCAATTA
*
34336814 GAAATATTGGTAT
1 AAAATATTGGTAT
34336827 TTGGTTAGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (19 bp):
AAAATATTGGTATCAATTA
Found at i:34337028 original size:20 final size:19
Alignment explanation
Indices: 34336977--34337028 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
34336967 ACCATGATTG
* *
34336977 AAATATTGGTATTTAGTTAT
1 AAATTTTGGTA-TTAGTTAA
* *
34336997 AAATTCTAGTATTAGATTAA
1 AAATTTTGGTATTAG-TTAA
34337017 AAATTTTGGTAT
1 AAATTTTGGTAT
34337029 CCATTATCAG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.46
Consensus pattern (19 bp):
AAATTTTGGTATTAGTTAA
Found at i:34337550 original size:11 final size:10
Alignment explanation
Indices: 34337512--34337550 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
34337502 TTTTATAATA
34337512 TATTTTTATAT
1 TATTTTTAT-T
34337523 T-TTTTTATT
1 TATTTTTATT
34337532 TATTTTTATT
1 TATTTTTATT
34337542 TGATTTTTA
1 T-ATTTTTA
34337551 AATTTTAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 16 0.62
11 8 0.31
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (10 bp):
TATTTTTATT
Found at i:34337555 original size:23 final size:23
Alignment explanation
Indices: 34337500--34337555 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 23
34337490 GGGTTTTGGA
*
34337500 ATTTTTATAATATATTTTTATATT
1 ATTTTTA-AATTTATTTTTATATT
34337524 -TTTTT--ATTTATTTTTAT-TT
1 ATTTTTAAATTTATTTTTATATT
34337543 GATTTTTAAATTT
1 -ATTTTTAAATTT
34337556 TAACAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 9
0.73 0.03 0.24
Matches are distributed among these distances:
19 2 0.07
20 11 0.41
21 5 0.19
23 9 0.33
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (23 bp):
ATTTTTAAATTTATTTTTATATT
Found at i:34348560 original size:19 final size:20
Alignment explanation
Indices: 34348536--34348576 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
34348526 AGTAACCCAG
* *
34348536 TAAAATTTTTAAATA-ATTT
1 TAAAATATTGAAATACATTT
34348555 TAAAATATTGAAATACATTT
1 TAAAATATTGAAATACATTT
34348575 TA
1 TA
34348577 TATAAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
TAAAATATTGAAATACATTT
Found at i:34360303 original size:75 final size:75
Alignment explanation
Indices: 34360180--34360325 Score: 256
Period size: 75 Copynumber: 1.9 Consensus size: 75
34360170 AACACTTGGG
*
34360180 TGATGTGTCCCCAAATCCCTTGGCTTGTTGTGTTCACATTTACCTTATGAGAAATTTAGTTATGT
1 TGATGAGTCCCCAAATCCCTTGGCTTGTTGTGTTCACATTTACCTTATGAGAAATTTAGTTATGT
34360245 CGGAATAGCT
66 CGGAATAGCT
* * *
34360255 TGATGAGTCCCCAAATCCCTTGGCTTGTTGTGTTCACATTTACCTTATGGGAAATTTGGTTTTGT
1 TGATGAGTCCCCAAATCCCTTGGCTTGTTGTGTTCACATTTACCTTATGAGAAATTTAGTTATGT
34360320 CGGAAT
66 CGGAAT
34360326 GCCTTGGTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (75 bp):
TGATGAGTCCCCAAATCCCTTGGCTTGTTGTGTTCACATTTACCTTATGAGAAATTTAGTTATGT
CGGAATAGCT
Found at i:34361087 original size:30 final size:30
Alignment explanation
Indices: 34361041--34361164 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
34361031 TTTTATTATG
*
34361041 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
34361072 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
34361102 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * * *
34361132 CTATTATTTGATACCCATATCTTTTATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
34361162 CCA
1 CCA
34361165 TAAATATGGA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 80 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:34361096 original size:15 final size:15
Alignment explanation
Indices: 34361051--34361155 Score: 72
Period size: 15 Copynumber: 7.0 Consensus size: 15
