Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 120 of 770
Found at i:34825065 original size:40 final size:40
Alignment explanation
Indices: 34825010--34825170 Score: 166
Period size: 40 Copynumber: 4.0 Consensus size: 40
34825000 ATGATACCCA
* *
34825010 GGCTAAGTCCCGAAGGC-ATTCATGCTAGTGATTATATCCG
1 GGCTAAGACCCGAAGGCAATT-GTGCTAGTGATTATATCCG
* *
34825050 GGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATATCTG
1 GGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATATCCG
* * * * *
34825090 GGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCG
1 GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCG
* * *
34825130 GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCG
1 GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCG
34825170 G
1 G
34825171 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 96 0.94
41 5 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCG
Found at i:34828481 original size:43 final size:43
Alignment explanation
Indices: 34828419--34828591 Score: 165
Period size: 43 Copynumber: 4.1 Consensus size: 43
34828409 CACATAAGCT
* * * *
34828419 CATAT-AATGCC-ATATCCCAGATATGGTCTTACATGTTATAA
1 CATATCAATGCCAATGTCCCAGACATGGTCTTACACGTAATAA
* * * * *
34828460 CATATCGATGCCACTGTCCCAGACAGGGTCTTACACGAAATTGA
1 CATATCAATGCCAATGTCCCAGACATGGTCTTACACGTAA-TAA
* * **
34828504 -TTAACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCT
1 CATATCAATGCCAATGTCCCAGACATGGTCTTACACGTAATAA
* *
34828546 CA-ATACAATGCCAATGTCCCAGAGATGGTCTTACATGTAATAA
1 CATAT-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATAA
34828589 CAT
1 CAT
34828592 CTCGATAATC
Statistics
Matches: 103, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
41 5 0.05
42 7 0.07
43 89 0.86
44 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
CATATCAATGCCAATGTCCCAGACATGGTCTTACACGTAATAA
Found at i:34828578 original size:86 final size:85
Alignment explanation
Indices: 34828424--34828580 Score: 199
Period size: 86 Copynumber: 1.8 Consensus size: 85
34828414 AAGCTCATAT
* * * * *
34828424 AATGCCATATCCCAGATATGGTCTTACATGTTATAACATATCGATGCCACTGTCCCAGACAGGGT
1 AATGCCATATCCCAGACATGGTCTTACACGTAATAACATATCAATGCCAATGTCCCAGACAGGGT
34828489 CTTACACGAAATTGATTAAC
66 CTTACACGAAATTGATTAAC
* ** * *
34828509 AATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCA-ATACAATGCCAATGTCCCAGAGATG
1 AATGCC-ATATCCCAGACATGGTCTTACACGTAATAACATAT-CAATGCCAATGTCCCAGACAGG
34828573 GTCTTACA
64 GTCTTACA
34828581 TGTAATAACA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 8 0.13
86 52 0.87
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (85 bp):
AATGCCATATCCCAGACATGGTCTTACACGTAATAACATATCAATGCCAATGTCCCAGACAGGGT
CTTACACGAAATTGATTAAC
Found at i:34832906 original size:21 final size:22
Alignment explanation
Indices: 34832880--34832921 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
34832870 CACTTAACAC
34832880 AGGGGC-ACACGCCCGTGTGAG
1 AGGGGCAACACGCCCGTGTGAG
34832901 AGGGGCAACACGCCCGTGTGA
1 AGGGGCAACACGCCCGTGTGA
34832922 CCATTTAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.21, C:0.29, G:0.40, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGAG
Found at i:34839348 original size:53 final size:53
Alignment explanation
Indices: 34839166--34839372 Score: 182
Period size: 53 Copynumber: 3.8 Consensus size: 53
34839156 ATTAGGGTTT
* * * * *
34839166 AAGGATACCGA-GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTAAAACGC
1 AAGGATACC-ATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * *
34839220 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
34839275 AAAGATTCCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* ** *
34839328 AAGGATACCATGTCAGACCATATCAAGACATGGCAATGGGAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
34839373 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 30, Indels: 7
0.76 0.19 0.04
Matches are distributed among these distances:
53 44 0.37
54 38 0.32
55 38 0.32
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:34842097 original size:39 final size:39
Alignment explanation
Indices: 34842054--34842173 Score: 119
Period size: 39 Copynumber: 3.2 Consensus size: 39
34842044 ATTTGTGATT
34842054 AAAGTATCGAATCCATTGGGTCAGTATGCATTAGTAGAC
1 AAAGTATCGAATCCATTGGGTCAGTATGCATTAGTAGAC
* * * * *
34842093 AAAGTAT-GTAA---ATAGAGTC--TATGGTATTTGT-GATT
1 AAAGTATCG-AATCCATTGGGTCAGTAT-GCATTAGTAGA-C
34842128 AAAGTATCGAATCCATTGGGTCAGTATGCATTAGTAGAC
1 AAAGTATCGAATCCATTGGGTCAGTATGCATTAGTAGAC
34842167 AAAGTAT
1 AAAGTAT
34842174 GTAAAAATTG
Statistics
Matches: 61, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
34 5 0.08
35 15 0.25
36 7 0.11
38 7 0.11
39 22 0.36
40 5 0.08
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (39 bp):
AAAGTATCGAATCCATTGGGTCAGTATGCATTAGTAGAC
Found at i:34842151 original size:74 final size:74
Alignment explanation
Indices: 34842030--34842178 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
34842020 GAACGTGTCC
34842030 ATAGAGTCTATGGTATTTGTGATTAAAGTATCGAATCCATTGGGTCAGTATGCATTAGTAGACAA
1 ATAGAGTCTATGGTATTTGTGATTAAAGTATCGAATCCATTGGGTCAGTATGCATTAGTAGACAA
34842095 AGTATGTAA
66 AGTATGTAA
34842104 ATAGAGTCTATGGTATTTGTGATTAAAGTATCGAATCCATTGGGTCAGTATGCATTAGTAGACAA
1 ATAGAGTCTATGGTATTTGTGATTAAAGTATCGAATCCATTGGGTCAGTATGCATTAGTAGACAA
34842169 AGTATGTAA
66 AGTATGTAA
34842178 A
1 A
34842179 AATTGCCTTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (74 bp):
ATAGAGTCTATGGTATTTGTGATTAAAGTATCGAATCCATTGGGTCAGTATGCATTAGTAGACAA
AGTATGTAA
Found at i:34857177 original size:27 final size:26
Alignment explanation
Indices: 34857139--34857221 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 26
34857129 CAAAATGGTC
*
34857139 ATTTTACCCTACAGGGGTAGTTCGATA
1 ATTTTACACTACAGGGGTA-TTCGATA
*
34857166 ATTTTACACTACAAGGGTATTTC-AGTA
1 ATTTTACACTACAGGGGTA-TTCGA-TA
*
34857193 ATTTTACAAGT-CAGGGGTATTACGATA
1 ATTTTAC-ACTACAGGGGTATT-CGATA
34857220 AT
1 AT
34857222 GTCACAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
26 3 0.06
27 41 0.87
28 3 0.06
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.35
Consensus pattern (26 bp):
ATTTTACACTACAGGGGTATTCGATA
Found at i:34857248 original size:27 final size:27
Alignment explanation
Indices: 34857180--34857248 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
34857170 TACACTACAA
* * *
34857180 GGGTATTTCAGTAATTTTACAAGTCAG
1 GGGTATTTCAGTAATGTCACAAATCAG
*
34857207 GGGTATTAC-GATAATGTCACAAATCAG
1 GGGTATTTCAG-TAATGTCACAAATCAG
34857234 GGGTATTTCAGTAAT
1 GGGTATTTCAGTAAT
34857249 TTAAACAGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.03
27 33 0.94
28 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (27 bp):
GGGTATTTCAGTAATGTCACAAATCAG
Found at i:34858665 original size:11 final size:12
Alignment explanation
Indices: 34858644--34858673 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
34858634 TCACTCCAAC
34858644 CTCTCATTCAAA
1 CTCTCATTCAAA
34858656 CTCT-ATTCAAA
1 CTCTCATTCAAA
34858667 CTCTCAT
1 CTCTCAT
34858674 GACCAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (12 bp):
CTCTCATTCAAA
Found at i:34859445 original size:55 final size:53
Alignment explanation
Indices: 34859370--34859516 Score: 150
Period size: 55 Copynumber: 2.7 Consensus size: 53
34859360 GGTAATTTTT
* * * *
34859370 ATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAAATAC
1 ATAAGGCAAAGATACCATGTAAGACCATGTCAAGACATGGCAATGAT-AAATAC
* * * * * * *
34859424 TATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC
1 -ATAAGGCAAAGATACCATGTAAGACCATGTCAAGACATGGCAATGATAAATAC
* * *
34859478 ATAAGGCAAGGATACAACGTAAGACCATGTCAAGACATG
1 ATAAGGCAAAGATACCATGTAAGACCATGTCAAGACATG
34859517 AAAATGGTAA
Statistics
Matches: 75, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
53 33 0.44
54 3 0.04
55 39 0.52
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (53 bp):
ATAAGGCAAAGATACCATGTAAGACCATGTCAAGACATGGCAATGATAAATAC
Found at i:34859523 original size:53 final size:53
Alignment explanation
Indices: 34859334--34859529 Score: 133
Period size: 53 Copynumber: 3.6 Consensus size: 53
34859324 AAGAAACCAA
* * * * * * * *
34859334 GTAAGACCATGCCAAGGCATGACATTGGTAATTTTTATAAGGCAAGGAAATC-AT
1 GTAAGACCATGCCAAGACATGAAAATGGTAA-GTTCATAAGGCAAAGATA-CAAC
* ** * * * * * * *
34859388 GTAAGACCATGTCAAGACATGGCATTGATAAAATACTATAAGGCAAAGATCCCAT
1 GTAAGACCATGCCAAGACATGAAAATGGT-AAGTTC-ATAAGGCAAAGATACAAC
* ** * *
34859443 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGGATACAAC
1 GTAAGACCATGCCAAGACATGAAAATGGTAAGTTCATAAGGCAAAGATACAAC
*
34859496 GTAAGACCATGTCAAGACATGAAAATGGTAAGTT
1 GTAAGACCATGCCAAGACATGAAAATGGTAAGTT
34859530 TAAAATGGAA
Statistics
Matches: 113, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
53 43 0.38
54 30 0.27
55 40 0.35
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (53 bp):
GTAAGACCATGCCAAGACATGAAAATGGTAAGTTCATAAGGCAAAGATACAAC
Found at i:34862528 original size:40 final size:39
Alignment explanation
Indices: 34862478--34862620 Score: 157
Period size: 40 Copynumber: 3.6 Consensus size: 39
34862468 GCTACTCGTT
* *
34862478 CAAATACCTTCGGGACATAGCCCGGTTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTA-CTCGCA
*
34862518 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGT-ACTCGCA
* * *
34862558 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AC-TCGCA
34862599 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
34862621 AGACATCATT
Statistics
Matches: 88, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
39 4 0.05
40 70 0.80
41 14 0.16
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTACTCGCA
Found at i:34865205 original size:39 final size:40
Alignment explanation
Indices: 34865028--34865209 Score: 172
Period size: 39 Copynumber: 4.6 Consensus size: 40
34865018 CCGCACCAAG
* * * * * * * *
34865028 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
34865068 GCCTTCGGGTCTTAGCCCGGATTTAA-AACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
34865107 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
34865147 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
