Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 48 of 125
Found at i:9635106 original size:24 final size:24
Alignment explanation
Indices: 9635079--9635138 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
9635069 CTTATCATGC
*
9635079 ATAAATATAAAAAAAATACTTAAA
1 ATAAATATAAAAAAAAAACTTAAA
*
9635103 ATAACA-A-AAAAAAAAAATTTAAA
1 ATAA-ATATAAAAAAAAAACTTAAA
*
9635126 AAAAAT-TAAAAAA
1 ATAAATATAAAAAA
9635139 TTTAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
22 1 0.03
23 23 0.77
24 5 0.17
25 1 0.03
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (24 bp):
ATAAATATAAAAAAAAAACTTAAA
Found at i:9635126 original size:9 final size:9
Alignment explanation
Indices: 9635114--9635147 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
9635104 TAACAAAAAA
9635114 AAAAAATTT
1 AAAAAATTT
*
9635123 AAAAAAAATT
1 -AAAAAATTT
9635133 AAAAAATTT
1 AAAAAATTT
9635142 AAAAAA
1 AAAAAA
9635148 AATTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAAATTT
Found at i:9635126 original size:10 final size:10
Alignment explanation
Indices: 9635113--9635148 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
9635103 ATAACAAAAA
9635113 AAAAAAATTT
1 AAAAAAATTT
*
9635123 AAAAAAAATT
1 AAAAAAATTT
9635133 -AAAAAATTT
1 AAAAAAATTT
9635142 AAAAAAA
1 AAAAAAA
9635149 ATTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:9635126 original size:11 final size:11
Alignment explanation
Indices: 9635112--9635152 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
9635102 AATAACAAAA
9635112 AAAAAAAATTT
1 AAAAAAAATTT
9635123 AAAAAAAA-TT
1 AAAAAAAATTT
9635133 --AAAAAATTT
1 AAAAAAAATTT
9635142 AAAAAAAATTT
1 AAAAAAAATTT
9635153 TTTTTTACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 6 0.22
9 2 0.07
10 2 0.07
11 17 0.63
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAAAAATTT
Found at i:9635130 original size:19 final size:19
Alignment explanation
Indices: 9635108--9635149 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
9635098 TTAAAATAAC
9635108 AAAAAAAAAAAATTTAAAA
1 AAAAAAAAAAAATTTAAAA
**
9635127 AAAATTAAAAAATTTAAAA
1 AAAAAAAAAAAATTTAAAA
9635146 AAAA
1 AAAA
9635150 TTTTTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAAAAAAAAAATTTAAAA
Found at i:9635150 original size:19 final size:19
Alignment explanation
Indices: 9635114--9635151 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9635104 TAACAAAAAA
9635114 AAAAAATTTAAAAAAAATT
1 AAAAAATTTAAAAAAAATT
9635133 AAAAAATTTAAAAAAAATT
1 AAAAAATTTAAAAAAAATT
9635152 TTTTTTTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAAATTTAAAAAAAATT
Found at i:9635732 original size:14 final size:14
Alignment explanation
Indices: 9635694--9635732 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
9635684 TTTCCGTCAG
9635694 ATTTTT-TTTTTAT
1 ATTTTTATTTTTAT
* *
9635707 ATTTTGACTTTTAT
1 ATTTTTATTTTTAT
9635721 ATTTTTATTTTT
1 ATTTTTATTTTT
9635733 TTGAAACTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (14 bp):
ATTTTTATTTTTAT
Found at i:9636135 original size:36 final size:36
Alignment explanation
Indices: 9636070--9636186 Score: 114
Period size: 36 Copynumber: 3.2 Consensus size: 36
9636060 TCCTTGATTT
* * * *
9636070 TTTTTTTGTTTTCTATTTTTTGTTCTTTTTTTTGTA
1 TTTTTTTGTTTTATATTTTGTATTATTTTTTTTGTA
*
9636106 TTTTTTTGTTTTATATTTTGTATTA--TTTTTGGTA
1 TTTTTTTGTTTTATATTTTGTATTATTTTTTTTGTA
* *
9636140 TTTTTTTTGTATTTCATATTTTGTAATATTATTATTT-TA
1 -TTTTTTTGT-TTT-ATATTTTGTATTATT-TTTTTTGTA
9636179 TTTTTTTG
1 TTTTTTTG
9636187 GGACAAAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
34 8 0.12
35 9 0.13
36 24 0.36
37 12 0.18
38 8 0.12
39 2 0.03
40 4 0.06
ACGTcount: A:0.14, C:0.03, G:0.09, T:0.75
Consensus pattern (36 bp):
TTTTTTTGTTTTATATTTTGTATTATTTTTTTTGTA
Found at i:9636145 original size:11 final size:11
Alignment explanation
Indices: 9636085--9636153 Score: 70
Period size: 12 Copynumber: 6.1 Consensus size: 11
9636075 TTGTTTTCTA
*
9636085 TTTTTTGTTCTT
1 TTTTTTG-TATT
9636097 TTTTTTGTA-T
1 TTTTTTGTATT
9636107 TTTTTTGT-TT
1 TTTTTTGTATT
9636117 TATATTTTGTATT
1 T-T-TTTTGTATT
*
9636130 ATTTTTGGTATT
1 -TTTTTTGTATT
9636142 TTTTTTGTATT
1 TTTTTTGTATT
9636153 T
1 T
9636154 CATATTTTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
10 11 0.22
11 13 0.27
12 21 0.43
13 3 0.06
14 1 0.02
ACGTcount: A:0.10, C:0.01, G:0.10, T:0.78
Consensus pattern (11 bp):
TTTTTTGTATT
Found at i:9636836 original size:174 final size:175
Alignment explanation
Indices: 9636510--9636900 Score: 597
Period size: 174 Copynumber: 2.2 Consensus size: 175
9636500 TAAGGATCAG
* * *
9636510 GATTAAATCGTGAATCAAAGAATAAAGAGATCGAGATTAAATCGCGAATCAAAAAATGATGTTAA
1 GATTGAATCGTGAATCAAAGAATAAAAAGATCGAGATTAAACCGCGAATCAAAAAATGATGTTAA
* * *
9636575 CTTGGATTGAATCACAAGTCAAAAAAATAAGAAGATCGAGAATAAATCACTAGTCAGAGGTTAAC
66 CTTGGATTGAATCACAAATCAAAAAAATAAAAAGATCGAGAATAAATCACGAGTCAGAGGTTAAC
*
9636640 AACAACAATCGAGATTAAACTATGATTTTAAATTAAAAAGATTGA
131 AACAACAATCGAGATTAAACTATGATTTTAAATTAAAAAGATCGA
* * * * * * *
9636685 GATTGAATCGTAAATCGAAGAATAAAAAAATCGAGATTGAACCGTGAGTCAGAAAATGATGTTAA
1 GATTGAATCGTGAATCAAAGAATAAAAAGATCGAGATTAAACCGCGAATCAAAAAATGATGTTAA
*
9636750 CTTGGATTGAATCACAAATC-AAAAAATAAAAAGATCGAGAATAAATCACGAGTCAGGGGTTAAC
66 CTTGGATTGAATCACAAATCAAAAAAATAAAAAGATCGAGAATAAATCACGAGTCAGAGGTTAAC
*
9636814 AACAACAATC-AGGATTAAACTATGATTTTAAATTAAAGAGATCGA
131 AACAACAATCGA-GATTAAACTATGATTTTAAATTAAAAAGATCGA
* *
9636859 GATTGAACCGTGAATCAAAGAATAAAAAGATCGGGATTAAAC
1 GATTGAATCGTGAATCAAAGAATAAAAAGATCGAGATTAAAC
9636901 TACGAGTCAG
Statistics
Matches: 193, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
173 1 0.01
174 118 0.61
175 74 0.38
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.23
Consensus pattern (175 bp):
GATTGAATCGTGAATCAAAGAATAAAAAGATCGAGATTAAACCGCGAATCAAAAAATGATGTTAA
CTTGGATTGAATCACAAATCAAAAAAATAAAAAGATCGAGAATAAATCACGAGTCAGAGGTTAAC
AACAACAATCGAGATTAAACTATGATTTTAAATTAAAAAGATCGA
Found at i:9636936 original size:105 final size:104
Alignment explanation
Indices: 9636774--9637223 Score: 554
Period size: 102 Copynumber: 4.3 Consensus size: 104
9636764 CAAATCAAAA
* ** * *
9636774 AATAAAAAGATCGAGAATAAA-TCACGAGTCAGGGGTTAACAACAACAATC-AGGATTAAACTAT
1 AATAAAAAGATCGAGATTAAACT-ACGAGTCA-AAGATAACAACAACAATCGA-GATTAAACTAC
* *
9636837 GATTTTAAATTAAAGAGATCGAGATTGAACCGTGAATCAAAG
63 GATTTTAAATTAAAAAGATCGAGATTGAACCGTGAATCGAAG
* *
9636879 AATAAAAAGATCGGGATTAAACTACGAGTCAGAAGATAACAACAACAATCGAAATTAAACTACGA
1 AATAAAAAGATCGAGATTAAACTACGAGTCA-AAGATAACAACAACAATCGAGATTAAACTACGA
* *
9636944 TTTTAAATTAAAGAGATCGAGATTGAACCGTAAATCGAAG
65 TTTTAAATTAAAAAGATCGAGATTGAACCGTGAATCGAAG
* * * * **
9636984 AATAAAAAGATCGAGATTAAACCACGAGTTAAA-A-AATAATAACAATCGAGATTAAACTGTGAT
1 AATAAAAAGATCGAGATTAAACTACGAGTCAAAGATAACAACAACAATCGAGATTAAACTACGAT
* **
9637047 TTTAAATTAAAAAGATCGGGATTGAACTATGAATCGAAG
66 TTTAAATTAAAAAGATCGAGATTGAACCGTGAATCGAAG
* * * * *
9637086 AATAAAAAAATCGAGATTAAACCATGAGTCAAA-A-AATAACAACAATCGAGATTAAAATACGAT
1 AATAAAAAGATCGAGATTAAACTACGAGTCAAAGATAACAACAACAATCGAGATTAAACTACGAT
* *
9637149 TTTAAATTAAAAAGATCGAGATTGAATCGTGAATTGAAG
66 TTTAAATTAAAAAGATCGAGATTGAACCGTGAATCGAAG
*
9637188 AATAAAAAGATC-AGGATTAAACTGCGAGTCAAAGAT
1 AATAAAAAGATCGA-GATTAAACTACGAGTCAAAGAT
9637224 TAAAAATAAC
Statistics
Matches: 302, Mismatches: 38, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
101 1 0.00
102 175 0.58
103 2 0.01
104 2 0.01
105 120 0.40
106 2 0.01
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.22
Consensus pattern (104 bp):
AATAAAAAGATCGAGATTAAACTACGAGTCAAAGATAACAACAACAATCGAGATTAAACTACGAT