34361041 CCAATATCTC
34361051 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
34361066 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
34361081 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
34361096 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
34361111 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
34361126 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
34361141 GATACCCATATCTTT
1 GATACCCATATCTTT
34361156 TATTTTCCAT
Statistics
Matches: 64, Mismatches: 20, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
14 12 0.19
15 40 0.62
16 12 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:34365723 original size:30 final size:30
Alignment explanation
Indices: 34365677--34365800 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
34365667 TTTTATTATG
*
34365677 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
34365708 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
34365738 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * * *
34365768 CTATTATTTGATACCCATATCTTTTATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
34365798 CCA
1 CCA
34365801 TAAATATGGA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 80 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:34365732 original size:15 final size:15
Alignment explanation
Indices: 34365687--34365791 Score: 72
Period size: 15 Copynumber: 7.0 Consensus size: 15
34365677 CCAATATCTC
34365687 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
34365702 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
34365717 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
34365732 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
34365747 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
34365762 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
34365777 GATACCCATATCTTT
1 GATACCCATATCTTT
34365792 TATTTTCCAT
Statistics
Matches: 64, Mismatches: 20, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
14 12 0.19
15 40 0.62
16 12 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:34369200 original size:207 final size:206
Alignment explanation
Indices: 34368845--34369243 Score: 669
Period size: 207 Copynumber: 1.9 Consensus size: 206
34368835 ACTTTGGTGC
* *
34368845 AAGTGCTGTATGCTTTTCTTAAAAAGAGAAAGAACGAAAGTTTTGTTTGTATACCACAAAAGGCT
1 AAGTGCTGTATGCTTTTCTTAAAAAGAAAAAGAAAGAAAGTTTTGTTTGTATACCACAAAAGGC-
34368910 CTCCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCCTTTGATCCTTCCAG
65 CTCCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCCTTTGATCCTTCCAG
34368975 GAAGCATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATTTGGTATTTGTCCCAA
130 GAAGCATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATTTGGTATTTGTCCCAA
34369040 TAAACTTTGTCA
195 TAAACTTTGTCA
34369052 AAGTGCTGTATGCTTTTCTTAAAAAGCGAAAAAGAATAG-AAGTTTTGTTTGTATACCACAAAAG
1 AAGTGCTGTATGCTTTTCTTAAAAA--GAAAAAGAA-AGAAAGTTTTGTTTGTATACCACAAAAG
* *
34369116 G-CT-CGTCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCTGGTTCTCACCCTTTTGATCCTTC
63 GCCTCCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCC-TTTGATCCTTC
* * *
34369179 CGGGAAGCATCAGAATCTGGTGATACACTTCTTGCATTGCTAGGATCAGCGTTTGGTATTTGTCC
127 CAGGAAGCATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATTTGGTATTTGTCC
34369244 GGTAGATTTT
Statistics
Matches: 181, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
206 46 0.25
207 100 0.55
209 34 0.19
210 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (206 bp):
AAGTGCTGTATGCTTTTCTTAAAAAGAAAAAGAAAGAAAGTTTTGTTTGTATACCACAAAAGGCC
TCCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCCTTTGATCCTTCCAGG
AAGCATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATTTGGTATTTGTCCCAAT
AAACTTTGTCA
Found at i:34369502 original size:24 final size:24
Alignment explanation
Indices: 34369473--34369535 Score: 65
Period size: 27 Copynumber: 2.5 Consensus size: 24
34369463 CACCTCTTTA
*
34369473 TCTTTCTCCTCTTCTTCTTGCTTC
1 TCTTTCTCCTCTTCTTCGTGCTTC
*
34369497 -CTTTTCATTTCTTCTTCTTCGTGCTTC
1 TC-TTTC---TCCTCTTCTTCGTGCTTC
34369524 TCTTTCTCCTCT
1 TCTTTCTCCTCT
34369536 AGCTCCTGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
23 1 0.03
24 9 0.29
27 20 0.65
28 1 0.03
ACGTcount: A:0.02, C:0.35, G:0.05, T:0.59
Consensus pattern (24 bp):
TCTTTCTCCTCTTCTTCGTGCTTC
Found at i:34372386 original size:17 final size:17
Alignment explanation
Indices: 34372348--34372387 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
34372338 TTAAAAAAAA
34372348 CTGA-ACATACCCGTGT
1 CTGACACATACCCGTGT
**
34372364 AGGACACATACCCGTGT
1 CTGACACATACCCGTGT
34372381 CTGACAC
1 CTGACAC
34372388 GCAACCATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.28, C:0.33, G:0.20, T:0.20
Consensus pattern (17 bp):
CTGACACATACCCGTGT
Found at i:34374075 original size:14 final size:14
Alignment explanation
Indices: 34374056--34374083 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34374046 AACTTAAGAA
34374056 ACATAGCACCACAT
1 ACATAGCACCACAT
34374070 ACATAGCACCACAT
1 ACATAGCACCACAT
34374084 TAGAAATGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.36, G:0.07, T:0.14
Consensus pattern (14 bp):
ACATAGCACCACAT
Found at i:34392446 original size:15 final size:15
Alignment explanation
Indices: 34392426--34392456 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34392416 TCTTAGTTTC
34392426 ACTAACCCAATTTTT
1 ACTAACCCAATTTTT
*
34392441 ACTAACCCGATTTTT
1 ACTAACCCAATTTTT
34392456 A
1 A
34392457 GGATGTGATG
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:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (15 bp):
ACTAACCCAATTTTT
Found at i:34403640 original size:43 final size:43
Alignment explanation
Indices: 34403590--34403675 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
34403580 TACAGTCCAT
34403590 CATTTGTATATAAATGACATGCATACATTTCATACACTAACAC
1 CATTTGTATATAAATGACATGCATACATTTCATACACTAACAC
34403633 CATTTGTATATAAATGACATGCATACATTTCATACACTAACAC
1 CATTTGTATATAAATGACATGCATACATTTCATACACTAACAC
34403676 TCAAGCAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.33
Consensus pattern (43 bp):
CATTTGTATATAAATGACATGCATACATTTCATACACTAACAC
Found at i:34417288 original size:6 final size:6
Alignment explanation
Indices: 34417277--34417305 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
34417267 TTAAAAAATA
34417277 TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATAT
34417306 ATATTTACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:34425001 original size:20 final size:19
Alignment explanation
Indices: 34424976--34425020 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
34424966 TGTTTTGAAA
*
34424976 AAAATTACAAAATAATCTTT
1 AAAATT-CAAAATAATCATT
* *
34424996 AAAATTCCAAATATTCATT
1 AAAATTCAAAATAATCATT
34425015 AAAATT
1 AAAATT
34425021 TCTATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTCAAAATAATCATT
Found at i:34428253 original size:29 final size:29
Alignment explanation
Indices: 34428193--34428253 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
34428183 CCAGAATAAA
** *
34428193 AAATATAAACTCGAAATATGGGTTTGACT
1 AAATATAAACTCGAAATATGAATTTAACT
** *
34428222 AAATATAGGCTCGAAATATGAATTTAAGT
1 AAATATAAACTCGAAATATGAATTTAACT
34428251 AAA
1 AAA