34865186 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
34865210 CATTCAATTT
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 63 0.52
40 57 0.47
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:34873198 original size:39 final size:39
Alignment explanation
Indices: 34873148--34873260 Score: 140
Period size: 39 Copynumber: 2.9 Consensus size: 39
34873138 ATATCACGAT
*
34873148 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTA-AAAC
1 TTGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGAAAC
**
34873187 TTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCAC
1 TTGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGAAAC
* *
34873227 TAGCACAATTGCCTTCGGGTCTTAACCCGG-TATA
1 TTGCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
34873261 ATTTCCAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 39 0.59
40 27 0.41
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
TTGCACAATGCCTTCGGGTCTTAGCCCGGATATAGAAAC
Found at i:34873256 original size:40 final size:38
Alignment explanation
Indices: 34873118--34873260 Score: 144
Period size: 40 Copynumber: 3.7 Consensus size: 38
34873108 CCGCACCAAG
* * * *
34873118 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATAT-ACAACTTGCAC-AAT
* * *
34873158 GCCTTCGGGTCTTAGCCCGGATTTAAAACTTGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATATACAACTTGCAC-AAT
* * *
34873197 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATA-CAACTTGCACAA-T
34873237 GCCTTCGGGTCTTAACCCGG-TATA
1 GCCTTCGGGTCTTAACCCGGATATA
34873261 ATTTCCAGCA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 41 0.47
40 47 0.53
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
GCCTTCGGGTCTTAACCCGGATATACAACTTGCACAAT
Found at i:34886799 original size:39 final size:39
Alignment explanation
Indices: 34886755--34886945 Score: 301
Period size: 39 Copynumber: 4.9 Consensus size: 39
34886745 ATGCAAGACA
* *
34886755 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
34886794 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34886833 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
34886872 CTGGAAATGTATCCGGGCCAAAGTCTCGCAGGCTTCCTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
34886911 CTGGAAATGTATCTGGGTTAAAGTCCCGCAGGCTT
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTT
34886946 TGTGTTGATA
Statistics
Matches: 139, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 139 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:34904093 original size:40 final size:40
Alignment explanation
Indices: 34904048--34904214 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
34904038 CGGAATATAA
34904048 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
34904088 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
34904128 CCGGA-ATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
34904167 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
34904207 CCGGATAT
1 CCGGATAT
34904215 CATTCAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 32 0.30
40 73 0.70
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:34904170 original size:39 final size:39
Alignment explanation
Indices: 34904064--34904171 Score: 130
Period size: 39 Copynumber: 2.7 Consensus size: 39
34904054 ATAATCACGT
* *
34904064 GCACAAATGCCTTCGGGTCTTAGCCCGG-ATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAATAG-ACAACTA
*
34904104 GCACGAATGCCTTCGGGTCTTAGCCCGGAATAG-CCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAATAGACAACTA
*
34904143 GCACAATTGCCTTCGGGTCTTAACCCGGA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGA
34904172 TATAATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.03
39 28 0.46
40 27 0.44
41 4 0.07
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGAATAGACAACTA
Found at i:34907715 original size:37 final size:37
Alignment explanation
Indices: 34907673--34907753 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
34907663 ATAACCCAAA
34907673 GCAATTTCATACAAATTACTTCTAGAAATAAAGTTTT
1 GCAATTTCATACAAATTACTTCTAGAAATAAAGTTTT
*
34907710 GCAATTTCATACAAATTACTTCTAGAAATCAAGTTTT
1 GCAATTTCATACAAATTACTTCTAGAAATAAAGTTTT
*
34907747 GTAATTT
1 GCAATTT
34907754 ATTCAATTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (37 bp):
GCAATTTCATACAAATTACTTCTAGAAATAAAGTTTT
Found at i:34916588 original size:2 final size:2
Alignment explanation
Indices: 34916581--34916618 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
34916571 TTTATTTATG
*
34916581 AT AT AT AT AT AT AT AT AT AT AT AT -T AT A- AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34916619 TAACATATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:34916622 original size:12 final size:13
Alignment explanation
Indices: 34916583--34916626 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
34916573 TATTTATGAT
*
34916583 ATATATATATATAT
1 ATATATATATA-AC
34916597 ATATATATTATAAC
1 ATATATA-TATAAC
34916611 ATATATAT-TAAC
1 ATATATATATAAC
34916623 ATAT
1 ATAT
34916627 TATTTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 8 0.29
13 1 0.04
14 15 0.54
15 4 0.14
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (13 bp):
ATATATATATAAC
Found at i:34917429 original size:43 final size:42
Alignment explanation
Indices: 34917362--34917474 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
34917352 TCGTATAATA
* * * *
34917362 CCAACGTCCCAGACATGGTCTTACATGTAATCAA-ATATCGATG
1 CCAACATCCCAGACAGGGTCTTACACGAAAT-AATATAT-GATG
*
34917405 CC-ACTATCCCAGATAGGGTCTTACACGAAATAATATATGATG
1 CCAAC-ATCCCAGACAGGGTCTTACACGAAATAATATATGATG
*
34917447 CCAACATCCCAGGC-GTGGTCTTACACGA
1 CCAACATCCCAGACAG-GGTCTTACACGA
34917475 TAACACATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.02
42 29 0.49
43 29 0.49
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
CCAACATCCCAGACAGGGTCTTACACGAAATAATATATGATG
Found at i:34924543 original size:43 final size:44
Alignment explanation
Indices: 34924385--34924546 Score: 129
Period size: 43 Copynumber: 3.8 Consensus size: 44
34924375 ATAGGATTTT
* *
34924385 GATATGTGACTT-CGTGTAAGACCACGCCTGGGACATTGGCATC
1 GATATGTGACTTACATGTAAGACCACGTCTGGGACATTGGCATC
* * * * * *
34924428 GATTTGAGATTTA-ACTGTAAGACCATGTCTAGGACATTGACATC
1 GATATGTGACTTACA-TGTAAGACCACGTCTGGGACATTGGCATC
* *** * *
34924472 G-TATATGA-TTTTGTGTAAAACC-CTGTCTGGGACAGTGGCATC
1 GATATGTGACTTACATGTAAGACCAC-GTCTGGGACATTGGCATC
*
34924514 GATATGTGA-TTACATGTAAGAGCACGTCTGGGA
1 GATATGTGACTTACATGTAAGACCACGTCTGGGA
34924547 TGTTAGCATT
Statistics
Matches: 89, Mismatches: 24, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
42 26 0.29
43 36 0.40
44 27 0.30
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
GATATGTGACTTACATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:34927934 original size:68 final size:64
Alignment explanation
Indices: 34927824--34928077 Score: 167
Period size: 68 Copynumber: 3.9 Consensus size: 64
34927814 ATACAAATAG
* * * * *
34927824 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGT-GTACAAGAGAGCTATAAGACA
1 TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTAG-ACAAGAGAGC--TAAGACA
34927888 TTA
63 -TA
* * * * *
34927891 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
1 T-ATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTAGACAAGAGAGCTAAGACATA
* * * * * * *
34927956 TATGTAGCTAGGTCGCATGCG-TGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAG
1 TATGTAGCTAGGTCGCATG-GATGATACTAAGT---GCACACCATGTAGACAAGAGAGCTAAGAC
34928020 ATA
62 ATA
* * * * **
34928023 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGCT
1 TA-TGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTAG-ACAAGAGAGCT
34928078 GAACTATATG
Statistics
Matches: 156, Mismatches: 22, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
62 1 0.01
63 20 0.13
64 25 0.16
65 5 0.03
66 25 0.16
67 33 0.21
68 46 0.29
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTAGACAAGAGAGCTAAGACATA
Found at i:34929156 original size:2 final size:2
Alignment explanation
Indices: 34929149--34929177 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
34929139 TCATGACATG
34929149 TA TA 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 TA TA T
34929178 GACTAGCCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34930862 original size:73 final size:73
Alignment explanation
Indices: 34930743--34930888 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
34930733 ATTCAAAACA
34930743 TTCAAACACATGCATATTGTCCCTTATACGGGCCTATGAGGCCCAAAACATACATCGAGGTTGGT
1 TTCAAACACATGCATATTGTCCCTTATACGGGCCTATGAGGCCCAAAACATACATCGAGGTTGGT
*
34930808 TCGGGACT
66 TCGAGACT
34930816 TTCAAACACATGCATATTGTCCCTTATACGGGCCTATGAGGCCCAAAACATACATCGAGGTTGGT
1 TTCAAACACATGCATATTGTCCCTTATACGGGCCTATGAGGCCCAAAACATACATCGAGGTTGGT
34930881 TCGAGACT
66 TCGAGACT
34930889 AAACCGAGAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (73 bp):
TTCAAACACATGCATATTGTCCCTTATACGGGCCTATGAGGCCCAAAACATACATCGAGGTTGGT
TCGAGACT
Found at i:34931319 original size:97 final size:97
Alignment explanation
Indices: 34931153--34931330 Score: 329
Period size: 97 Copynumber: 1.8 Consensus size: 97
34931143 CTTATACAAC
* *
34931153 ATCAAAGGCATAAAACATGGTATCTAATTAAAGATTAAACATCCTCAATTTAGTTACAAACATAA
1 ATCAAAGGCATAAAACATGGTATCCAATTAAAGATTAAACATCCTCAATTAAGTTACAAACATAA
*
34931218 CATTTGCATATCATCATACTTGTGTTTTTCAT
66 CATTTGCATAACATCATACTTGTGTTTTTCAT
34931250 ATCAAAGGCATAAAACATGGTATCCAATTAAAGATTAAACATCCTCAATTAAGTTACAAACATAA
1 ATCAAAGGCATAAAACATGGTATCCAATTAAAGATTAAACATCCTCAATTAAGTTACAAACATAA
34931315 CATTTGCATAACATCA
66 CATTTGCATAACATCA
34931331 CTCGTTTTAT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 78 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (97 bp):
ATCAAAGGCATAAAACATGGTATCCAATTAAAGATTAAACATCCTCAATTAAGTTACAAACATAA
CATTTGCATAACATCATACTTGTGTTTTTCAT
Found at i:34933592 original size:79 final size:78
Alignment explanation
Indices: 34933441--34933661 Score: 259
Period size: 79 Copynumber: 2.8 Consensus size: 78
34933431 ATGATGTCCG
* * * *
34933441 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-ATCCGGGCTAAGACCCGAAGGCATTTGTG