TTTAAATTAAAAAGATCGAGATTGAACCGTGAATCGAAG
Found at i:9637198 original size:34 final size:34
Alignment explanation
Indices: 9636952--9637209 Score: 148
Period size: 34 Copynumber: 7.6 Consensus size: 34
9636942 GATTTTAAAT
* * * * *
9636952 TAAAGAGATCGAGATTGAACCGTAAATCGAAGAA
1 TAAAAAGATCGAGATTAAACCATGAATTGAAGAA
* * * *
9636986 TAAAAAGATCGAGATTAAACCACGAGTTAAAAAA
1 TAAAAAGATCGAGATTAAACCATGAATTGAAGAA
** * * *
9637020 TAATAACA-ATCGAGATTAAACTGTGATTTTAA-AT
1 TAA-AA-AGATCGAGATTAAACCATGAATTGAAGAA
* * * *
9637054 TAAAAAGATCGGGATTGAACTATGAATCGAAGAA
1 TAAAAAGATCGAGATTAAACCATGAATTGAAGAA
* * ** *
9637088 TAAAAAAATCGAGATTAAACCATGAGTCAAAAAA
1 TAAAAAGATCGAGATTAAACCATGAATTGAAGAA
** * * * *
9637122 TAACAACA-ATCGAGATTAAAATACGATTTTAA-AT
1 TAA-AA-AGATCGAGATTAAACCATGAATTGAAGAA
* * *
9637156 TAAAAAGATCGAGATTGAATCGTGAATTGAAGAA
1 TAAAAAGATCGAGATTAAACCATGAATTGAAGAA
9637190 TAAAAAGATC-AGGATTAAAC
1 TAAAAAGATCGA-GATTAAAC
9637210 TGCGAGTCAA
Statistics
Matches: 169, Mismatches: 46, Indels: 18
0.73 0.20 0.08
Matches are distributed among these distances:
32 2 0.01
33 40 0.24
34 84 0.50
35 41 0.24
36 2 0.01
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (34 bp):
TAAAAAGATCGAGATTAAACCATGAATTGAAGAA
Found at i:9637334 original size:109 final size:109
Alignment explanation
Indices: 9637196--9637810 Score: 755
Period size: 109 Copynumber: 5.6 Consensus size: 109
9637186 AGAATAAAAA
* ** * *
9637196 GATCAGGATTAAACTGCGAGTCAAAGATTAAAAATAACTAGGACTGAACCACAAGTCAAAGAAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAAATAACTGGGACTGAACCGCAAGTCAAAGAAAT
9637261 AAAAACGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAAT
66 AAAAACGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAAT
* ** ** **
9637305 TATCGGGATTAAACCACGAGTCAAAGATTAACGACGACTGACACTGAACCGCAAGTCGAAA-AAA
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAAATAACTGGGACTGAACCGCAAGTC-AAAGAAA
** *
9637369 TAAAAGTGACTAGGATTAAACCGTAAGTCGATAAGCTATAAGAAT
65 TAAAAACGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAAT
* * * * * *
9637414 GATTGAGATTAAACCACGAGTCAAAGATTAAAAATAACTGGGACTGTACCGTAAGTTAAAAAAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAAATAACTGGGACTGAACCGCAAGTCAAAGAAAT
*
9637479 AAAAGCGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAAT
66 AAAAACGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAAT
* * *
9637523 GATCAGGATTAAACCACGAGTCAAAGATTAAAGATAACTGGGACTGAACCACAAGTCAAAGAAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAAATAACTGGGACTGAACCGCAAGTCAAAGAAAT
* * *
9637588 AAAAATGACTAGGATTAAACCGTAAGTCGAGAAGTTATAAGAAT
66 AAAAACGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAAT
* * * * ** * ** * *
9637632 AATCGAGATTAAACCATGAATCAAAGATTAACGACAACCAGGACTGAACCGTAAGTCAAAAAAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAAATAACTGGGACTGAACCGCAAGTCAAAGAAAT
* * * *
9637697 AAAAGCGACTAGGATTAAATCATAAGTCAAAAAGCTATAAGAAT
66 AAAAACGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAAT
* * * * * * * *
9637741 GATCGGGATTAAACTATGAATCAAAGATTAACAATGACTGGGACTGAATCGCAAGTCAAGGGAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAAATAACTGGGACTGAACCGCAAGTCAAAGAAAT
9637806 AAAAA
66 AAAAA
9637811 TAACCATAAC
Statistics
Matches: 429, Mismatches: 75, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
108 3 0.01
109 423 0.99
110 3 0.01
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (109 bp):
GATCGGGATTAAACCACGAGTCAAAGATTAAAAATAACTGGGACTGAACCGCAAGTCAAAGAAAT
AAAAACGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAAT
Found at i:9637490 original size:218 final size:218
Alignment explanation
Indices: 9637202--9637811 Score: 862
Period size: 218 Copynumber: 2.8 Consensus size: 218
9637192 AAAAGATCAG
** ** * *
9637202 GATTAAACTGCGAGTCAAAGATTAAAAATAACTAGGACTGAACCACAAGTCAAAGAAATAAAAAC
1 GATTAAACCACGAGTCAAAGATTAAAAATAACTAGGACTGAACCGTAAGTCAAAAAAATAAAAGC
*
9637267 GACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAATTATCGGGATTAAACCACGAGTCAAAGA
66 GACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAATGATCGGGATTAAACCACGAGTCAAAGA
* ** *
9637332 TTAACGACGACTGACACTGAACCGCAAGTCGAAA-AAATAAAAGTGACTAGGATTAAACCGTAAG
131 TTAACGATGACTGGGACTGAACCGCAAGTC-AAAGAAATAAAAATGACTAGGATTAAACCGTAAG
* * *
9637396 TCGATAAGCTATAAGAATGATTGA
195 TCGAGAAGCTATAAGAATAATCGA
* * *
9637420 GATTAAACCACGAGTCAAAGATTAAAAATAACTGGGACTGTACCGTAAGTTAAAAAAATAAAAGC
1 GATTAAACCACGAGTCAAAGATTAAAAATAACTAGGACTGAACCGTAAGTCAAAAAAATAAAAGC
*
9637485 GACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAATGATCAGGATTAAACCACGAGTCAAAGA
66 GACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAATGATCGGGATTAAACCACGAGTCAAAGA
* * *
9637550 TTAAAGATAACTGGGACTGAACCACAAGTCAAAGAAATAAAAATGACTAGGATTAAACCGTAAGT
131 TTAACGATGACTGGGACTGAACCGCAAGTCAAAGAAATAAAAATGACTAGGATTAAACCGTAAGT
*
9637615 CGAGAAGTTATAAGAATAATCGA
196 CGAGAAGCTATAAGAATAATCGA
* * ** * *
9637638 GATTAAACCATGAATCAAAGATTAACGACAACCAGGACTGAACCGTAAGTCAAAAAAATAAAAGC
1 GATTAAACCACGAGTCAAAGATTAAAAATAACTAGGACTGAACCGTAAGTCAAAAAAATAAAAGC
* * * * * *
9637703 GACTAGGATTAAATCATAAGTCAAAAAGCTATAAGAATGATCGGGATTAAACTATGAATCAAAGA
66 GACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAATGATCGGGATTAAACCACGAGTCAAAGA
* * * *
9637768 TTAACAATGACTGGGACTGAATCGCAAGTCAAGGGAATAAAAAT
131 TTAACGATGACTGGGACTGAACCGCAAGTCAAAGAAATAAAAAT
9637812 AACCATAACT
Statistics
Matches: 346, Mismatches: 45, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
217 3 0.01
218 343 0.99
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.20
Consensus pattern (218 bp):
GATTAAACCACGAGTCAAAGATTAAAAATAACTAGGACTGAACCGTAAGTCAAAAAAATAAAAGC
GACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAATGATCGGGATTAAACCACGAGTCAAAGA
TTAACGATGACTGGGACTGAACCGCAAGTCAAAGAAATAAAAATGACTAGGATTAAACCGTAAGT
CGAGAAGCTATAAGAATAATCGA
Found at i:9637809 original size:327 final size:327
Alignment explanation
Indices: 9637196--9637799 Score: 904
Period size: 327 Copynumber: 1.8 Consensus size: 327
9637186 AGAATAAAAA
**
9637196 GATCAGGATTAAACTGCGAGTCAAAGATTAAAAATAACTAGGACTGAACCACAAGTCAAAGAAAT
1 GATCAGGATTAAACCACGAGTCAAAGATTAAAAATAACTAGGACTGAACCACAAGTCAAAGAAAT
* * *
9637261 AAAAACGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAATTATCGGGATTAAACCACGAGT
66 AAAAACGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAATAATCGAGATTAAACCACGAAT
* * * *
9637326 CAAAGATTAACGACGACTGACACTGAACCGCAAGTCGAAAAAATAAAAGTGACTAGGATTAAACC
131 CAAAGATTAACGACAACAGACACTGAACCGCAAGTCAAAAAAATAAAAGCGACTAGGATTAAACC
* * * * *
9637391 GTAAGTCGATAAGCTATAAGAATGATTGAGATTAAACCACGAGTCAAAGATTAAAAATAACTGGG
196 ATAAGTCAAAAAGCTATAAGAATGATCGAGATTAAACCACGAATCAAAGATTAAAAATAACTGGG
* * *
9637456 ACTGTACCGTAAGTTAAAAAAATAAAAGCGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGA
261 ACTGAACCGCAAGTCAAAAAAATAAAAGCGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGA
9637521 AT
326 AT
* *
9637523 GATCAGGATTAAACCACGAGTCAAAGATTAAAGATAACTGGGACTGAACCACAAGTCAAAGAAAT
1 GATCAGGATTAAACCACGAGTCAAAGATTAAAAATAACTAGGACTGAACCACAAGTCAAAGAAAT
* * * *
9637588 AAAAATGACTAGGATTAAACCGTAAGTCGAGAAGTTATAAGAATAATCGAGATTAAACCATGAAT
66 AAAAACGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAATAATCGAGATTAAACCACGAAT
* * *
9637653 CAAAGATTAACGACAACCAG-GACTGAACCGTAAGTCAAAAAAATAAAAGCGACTAGGATTAAAT
131 CAAAGATTAACGACAA-CAGACACTGAACCGCAAGTCAAAAAAATAAAAGCGACTAGGATTAAAC
* * * * *
9637717 CATAAGTCAAAAAGCTATAAGAATGATCGGGATTAAACTATGAATCAAAGATTAACAATGACTGG
195 CATAAGTCAAAAAGCTATAAGAATGATCGAGATTAAACCACGAATCAAAGATTAAAAATAACTGG
*
9637782 GACTGAATCGCAAGTCAA
260 GACTGAACCGCAAGTCAA