34428254 AAAATAAAGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (29 bp):
AAATATAAACTCGAAATATGAATTTAACT
Found at i:34431888 original size:2 final size:2
Alignment explanation
Indices: 34431881--34431905 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34431871 ATCAAACTTT
34431881 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
34431906 TAAATTTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34442462 original size:46 final size:46
Alignment explanation
Indices: 34442384--34442659 Score: 398
Period size: 46 Copynumber: 6.0 Consensus size: 46
34442374 ACATTGCTAT
*
34442384 AACTCAGTATGGTTTTCTTCATGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATCGAAATACCATACCTACTTTTCAC
*
34442430 AACTCAGTATGGTTTTCTTCA-CTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATC-GAAATACCATACCTACTTTTCAC
* *
34442476 AACTCAGTATGGTTTTCTTCA-CTGAAACACCATACTTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATC-GAAATACCATACCTACTTTTCAC
* * *
34442522 AACTCAGTATGG-TTTCTTTATCGAAATAACATACTTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATCGAAATACCATACCTACTTTTCAC
* * *
34442567 AACTCAGTATGATTTTCTTTATCGAAATACCATACCTATTTTTCAC
1 AACTCAGTATGGTTTTCTTCATCGAAATACCATACCTACTTTTCAC
*
34442613 AACTCAGTATGGTTTTCTTCA-CTGAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCATC-GAAATACCATACCTACTTTTCAC
34442659 A
1 A
34442660 CTTTGCCATG
Statistics
Matches: 212, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
45 40 0.19
46 172 0.81
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCATCGAAATACCATACCTACTTTTCAC
Found at i:34442645 original size:137 final size:138
Alignment explanation
Indices: 34442384--34442659 Score: 430
Period size: 137 Copynumber: 2.0 Consensus size: 138
34442374 ACATTGCTAT
* * *
34442384 AACTCAGTATGGTTTTCTTCATGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
1 AACTCAGTATGGTTTTCTTCATCGAAATAACATACCTACTTTTCACAACTCAGTATGATTTTCTT
*
34442449 CACTGAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCACTGAAACACCATACTTA
66 CACTGAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCACTGAAACACCATACCTA
*
34442514 CTTTTCAC
131 CGTTTCAC
* *
34442522 AACTCAGTATGG-TTTCTTTATCGAAATAACATACTTACTTTTCACAACTCAGTATGATTTTCTT
1 AACTCAGTATGGTTTTCTTCATCGAAATAACATACCTACTTTTCACAACTCAGTATGATTTTCTT
* * * *
34442586 TA-TCGAAATACCATACCTATTTTTCACAACTCAGTATGGTTTTCTTCACTGAAATACCATACCT
66 CACT-GAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCACTGAAACACCATACCT
34442650 ACGTTTCAC
130 ACGTTTCAC
34442659 A
1 A
34442660 CTTTGCCATG
Statistics
Matches: 126, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
136 1 0.01
137 113 0.90
138 12 0.10
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.37
Consensus pattern (138 bp):
AACTCAGTATGGTTTTCTTCATCGAAATAACATACCTACTTTTCACAACTCAGTATGATTTTCTT
CACTGAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCACTGAAACACCATACCTA
CGTTTCAC
Found at i:34448944 original size:16 final size:16
Alignment explanation
Indices: 34448901--34448956 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
34448891 TATTGAATTT
*
34448901 TTATATTTTGTATTATTT
1 TTATATTTT-TA-TATTC
* * *
34448919 TTTTACTTTTATATTG
1 TTATATTTTTATATTC
34448935 TTATATTTTTATATTC
1 TTATATTTTTATATTC
34448951 TTATAT
1 TTATAT
34448957 ATCTTTAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 23 0.72
17 2 0.06
18 7 0.22
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (16 bp):
TTATATTTTTATATTC
Found at i:34450767 original size:12 final size:13
Alignment explanation
Indices: 34450749--34450788 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
34450739 TAAAAATCAT
34450749 AAAAA-TTATAAA
1 AAAAAGTTATAAA
* *