34933505 AGAGTTACTAAATCC
64 AGAGTTACTAAATCC
34933520 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATCCCGGGCTAAG-CCCGAAGGCATTTGT
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT-CCGGGCTAAGACCCGAAGGCATTTGT
*
34933583 GCGAGTTACTAAATCC
63 GAGAGTTACTAAATCC
* * * * * *
34933599 AGGTTAAGTCCCGAAGGCATTTGTGTGAGCTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATCCGGGCTAAGACCCGAAGGCATTTG
34933662 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 1 0.01
79 69 0.56
80 46 0.37
81 8 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGACCCGAAGGCATTTGTGAG
AGTTACTAAATCC
Found at i:34933653 original size:119 final size:120
Alignment explanation
Indices: 34933438--34933661 Score: 289
Period size: 119 Copynumber: 1.9 Consensus size: 120
34933428 CGAATGATGT
*
34933438 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
*
34933503 TGAGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
66 TGAGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
* * *
34933558 CCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCAGG-TTAAG-TCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCC-GGACTAAGAT-CCGAAGGCAT
* * *
34933619 TTGTGTGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
63 TTGTGAGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
34933662 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
118 2 0.02
119 68 0.75
120 21 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGAGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
Found at i:34933675 original size:40 final size:40
Alignment explanation
Indices: 34933438--34933661 Score: 212
Period size: 40 Copynumber: 5.6 Consensus size: 40
34933428 CGAATGATGT
* *
34933438 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACTATAA
* * *
34933478 CCGGACTAAGAT-CCGAAGGCATTTGTGAGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA
* * *
34933517 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATC
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATA-A
*
34933558 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
* * *
34933596 TCCAGGTTAAGTCCCGAAGGCATTTGTGTGAGCTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
*
34933637 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34933662 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.22
40 115 0.72
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
Found at i:34933683 original size:79 final size:78
Alignment explanation
Indices: 34933444--34933694 Score: 237
Period size: 79 Copynumber: 3.2 Consensus size: 78
34933434 ATGTCCGGGC
* * * *
34933444 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGA-
1 TAAGTCCCGAAGGCATTTGTG-TGAGT-ACTATAACCGGGCTAAG-TCCCGAAGGCATTTG-AAC
*
34933506 GAGTTACTAAATCCGGAC
62 GAGTTACTAAATCCGG-T
* * **
34933524 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATCCCGGGCTAAG-CCCGAAGGCATTTGTGCG
1 TAAG-TCCCGAAGGCATTTGTGTGAG-TACTATA-ACCGGGCTAAGTCCCGAAGGCATTTGAACG
34933586 AGTTACTAAATCCAGGT
63 AGTTACTAAATCC-GGT
*
34933603 TAAGTCCCGAAGGCATTTGTGTGAGCTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGTGAG-TACTATAACCGGGCTAAGTCCCGAAGGCATTTGAACGAG
*
34933668 -TAGCTATATCCGGT
65 TTA-CTAAATCCGGT
* *
34933682 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
34933695 TACGTGATTT
Statistics
Matches: 144, Mismatches: 16, Indels: 23
0.79 0.09 0.13
Matches are distributed among these distances:
78 1 0.01
79 80 0.56
80 55 0.38
81 8 0.06
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGTGAGTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGT
TACTAAATCCGGT
Found at i:34938101 original size:93 final size:93
Alignment explanation
Indices: 34937989--34938160 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
34937979 CGCCCATAAG
* *
34937989 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34938054 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
34938082 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34938147 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
34938161 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:34938157 original size:46 final size:46
Alignment explanation
Indices: 34937982--34938157 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
34937972 TGTAACCCGC
* * *
34937982 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
34938028 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
34938078 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
34938121 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
34938158 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34945491 original size:93 final size:93
Alignment explanation
Indices: 34945379--34945549 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
34945369 GCCCATAAGT
* *
34945379 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34945444 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
34945472 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34945537 CGAGTTCGGATGC
66 CGAGTTCGGATGC
34945550 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:34945546 original size:46 final size:46
Alignment explanation
Indices: 34945371--34945546 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
34945361 TGTAACCCGC
* * * *
34945371 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
34945417 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
34945467 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34945510 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34945547 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34952486 original size:94 final size:94
Alignment explanation
Indices: 34952242--34952878 Score: 795
Period size: 94 Copynumber: 6.8 Consensus size: 94
34952232 AGATATATTA
* * * *** *
34952242 CCGATGCCATGTCACAGACATGGTCTTACACTAGCTCTCATATGCGCGTGCTGTTGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATA-GTATG-GCTGATGCATGTCCCA
* *
34952307 AACATGTCTTACACTAGCA--CAACTCT-TAG
64 GACATGTCTTACACTAGCACTCATCTCTGT-G
* * * * *
34952336 CCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCGA-GGCCGATGCATGTCCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCTGATGCATGTCCC
*
34952397 AGACATGTCTTACACTGGCACTCATCTCTGTG
63 AGACATGTCTTACACTAGCACTCATCTCTGTG
* *
34952429 CCGATGCTATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
*
34952494 CATGTCTTACACTAGCACTCATCTCTGTT
66 CATGTCTTACACTAGCACTCATCTCTGTG
* *
34952523 CCGATGCTATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
* *
34952588 CAAGTCTTACACTGGCACTCATCTCTGTG
66 CATGTCTTACACTAGCACTCATCTCTGTG
* *
34952617 CCGATGCTATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
* *
34952682 CATTTCTTACACTAGCACTCATCTCTATG
66 CATGTCTTACACTAGCACTCATCTCTGTG
* *
34952711 CTGATCCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
* * * *
34952776 CATGTCTTACACTAGCCCTAATCT-AGATA
66 CATGTCTTACACTAGCACTCATCTCTG-TG
* * * * * * * *
34952805 CCGATGCCATGTCCCACACTTGGTCTTACATTGGCTCTCATAATGTGGCCGAAGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
34952870 CATGTCTTA
66 CATGTCTTA
34952879 GATTATCTCA
Statistics
Matches: 482, Mismatches: 50, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
91 32 0.07
92 16 0.03
93 25 0.05
94 389 0.81
95 19 0.04
96 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (94 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
CATGTCTTACACTAGCACTCATCTCTGTG
Found at i:34953208 original size:30 final size:30
Alignment explanation
Indices: 34953151--34953208 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34953141 AAATTTACAT
* * *
34953151 CTTTGGTAAAATGACTATTTTGCCCCTAAA
1 CTTTGGCAAAATGACCATTTTACCCCTAAA
*
34953181 CTTTGGCAAAATGACCATTTTATCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
34953209 TTCCCGGAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAAA
Found at i:34960160 original size:47 final size:43
Alignment explanation
Indices: 34960062--34960416 Score: 194
Period size: 47 Copynumber: 7.7 Consensus size: 43
34960052 CGCATACTGT
* * * * *
34960062 TGCATGTCCCATACATGTCTTACACTAGCACAACTCT-TAGCCGA
1 TGCATGTCCCAGACACGTCTTACACTGGC-TATCTCTGT-GCCGA
*
34960106 TGCATGTCCCAGACACGTCCTACACTGGCTATCTCTGTCGAGGCCGA
1 TGCATGTCCCAGACACGTCTTACACTGGCTATCTCTGT----GCCGA
* * *
34960153 TGCATGTCCCAGACATGTCTTACATTGGCACTCATCTCTGTGTCGA
1 TGCATGTCCCAGACACGTCTTACACTGG--CT-ATCTCTGTGCCGA
* * * *
34960199 TGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGA
1 TG-CATGTCCCAGACA-CGTCTTACACTGGCTATC-T-CTGT-GCCGA
** * * *
34960247 TGCATGTCCCAGACATTTCTTACACTAGCACTCATCTCTATGCTGA
1 TGCATGTCCCAGACACGTCTTACACT-G-GCT-ATCTCTGTGCCGA
* *
34960293 TGCCATGTCCCAGACATGTCTTACACTAGC-ACTCGTCTAGATGCCGA
1 TG-CATGTCCCAGACACGTCTTACACTGGCTA-TC-TCT-G-TGCCGA
* * * * *
34960340 TGCAATGTCCC-GCACATGGTCTTACACTAGCTCTCATAATGTGGCTGA
1 TGC-ATGTCCCAG-ACA-CGTCTTACACTGGCTATC-T-CTGT-GCCGA
* *
34960388 AGCATGTCCCAGACATGTCTTACACTGGC
1 TGCATGTCCCAGACACGTCTTACACTGGC
34960417 GCATAAATCA
Statistics
Matches: 250, Mismatches: 34, Indels: 52
0.74 0.10 0.15
Matches are distributed among these distances:
43 6 0.02
44 28 0.11
45 7 0.03
46 39 0.16
47 113 0.45
48 43 0.17
49 6 0.02
50 8 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (43 bp):
TGCATGTCCCAGACACGTCTTACACTGGCTATCTCTGTGCCGA
Found at i:34960254 original size:94 final size:91
Alignment explanation
Indices: 34960062--34960416 Score: 343
Period size: 94 Copynumber: 3.8 Consensus size: 91
34960052 CGCATACTGT
* * *
34960062 TGCATGTCCCATACATGTCTTACACTAGCA--CAACTCTTAGCCGATG-CATGTCCCAGACACGT
1 TGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTT-G-CGATGCCATGTCCCAGACATGT
* *
34960124 CCTACACTGGCTATCTCTGTCGAGGCCGA
64 CTTACACTGGCTATCTCAGTC-AGGCCGA
* *
34960153 TGCATGTCCCAGACATGTCTTACATTGGCACTCATCTCTGTGTCGATGCCATGTCCCAGACATGG
1 TGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCT-TG-CGATGCCATGTCCCAGACAT-G
*
34960218 TCTTACACTGGCTATCAT-AGT-ATGGCTGA
63 TCTTACACTGGCTATC-TCAGTCA-GGCCGA
*
34960247 TGCATGTCCCAGACATTTCTTACACTAGCACTCATCTCTATGCTGATGCCATGTCCCAGACATGT
1 TGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCT-TGC-GATGCCATGTCCCAGACATGT