9637800 GGGAATAAAA
Statistics
Matches: 244, Mismatches: 32, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
327 242 0.99
328 2 0.01
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.20
Consensus pattern (327 bp):
GATCAGGATTAAACCACGAGTCAAAGATTAAAAATAACTAGGACTGAACCACAAGTCAAAGAAAT
AAAAACGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAATAATCGAGATTAAACCACGAAT
CAAAGATTAACGACAACAGACACTGAACCGCAAGTCAAAAAAATAAAAGCGACTAGGATTAAACC
ATAAGTCAAAAAGCTATAAGAATGATCGAGATTAAACCACGAATCAAAGATTAAAAATAACTGGG
ACTGAACCGCAAGTCAAAAAAATAAAAGCGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGA
AT
Found at i:9638866 original size:8 final size:9
Alignment explanation
Indices: 9638841--9638865 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9638831 TTTCTCTCTC
9638841 TTTTTTTTA
1 TTTTTTTTA
9638850 TTTTTTTTA
1 TTTTTTTTA
9638859 TTTTTTT
1 TTTTTTT
9638866 AAGCAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:9647614 original size:13 final size:14
Alignment explanation
Indices: 9647585--9647617 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
9647575 TACCAAAGAC
9647585 AAAAAAAAAAACTAG
1 AAAAAAAAAAAC-AG
9647600 AAAAAAAAAAA-AG
1 AAAAAAAAAAACAG
9647613 AAAAA
1 AAAAA
9647618 GGATTAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
15 11 0.61
ACGTcount: A:0.88, C:0.03, G:0.06, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAACAG
Found at i:9651953 original size:59 final size:59
Alignment explanation
Indices: 9651854--9652262 Score: 533
Period size: 59 Copynumber: 6.8 Consensus size: 59
9651844 TTTTTTGTAG
* *
9651854 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTT--ATTTCT-AA
* ***
9651913 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTAA
9651972 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGAAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCC-AAAA-ATATTTTTTTTGAAAATTTA--TTTC---TA
9652037 A
59 A
* *
9652038 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCG-AAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT-GAAAATTTATTTCTAA
* *
9652097 GTAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGAAATTTATTTCTGAA
1 GGAAAATTGATACTTTCAACTTTTCCCC-AAAA-ATATTTTTTTTGAAAATTTATTTCT-AA
*
9652159 -GAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTTATTCCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTAA
* *
9652216 AGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAA
9652263 TTTTTTATTT
Statistics
Matches: 315, Mismatches: 18, Indels: 34
0.86 0.05 0.09
Matches are distributed among these distances:
57 2 0.01
58 52 0.17
59 106 0.34
60 14 0.04
61 79 0.25
62 5 0.02
63 4 0.01
64 18 0.06
65 5 0.02
66 30 0.10
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.44
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTAA
Found at i:9652078 original size:125 final size:118
Alignment explanation
Indices: 9651854--9652262 Score: 535
Period size: 125 Copynumber: 3.4 Consensus size: 118
9651844 TTTTTTGTAG
* *
9651854 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTCGATTTTC-AAGGA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGAAAATTT--ATTTTCTAAGGA
**
9651916 AAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
64 AAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTTGAAAATTTATTTCTAA
9651972 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGAAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAA-ATATTTTTTTTGAAAATTTA-TTTTC---TA
*
9652037 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCG-AAATTTATTTCTGA
60 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTT-GAAAATTTATTTCTAA
* *
9652097 GTAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGAAATTTA-TTTCTGAA-G
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAA-ATATTTTTTTTGAAAATTTATTTTCT-AAGG
* *
9652160 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTCCTAA
63 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTCTAA
* *
9652216 AGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGAAA
9652263 TTTTTTATTT
Statistics
Matches: 263, Mismatches: 14, Indels: 29
0.86 0.05 0.09
Matches are distributed among these distances:
117 14 0.05
118 32 0.12
119 48 0.18
120 38 0.14
121 7 0.03
122 13 0.05
123 4 0.02
125 103 0.39
126 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.44
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGAAAATTTATTTTCTAAGGAAA
ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTCTAA
Found at i:9652381 original size:19 final size:17
Alignment explanation
Indices: 9652347--9652405 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 17
9652337 AATAAATAAA
*
9652347 AAATAAAATAAACAAAG
1 AAATAAAAAAAACAAAG
9652364 AAATAAAAAAAATTCAAAG
1 AAATAAAAAAAA--CAAAG
* *
9652383 AGAGAAAAAAAA-AAA-
1 AAATAAAAAAAACAAAG
9652398 AAA-AAAAA
1 AAATAAAAA
9652406 CCTGGAACGG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 5 0.14
15 2 0.06
16 3 0.08
17 11 0.31
19 15 0.42
ACGTcount: A:0.81, C:0.03, G:0.07, T:0.08
Consensus pattern (17 bp):
AAATAAAAAAAACAAAG
Found at i:9652476 original size:13 final size:13
Alignment explanation
Indices: 9652458--9652488 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
9652448 GGAAGGAAAA
9652458 CGGCTGGGGGGAG
1 CGGCTGGGGGGAG
9652471 CGGCTGGGGGGAG
1 CGGCTGGGGGGAG
9652484 CGGCT
1 CGGCT
9652489 TGGCGGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.19, G:0.65, T:0.10
Consensus pattern (13 bp):
CGGCTGGGGGGAG
Found at i:9652506 original size:5 final size:5
Alignment explanation
Indices: 9652492--9652524 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
9652482 AGCGGCTTGG
*
9652492 CGGCT TGGCT CGGCT CGGCT CGGCT CGGCT CGG
1 CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGG
9652525 GTGGTACGCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.36, G:0.42, T:0.21
Consensus pattern (5 bp):
CGGCT
Found at i:9652779 original size:19 final size:20
Alignment explanation
Indices: 9652739--9652784 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
9652729 GAACACCGGT
*
9652739 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
9652759 GCCGGAATCTGGAAA-TTTC
1 GCCGGAATCTGGAAATTTTC
9652778 GCCGGAA
1 GCCGGAA
9652785 GTTGGCCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:9653478 original size:16 final size:15
Alignment explanation
Indices: 9653415--9653479 Score: 55
Period size: 16 Copynumber: 4.3 Consensus size: 15
9653405 TTAACAAAAA
*
9653415 ATAAATAAATAAATAT
1 ATAAAT-AATAAATAC
* *
9653431 ATACATATATTAATAC
1 ATAAATA-ATAAATAC
9653447 AT-AATAAT-AATA-
1 ATAAATAATAAATAC
9653459 ATAAATAATACAATAC
1 ATAAATAATA-AATAC
9653475 ATAAA
1 ATAAA
9653480 ATAAAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
12 2 0.05
13 10 0.25
14 2 0.05
15 8 0.20
16 18 0.45
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAATAATAAATAC
Found at i:9653658 original size:1 final size:1
Alignment explanation
Indices: 9653654--9653730 Score: 82
Period size: 1 Copynumber: 77.0 Consensus size: 1
9653644 CATTTTTTGG
* * * * * * *
9653654 TTTTTTTGTTTTTTTGTTTTTTTTGTTTTTTTTGTTTTTTTTTGTTTTTTTGTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
9653719 TTTTGTTTTTTT
1 TTTTTTTTTTTT
9653731 ACCAAAGCTC
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:9653659 original size:8 final size:8
Alignment explanation
Indices: 9653646--9653730 Score: 107
Period size: 9 Copynumber: 9.9 Consensus size: 8
9653636 CAACTCAACA
*
9653646 TTTTTTGG
1 TTTTTTTG
9653654 TTTTTTTG
1 TTTTTTTG
9653662 TTTTTTTG
1 TTTTTTTG
9653670 TTTTTTTTG
1 -TTTTTTTG
9653679 TTTTTTTTG
1 -TTTTTTTG