34450761 CAAAATTTATAAA
1 AAAAAGTTATAAA
34450774 AAAAAGTTATAAA
1 AAAAAGTTATAAA
34450787 AA
1 AA
34450789 TTTTATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (13 bp):
AAAAAGTTATAAA
Found at i:34454277 original size:17 final size:18
Alignment explanation
Indices: 34454257--34454294 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
34454247 TATAAATACC
34454257 TTTTAAT-A-TTTATGTTT
1 TTTTAATAACTTTAT-TTT
34454274 TTTTAATAACTTTATTTT
1 TTTTAATAACTTTATTTT
34454292 TTT
1 TTT
34454295 GTTATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 7 0.37
19 5 0.26
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTAATAACTTTATTTT
Found at i:34455482 original size:17 final size:17
Alignment explanation
Indices: 34455439--34455509 Score: 58
Period size: 16 Copynumber: 4.3 Consensus size: 17
34455429 TCAAAGTTGT
* *
34455439 AAAATAATATAGTATTA
1 AAAATAATAAAATATTA
* *
34455456 AAAAT-TTAAAATCTTA
1 AAAATAATAAAATATTA
*
34455472 AAAATAATAAAATAAT-
1 AAAATAATAAAATATTA
*
34455488 AAAATTATAAAAT-TATA
1 AAAATAATAAAATAT-TA
34455505 AAAAT
1 AAAAT
34455510 TCAAAAATAA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
16 25 0.60
17 17 0.40
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (17 bp):
AAAATAATAAAATATTA
Found at i:34455483 original size:8 final size:8
Alignment explanation
Indices: 34455472--34455507 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
34455462 TAAAATCTTA
34455472 AAAATAAT
1 AAAATAAT
34455480 AAAATAAT
1 AAAATAAT
*
34455488 AAAATTAT
1 AAAATAAT
*
34455496 AAAATTAT
1 AAAATAAT
34455504 AAAA
1 AAAA
34455508 ATTCAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
AAAATAAT
Found at i:34455510 original size:17 final size:17
Alignment explanation
Indices: 34455454--34455510 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 17
34455444 AATATAGTAT
34455454 TAAAAATT-TAAAATCT-
1 TAAAAATTATAAAAT-TA
* *
34455470 TAAAAATAATAAAATAA
1 TAAAAATTATAAAATTA
34455487 T-AAAATTATAAAATTA
1 TAAAAATTATAAAATTA
34455503 TAAAAATT
1 TAAAAATT
34455511 CAAAAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
16 21 0.62
17 13 0.38
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAATTATAAAATTA
Found at i:34455558 original size:7 final size:7
Alignment explanation
Indices: 34455546--34455570 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34455536 TTTTTATTTA
34455546 AAATAAT
1 AAATAAT
34455553 AAATAAT
1 AAATAAT
34455560 AAATAAT
1 AAATAAT
34455567 AAAT
1 AAAT
34455571 TCTCTAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:34458623 original size:13 final size:15
Alignment explanation
Indices: 34458576--34458606 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
34458566 TTTTTTAAAA
34458576 TTTAAAAAATATATT
1 TTTAAAAAATATATT
34458591 TTTAAAAAATAT-TT
1 TTTAAAAAATATATT
34458605 TT
1 TT
34458607 AAATTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTAAAAAATATATT
Found at i:34471760 original size:14 final size:14
Alignment explanation
Indices: 34471742--34471782 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
34471732 TAAATTTTTT
34471742 AAATTTAATTCGAA
1 AAATTTAATTCGAA
* *
34471756 CAATTTAATTCAAA
1 AAATTTAATTCGAA
*
34471770 AAATTTCATTCGA
1 AAATTTAATTCGA
34471783 TTCAACTTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (14 bp):
AAATTTAATTCGAA
Found at i:34475640 original size:7 final size:7
Alignment explanation
Indices: 34475630--34475654 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34475620 ATTCACTTAA
34475630 ATTAATT
1 ATTAATT
34475637 ATTAATT
1 ATTAATT
34475644 ATTAATT
1 ATTAATT
34475651 ATTA
1 ATTA