*
34960312 CTTACACTAGC-A-CTC-GTCTAGATGCCGA
64 CTTACACTGGCTATCTCAGTC-AG--GCCGA
* * * * *
34960340 TGCAATGTCCC-GCACATGGTCTTACACTAGCTCTCATAATGTGGCTGAAG-CATGTCCCAGACA
1 TGC-ATGTCCCAG-ACAT-GTCTTACACTAGCACTCAT-CTCTTGC-GATGCCATGTCCCAGACA
34960403 TGTCTTACACTGGC
61 TGTCTTACACTGGC
34960417 GCATAAATCA
Statistics
Matches: 225, Mismatches: 22, Indels: 31
0.81 0.08 0.11
Matches are distributed among these distances:
90 3 0.01
91 29 0.13
92 2 0.01
93 34 0.15
94 113 0.50
95 41 0.18
96 3 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (91 bp):
TGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTTGCGATGCCATGTCCCAGACATGTCT
TACACTGGCTATCTCAGTCAGGCCGA
Found at i:34960300 original size:141 final size:140
Alignment explanation
Indices: 34960107--34960413 Score: 377
Period size: 141 Copynumber: 2.2 Consensus size: 140
34960097 CTTAGCCGAT
* * * * * * *
34960107 GCATGTCCCAGACACGTCCTACACTGGCTATCTC-TGTCGAGGCCGATGCATGTCCCAGACATGT
1 GCATGTCCCAGACATGTCTTACACTAGC-A-CTCATCTCTATGCTGATGCATGTCCCAGACATGT
* * * * * *
34960171 CTTACATTGGCACTCATCTCTG-TGTCGATGCCATGTCCCAG-ACATGGTCTTACACTGGCTATC
64 CTTACACTAGCACTCATCT-AGATGCCGATGCAATGTCCC-GCACATGGTCTTACACTAGCTATC
* *
34960234 ATAGTATGGCTGAT
127 ATAATATGGCTGAA
*
34960248 GCATGTCCCAGACATTTCTTACACTAGCACTCATCTCTATGCTGATGCCATGTCCCAGACATGTC
1 GCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTATGCTGATG-CATGTCCCAGACATGTC
* *
34960313 TTACACTAGCACTCGTCTAGATGCCGATGCAATGTCCCGCACATGGTCTTACACTAGCTCTCATA
65 TTACACTAGCACTCATCTAGATGCCGATGCAATGTCCCGCACATGGTCTTACACTAGCTATCATA
*
34960378 ATGTGGCTGAA
130 ATATGGCTGAA
34960389 GCATGTCCCAGACATGTCTTACACT
1 GCATGTCCCAGACATGTCTTACACT
34960414 GGCGCATAAA
Statistics
Matches: 142, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
139 3 0.02
140 13 0.09
141 126 0.89
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (140 bp):
GCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTATGCTGATGCATGTCCCAGACATGTCT
TACACTAGCACTCATCTAGATGCCGATGCAATGTCCCGCACATGGTCTTACACTAGCTATCATAA
TATGGCTGAA
Found at i:34960797 original size:30 final size:30
Alignment explanation
Indices: 34960756--34960813 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
34960746 AAATTTACAT
* * *
34960756 CTTTGGTAAAATGACTATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
34960786 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
34960814 TGCCCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:34960933 original size:19 final size:20
Alignment explanation
Indices: 34960899--34960936 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34960889 TCAAATTATC
34960899 ACTATTTCACATACTTATTA
1 ACTATTTCACATACTTATTA
*
34960919 ACTATTTTACA-ACTTATT
1 ACTATTTCACATACTTATT
34960937 CAAAATAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.47
Consensus pattern (20 bp):
ACTATTTCACATACTTATTA
Found at i:34965654 original size:49 final size:49
Alignment explanation
Indices: 34965582--34965709 Score: 134
Period size: 49 Copynumber: 2.6 Consensus size: 49
34965572 TGTGTGTGCT
* * * * *
34965582 AGTGTAAAACCTGCCTGGGACATGGCATCGACAC-CGATAGATG-AGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGAC-CTCAAGAGATGCA-AGCC
* * *
34965631 AGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCAAGATATGCAAGCT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACCTCAAGAGATGCAAGCC
* *
34965680 AGTATAAGACCTGTCTAGGGCATGGCATCG
1 AGTGTAAGACCTGTCTAGGACATGGCATCG
34965710 GCTTGAGGTG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.01
49 65 0.97
50 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGACCTCAAGAGATGCAAGCC
Found at i:34965734 original size:44 final size:44
Alignment explanation
Indices: 34965679--34965796 Score: 184
Period size: 44 Copynumber: 2.7 Consensus size: 44
34965669 ATATGCAAGC
*
34965679 TAGTATAAGACCTGTCTAGGG-CATGGCATCGGCTTGAGGTGTGT
1 TAGTGTAAGACCTGTCT-GGGACATGGCATCGGCTTGAGGTGTGT
*
34965723 TAGTGTAAGACCTATCTGGGACATGGCATCGGCTTGAGGTGTGT
1 TAGTGTAAGACCTGTCTGGGACATGGCATCGGCTTGAGGTGTGT
* *
34965767 CAGTGTAAGACCTGACTGGGACATGGCATC
1 TAGTGTAAGACCTGTCTGGGACATGGCATC
34965797 AGCCTCGATG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
43 3 0.04
44 65 0.96
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (44 bp):
TAGTGTAAGACCTGTCTGGGACATGGCATCGGCTTGAGGTGTGT
Found at i:34965856 original size:49 final size:47
Alignment explanation
Indices: 34965582--34965873 Score: 129
Period size: 49 Copynumber: 6.2 Consensus size: 47
34965572 TGTGTGTGCT
* * * *
34965582 AGTGTAAAACCTGCCTGGGACATGGCATCGACACCGATAGATG--AGAGCC
1 AGTGTAAGACCTGACTAGGACATGGCATC-A-GCC--TAGATGTTAGAGCC
* * * * *
34965631 AGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCAAGATATGCA-AGCT
1 AGTGTAAGACCTGACTAGGACATGGCATCAGCCT--AGATGT-TAGAGCC
* * * * * * * **
34965680 AGTATAAGACCTGTCTAGGGCATGGCATC-GGCTTGA-GGT-GTGTT
1 AGTGTAAGACCTGACTAGGACATGGCATCAGCCTAGATGTTAGAGCC
* * * * * *
34965724 AGTGTAAGACCT-ATCTGGGACATGGCATC-GGCTTGA-GGT-GTGTC
1 AGTGTAAGACCTGA-CTAGGACATGGCATCAGCCTAGATGTTAGAGCC
* * *
34965768 AGTGTAAGACCTGACTGGGACATGGCATCAGCCTCGATGTATGGAAGCC
1 AGTGTAAGACCTGACTAGGACATGGCATCAGCCTAGATGT-TAG-AGCC
* * * *
34965817 AGTGTAAGACCTGTCTAGGATATGGTATC-GACTTAGATGTTAGAGCC
1 AGTGTAAGACCTGACTAGGACATGGCATCAG-CCTAGATGTTAGAGCC
34965864 AGTGTAAGAC
1 AGTGTAAGAC
34965874 AATGTTTGGA
Statistics
Matches: 196, Mismatches: 33, Indels: 30
0.76 0.13 0.12
Matches are distributed among these distances:
44 67 0.34
45 7 0.04
46 3 0.02
47 21 0.11
48 7 0.04
49 90 0.46
50 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCTGACTAGGACATGGCATCAGCCTAGATGTTAGAGCC
Found at i:34971504 original size:38 final size:38
Alignment explanation
Indices: 34971386--34971573 Score: 297
Period size: 39 Copynumber: 4.9 Consensus size: 38
34971376 TATGGTAACC
* * * *
34971386 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCATAGCT
34971426 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCC-GGTATCATAGCT
34971465 CGCACAATTGCCTTCGGGCTTAGCCCGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGTATCATAGCT
34971503 CGCACAATTGCCTTC-GGCTTAGCCCGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGTATCATAGCT
34971540 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCA
34971574 CTCGAACATT
Statistics
Matches: 141, Mismatches: 4, Indels: 7
0.93 0.03 0.05
Matches are distributed among these distances:
37 37 0.26
38 39 0.28
39 46 0.33
40 19 0.13
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.24
Consensus pattern (38 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGTATCATAGCT
Found at i:34971551 original size:75 final size:78
Alignment explanation
Indices: 34971386--34971574 Score: 312
Period size: 75 Copynumber: 2.4 Consensus size: 78
34971376 TATGGTAACC
* *
34971386 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
34971451 CGGGTATCATAGCT
65 CGGGTATCATAGCT
* *
34971465 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCTCGCACAATTGCCTTC-GGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
34971528 -GGTATCATAGCT
66 GGGTATCATAGCT
34971540 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
34971575 TCGAACATTC
Statistics
Matches: 104, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
75 40 0.38
76 15 0.14
77 23 0.22
78 9 0.09
79 17 0.16
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.24
Consensus pattern (78 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGGTATCATAGCT
Found at i:34978990 original size:39 final size:39
Alignment explanation
Indices: 34978909--34979135 Score: 370
Period size: 39 Copynumber: 5.9 Consensus size: 39
34978899 TATGGTAACC
* * * *
34978909 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
34978949 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
34978988 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
34979027 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
34979066 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCAT-GCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
34979103 CGCAC-ATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
34979136 CTCGAACATT
Statistics
Matches: 179, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
36 22 0.12
37 13 0.07
38 6 0.03
39 121 0.68
40 17 0.09
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:34986462 original size:40 final size:40
Alignment explanation
Indices: 34986418--34986614 Score: 230
Period size: 39 Copynumber: 5.1 Consensus size: 40
34986408 GTTCAAAACA
* * ** * *
34986418 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
* *
34986458 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
* *
34986498 CCTTCGGG-CTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
*
34986537 CCTTCGGG-CTTAG--CGGAT-TCATAGCTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
*
34986573 CCTTCGGG-C-TAGCCCGG-TATCATAGCTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
34986610 CCTTC
1 CCTTC
34986615 TTAGCCCGGA
Statistics
Matches: 141, Mismatches: 13, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
35 3 0.02
36 28 0.20
37 30 0.21
39 40 0.28
40 40 0.28
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:34986529 original size:39 final size:39
Alignment explanation
Indices: 34986448--34986640 Score: 239
Period size: 39 Copynumber: 5.2 Consensus size: 39
34986438 TATGGTAACC
* * * * *
34986448 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCATAGCT
34986488 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
*
34986527 CGCACAATTGCCTTCGGGCTTAG--CGGAT-TCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
34986563 CGCACAATTGCCTTCGGGC-TAGCCC-GGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
34986600 CGCACAATTGCCTT----CTTAGCCC-GG-ATCAT-GCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
34986632 CGCACAATT
1 CGCACAATT
34986641 CGGGCTTAGC
Statistics
Matches: 142, Mismatches: 7, Indels: 16
0.86 0.04 0.10
Matches are distributed among these distances:
32 12 0.08
33 6 0.04
34 8 0.06
35 3 0.02
36 29 0.20
37 27 0.19
39 40 0.28
40 17 0.12
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