9653688 TTTTTTTTTG
1 --TTTTTTTG
9653698 TTTTTTTG
1 TTTTTTTG
9653706 TTTTTTTTG
1 -TTTTTTTG
9653715 TTTTTTTTG
1 -TTTTTTTG
9653724 TTTTTTT
1 TTTTTTT
9653731 ACCAAAGCTC
Statistics
Matches: 73, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
8 30 0.41
9 34 0.47
10 9 0.12
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TTTTTTTG
Found at i:9653675 original size:18 final size:18
Alignment explanation
Indices: 9653646--9653730 Score: 138
Period size: 18 Copynumber: 4.8 Consensus size: 18
9653636 CAACTCAACA
*
9653646 TTTTTTGGTTTTTTTG-T
1 TTTTTTGTTTTTTTTGTT
9653663 TTTTTTGTTTTTTTTGTT
1 TTTTTTGTTTTTTTTGTT
9653681 TTTTTTGTTTTTTTT-TGT
1 TTTTTTGTTTTTTTTGT-T
9653699 TTTTTTGTTTTTTTTGTT
1 TTTTTTGTTTTTTTTGTT
9653717 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
9653731 ACCAAAGCTC
Statistics
Matches: 64, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
17 16 0.25
18 47 0.73
19 1 0.02
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (18 bp):
TTTTTTGTTTTTTTTGTT
Found at i:9653694 original size:36 final size:36
Alignment explanation
Indices: 9653646--9653730 Score: 154
Period size: 36 Copynumber: 2.4 Consensus size: 36
9653636 CAACTCAACA
*
9653646 TTTTTTG-GTTTTTTTGTTTTTTTGTTTTTTTTGTT
1 TTTTTTGTTTTTTTTTGTTTTTTTGTTTTTTTTGTT
9653681 TTTTTTGTTTTTTTTTGTTTTTTTGTTTTTTTTGTT
1 TTTTTTGTTTTTTTTTGTTTTTTTGTTTTTTTTGTT
9653717 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
9653731 ACCAAAGCTC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 7 0.15
36 41 0.85
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (36 bp):
TTTTTTGTTTTTTTTTGTTTTTTTGTTTTTTTTGTT
Found at i:9653784 original size:42 final size:41
Alignment explanation
Indices: 9653737--9654311 Score: 805
Period size: 42 Copynumber: 14.0 Consensus size: 41
9653727 TTTTACCAAA
9653737 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATT
*
9653779 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
9653820 GCTCCTCTAAACAGAGGCA--ACGAAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGG-AAAGTAAATT
*
9653860 GCTCCTCTAAACAGAGGTACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATT
9653902 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
*
9653944 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
9653985 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAATT
* * * *
9654025 GCTCCTCTAAATAGAGGTACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
9654066 GCTCCTCTAAATAGAGGCACCACGACTTT-GAAAGATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG-TAAATT
*
9654107 GCTCCTCTAAACAGAGGCA--ACGGAACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-G-ACTTTG-GAAAGTAAATT
*
9654149 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATT
* *
9654191 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAATT
*
9654231 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
*
9654273 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAAT
9654312 ACTCCTAGAC
Statistics
Matches: 489, Mismatches: 21, Indels: 48
0.88 0.04 0.09
Matches are distributed among these distances:
39 12 0.02
40 114 0.23
41 155 0.32
42 193 0.39
43 13 0.03
44 2 0.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:9654009 original size:165 final size:162
Alignment explanation
Indices: 9653737--9654311 Score: 874
Period size: 165 Copynumber: 3.5 Consensus size: 162
9653727 TTTTACCAAA
*
9653737 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
* *
9653802 G-ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCT
63 GAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCT
* *
9653866 CTAAACAGAGGTACCACGACTTTTGGAAAGTAAATT
128 CTAAACAGAGGTACCACGAC-TTTGAAAAATAAATT
*
9653902 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
*
9653967 G-ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCT
63 GAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCT
*
9654031 CTAAATAGAGGTACCACGACTTTGAAAAATAAATT
128 CTAAACAGAGGTACCACGACTTTGAAAAATAAATT
*
9654066 GCTCCTCTAAATAGAGGCACCACGACTTT-GAAAGATAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG-TAAATTGCTCCTCTAAACAGAGGCAAC-G
9654130 AACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-ACTTTTGAAAAGTAAATTGCT
64 AACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAAC-TTTGAAAAGTAAATTGCT
*
9654194 CCTCTAAACAGAGG--CAACGAACTTTGAAAAATAAATT
125 CCTCTAAACAGAGGTACCACG-ACTTTGAAAAATAAATT
*
9654231 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
9654296 ACTTTGAAAAGTAAAT
65 ACTTTGAAAAGTAAAT
9654312 ACTCCTAGAC
Statistics
Matches: 388, Mismatches: 11, Indels: 23
0.92 0.03 0.05
Matches are distributed among these distances:
161 3 0.01
162 5 0.01
163 30 0.08
164 89 0.23
165 195 0.50
166 62 0.16
167 4 0.01
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.23
Consensus pattern (162 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTA
AACAGAGGTACCACGACTTTGAAAAATAAATT
Found at i:9655510 original size:7 final size:8
Alignment explanation
Indices: 9655491--9655559 Score: 76
Period size: 8 Copynumber: 9.1 Consensus size: 8
9655481 TTTGGATCTC
9655491 TTTTTTCA
1 TTTTTTCA
9655499 TTTTTTCA
1 TTTTTTCA
9655507 TTTTTTCA
1 TTTTTTCA
9655515 TTTTTTCA
1 TTTTTTCA
9655523 -TTTTTC-
1 TTTTTTCA
* *
9655529 TTCTTTCTT
1 TTTTTTC-A
9655538 TTTTTTC-
1 TTTTTTCA
9655545 TTTTTT--
1 TTTTTTCA
9655551 TTTTTTCA
1 TTTTTTCA
9655559 T
1 T
9655560 CATCTTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
6 6 0.11
7 17 0.31
8 25 0.46
9 6 0.11
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTCA
Found at i:9655545 original size:13 final size:13
Alignment explanation
Indices: 9655518--9655578 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
9655508 TTTTTCATTT
*
9655518 TTTCATTTTTCTTC
1 TTTC-TTTTTTTTC
9655532 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
*
9655545 TTTTTTTTTTTTC
1 TTTCTTTTTTTTC
*
9655558 ATCATCTTTTTTTTC
1 -T-TTCTTTTTTTTC
*
9655573 ATTCTT
1 TTTCTT
9655579 CACCTATTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
13 24 0.62
14 5 0.13
15 10 0.26
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:9655549 original size:29 final size:29
Alignment explanation
Indices: 9655507--9655580 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
9655497 CATTTTTTCA
* *
9655507 TTTTTTCATTTTTTCATTTTTCTTCTTTCTT
1 TTTTTTCA-TTTTTCATTTTTCATC-ATCTT
**
9655538 TTTTTTC-TTTTTTTTTTTTCATCATCTT
1 TTTTTTCATTTTTCATTTTTCATCATCTT
*
9655566 TTTTTTCATTCTTCA
1 TTTTTTCATTTTTCA
9655581 CCTATTATTG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
28 11 0.31
29 17 0.49
31 7 0.20
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (29 bp):
TTTTTTCATTTTTCATTTTTCATCATCTT
Found at i:9659483 original size:59 final size:60
Alignment explanation
Indices: 9659394--9659742 Score: 450
Period size: 59 Copynumber: 5.8 Consensus size: 60
9659384 TTTTGTAGGA
9659394 AAAATTGATACTTTCAACTTTT-CCCTAAAAATA-TTTTTTGGAAATTTCGATTTTC-AAGG
1 AAAATTGATACTTTCAACTTTTCCCCTAAAAATATTTTTTTGGAAATTT--ATTTTCTAAGG
* ** *
9659453 AAAATTGATACTTTCAACTTTTCCTC-AAAAACCCTTTTTTTGAAAATTTA-TTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCTAAAAA-TATTTTTTTGGAAATTTATTTTCTAAGG
9659512 AAAATTGATACTTTCAACTTTTCCCC-AAAAATATTTTTTT-GAAATTTTGATTTT-TAAGG
1 AAAATTGATACTTTCAACTTTTCCCCTAAAAATATTTTTTTGGAAA-TTT-ATTTTCTAAGG
*
9659571 AAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGAAATTTATTTTTCTTTTAAG
1 AAAATTGATACTTTCAACTTTTCCCCTAAAA-ATA-TTTTTTTGGAAATTTA-TTTTC---TAAG
9659636 G
60 G
* *
9659637 AAAATTGATACTTTCAACTTTTCCCC-AAAAATATTTTTTTGAAAATTTA-TTCCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCTAAAAATATTTTTTTGGAAATTTATTTTCTAAGG