34475655 GTTTTAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATTAATT
Found at i:34478993 original size:56 final size:56
Alignment explanation
Indices: 34478907--34479020 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
34478897 GGAGCTGTGA
34478907 AAAAATGATTTTTCGAAAAAAATTTGGTTGATTGGCTGATCCGATTGTTTTAGGGC
1 AAAAATGATTTTTCGAAAAAAATTTGGTTGATTGGCTGATCCGATTGTTTTAGGGC
34478963 AAAAATGATTTTTCGAAAAAAATTTGGTTGATTGGCTGATCCGATTGTTTTAGGGC
1 AAAAATGATTTTTCGAAAAAAATTTGGTTGATTGGCTGATCCGATTGTTTTAGGGC
34479019 AA
1 AA
34479021 TTTAGGGTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.37
Consensus pattern (56 bp):
AAAAATGATTTTTCGAAAAAAATTTGGTTGATTGGCTGATCCGATTGTTTTAGGGC
Found at i:34479117 original size:25 final size:23
Alignment explanation
Indices: 34479064--34479115 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
34479054 AATTGCATTT
34479064 TTGTTTTT--ATTGCTTCTATAC
1 TTGTTTTTCGATTGCTTCTATAC
* *
34479085 TTGTTTTTCGATTGTTTCTCTAC
1 TTGTTTTTCGATTGCTTCTATAC
34479108 TTGTTTTT
1 TTGTTTTT
34479116 TTTATTGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 8 0.30
23 19 0.70
ACGTcount: A:0.10, C:0.13, G:0.12, T:0.65
Consensus pattern (23 bp):
TTGTTTTTCGATTGCTTCTATAC
Found at i:34499816 original size:15 final size:15
Alignment explanation
Indices: 34499775--34499816 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
34499765 TTCATTTTAG
*
34499775 TGTTTTTCTTATAAT
1 TGTTTTTCTTTTAAT
*
34499790 TGTTGGTTCTTTTAAT
1 TGTT-TTTCTTTTAAT
34499806 TGTTTTTCTTT
1 TGTTTTTCTTT
34499817 GTTCCATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.69
Consensus pattern (15 bp):
TGTTTTTCTTTTAAT
Found at i:34502389 original size:18 final size:18
Alignment explanation
Indices: 34502363--34502397 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34502353 AATATGTTAT
*
34502363 AAATTACATAATATATAA
1 AAATAACATAATATATAA
34502381 AAATAACATAATATATA
1 AAATAACATAATATATA
34502398 GTATTATAAA
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:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:34535601 original size:14 final size:14
Alignment explanation
Indices: 34535572--34535637 Score: 55
Period size: 14 Copynumber: 4.8 Consensus size: 14
34535562 AATTTATAGC
*
34535572 ATATACGAATAAAT
1 ATATACAAATAAAT
* *
34535586 ATTTACAAATATAT
1 ATATACAAATAAAT
*
34535600 ATATACAAGTACAAT
1 ATATACAAATA-AAT
* *
34535615 ATAAACAAGTAAAT
1 ATATACAAATAAAT
34535629 -T-TACAAATA
1 ATATACAAATA
34535638 TGTGTACACA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 6 0.14
13 1 0.02
14 23 0.55
15 12 0.29
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (14 bp):
ATATACAAATAAAT
Found at i:34535782 original size:6 final size:6
Alignment explanation
Indices: 34535773--34535833 Score: 113
Period size: 6 Copynumber: 10.2 Consensus size: 6
34535763 AATATAAAAG
*
34535773 TATGTA TATGTA TATGTA TATGTA TATGTA TATATA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
34535821 TATGTA TATGTA T
1 TATGTA TATGTA T
34535834 TTACAAAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (6 bp):
TATGTA
Found at i:34536048 original size:24 final size:24
Alignment explanation
Indices: 34536016--34536061 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
34536006 ACGTTCATGT
*
34536016 ATAGAAAAT-ATAATAATTATAATG
1 ATAGAAAATGAT-ATAATAATAATG
*
34536040 ATAGTAAATGATATAATAATAA
1 ATAGAAAATGATATAATAATAA
34536062 ATAATGGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (24 bp):
ATAGAAAATGATATAATAATAATG
Found at i:34536074 original size:27 final size:28
Alignment explanation
Indices: 34536023--34536092 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
34536013 TGTATAGAAA