Found at i:34986609 original size:73 final size:79
Alignment explanation
Indices: 34986448--34986614 Score: 256
Period size: 73 Copynumber: 2.2 Consensus size: 79
34986438 TATGGTAACC
*
34986448 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
34986513 CGGGTATCATAGCT
66 CGGGTATCATAGCT
* * *
34986527 CGCACAATTGCCTTCGGG-CTT-A-GCGGAT-TCATAGCTCGCACAATTGCCTTCGGGC-TAGCC
1 CGCACAATTGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
34986587 C-GGTATCATAGCT
66 CGGGTATCATAGCT
34986600 CGCACAATTGCCTTC
1 CGCACAATTGCCTTC
34986615 TTAGCCCGGA
Statistics
Matches: 84, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
73 27 0.32
74 6 0.07
75 25 0.30
76 5 0.06
77 1 0.01
78 3 0.04
79 17 0.20
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (79 bp):
CGCACAATTGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGGTATCATAGCT
Found at i:34995112 original size:29 final size:29
Alignment explanation
Indices: 34995078--34995238 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
34995068 TACTCGATTT
** * *
34995078 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
34995107 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
34995136 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
34995165 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34995194 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34995223 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
34995239 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:35001023 original size:53 final size:53
Alignment explanation
Indices: 35000846--35001050 Score: 180
Period size: 53 Copynumber: 3.8 Consensus size: 53
35000836 ATTAGGGTTT
* * *
35000846 AAGGATACCAAGTAAGACCATGCCAAGGCATGG-AATTGGTAAGTTTTACAAGGC
1 AAGGATACCAAGTAAGACCATGCCAAGACATGGCAA-TGGTAAG-TTCATAAGGC
* * * * * * * * * *
35000900 AAGGAAATCATGTATGACCAAGTCAAGACATGGCATTGATAAACTACGATAAGGC
1 AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * *
35000955 AAAGATCCCAAGTAAGACCATGCCAA-AGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCAAGTAAGACCATGCCAAGA-CATGGCAATGGTAAGTTCATAAGGC
* * *
35001008 AAGGATACCACGTAAGACCATGTCAAGACATGGTAATGGTAAG
1 AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAG
35001051 CTTAAAAAGG
Statistics
Matches: 114, Mismatches: 32, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
53 42 0.37
54 35 0.31
55 37 0.32
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (53 bp):
AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:35006205 original size:39 final size:39
Alignment explanation
Indices: 35006151--35006301 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 39
35006141 GTTATAATAG
*
35006151 CTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTGGAA
1 CTCGCACAAATGCCTTC-GGATCTTAGCCCGGATTTGGAA
*
35006190 CTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGATCTTAGCCCGGATTT-GGAA
* * **
35006230 CTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCA
1 CTCGCACAAATGCCTTCGGATCTTAGCCCGGAT-TTGGAA
*
35006270 CTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 C-TCGCACAAATGCCTTC-GGATCTTAGCCCGGA
35006302 CATCATTCGA
Statistics
Matches: 100, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
38 3 0.03
39 29 0.29
40 56 0.56
41 12 0.12
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CTCGCACAAATGCCTTCGGATCTTAGCCCGGATTTGGAA
Found at i:35006249 original size:40 final size:39
Alignment explanation
Indices: 35006151--35006262 Score: 181
Period size: 40 Copynumber: 2.8 Consensus size: 39
35006141 GTTATAATAG
**
35006151 CTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTGGAA
1 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTGGAA
35006190 CTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGATCTTAGTCCGGATTT-GGAA
35006230 CTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 CTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
35006263 ATAGTCACTT
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
38 3 0.04
39 29 0.42
40 37 0.54
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTGGAA
Found at i:35006285 original size:40 final size:40
Alignment explanation
Indices: 35006084--35006301 Score: 153
Period size: 40 Copynumber: 5.5 Consensus size: 40
35006074 GAATTACGTA
* * * *
35006084 CCTTCGGATCTTA-TCCAGATATAGCG-ACTCGCTCAAAAG
1 CCTTCGGATCTTAGTCCGGATATAG-GAACTAGCACAAATG
* * * ** * *
35006123 CCTTCGGGA-CATAGCCCGGTTATAATAGCTCGCACAAATG
1 CCTTC-GGATCTTAGTCCGGATATAGGAACTAGCACAAATG
** * *
35006163 CCTTCGGGA-CTTAACCCGGAT-TTGGAACTCGCACAAATG
1 CCTTC-GGATCTTAGTCCGGATATAGGAACTAGCACAAATG
* * *
35006202 CCTTCGGATCTTAGTCCGGATTTGGGAACTCGCACAAATG
1 CCTTCGGATCTTAGTCCGGATATAGGAACTAGCACAAATG
**
35006242 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-G
1 CCTTCGGATCTTAGTCCGGATATAGGAAC-TAGCACAAATG
*
35006282 CCTTCGGGA-CTTAGCCCGGA
1 CCTTC-GGATCTTAGTCCGGA
35006302 CATCATTCGA
Statistics
Matches: 147, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
38 3 0.02
39 37 0.25
40 96 0.65
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGATCTTAGTCCGGATATAGGAACTAGCACAAATG
Found at i:35017781 original size:80 final size:80
Alignment explanation
Indices: 35017697--35017845 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
35017687 TATGGTAACC
* * * *
35017697 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
35017761 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
35017777 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
35017842 CCGG
66 CCGG
35017846 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:35017787 original size:40 final size:38
Alignment explanation
Indices: 35017738--35017845 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
35017728 ATCACGATTT
*
35017738 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
35017778 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
35017818 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
35017846 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:35022649 original size:16 final size:18
Alignment explanation
Indices: 35022614--35022650 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
35022604 AATGATCCCT
*
35022614 ATGCAATTTCTAATCTAA
1 ATGCAATTTCTAACCTAA
35022632 ATGCAATTT-T-ACCTAA
1 ATGCAATTTCTAACCTAA
35022648 ATG
1 ATG
35022651 TACGAATGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 1 0.06
18 9 0.50
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (18 bp):
ATGCAATTTCTAACCTAA
Found at i:35023331 original size:36 final size:36
Alignment explanation
Indices: 35023291--35023359 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
35023281 TAAACTCTAT
*
35023291 TCAGTTCAACAACCTTTTGGATCTATTCTAACTGAC
1 TCAGTTCAACAACCTTCTGGATCTATTCTAACTGAC
* **
35023327 TCAGTTTAGTAACCTTCTGGATCTATTCTAACT
1 TCAGTTCAACAACCTTCTGGATCTATTCTAACT
35023360 AAGGTGCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (36 bp):
TCAGTTCAACAACCTTCTGGATCTATTCTAACTGAC
Found at i:35027115 original size:40 final size:39
Alignment explanation
Indices: 35027071--35027196 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
35027061 GGGACTCAAC
*
35027071 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
35027111 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
35027151 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
35027191 CCGGAT
1 CCGGAT
35027197 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:35045707 original size:40 final size:40
Alignment explanation
Indices: 35045602--35045817 Score: 325
Period size: 39 Copynumber: 5.5 Consensus size: 40
35045592 CGGATGATAA
* *
35045602 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
35045642 CCGGGCTAAG-CCCCAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
35045681 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35045721 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35045760 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
35045800 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35045818 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
39 89 0.54
40 75 0.46
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35045739 original size:79 final size:79
Alignment explanation
Indices: 35045598--35045817 Score: 329
Period size: 79 Copynumber: 2.8 Consensus size: 79
35045588 TATTCGGATG
* * *
35045598 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCCAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T-CGGGCTAAGTCCCGAAGGC
35045661 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
*
35045677 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAAGTCCCGAAGGCAT
35045742 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
* * *
35045756 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCCGGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCGGGCTAAGTCCCGAAGG
35045818 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
78 11 0.08
79 118 0.91
80 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:35053946 original size:40 final size:40
Alignment explanation
Indices: 35053888--35054105 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
35053878 CGGATGATAA
* *
35053888 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
35053928 CCAGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
35053968 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35054008 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35054048 CTGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
35054088 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35054106 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 17 0.10
40 146 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35059088 original size:18 final size:18
Alignment explanation
Indices: 35059049--35059091 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
35059039 GAACGAAAAT
* *
35059049 AAGAAAATAGAAAGAAGT
1 AAGAAAAAAGAAAGAAGA
35059067 AAGAAAAAAGAAAG-AGAA
1 AAGAAAAAAGAAAGAAG-A
35059085 AAGAAAA
1 AAGAAAA
35059092 CGTGCTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (18 bp):
AAGAAAAAAGAAAGAAGA