*
9659695 AAAATTGATACTTTCAACTTTT-CCCTAAAAATATTTTTTTTGAAATTT
1 AAAATTGATACTTTCAACTTTTCCCCTAAAAATATTTTTTTGGAAATTT
9659743 TTTATTTTTA
Statistics
Matches: 261, Mismatches: 12, Indels: 35
0.85 0.04 0.11
Matches are distributed among these distances:
57 6 0.02
58 61 0.23
59 94 0.36
60 9 0.03
61 20 0.08
62 14 0.05
63 19 0.07
64 3 0.01
65 4 0.02
66 31 0.12
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCCCTAAAAATATTTTTTTGGAAATTTATTTTCTAAGG
Found at i:9659858 original size:19 final size:17
Alignment explanation
Indices: 9659824--9659887 Score: 60
Period size: 19 Copynumber: 3.8 Consensus size: 17
9659814 AATAAATAAA
*
9659824 AAATAAAATAAACAAAG
1 AAATAAAAAAAACAAAG
9659841 AAATAAAAAAAATTCAAAG
1 AAATAAAAAAAA--CAAAG
* *
9659860 AGAGAAAAAAAA-AAA-
1 AAATAAAAAAAACAAAG
*
9659875 AAAAAAAAAAAAC
1 AAATAAAAAAAAC
9659888 CTGGAGCGGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 10 0.26
16 3 0.08
17 11 0.28
19 15 0.38
ACGTcount: A:0.81, C:0.05, G:0.06, T:0.08
Consensus pattern (17 bp):
AAATAAAAAAAACAAAG
Found at i:9660248 original size:19 final size:20
Alignment explanation
Indices: 9660208--9660253 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
9660198 GAACACCGGT
*
9660208 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
9660228 GCCGGAATCTGGAAA-TTTC
1 GCCGGAATCTGGAAATTTTC
9660247 GCCGGAA
1 GCCGGAA
9660254 GTTGGCCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:9660343 original size:31 final size:31
Alignment explanation
Indices: 9660305--9660376 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 31
9660295 AACTGGGTAG
9660305 GTCGCCGGAAAATTC-AATGGTCGCCGGAATT
1 GTCGCCGGAAAATTCAAAT-GTCGCCGGAATT
*
9660336 GTCGCCGGAAAATTCAAATTTCGCCGGAATT
1 GTCGCCGGAAAATTCAAATGTCGCCGGAATT
*
9660367 TTCGCCGGAA
1 GTCGCCGGAA
9660377 TCTGGAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 35 0.92
32 3 0.08
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (31 bp):
GTCGCCGGAAAATTCAAATGTCGCCGGAATT
Found at i:9660949 original size:16 final size:15
Alignment explanation
Indices: 9660886--9660950 Score: 55
Period size: 16 Copynumber: 4.3 Consensus size: 15
9660876 TTAACAAAAA
*
9660886 ATAAATAAATAAATAT
1 ATAAAT-AATAAATAC
* *
9660902 ATACATATATTAATAC
1 ATAAATA-ATAAATAC
9660918 AT-AATAAT-AATA-
1 ATAAATAATAAATAC
9660930 ATAAATAATACAATAC
1 ATAAATAATA-AATAC
9660946 ATAAA
1 ATAAA
9660951 ATAAAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
12 2 0.05
13 10 0.25
14 2 0.05
15 8 0.20
16 18 0.45
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAATAATAAATAC
Found at i:9662479 original size:17 final size:16
Alignment explanation
Indices: 9662457--9662497 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
9662447 AGTAAATTTT
9662457 TTATCTAAATTTATTAA
1 TTATCTAAATTTA-TAA
9662474 TTATCT--ATTTATAA
1 TTATCTAAATTTATAA
*
9662488 TTATTTAAAT
1 TTATCTAAAT
9662498 CTAACGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
14 8 0.38
15 5 0.24
16 2 0.10
17 6 0.29
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATCTAAATTTATAA
Found at i:9670742 original size:4 final size:4
Alignment explanation
Indices: 9670725--9670776 Score: 68
Period size: 4 Copynumber: 12.8 Consensus size: 4
9670715 ATCTATACAT
* * *
9670725 TATG TATA TATG TATG TATG TATG TATG TATG TATTT TATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TA-TG TATG TATG TATG
9670774 TAT
1 TAT
9670777 AAAAAGCATG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
4 38 0.93
5 3 0.07
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:9676095 original size:52 final size:52
Alignment explanation
Indices: 9675991--9676095 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 52
9675981 TATAACCATA
* * *
9675991 CAAACTTGCCCATTAAGAATCATTTTCCTCTTATAATTATTCTCTTGCAAGT
1 CAAACTTACCCATTAAGAATCACTTTCCTCTTAGAATTATTCTCTTGCAAGT
* * * * *
9676043 CAAACTTACCTATTAAGAATCCACTTT-CTTTTAGAATTCTTCTTTTGTAAGT
1 CAAACTTACCCATTAAGAAT-CACTTTCCTCTTAGAATTATTCTCTTGCAAGT
9676095 C
1 C
9676096 TTCTTATTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
52 39 0.89
53 5 0.11
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (52 bp):
CAAACTTACCCATTAAGAATCACTTTCCTCTTAGAATTATTCTCTTGCAAGT
Found at i:9677325 original size:27 final size:27
Alignment explanation
Indices: 9677279--9677334 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
9677269 ACTTATTTAT
* *
9677279 TTTTTATTTTAAAATTTTAT-ATAAAA
1 TTTTAATTTTAAAATCTTATCATAAAA
*
9677305 TTTTAATTTTAACAATCTTATCATTAAA
1 TTTTAATTTTAA-AATCTTATCATAAAA
9677333 TT
1 TT
9677335 AAACATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 11 0.44
27 7 0.28
28 7 0.28
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTTAATTTTAAAATCTTATCATAAAA
Found at i:9687014 original size:13 final size:12
Alignment explanation
Indices: 9686988--9687012 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9686978 AAATTGAAAG
9686988 AGAAAAAATAAA
1 AGAAAAAATAAA
9687000 AGAAAAAATAAA
1 AGAAAAAATAAA
9687012 A
1 A
9687013 AGCTTAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AGAAAAAATAAA
Found at i:9698989 original size:19 final size:16
Alignment explanation
Indices: 9698930--9698976 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
9698920 AAATAATTTG
* *
9698930 TTTAATTTTAGAA-TA
1 TTTAATTTAATAATTA
*
9698945 TTGTAATTTAATTATTA
1 TT-TAATTTAATAATTA
9698962 TTTAATTTAATAATT
1 TTTAATTTAATAATT
9698977 TATGTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 2 0.08
16 20 0.77
17 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (16 bp):
TTTAATTTAATAATTA
Found at i:9701463 original size:13 final size:15
Alignment explanation
Indices: 9701436--9701467 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
9701426 GTTTGGTACC
9701436 AAAGATAAAACAGAA
1 AAAGATAAAACAGAA
9701451 AAAGA-AAAA-AGAA
1 AAAGATAAAACAGAA
9701464 AAAG
1 AAAG
9701468 GATTAGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (15 bp):
AAAGATAAAACAGAA
Found at i:9702606 original size:63 final size:64
Alignment explanation
Indices: 9702515--9702636 Score: 183
Period size: 63 Copynumber: 1.9 Consensus size: 64
9702505 ATGCACATCC
* * *
9702515 ATTAAATTTTTAACAATGACTAGAATAATAGATGAATTTAAAATATTTTAAAAGGTTGTGTTCT
1 ATTAAATTTTTAACAATGACTAGAATAATAGATGAACTTAAAACATTTTAAAAAGTTGTGTTCT
* * *
9702579 ATTAAATTTTT-ATAATGATTGGAATAATAGATGAACTTAAAACATTTTAAAAAGTTGT
1 ATTAAATTTTTAACAATGACTAGAATAATAGATGAACTTAAAACATTTTAAAAAGTTGT
9702637 AGATGAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
63 41 0.79
64 11 0.21
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.40
Consensus pattern (64 bp):
ATTAAATTTTTAACAATGACTAGAATAATAGATGAACTTAAAACATTTTAAAAAGTTGTGTTCT
Found at i:9702650 original size:64 final size:64
Alignment explanation
Indices: 9702518--9702650 Score: 151
Period size: 63 Copynumber: 2.1 Consensus size: 64
9702508 CACATCCATT
* * * * * **
9702518 AAATTTTTAACAATGACTAGAATAATAGATGAATTTAAAATATTTTAAAAGGTTGTGTTCTATT
1 AAATTTTTAACAATGACTAGAATAATAGATGAACTTAAAACATTTTAAAAAGTTGTGATCAAAA
* * * *
9702582 AAATTTTT-ATAATGATTGGAATAATAGATGAACTTAAAACATTTTAAAAAGTTGTAGATGAAAA
1 AAATTTTTAACAATGACTAGAATAATAGATGAACTTAAAACATTTTAAAAAGTTGT-GATCAAAA
9702646 AAATT
1 AAATT
9702651 GAATTTTATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
63 41 0.72
64 16 0.28
ACGTcount: A:0.46, C:0.04, G:0.13, T:0.38
Consensus pattern (64 bp):
AAATTTTTAACAATGACTAGAATAATAGATGAACTTAAAACATTTTAAAAAGTTGTGATCAAAA
Found at i:9706003 original size:64 final size:64
Alignment explanation
Indices: 9705898--9706020 Score: 192