*
34536023 ATATAATAAT-TATAATGATAGTAAATG
1 ATATAATAATAAATAATGATAGTAAATG
*
34536050 ATATAATAATAAATAATGGTA-TAAATG
1 ATATAATAATAAATAATGATAGTAAATG
*
34536077 -TAGTAATAAAAAATAA
1 ATA-TAATAATAAATAA
34536093 CTAAAATGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.05
27 28 0.74
28 8 0.21
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (28 bp):
ATATAATAATAAATAATGATAGTAAATG
Found at i:34537698 original size:89 final size:89
Alignment explanation
Indices: 34537587--34537805 Score: 287
Period size: 89 Copynumber: 2.5 Consensus size: 89
34537577 AAGACTTGTA
*
34537587 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCT-TACTTCGATCTACTTCACGC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATACCT-GATCTACTTCACGC
* * *
34537651 CAATACATGAAGACAATATCTACTT
65 CAATACATAAAGACAAGATCTACTC
* * * * * * *
34537676 TCTTTGATCTGCTTCTCTACCAGTATGGGAAGGCAAGATCTGGTATCCCTGATCTACTTCACGCC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATACCTGATCTACTTCACGCC
* * *
34537741 AGTACATAAAGACAGGATCTGCTC
66 AATACATAAAGACAAGATCTACTC
*
34537765 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCT
34537806 ATATATTCGA
Statistics
Matches: 110, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
89 107 0.97
90 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (89 bp):
TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATACCTGATCTACTTCACGCC
AATACATAAAGACAAGATCTACTC
Found at i:34537829 original size:133 final size:133
Alignment explanation
Indices: 34537584--34538213 Score: 599
Period size: 133 Copynumber: 4.7 Consensus size: 133
34537574 GATAAGACTT
* *** *
34537584 GTATCT-TCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTACTTCGATCTACTTC-
1 GTATCTCT-GATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
* * * *** * * * * * * * *
34537647 ACGCCAATACATGAAGACAATATCTACTTTCTTTGATCTGCTTCTCTACCAGTATGGGAAGGCAA
64 CCACCAGTATGGGAAGACAAGATCTA-TATATTCGATCTACTTCGCTACCAGTATAGGAAGACAA
34537712 GATCTG
128 GATCTG
* * * *
34537718 GTATCCCTGATCTACTTCACGCCAGTACATAAAGACAGGATCTGCTCTCTTCGATCTACTTCGCC
1 GTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
* * *
34537783 ACCAGTATGGGAAGACAAGATCTATATATTCGATCCACTTCGCTACCAATATAGGAAGACAGGAT
66 ACCAGTATGGGAAGACAAGATCTATATATTCGATCTACTTCGCTACCAGTATAGGAAGACAAGAT
34537848 CTG
131 CTG
* ** *
34537851 GTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTTGATCTACTTCGCC
1 GTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
* ** * * * *
34537916 ACCAGTATGGGAAGACAAGATCTAGTATCTTTAATCTACTTCAC-GCCAGTACATGAAGACAAGA
66 ACCAGTATGGGAAGACAAGATCTA-TATATTCGATCTACTTCGCTACCAGTATAGGAAGACAAGA
34537980 TCTG
130 TCTG
* * * * *** * * *
34537984 TTTTCTAC-GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTC-
1 GTATCT-CTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
* * * *** * * * * *
34538047 ACGCCAATACATGAAGACAAGATCTGCTTTTTTCGATCTACTTCGCCA-C-GTATGGGAAGACAA
64 CCACCAGTATGGGAAGACAAGATCT-ATATATTCGATCTACTTCGCTACCAGTATAGGAAGACAA
34538110 GATCTG
128 GATCTG
* *
34538116 GTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTTCGATCTACTTCGCC
1 GTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
*
34538181 ACCAGTATGGGAAGACAAGATCTGTATATTCGA
66 ACCAGTATGGGAAGACAAGATCTATATATTCGA
34538214 CACGCGCGGA
Statistics
Matches: 395, Mismatches: 92, Indels: 21
0.78 0.18 0.04
Matches are distributed among these distances:
131 42 0.11
132 50 0.13
133 217 0.55
134 85 0.22
135 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (133 bp):
GTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
ACCAGTATGGGAAGACAAGATCTATATATTCGATCTACTTCGCTACCAGTATAGGAAGACAAGAT
CTG
Done.