Found at i:35062968 original size:25 final size:25
Alignment explanation
Indices: 35062940--35062992 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
35062930 AATTTGATAT
*
35062940 TTCAGCAGAGAATGCATTGTTGAGA
1 TTCAGCAGAGAAGGCATTGTTGAGA
35062965 TTCAGCAGAGAAGGCATTGTTGAGA
1 TTCAGCAGAGAAGGCATTGTTGAGA
35062990 TTC
1 TTC
35062993 GCAATAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (25 bp):
TTCAGCAGAGAAGGCATTGTTGAGA
Found at i:35063771 original size:61 final size:60
Alignment explanation
Indices: 35063694--35063860 Score: 214
Period size: 61 Copynumber: 2.8 Consensus size: 60
35063684 ATATTATTTT
* * * * *
35063694 TTAATATTATATATTATGATTTTTATT-CATTCATTTTTAATAATAATTATATTAAGAATGTTA
1 TTAA-ATT-TATATTATTATTTTTATTAAATT-ATATTTAATAATAATTATATTAA-AATATGA
*
35063757 TTAAATTTATATTATTATCTTTATTAAATTATATTTAATAATAATTATATTAAAATATGA
1 TTAAATTTATATTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGA
35063817 TTAAA-TTAT-TTATTATTTATTATTAAATTATATTTAATAATAAT
1 TTAAATTTATATTATTATTT-TTATTAAATTATATTTAATAATAAT
35063861 CCTATTATAA
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
58 8 0.08
59 29 0.31
60 10 0.11
61 38 0.40
62 6 0.06
63 4 0.04
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (60 bp):
TTAAATTTATATTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGA
Found at i:35064053 original size:16 final size:16
Alignment explanation
Indices: 35064032--35064085 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
35064022 TGAATTACTG
35064032 ATTACAACTCTATTCA
1 ATTACAACTCTATTCA
*
35064048 ATTACAGCTCTATTCA
1 ATTACAACTCTATTCA
* *
35064064 ATTACAACCCTATTCC
1 ATTACAACTCTATTCA
35064080 ATTACA
1 ATTACA
35064086 GTGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTACAACTCTATTCA
Found at i:35082715 original size:46 final size:46
Alignment explanation
Indices: 35082665--35082839 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
35082655 TGGTTGAGCA
*
35082665 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * ** *
35082711 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGATGC-AAACG
* *
35082757 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
35082803 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35082840 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
45 2 0.02
46 101 0.96
47 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:35082819 original size:92 final size:92
Alignment explanation
Indices: 35082662--35082832 Score: 297
Period size: 92 Copynumber: 1.9 Consensus size: 92
35082652 GGATGGTTGA
* * *
35082662 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
35082727 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
* *
35082754 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
35082819 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
35082833 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:35086393 original size:20 final size:20
Alignment explanation
Indices: 35086368--35086407 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
35086358 AATTGCTATG
35086368 CTACCTAACCTATCTCTTAA
1 CTACCTAACCTATCTCTTAA
35086388 CTACCTAACCTATCTCTTAA
1 CTACCTAACCTATCTCTTAA
35086408 AGACTCTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (20 bp):
CTACCTAACCTATCTCTTAA
Found at i:35093743 original size:5 final size:5
Alignment explanation
Indices: 35093733--35093759 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
35093723 TACCTAAGAA
35093733 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
35093760 GTACTCTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:35102432 original size:21 final size:21
Alignment explanation
Indices: 35102408--35102454 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
35102398 ACTTTATAAG
* *
35102408 TTTCTAAGGATTTAAAGCTTT
1 TTTCGAAGAATTTAAAGCTTT
* *
35102429 TTTCGAAGAATTTAATGTTTT
1 TTTCGAAGAATTTAAAGCTTT
35102450 TTTCG
1 TTTCG
35102455 CATTAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.51
Consensus pattern (21 bp):
TTTCGAAGAATTTAAAGCTTT
Found at i:35105095 original size:48 final size:48
Alignment explanation
Indices: 35105019--35105152 Score: 162
Period size: 48 Copynumber: 2.8 Consensus size: 48
35105009 CACATAATAA
* * * *
35105019 GATGCCAACGCCATATCCTAGATATGGTCTTACATGGGATCACCACA-C
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC-CCACATC
* * *
35105067 GATGCCAATACCATGTCCCAGACATGGTCTTACATGGGATCTCATATGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCCACA--TC
*
35105117 AATGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATG
35105153 ATAACATACC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 3 0.04
48 36 0.49
50 35 0.47
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCCACATC
Found at i:35107593 original size:27 final size:27
Alignment explanation
Indices: 35107519--35107593 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 27
35107509 ATACGCCATT
35107519 AAGGCGATCCATTCAGAGTACACCACA
1 AAGGCGATCCATTCAGAGTACACCACA
* * *
35107546 AATGGCGATCCATTCAAAGTACACTATA
1 AA-GGCGATCCATTCAGAGTACACCACA
* *
35107574 AAGGTGATCTATTCAGAGTA
1 AAGGCGATCCATTCAGAGTA
35107594 TGTCATGGCC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 17 0.41
28 24 0.59
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (27 bp):
AAGGCGATCCATTCAGAGTACACCACA
Found at i:35109085 original size:10 final size:9
Alignment explanation
Indices: 35109062--35109202 Score: 67
Period size: 9 Copynumber: 15.4 Consensus size: 9
35109052 ATTTTCCCAT
*
35109062 AAAAATGATT
1 AAAAAT-ATA
35109072 AAAAATCATA
1 AAAAAT-ATA
35109082 AAAAA-ATA
1 AAAAATATA
*
35109090 AAAAAGTAGAA
1 AAAAA-TA-TA
35109101 AAAAATATA
1 AAAAATATA
** *
35109110 TTAAATATT
1 AAAAATATA
35109119 AAAAA-AT-
1 AAAAATATA
*
35109126 AAAAATATT
1 AAAAATATA
*
35109135 AAAATTATA
1 AAAAATATA
*** *
35109144 TAACCTTATT
1 -AAAAATATA
*
35109154 AAAATTATA
1 AAAAATATA
35109163 AAAAAT-TA
1 AAAAATATA
35109171 TAAAAATATA
1 -AAAAATATA
*
35109181 AAATAT-TA
1 AAAAATATA
35109189 TAAAAATATA
1 -AAAAATATA
35109199 AAAA
1 AAAA
35109203 TTCAAATAAG
Statistics
Matches: 101, Mismatches: 20, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
7 5 0.05
8 16 0.16
9 48 0.48
10 26 0.26
11 6 0.06
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (9 bp):
AAAAATATA
Found at i:35109171 original size:19 final size:18
Alignment explanation
Indices: 35109153--35109249 Score: 83
Period size: 18 Copynumber: 5.3 Consensus size: 18
35109143 ATAACCTTAT
*
35109153 TAAAATTATAAAAAATTA
1 TAAAAATATAAAAAATTA
*
35109171 TAAAAATATAAAATATTA
1 TAAAAATATAAAAAATTA
35109189 TAAAAATAT-AAAAATTCA
1 TAAAAATATAAAAAATT-A
* *
35109207 -AATAAGTTCTAAAAAATTA
1 TAA-AA-ATATAAAAAATTA
*
35109226 TAAAAA-ATAATGAAATTAA
1 TAAAAATATAA-AAAATT-A
35109245 TAAAA
1 TAAAA
35109250 CTTATTTTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
17 11 0.17
18 33 0.52
19 11 0.17
20 9 0.14
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
TAAAAATATAAAAAATTA
Found at i:35109180 original size:35 final size:35
Alignment explanation
Indices: 35109115--35109211 Score: 85
Period size: 35 Copynumber: 2.8 Consensus size: 35
35109105 ATATATTAAA
*
35109115 TATTAAAAAATAAAAATATTAAAATTATATAACCT
1 TATTAAAAAATAAAAATATTAAAATAATATAACCT
* **
35109150 TATTAAAATTATAAAAA-ATTATAAA-AATATAA-AA
1 TATTAAAA-AATAAAAATATTA-AAATAATATAACCT
*
35109184 TATTATAAAAATATAAAA-ATTCAAATAA
1 TATTA-AAAAATA-AAAATATTAAAATAA
35109212 GTTCTAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
34 11 0.22
35 30 0.59
36 10 0.20
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (35 bp):
TATTAAAAAATAAAAATATTAAAATAATATAACCT
Found at i:35109231 original size:10 final size:10
Alignment explanation
Indices: 35109154--35109233 Score: 73
Period size: 10 Copynumber: 8.5 Consensus size: 10
35109144 TAACCTTATT
35109154 AAAATTATAA
1 AAAATTATAA
35109164 AAAATTAT-A
1 AAAATTATAA
35109173 AAAA-TATAA
1 AAAATTATAA
*
35109182 AATATTAT-A
1 AAAATTATAA
35109191 AAAA-TAT-A
1 AAAATTATAA
35109199 AAAATTCA-AA
1 AAAATT-ATAA
* * *
35109209 TAAGTTCTAA
1 AAAATTATAA
35109219 AAAATTATAA
1 AAAATTATAA
35109229 AAAAT
1 AAAAT
35109234 AATGAAATTA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
8 11 0.20
9 14 0.25
10 31 0.55
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (10 bp):
AAAATTATAA
Found at i:35109330 original size:28 final size:28
Alignment explanation
Indices: 35109285--35109359 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
35109275 TATTAGAATT
* *
35109285 CTTAAAAAAAAATAAAAATGG-TAAAAAA
1 CTTATAAAAATATAAAAATGGAT-AAAAA
* * *
35109313 CTTATAAAAATATTAAAATTGATATAAA
1 CTTATAAAAATATAAAAATGGATAAAAA
35109341 CTTATAAAAATTATAAAAA
1 CTTATAAAAA-TATAAAAA
35109360 AATCATAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
28 31 0.79
29 8 0.21
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (28 bp):
CTTATAAAAATATAAAAATGGATAAAAA
Found at i:35109338 original size:20 final size:19
Alignment explanation
Indices: 35109315--35109370 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
35109305 GTAAAAAACT
*
35109315 TATAAAAATATTAAAATTGA
1 TATAAAAATATAAAAATT-A
**
35109335 TATAAACTTATAAAAATTA
1 TATAAAAATATAAAAATTA
*
35109354 TAAAAAAATCATAAAAA
1 TATAAAAAT-ATAAAAA
35109371 CTTGAATTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
TATAAAAATATAAAAATTA
Found at i:35109359 original size:9 final size:9
Alignment explanation
Indices: 35109308--35109359 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
35109298 AAAAATGGTA
35109308 AAAAACTTAT
1 AAAAA-TTAT
35109318 AAAAA-TAT
1 AAAAATTAT
*
35109326 TAAAATTGAT
1 AAAAATT-AT
*
35109336 ATAAACTTAT
1 A-AAAATTAT
35109346 AAAAATTAT
1 AAAAATTAT
35109355 AAAAA
1 AAAAA
35109360 AATCATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
8 7 0.20
9 13 0.37
10 10 0.29
11 5 0.14
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:35109367 original size:28 final size:28
Alignment explanation
Indices: 35109310--35109368 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
35109300 AAATGGTAAA
**
35109310 AAACTTATAAAAATATTAAAATTGATAT
1 AAACTTATAAAAATATTAAAATAAATAT