Period size: 64 Copynumber: 1.9 Consensus size: 64
9705888 ATGCACATCC
* * *
9705898 ATTAAATTTTTAACAATGACTAGAATAATAGATGAATTTAAAATATTTTAAAAGGTTGTGTTCT
1 ATTAAATTTTTAACAATGACTAGAATAATAGATGAACTTAAAACATTTTAAAAAGTTGTGTTCT
* * *
9705962 ATTAAATTTTTAATAATGATTGGAATAATAGATGAACTTAAAACATTTTAAAAAGTTGT
1 ATTAAATTTTTAACAATGACTAGAATAATAGATGAACTTAAAACATTTTAAAAAGTTGT
9706021 AGATGAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (64 bp):
ATTAAATTTTTAACAATGACTAGAATAATAGATGAACTTAAAACATTTTAAAAAGTTGTGTTCT
Found at i:9712147 original size:353 final size:346
Alignment explanation
Indices: 9711441--9712135 Score: 1151
Period size: 353 Copynumber: 2.0 Consensus size: 346
9711431 TTATTTTAAG
9711441 TTTTTAGATGAAATGACAAACAAAGTGGAAACTAAAGAGAAAGAAAATATTGAAGAGTAGCTCTT
1 TTTTTAGATGAAATGACAAACAAAGTGGAAACTAAAGAGAAAGAAAATATTGAAGAGTAG--C-T
*
9711506 TTTTTTTTTTTTTAAAGTTACAAGGAAAGAAATGTAGAATCAAACAAAATTCAACTTAAGTTTTT
63 TTTTTTTTTTTTTAAAGTTACAAGGAAAGAAATGTAGAATCAAACAAAATTCAACTGAAGTTTTT
*
9711571 TATTTTTTTTTCTTTTTTTGAGTTGAACGAAAAGCCAACAGAGTAGAAATCAACCTTAAAACTCT
128 TATTTTTTTTTCTCTTTTTGAGTTGAACGAAAAGCCAACAGAGTAGAAATCAACCTTAAAACTCT
* *
9711636 TGGCCAAAAGAAAAAAGAAATCAAGATGGCATTGAAATTATCAAAAAGCTTGGAAATTGAAAAGA
193 TGGCCAAAAGAAAAAAGAAATCAAGATGGCACTGAAATGATCAAAAAGCTTGGAAATTGAAAAGA
*
9711701 GAACGTTCACTTATCTACCTGGAAAATTCGAACAAAAGAAATTAACAGAACAATCAACTTCTGAT
258 GAACGTTCACTTATCTACCCGGAAAATTCGAACAAAAGAAATTAACAGAACAATCAACTTCTGAT
*
9711766 AGCAGAAATGGGTTTTTGCATTTT
323 AGCAGAAATGGATTTTTGCATTTT
*
9711790 TTTTTAGATGAAAATGACAAACAAAGTGGAAACTAAAGAGGAAGAAAATATTGAAGAGTAG-TTT
1 TTTTTAGATG-AAATGACAAACAAAGTGGAAACTAAAGAGAAAGAAAATATTGAAGAGTAGCTTT
* *
9711854 TTTTTTTTTTTGAAGTTACAAGGAAAGAAATGTAGAATCAAACAAAATTCGACTGAAGTTTTTTC
65 TTTTTTTTTTTAAAGTTACAAGGAAAGAAATGTAGAATCAAACAAAATTCAACTGAAG-----T-
* **
9711919 TTCTTTTTTTTTTTTTCTCTTTTTGAGTTGAGGGAAAAGCCAACAGAGTAGAAATCAACCTTAAA
124 TT-TTTATTTTTTTTTCTCTTTTTGAGTTGAACGAAAAGCCAACAGAGTAGAAATCAACCTTAAA
9711984 ACTC-TGCGCCAAAAGAAAAAAGAAATCAAGATGGCACTGAAATGATCAAAAAGCTTGGAAATTG
188 ACTCTTG-GCCAAAAGAAAAAAGAAATCAAGATGGCACTGAAATGATCAAAAAGCTTGGAAATTG
*
9712048 AAACGAGAACGTTCACTTATCTACCCGGAAAATTCGAACAAAAGAAATTAACAGAACAATCAACT
252 AAAAGAGAACGTTCACTTATCTACCCGGAAAATTCGAACAAAAGAAATTAACAGAACAATCAACT
9712113 TCTGATAGCAGAAATGGATTTTT
317 TCTGATAGCAGAAATGGATTTTT
9712136 TCTGTTTTTT
Statistics
Matches: 324, Mismatches: 13, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
346 58 0.18
349 10 0.03
350 49 0.15
351 1 0.00
352 4 0.01
353 202 0.62
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.30
Consensus pattern (346 bp):
TTTTTAGATGAAATGACAAACAAAGTGGAAACTAAAGAGAAAGAAAATATTGAAGAGTAGCTTTT
TTTTTTTTTTAAAGTTACAAGGAAAGAAATGTAGAATCAAACAAAATTCAACTGAAGTTTTTTAT
TTTTTTTTCTCTTTTTGAGTTGAACGAAAAGCCAACAGAGTAGAAATCAACCTTAAAACTCTTGG
CCAAAAGAAAAAAGAAATCAAGATGGCACTGAAATGATCAAAAAGCTTGGAAATTGAAAAGAGAA
CGTTCACTTATCTACCCGGAAAATTCGAACAAAAGAAATTAACAGAACAATCAACTTCTGATAGC
AGAAATGGATTTTTGCATTTT
Found at i:9712597 original size:19 final size:21
Alignment explanation
Indices: 9712550--9712597 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
9712540 TTATTCAAAA
*
9712550 TTATAATATATGTATATTTAGT
1 TTAT-ATATATGTATAATTAGT
*
9712572 TTATATATATGTATAATTATT
1 TTATATATATGTATAATTAGT
9712593 TTATA
1 TTATA
9712598 AAATATATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TTATATATATGTATAATTAGT
Found at i:9714277 original size:32 final size:34
Alignment explanation
Indices: 9714238--9714303 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
9714228 TGACCCATCA
**
9714238 CTTCTTTTC-T-TCTAGGGTCTTATTTTTTTATT
1 CTTCTTTTCTTGTCTAAAGTCTTATTTTTTTATT
*
9714270 CTTCTTTTCTTGTCTAAAGTCTTCTTTTTTTATT
1 CTTCTTTTCTTGTCTAAAGTCTTATTTTTTTATT
9714304 GGTCATTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 9 0.31
33 1 0.03
34 19 0.66
ACGTcount: A:0.11, C:0.17, G:0.08, T:0.65
Consensus pattern (34 bp):
CTTCTTTTCTTGTCTAAAGTCTTATTTTTTTATT
Found at i:9718078 original size:22 final size:24
Alignment explanation
Indices: 9718056--9718103 Score: 62
Period size: 27 Copynumber: 1.9 Consensus size: 24
9718046 ATTAATTTTT
9718056 ATAAAATTT-TTTAATTCAATTTAA
1 ATAAAATTTATTTAATTCAATTT-A
9718080 ATAAAATTTAAATTTAATTCAATT
1 ATAAAATTT--ATTTAATTCAATT
9718104 ATTATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.43
27 12 0.57
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
ATAAAATTTATTTAATTCAATTTA
Found at i:9719942 original size:20 final size:20
Alignment explanation
Indices: 9719889--9719943 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
9719879 CATTTATGTA
* *
9719889 TTTTTAATCTTATATTATTTT
1 TTTTTTATC-TATATTATATT
*
9719910 TCTTTTTA-ATATATTATATT
1 T-TTTTTATCTATATTATATT
9719930 TTTTTTATCTATAT
1 TTTTTTATCTATAT
9719944 CCATCATTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 6 0.21
20 16 0.57
21 1 0.04
22 5 0.18
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTTATCTATATTATATT
Found at i:9721504 original size:43 final size:42
Alignment explanation
Indices: 9721448--9721646 Score: 184
Period size: 43 Copynumber: 4.6 Consensus size: 42
9721438 CTAAATTGAA
* * ** * *
9721448 GCTCAACGACTTTGGAAAATAAATAAAGTTTCTCTAATTAGAG
1 GCTCAACAACTTTGAAAAATAAAT-AAGCCTCTCTAATCAAAG
* * * * * *
9721491 GCTTAACAACTTTGAAAAAAAAATAGGGCTCATTTAAGCAAAG
1 GCTCAACAACTTTGAAAAATAAATAAGCCTC-TCTAATCAAAG
* * *
9721534 GCTCAATAACTTTGAAAAAATAAAT-AGCTTCTCTAATCAGAG
1 GCTCAACAACTTTG-AAAAATAAATAAGCCTCTCTAATCAAAG
* *
9721576 GCTTATCAACTTTGAGAAAAATAAATAAGACCTCTCTAATCAAAG
1 GCTCAACAACTTT--GAAAAATAAATAAG-CCTCTCTAATCAAAG
9721621 GCTCAACAACTTTGAAAAATAAATAA
1 GCTCAACAACTTTGAAAAATAAATAA
9721647 AGCTCGTCGA
Statistics
Matches: 123, Mismatches: 27, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
42 22 0.18
43 65 0.53
44 12 0.10
45 24 0.20
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.27
Consensus pattern (42 bp):
GCTCAACAACTTTGAAAAATAAATAAGCCTCTCTAATCAAAG
Found at i:9721626 original size:87 final size:84
Alignment explanation
Indices: 9721448--9721645 Score: 245
Period size: 87 Copynumber: 2.3 Consensus size: 84
9721438 CTAAATTGAA
* * * *
9721448 GCTCAACGACTTTGGAAAATAAATAAAGTTTCTCTAATTAGAGGCTTAACAACTTTGAAAAAAAA
1 GCTCAACAACTTTGAAAAATAAAT--AGCTTCTCTAATCAGAGGCTTAACAACTTTGAAAAAAAA
** *
9721513 ATAGGGCTCATTTAAGCAAAG
64 ATAGACCTCATCTAAGCAAAG
* *
9721534 GCTCAATAACTTTGAAAAAATAAATAGCTTCTCTAATCAGAGGCTTATCAACTTTGAGAAAAATA
1 GCTCAACAACTTTG-AAAAATAAATAGCTTCTCTAATCAGAGGCTTAACAACTTTGA-AAAAA-A
*
9721599 AATAAGACCTC-TCTAATCAAAG
63 AAT-AGACCTCATCTAAGCAAAG
9721621 GCTCAACAACTTTGAAAAATAAATA
1 GCTCAACAACTTTGAAAAATAAATA
9721646 AAGCTCGTCG
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
85 29 0.30
86 28 0.29
87 35 0.36
88 5 0.05
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (84 bp):
GCTCAACAACTTTGAAAAATAAATAGCTTCTCTAATCAGAGGCTTAACAACTTTGAAAAAAAAAT
AGACCTCATCTAAGCAAAG
Found at i:9722017 original size:21 final size:21
Alignment explanation
Indices: 9721991--9722033 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9721981 ACATTTAAAG
*
9721991 ATTCAAATTTTGGAGATTCAC
1 ATTCAAATTCTGGAGATTCAC
9722012 ATTCAAATTCTGGAGATTCAC
1 ATTCAAATTCTGGAGATTCAC
9722033 A
1 A
9722034 CCCGAAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (21 bp):
ATTCAAATTCTGGAGATTCAC
Found at i:9722463 original size:22 final size:21
Alignment explanation
Indices: 9722397--9722542 Score: 181
Period size: 22 Copynumber: 6.9 Consensus size: 21
9722387 GGTTTTGCGT
9722397 CTCAAAGATTCTT-ATTTGAAA
1 CTCAAAGATT-TTCATTTGAAA
*
9722418 CTCAAAGA-TCTCATTTGAAA