35109338 AAACTTATAAAAAT-TATAAAA-AAATCAT
1 AAACTTATAAAAATAT-TAAAATAAAT-AT
35109366 AAA
1 AAA
35109369 AACTTGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (28 bp):
AAACTTATAAAAATATTAAAATAAATAT
Found at i:35109935 original size:19 final size:18
Alignment explanation
Indices: 35109913--35109994 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 18
35109903 TTTTTATTGA
35109913 TTTTATAATTCATTATAAT
1 TTTTATAATT-ATTATAAT
* *
35109932 TTTTATAATTTTTTTATAT
1 TTTTATAATTATTATA-AT
*
35109951 TTTTATAA-TATTTATAAA
1 TTTTATAATTA-TTATAAT
35109969 TTTTATAAGTT-TATATCAAT
1 TTTTATAA-TTAT-TAT-AAT
35109989 TTTTAT
1 TTTTAT
35109995 TTTTTCATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
18 15 0.29
19 27 0.53
20 9 0.18
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (18 bp):
TTTTATAATTATTATAAT
Found at i:35109953 original size:8 final size:9
Alignment explanation
Indices: 35109913--35110047 Score: 93
Period size: 9 Copynumber: 15.0 Consensus size: 9
35109903 TTTTTATTGA
35109913 TTTTATAAT
1 TTTTATAAT
*
35109922 TCATTATAAT
1 T-TTTATAAT
35109932 TTTTATAAT
1 TTTTATAAT
*
35109941 TTTTTTATAT
1 TTTTATA-AT
35109951 TTTTATAAT
1 TTTTATAAT
* *
35109960 ATTTATAAA
1 TTTTATAAT
35109969 TTTTATAAGT
1 TTTTATAA-T
*
35109979 TTATATCAAT
1 TTTTAT-AAT
35109989 TTTTAT--T
1 TTTTATAAT
35109996 TTTTCAT-A-
1 TTTT-ATAAT
*
35110004 TTTAATAAT
1 TTTTATAAT
*
35110013 TTTTATGAT
1 TTTTATAAT
*
35110022 TTTT-TATT
1 TTTTATAAT
*
35110030 TTTTAAAAT
1 TTTTATAAT
35110039 ATTTT-TAAT
1 -TTTTATAAT
35110048 CATTTTATGA
Statistics
Matches: 98, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
7 7 0.07
8 12 0.12
9 46 0.47
10 31 0.32
11 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:35110457 original size:30 final size:32
Alignment explanation
Indices: 35110421--35110490 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 32
35110411 GTTTCAATTT
*
35110421 AGTCACTCAAC-TT-TTGAAAAATGACAAATC
1 AGTCACTCAACGTTATCGAAAAATGACAAATC
* *
35110451 AGTCACT-AACGTTATCGAAAAGTGACAAATT
1 AGTCACTCAACGTTATCGAAAAATGACAAATC
*
35110482 AGTGACTCA
1 AGTCACTCA
35110491 CTAACATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 3 0.09
30 9 0.27
31 20 0.61
32 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (32 bp):
AGTCACTCAACGTTATCGAAAAATGACAAATC
Found at i:35120154 original size:75 final size:75
Alignment explanation
Indices: 35120031--35120180 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
35120021 ATTGAAAGAC
35120031 TAATATGTCATCTATCAAGTCCAATTGGGGAGATGCTTTGTCTTGAACATCGAAGCTTATGACTC
1 TAATATGTCATCTATCAAGTCCAATTGGGGAGATGCTTTGTCTTGAACATCGAAGCTTATGACTC
35120096 TAAGAAGATA
66 TAAGAAGATA
35120106 TAATATGTCATCTATCAAGTCCAATTGGGGAGATGCTTTGTCTTGAACATCGAAGCTTATGACTC
1 TAATATGTCATCTATCAAGTCCAATTGGGGAGATGCTTTGTCTTGAACATCGAAGCTTATGACTC
*
35120171 TGAGAAGATA
66 TAAGAAGATA
35120181 GAGACATAGA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (75 bp):
TAATATGTCATCTATCAAGTCCAATTGGGGAGATGCTTTGTCTTGAACATCGAAGCTTATGACTC
TAAGAAGATA
Found at i:35133908 original size:67 final size:67
Alignment explanation
Indices: 35133759--35133915 Score: 167
Period size: 67 Copynumber: 2.3 Consensus size: 67
35133749 CTAGCCAATT
* *
35133759 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-T-GAATCACACATGCGACCTAGCTACA
**
35133824 TTTA
64 CATA
* * *
35133828 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-GTATCACACATGTGACCTAGCTAC
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTGAATCACACATGCGACCTAGCTAC
35133890 TACATA
63 -ACATA
35133896 GTATCTCGTAGCTCTCTTGT
1 -TATCTCGTAGCTCTCTTGT
35133916 ACACATGATG
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
67 36 0.48
68 3 0.04
69 8 0.11
70 2 0.03
71 26 0.35
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (67 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTGAATCACACATGCGACCTAGCTACACA
TA
Found at i:35138171 original size:29 final size:29
Alignment explanation
Indices: 35138132--35138211 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
35138122 CTTAATAATC
*
35138132 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
35138162 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
35138191 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
35138212 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:35138731 original size:2 final size:2
Alignment explanation
Indices: 35138724--35138750 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35138714 ATATGCATAC
35138724 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
35138751 CAACTATACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35146049 original size:29 final size:29
Alignment explanation
Indices: 35146010--35146089 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
35146000 CTTAATAATC
*
35146010 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
35146040 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
35146069 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
35146090 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:35153172 original size:85 final size:85
Alignment explanation
Indices: 35153023--35153178 Score: 206
Period size: 85 Copynumber: 1.8 Consensus size: 85
35153013 GTCTGAGACA
* * * * *
35153023 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTTAGAATTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTATGGGACACAGGCATCGATTTAGAATTACATATAAGACCACGTCTGGGA
35153088 CATCGGAATCGTATCTGATT
66 CATCGGAATCGTATCTGATT
* * * *
35153108 TCGTGTAAGACCCTGTATGGGATAGAGGCATCGATATT-GAATTACATGTAAGACCACGTTTGGG
1 TCGTGTAAGACCCTGTATGGGACACAGGCATCGAT-TTAGAATTACATATAAGACCACGTCTGGG
*
35153172 ACGTCGG
65 ACATCGG
35153179 CATTGTACTT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
85 58 0.97
86 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTATGGGACACAGGCATCGATTTAGAATTACATATAAGACCACGTCTGGGA
CATCGGAATCGTATCTGATT
Found at i:35155459 original size:25 final size:25
Alignment explanation
Indices: 35155427--35155477 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
35155417 GTGGCATAAC
35155427 TTGATCCTGAGTGGATGATAAACTA
1 TTGATCCTGAGTGGATGATAAACTA
35155452 TTGATCCTGAGTGGATGATAAACTA
1 TTGATCCTGAGTGGATGATAAACTA
35155477 T
1 T
35155478 GTATGCGTGA
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:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (25 bp):
TTGATCCTGAGTGGATGATAAACTA
Found at i:35160025 original size:42 final size:43
Alignment explanation
Indices: 35159926--35160063 Score: 131
Period size: 43 Copynumber: 3.2 Consensus size: 43
35159916 TGAGATATCG
* * *
35159926 TGTAAGACCGTGTCTGGGACACAGGCCTCG--ATTGAGATATACA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGA-AT-TACA
* * ** * *
35159969 TATAAGACCATGTCTGTGACATCGGCATCG-TATCTG-ATTTCG
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATAT-TGAATTACA
*
35160011 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACA
35160054 TGTAAGACCA
1 TGTAAGACCA
35160064 CATCCGGGAC
Statistics
Matches: 75, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
42 29 0.39
43 42 0.56
44 2 0.03
45 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACA
Found at i:35160079 original size:85 final size:85
Alignment explanation
Indices: 35159923--35160079 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 85
35159913 ACTTGAGATA
* * ** * *
35159923 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATATACATATAAGACCATGTCTGTGA
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATATACATATAAGACCACATCCGGGA
35159988 CATCGGCATCGTATCTGATT
66 CATCGGCATCGTATCTGATT
* *
35160008 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-AT-TACATGTAAGACCACATCCGG
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCG--ATTGAGATATACATATAAGACCACATCCGG
*
35160071 GACGTCGGC
64 GACATCGGC
35160080 GTTGTACTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 54 0.89
86 2 0.03
87 5 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATATACATATAAGACCACATCCGGGA
CATCGGCATCGTATCTGATT
Found at i:35162069 original size:49 final size:49
Alignment explanation
Indices: 35161898--35162122 Score: 308
Period size: 49 Copynumber: 4.5 Consensus size: 49
35161888 TGAGGTCGCA
* * * *
35161898 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTG-G-TCACG
* * **
35161949 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
*
35161999 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
35162048 TGTGTAGTACTAAGTGCAGGCTACTACAG-GTACCGGATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTAC-GTGTACCGGATAATTGGTCACG
*
35162097 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
35162123 TGCGTACCAG
Statistics
Matches: 157, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
49 77 0.49
50 43 0.27
51 36 0.23
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:35169081 original size:25 final size:25
Alignment explanation
Indices: 35169047--35169097 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
35169037 ATCCCTAAGG
35169047 GGGAGAATTGTAACAGTCTAGTTTT
1 GGGAGAATTGTAACAGTCTAGTTTT
35169072 GGGAGAATTGTAACAGTCTAGTTTT
1 GGGAGAATTGTAACAGTCTAGTTTT
35169097 G
1 G
35169098 ACCCTAGTCG
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:0.27, C:0.08, G:0.29, T:0.35
Consensus pattern (25 bp):
GGGAGAATTGTAACAGTCTAGTTTT
Found at i:35171675 original size:18 final size:18
Alignment explanation
Indices: 35171652--35171733 Score: 51
Period size: 18 Copynumber: 4.4 Consensus size: 18
35171642 AATGGGGGTC
35171652 AAAGAAATTGAAAAAGAA
1 AAAGAAATTGAAAAAGAA
** *
35171670 AAAGAAACCGAAAAAGGA
1 AAAGAAATTGAAAAAGAA
*
35171688 CAAGAGAA-TGAACGAAAGCAA
1 AAAGA-AATTGAA--AAAG-AA
* *
35171709 AAAGAGATTGAGATAA-AA
1 AAAGAAATTGA-AAAAGAA
35171727 AAAGAAA
1 AAAGAAA
35171734 GTAAGCAAGA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
18 30 0.62
19 2 0.04
20 7 0.15
21 8 0.17
22 1 0.02
ACGTcount: A:0.66, C:0.06, G:0.21, T:0.07
Consensus pattern (18 bp):
AAAGAAATTGAAAAAGAA
Found at i:35173463 original size:20 final size:21
Alignment explanation
Indices: 35173430--35173468 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35173420 AATTAGTTTG