1 CTCAAAGATTTTCATTTGAAA
9722438 CTCAAAGATTTTCATTTGAAAA
1 CTCAAAGATTTTCATTTG-AAA
*
9722460 CTCAAAGATTCTT-ATTCGAAA
1 CTCAAAGATT-TTCATTTGAAA
*
9722481 CTCAAAGATTCTCATTTGAAAA
1 CTCAAAGATTTTCATTTG-AAA
*
9722503 CTCAAAGTTTTTCATTTGAAAA
1 CTCAAAGATTTTCATTTG-AAA
*
9722525 CTCAAAGATTCTCATTTG
1 CTCAAAGATTTTCATTTG
9722543 TGTAGACACC
Statistics
Matches: 110, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
19 1 0.01
20 18 0.16
21 33 0.30
22 56 0.51
23 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (21 bp):
CTCAAAGATTTTCATTTGAAA
Found at i:9722488 original size:43 final size:43
Alignment explanation
Indices: 9722397--9722542 Score: 208
Period size: 43 Copynumber: 3.4 Consensus size: 43
9722387 GGTTTTGCGT
* *
9722397 CTCAAAGATTCTTATTTG-AAACTCAAAGA-TCTCATTTGAAA
1 CTCAAAGATTCTCATTTGAAAACTCAAAGATTCTTATTTGAAA
* *
9722438 CTCAAAGATTTTCATTTGAAAACTCAAAGATTCTTATTCGAAA
1 CTCAAAGATTCTCATTTGAAAACTCAAAGATTCTTATTTGAAA
*
9722481 CTCAAAGATTCTCATTTGAAAACTCAAAG-TTTTTCATTTGAAAA
1 CTCAAAGATTCTCATTTGAAAACTCAAAGATTCTT-ATTTG-AAA
9722525 CTCAAAGATTCTCATTTG
1 CTCAAAGATTCTCATTTG
9722543 TGTAGACACC
Statistics
Matches: 94, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
41 16 0.17
42 15 0.16
43 42 0.45
44 21 0.22
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (43 bp):
CTCAAAGATTCTCATTTGAAAACTCAAAGATTCTTATTTGAAA
Found at i:9722629 original size:23 final size:21
Alignment explanation
Indices: 9722603--9722663 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 21
9722593 ATATTATTAA
*
9722603 TAATAA-TATTTAAAAATAAT
1 TAATAATTATATAAAAATAAT
*
9722623 TATTAATTATATAAAAAT-AT
1 TAATAATTATATAAAAATAAT
* * * *
9722643 AAAAAATTGTATAATAATAAT
1 TAATAATTATATAAAAATAAT
9722664 AACAAAAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TAATAATTATATAAAAATAAT
Found at i:9723719 original size:10 final size:11
Alignment explanation
Indices: 9723705--9723748 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
9723695 TTTTCTAATT
9723705 TTTTTATATTA
1 TTTTTATATTA
9723716 TTTTTTATATTA
1 -TTTTTATATTA
*
9723728 TTTTAAGTA-TA
1 TTTTTA-TATTA
9723739 TTTTTATATT
1 TTTTTATATT
9723749 TATGCATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 2 0.07
11 13 0.46
12 13 0.46
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:9723721 original size:12 final size:12
Alignment explanation
Indices: 9723704--9723731 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
9723694 ATTTTCTAAT
9723704 TTTTTTATATTA
1 TTTTTTATATTA
9723716 TTTTTTATATTA
1 TTTTTTATATTA
9723728 TTTT
1 TTTT
9723732 AAGTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTATATTA
Found at i:9724153 original size:16 final size:16
Alignment explanation
Indices: 9724101--9724189 Score: 89
Period size: 16 Copynumber: 5.9 Consensus size: 16
9724091 TTTTAATTTT
9724101 CAAAAT-CCTAAAATC
1 CAAAATCCCTAAAATC
*
9724116 C-AAA-CCCCAAAAT-
1 CAAAATCCCTAAAATC
*
9724129 CAAAATCCCTTAAATC
1 CAAAATCCCTAAAATC
*
9724145 CAAATTCCCTAAAATC
1 CAAAATCCCTAAAATC
* *
9724161 CAAAATCCATGAAATC
1 CAAAATCCCTAAAATC
*
9724177 CAAAGT-CCTAAAA
1 CAAAATCCCTAAAA
9724190 ATCCTAAAGA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
13 1 0.02
14 13 0.22
15 13 0.22
16 32 0.54
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.19
Consensus pattern (16 bp):
CAAAATCCCTAAAATC
Found at i:9724191 original size:16 final size:16
Alignment explanation
Indices: 9724140--9724198 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
9724130 AAAATCCCTT
*
9724140 AAATCCAAATTCCCT-A
1 AAATCCAAAGT-CCTAA
* *
9724156 AAATCCAAAATCC-ATG
1 AAATCCAAAGTCCTA-A
9724172 AAATCCAAAGTCCTAA
1 AAATCCAAAGTCCTAA
9724188 AAATCCTAAAG
1 AAATCC-AAAG
9724199 ACACGTGTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.06
16 28 0.80
17 5 0.14
ACGTcount: A:0.49, C:0.25, G:0.05, T:0.20
Consensus pattern (16 bp):
AAATCCAAAGTCCTAA
Found at i:9729979 original size:1 final size:1
Alignment explanation
Indices: 9729970--9730032 Score: 63
Period size: 1 Copynumber: 63.0 Consensus size: 1
9729960 TAAAAAAATG
* * * * * * *
9729970 AAAACAAAAAAACAAAAAAACAAAAAAAAAACAAAAACAAAAAAACAAAAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9730033 TGGACATATT
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9729989 original size:25 final size:25
Alignment explanation
Indices: 9729977--9730025 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
9729967 ATGAAAACAA
9729977 AAAAACAAAAAAACAAAAAAAAAAC
1 AAAAACAAAAAAACAAAAAAAAAAC
9730002 AAAAACAAAAAAACAAAAAAAAAA
1 AAAAACAAAAAAACAAAAAAAAAA
9730026 AACAAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (25 bp):
AAAAACAAAAAAACAAAAAAAAAAC
Found at i:9729998 original size:33 final size:32
Alignment explanation
Indices: 9729961--9730034 Score: 112
Period size: 33 Copynumber: 2.3 Consensus size: 32
9729951 GATGGGGCAT
9729961 AAAAAAATGAAAACAAAAAAACAAAAAAACAAA
1 AAAAAAATGAAAACAAAAAAACAAAAAAA-AAA
**
9729994 AAAAAAACAAAAACAAAAAAACAAAAAAAAAA
1 AAAAAAATGAAAACAAAAAAACAAAAAAAAAA
*
9730026 AACAAAATG
1 AAAAAAATG
9730035 GACATATTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 9 0.25
33 27 0.75
ACGTcount: A:0.85, C:0.09, G:0.03, T:0.03
Consensus pattern (32 bp):
AAAAAAATGAAAACAAAAAAACAAAAAAAAAA
Found at i:9730032 original size:8 final size:8
Alignment explanation
Indices: 9729970--9730027 Score: 91
Period size: 8 Copynumber: 7.2 Consensus size: 8
9729960 TAAAAAAATG
9729970 AAAACAAA
1 AAAACAAA
9729978 AAAACAAA
1 AAAACAAA
9729986 AAAACAAA
1 AAAACAAA
*
9729994 AAAAAAACA
1 AAAACAA-A
9730003 AAAACAAA
1 AAAACAAA
9730011 AAAACAAA
1 AAAACAAA
9730019 AAAA-AAA
1 AAAACAAA
9730026 AA
1 AA
9730028 CAAAATGGAC
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
7 5 0.11
8 35 0.74
9 7 0.15
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAACAAA
Found at i:9731347 original size:23 final size:24
Alignment explanation
Indices: 9731328--9731372 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
9731318 ATGAAAATTT
*
9731328 AAACAAAATGTTTTCA-AAAAAAA
1 AAACAAAAAGTTTTCATAAAAAAA
9731351 AAACAAAAAGTTTTCATAAAAA
1 AAACAAAAAGTTTTCATAAAAA
9731373 GAGTGGGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.22
Consensus pattern (24 bp):
AAACAAAAAGTTTTCATAAAAAAA
Found at i:9731781 original size:41 final size:41
Alignment explanation
Indices: 9731724--9731823 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 41
9731714 GCTTTTAAAG
* **
9731724 TTTTAAAGTCTCTGTTTAAG-AGAAACTGTTCTCAATCAA-A
1 TTTTAAAGCCTCTGTTTAAGAAGAAACAATT-TCAATCAAGA
*
9731764 TTTTTAAAGCCTCTGTTTAAGAAGAACCAATTTCAATCAAGA
1 -TTTTAAAGCCTCTGTTTAAGAAGAAACAATTTCAATCAAGA
*
9731806 TTTTAAAGCCTCTATTTA
1 TTTTAAAGCCTCTGTTTA
9731824 GGGGGAACCT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
41 44 0.85
42 8 0.15
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (41 bp):
TTTTAAAGCCTCTGTTTAAGAAGAAACAATTTCAATCAAGA
Found at i:9732041 original size:9 final size:8
Alignment explanation
Indices: 9732020--9732044 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9732010 GTTTTAAAAG
9732020 ATTTTTAA
1 ATTTTTAA
9732028 ATTTTTAA
1 ATTTTTAA
9732036 ATTTTTAA
1 ATTTTTAA
9732044 A
1 A
9732045 GTTTCATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTTTAA
Found at i:9732113 original size:131 final size:131
Alignment explanation
Indices: 9731897--9732148 Score: 459
Period size: 131 Copynumber: 1.9 Consensus size: 131
9731887 GTTTTAAAAG
*
9731897 ATTTTTAAATTTTTAAAGTTTTATTGCCTCTGGTTATGAGGAGCATTCAAAGATTTTGAGATTTA
1 ATTTTTAAATTTTTAAAGTTTCATTGCCTCTGGTTATGAGGAGCATTCAAAGATTTTGAGATTTA
*