35173430 AGCTCAATTCAGCTCGTTTCC
1 AGCTCAATTCAGCTCGTTTCC
*
35173451 AGCTCAA-TGAGCTCGTTT
1 AGCTCAATTCAGCTCGTTT
35173469 GCTCATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (21 bp):
AGCTCAATTCAGCTCGTTTCC
Found at i:35175087 original size:7 final size:7
Alignment explanation
Indices: 35175077--35175107 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
35175067 CTAGTGGTAA
*
35175077 GTGGTGT
1 GTGGAGT
35175084 GTGGAGT
1 GTGGAGT
35175091 GTGGAGT
1 GTGGAGT
35175098 GTGGAGT
1 GTGGAGT
35175105 GTG
1 GTG
35175108 CTAGTGGTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.10, C:0.00, G:0.58, T:0.32
Consensus pattern (7 bp):
GTGGAGT
Found at i:35176668 original size:27 final size:27
Alignment explanation
Indices: 35176638--35176754 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
35176628 CCTTATGTGA
*
35176638 TAAAATGACCAAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCTCATAGGG
*
35176665 TAAAATAACCGAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCTCATAGGG
* * *
35176692 TAGAATGATCGAAATACCC-CTGTAGGG
1 TAAAATGACCGAAATACCCTC-ATAGGG
* * * * *
35176719 TAAATTGACTGTAATACCC-CGGTAAGG
1 TAAAATGACCGAAATACCCTC-ATAGGG
35176746 TAAAATGAC
1 TAAAATGAC
35176755 AGATTTGTTC
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 74 0.99
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCATAGGG
Found at i:35177126 original size:18 final size:18
Alignment explanation
Indices: 35177100--35177155 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
35177090 TCTTGTATAT
*
35177100 TGCACTGATTACTGTTAC
1 TGCATTGATTACTGTTAC
*
35177118 TGCATTGATCA-TGGTTAC
1 TGCATTGATTACT-GTTAC
35177136 TGCATTGATTACTGTTAC
1 TGCATTGATTACTGTTAC
35177154 TG
1 TG
35177156 AAATGGGCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (18 bp):
TGCATTGATTACTGTTAC
Found at i:35179019 original size:22 final size:21
Alignment explanation
Indices: 35178994--35179062 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
35178984 AACGACTCTT
35178994 AAATGAAATTGAGAGAAGAAA-A
1 AAATGAAA-TGAGAGAA-AAAGA
35179016 AAATGAAATGAGAGAAAAAGA
1 AAATGAAATGAGAGAAAAAGA
*
35179037 AATTGAAA--AG-GAAAAAGA
1 AAATGAAATGAGAGAAAAAGA
*
35179055 AACTGAAA
1 AAATGAAA
35179063 AAGGAAAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
18 15 0.34
19 2 0.05
20 3 0.07
21 16 0.36
22 8 0.18
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (21 bp):
AAATGAAATGAGAGAAAAAGA
Found at i:35179079 original size:18 final size:19
Alignment explanation
Indices: 35179029--35179075 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
35179019 TGAAATGAGA
*
35179029 GAAAAAGAAATTG-AAAAG
1 GAAAAAGAAACTGAAAAAG
35179047 GAAAAAGAAACTGAAAAAG
1 GAAAAAGAAACTGAAAAAG
35179066 GAAAAGAGAA
1 GAAAA-AGAA
35179076 TGAACGAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 12 0.46
19 10 0.38
20 4 0.15
ACGTcount: A:0.68, C:0.02, G:0.23, T:0.06
Consensus pattern (19 bp):
GAAAAAGAAACTGAAAAAG
Found at i:35193376 original size:33 final size:31
Alignment explanation
Indices: 35193290--35193386 Score: 106
Period size: 34 Copynumber: 3.0 Consensus size: 31
35193280 TTTCAGTTAA
*
35193290 GGCCTTAGCCCA-TACCAGTAACAGTAGCAGTCTG
1 GGCCTAAGCCCATTA-CAGTAACAGTA-CAG--TG
* *
35193324 GGCCTGAGCCCATTTCAGTAACAGTATCAGTG
1 GGCCTAAGCCCATTACAGTAACAGTA-CAGTG
35193356 GGACCTAAGCCCATTACAGTAACAGTACAGT
1 GG-CCTAAGCCCATTACAGTAACAGTACAGT
35193387 ATGCAATCAG
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
32 8 0.14
33 22 0.39
34 25 0.45
35 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (31 bp):
GGCCTAAGCCCATTACAGTAACAGTACAGTG
Found at i:35195212 original size:54 final size:54
Alignment explanation
Indices: 35195149--35195257 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
35195139 CAGACCCCCT
35195149 TGCACACTCCACACGCCACTCGCCACTAGACTAGCAGGCTTTTTATGTCATGCC
1 TGCACACTCCACACGCCACTCGCCACTAGACTAGCAGGCTTTTTATGTCATGCC
*
35195203 TGCACACTCCACACGCCTCTCGCCACTAGACTAGCAGGCTTTTTATGTCATGCC
1 TGCACACTCCACACGCCACTCGCCACTAGACTAGCAGGCTTTTTATGTCATGCC
35195257 T
1 T
35195258 TGCTCACATT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.21, C:0.37, G:0.17, T:0.26
Consensus pattern (54 bp):
TGCACACTCCACACGCCACTCGCCACTAGACTAGCAGGCTTTTTATGTCATGCC
Found at i:35200681 original size:2 final size:2
Alignment explanation
Indices: 35200674--35200708 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
35200664 TTGTATGCTT
35200674 TA TA TA TA TA 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 TA TA TA TA TA T
35200709 GAATATGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35202328 original size:25 final size:25
Alignment explanation
Indices: 35202295--35202344 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
35202285 TTGTAAATAA
35202295 GAAAAATATATCTAGA-AATTTTCT
1 GAAAAATATATCTAGAGAATTTTCT
* *
35202319 GAAATAATATCTTTAGAGAATTTTCT
1 GAAA-AATATATCTAGAGAATTTTCT
35202345 CTCTATAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (25 bp):
GAAAAATATATCTAGAGAATTTTCT
Found at i:35202515 original size:59 final size:61
Alignment explanation
Indices: 35202452--35202568 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 61
35202442 ATTATTTTAA
* * * *
35202452 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTACTACAAGATAAACATGAAATTAAATTTAATATTAAATCT
35202511 TATTAAATTAATAGAATATTTATCTACAAGATAAACATGAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATATTTA-CTACAAGATAAACATGAAATTAAATTTAATATTAA
35202569 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 21 0.41
61 1 0.02
62 29 0.57
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (61 bp):
TATTAAATTAATAGAATATTTACTACAAGATAAACATGAAATTAAATTTAATATTAAATCT
Found at i:35202991 original size:5 final size:5
Alignment explanation
Indices: 35202983--35203032 Score: 59
Period size: 5 Copynumber: 10.4 Consensus size: 5
35202973 AAATATCATA
* * *
35202983 TTAAT TTAA- TTAAT TTGA- TTAAT TTAAT TTAAT TTGAT TAAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
35203031 TT
1 TT
35203033 TCCCAAAATC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
4 7 0.19
5 30 0.81
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (5 bp):
TTAAT
Found at i:35202996 original size:9 final size:9
Alignment explanation
Indices: 35202982--35203031 Score: 64
Period size: 9 Copynumber: 5.3 Consensus size: 9
35202972 AAAATATCAT
35202982 ATTAATTTA
1 ATTAATTTA
*
35202991 ATTAATTTG
1 ATTAATTTA
35203000 ATTAATTTA
1 ATTAATTTA
*
35203009 ATTTAATTTG
1 A-TTAATTTA
35203019 ATTAAATTTA
1 ATT-AATTTA
35203029 ATT
1 ATT
35203032 TTCCCAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
9 19 0.54
10 16 0.46
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (9 bp):
ATTAATTTA
Found at i:35203011 original size:14 final size:14
Alignment explanation
Indices: 35202983--35203032 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
35202973 AAATATCATA
35202983 TTAATTTAATTAAT
1 TTAATTTAATTAAT
*
35202997 TTGA-TTAATTTAAT
1 TTAATTTAA-TTAAT
*
35203011 TTAATTTGATTAAAT
1 TTAATTTAATT-AAT
35203026 TTAATTT
1 TTAATTT
35203033 TCCCAAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 4 0.13
14 13 0.43
15 13 0.43
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (14 bp):
TTAATTTAATTAAT
Found at i:35214908 original size:29 final size:29
Alignment explanation
Indices: 35214875--35214934 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
35214865 ATAACCAAAC
* *
35214875 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
35214904 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
35214933 CT
1 CT
35214935 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:35214927 original size:15 final size:15
Alignment explanation
Indices: 35214881--35214928 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
35214871 AAACCTACAA
*
35214881 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
35214896 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
35214910 AAACTTCATATCCAT
1 AAACTTCATATCCAT
35214925 AAAC
1 AAAC
35214929 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:35215167 original size:13 final size:12
Alignment explanation
Indices: 35215146--35215182 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
35215136 TCAAGTAAGT
35215146 TTCAAAAAAAAA
1 TTCAAAAAAAAA
35215158 TTCGAAAAAAAAA
1 TTC-AAAAAAAAA
35215171 TTCAAAAAAAAA
1 TTCAAAAAAAAA
35215183 AAACAAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.73, C:0.08, G:0.03, T:0.16
Consensus pattern (12 bp):
TTCAAAAAAAAA
Found at i:35215184 original size:14 final size:13
Alignment explanation
Indices: 35215149--35215183 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
35215139 AGTAAGTTTC
*
35215149 AAAAAAAAATTCG
1 AAAAAAAAATTCA
35215162 AAAAAAAAATTCA
1 AAAAAAAAATTCA
35215175 AAAAAAAAA
1 AAAAAAAAA
35215184 AACAAAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.11
Consensus pattern (13 bp):
AAAAAAAAATTCA
Found at i:35216263 original size:30 final size:28
Alignment explanation
Indices: 35216227--35216282 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
35216217 AAGCGAAAAA
* *
35216227 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
35216257 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
35216283 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:35219540 original size:29 final size:29
Alignment explanation
Indices: 35219507--35219566 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
35219497 ATAACCAAAC
* *
35219507 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
35219536 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
35219565 CT
1 CT
35219567 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:35219559 original size:15 final size:15
Alignment explanation
Indices: 35219513--35219560 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
35219503 AAACCTACAA
*
35219513 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
35219528 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
35219542 AAACTTCATATCCAT
1 AAACTTCATATCCAT
35219557 AAAC
1 AAAC
35219561 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Done.