9731962 TAAGACCTCTGGGCATAATCTCTAAAAGCCCCTGTGCACGACTTTCAAGTTTTAAAAGATTTTTA
66 TAAGACCTCCGGGCATAATCTCTAAAAGCCCCTGTGCACGACTTTCAAGTTTTAAAAGATTTTTA
9732027 A
131 A
*
9732028 ATTTTTAAATTTTTAAAGTTTCATTGCCTCTGGTTATGAGGATCATTCAAAGATTTTGAGATTTA
1 ATTTTTAAATTTTTAAAGTTTCATTGCCTCTGGTTATGAGGAGCATTCAAAGATTTTGAGATTTA
**
9732093 TAAGACCTCCGGGCATAATCTCTAAAAGCTTCTGTGCACGACTTTCAAGTTTTAAA
66 TAAGACCTCCGGGCATAATCTCTAAAAGCCCCTGTGCACGACTTTCAAGTTTTAAA
9732149 TTTTTAAAGT
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
131 116 1.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (131 bp):
ATTTTTAAATTTTTAAAGTTTCATTGCCTCTGGTTATGAGGAGCATTCAAAGATTTTGAGATTTA
TAAGACCTCCGGGCATAATCTCTAAAAGCCCCTGTGCACGACTTTCAAGTTTTAAAAGATTTTTA
A
Found at i:9732390 original size:22 final size:22
Alignment explanation
Indices: 9732336--9732395 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
9732326 GTCAATTCTG
** *
9732336 TAAGACCTCCAAGCATGATTTT
1 TAAGACCTCCGGGCATGATTTC
9732358 TAAGACCTCCGGGCATGATTTC
1 TAAGACCTCCGGGCATGATTTC
9732380 TAAGACCTCCGGGCAT
1 TAAGACCTCCGGGCAT
9732396 AAATTTGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (22 bp):
TAAGACCTCCGGGCATGATTTC
Found at i:9732432 original size:131 final size:131
Alignment explanation
Indices: 9732218--9732526 Score: 460
Period size: 131 Copynumber: 2.4 Consensus size: 131
9732208 AGACTTTCGG
* * *
9732218 GCATAATTTTTAAGACCTCCGGACA--ATTCTGTAAGACCTCCGGGCATAAATTTGATTCGCGAT
1 GCATGATTTTTAAGACCTCCGGGCATGATT-TCTAAGACCTCCGGGCATAAATTTGATTCGCGAT
* * *
9732281 GTTATCTCGATCAATTCTATAATTTTGACTTACGGTGTTATCCTAGTCAATTCTGTAAGACCTCC
65 GTTATCCCGATCAATTCTATAATTTTAACTTACGGTGTTATCCCAGTCAATTCTGTAAGACCTCC
9732346 AA
130 AA
*
9732348 GCATGATTTTTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCGCGGTG
1 GCATGATTTTTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCGCGATG
* * * *
9732413 TTATCCCGGTCAATTCTATAATTTTAACTTGCGGTGTTATCCCAGTCAATTCTGTAAGACCTTCG
66 TTATCCCGATCAATTCTATAATTTTAACTTACGGTGTTATCCCAGTCAATTCTGTAAGACCTCCA
*
9732478 G
131 A
* * *
9732479 GCATGATTTCTAAGACCTTCGGGCATGATTTTTAAGACCTCCGGGCAT
1 GCATGATTTTTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCAT
9732527 GATTTTAAGA
Statistics
Matches: 162, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
130 23 0.14
131 136 0.84
132 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (131 bp):
GCATGATTTTTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCGCGATG
TTATCCCGATCAATTCTATAATTTTAACTTACGGTGTTATCCCAGTCAATTCTGTAAGACCTCCA
A
Found at i:9732492 original size:22 final size:22
Alignment explanation
Indices: 9732467--9732592 Score: 130
Period size: 22 Copynumber: 5.7 Consensus size: 22
9732457 GTCAATTCTG
*
9732467 TAAGACCTTCGGGCATGATTTC
1 TAAGACCTTCGGGCATGATTTT
9732489 TAAGACCTTCGGGCATGATTTT
1 TAAGACCTTCGGGCATGATTTT
*
9732511 TAAGACCTCCGGGCATGA-TTT
1 TAAGACCTTCGGGCATGATTTT
* * ** *
9732532 TAAGAGC-TCTGGACACAATTCTG
1 TAAGACCTTC-GGGCATGATT-TT
*
9732555 TAAGACCTTCAGGCATGATTTT
1 TAAGACCTTCGGGCATGATTTT
* *
9732577 TAAGATCTCCGGGCAT
1 TAAGACCTTCGGGCAT
9732593 AAATTTGATT
Statistics
Matches: 83, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
20 1 0.01
21 14 0.17
22 53 0.64
23 13 0.16
24 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (22 bp):
TAAGACCTTCGGGCATGATTTT
Found at i:9732723 original size:87 final size:87
Alignment explanation
Indices: 9732577--9732768 Score: 314
Period size: 87 Copynumber: 2.2 Consensus size: 87
9732567 GCATGATTTT
* * * *
9732577 TAAGATCTCCGGGCATAAATTTGATTCGCGGTGTTATCCCGATCAATTTTATAATTTTGACTTGT
1 TAAGACCTCCGGGCATAAATTTGATTCGCGATGTTATCCCGATCAATTCTATAATTTTGACTTGC
9732642 GGTGTTATC-CTAGTCAATTCTG
66 GGTGTTATCTC-AGTCAATTCTG
*
9732664 TAAGACCTCCGGGCATAAATTTGATTCGCGATGTTATCTCGATCAATTCTATAATTTTGACTTGC
1 TAAGACCTCCGGGCATAAATTTGATTCGCGATGTTATCCCGATCAATTCTATAATTTTGACTTGC
*
9732729 GGTGTTATCTCAGTTAATTCTG
66 GGTGTTATCTCAGTCAATTCTG
9732751 TAAGACCTCCGGGCATAA
1 TAAGACCTCCGGGCATAA
9732769 TTCTGTAAGA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 97 0.99
88 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (87 bp):
TAAGACCTCCGGGCATAAATTTGATTCGCGATGTTATCCCGATCAATTCTATAATTTTGACTTGC
GGTGTTATCTCAGTCAATTCTG
Found at i:9732773 original size:23 final size:23
Alignment explanation
Indices: 9732743--9732791 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
9732733 TTATCTCAGT
9732743 TAATTCTGTAAGACCTCCGGGCA
1 TAATTCTGTAAGACCTCCGGGCA
9732766 TAATTCTGTAAGACCTCCGGGCA
1 TAATTCTGTAAGACCTCCGGGCA
9732789 TAA
1 TAA
9732792 ATTTGATTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (23 bp):
TAATTCTGTAAGACCTCCGGGCA
Found at i:9732928 original size:38 final size:38
Alignment explanation
Indices: 9732886--9733149 Score: 160
Period size: 38 Copynumber: 7.2 Consensus size: 38
9732876 TTTAATCCTG
9732886 GTCATTTCATTAATTCTTCGACTTGTGGTTCAGTCTCA
1 GTCATTTCATTAATTCTTCGACTTGTGGTTCAGTCTCA
* * * * *
9732924 GTCATAT--TTAA-TCTTTGACTCGTGGTTTAATCTC-
1 GTCATTTCATTAATTCTTCGACTTGTGGTTCAGTCTCA
*
9732958 GATCATTTCATTAATTC-TCTGACTTGTGGTTCAGTCCCA
1 G-TCATTTCATTAATTCTTC-GACTTGTGGTTCAGTCTCA
* ** * * * *
9732997 GTCATTT--TT-ATCCTTTAACTCGCGGTTTAATC-CA
1 GTCATTTCATTAATTCTTCGACTTGTGGTTCAGTCTCA
9733031 GATCATTTCATTAATTC-TCTGACTTGTGGTTCAGTCTCA
1 G-TCATTTCATTAATTCTTC-GACTTGTGGTTCAGTCTCA
* * * *** * * *
9733070 GTCA--TC-TTTATCCTTTGACTCACGGTTTAATC-CT
1 GTCATTTCATTAATTCTTCGACTTGTGGTTCAGTCTCA
* * *
9733104 GATCATTTCATTAATTCTCCGACTTGCGGTTCAGTCCCA
1 G-TCATTTCATTAATTCTTCGACTTGTGGTTCAGTCTCA
9733143 GTCATTT
1 GTCATTT
9733150 TTAATCCTTG
Statistics
Matches: 164, Mismatches: 43, Indels: 38
0.67 0.18 0.16
Matches are distributed among these distances:
34 6 0.04
35 63 0.38
36 10 0.06
37 10 0.06
38 69 0.42
39 6 0.04
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (38 bp):
GTCATTTCATTAATTCTTCGACTTGTGGTTCAGTCTCA
Found at i:9733571 original size:348 final size:352
Alignment explanation
Indices: 9732831--9735050 Score: 2412
Period size: 348 Copynumber: 6.3 Consensus size: 352
9732821 TCTATAATTT
* * * **
9732831 TGACTTACGGTTTAGTCCCAGTCATTTTTAATGC-TTGACTCGCGGTTTAATCCTGGTCATTTCA
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAAT-CTTTGACTCATGGTTTAATCCTGGTCA-TT--
* * * *
9732895 TTAATTCT-TCGACTTGTGGTTCAGTCTCAGTCATATTTAATCTTTGACTCGTGGTTTAATCTCG
62 TT-ATTCTCTCGACTTGCGGTTCAGTCCCAGTCATATTTAATCCTTGACTCGCGGTTTAATCTCG
* * * * *
9732959 ATCATTTCATTAATTCTCTGACTTGTGGTTCAGTCCCAGTCAT-TTTTATCCTTTAACTCGCGGT
126 GTCATTTCACTAATTCTCTGACTTGCGGTTCAGTCCCAGTCATATTTAATCCTTTGACTCGCGGT
* *
9733023 TTAATCCAGATCATTTCATTAATTCTCTGACTTGTGGTTCAG-TCTCAGTCATCTTTATCCTTTG
191 TTAATCCCGATCATTTC----ATTCTCTGACTTGCGGTTCAGTTCT-AGTCATCTTTATCCTTTG
** * * * * *
9733087 ACTCACGGTTTAATCCTGATCATTTCATTAATTCTCCGACTTGCGGTTCAGTCCCAGTCATTTTT
251 ACTCGTGGTTTAATCCCGATCATTTAATT-A--CTCCGACTTGCGGTTCAATCCCAGTCATCTCT
* * * *
9733152 AATCCTTGACTCGCGGTTTAATCCCGATCATTTCATTCTC
313 AATCTTTGACTCACTGTTTAATCCTGATCATTTCATTCTC
*
9733192 TGACTTGCGGTTCAGTCCCAGTCATCTCTAATCTTTGACTCATGGTTTAATCCTGGTCATTTTAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCTGGTCATTTTAT
* * * *
9733257 TCTCT-GACTTGCAGTTTAGTCCCAGTCATCTTTAATCCTTGACTCACGGTTTAATC-CTGGTCA
66 TCTCTCGACTTGCGGTTCAGTCCCAGTCATATTTAATCCTTGACTCGCGGTTTAATCTC-GGTCA
* * *
9733320 TTTCACTAATTCT-TCGACTTACGATTCAGTCCCAGTCATATCTAAT-CTTTGACTCGCGGTTTA
130 TTTCACTAATTCTCT-GACTTGCGGTTCAGTCCCAGTCATATTTAATCCTTTGACTCGCGGTTTA
*
9733383 ATCCCGGTCATTTCATTCTCTGACTTGCGGTTCAGTTCTAGTCATCTTTATCCTTTGACTCGTGG
194 ATCCCGATCATTTCATTCTCTGACTTGCGGTTCAGTTCTAGTCATCTTTATCCTTTGACTCGTGG
* *
9733448 TTTAATCCCGATCA-TTAATTAC-CCGACTTGCAGTTCAATCACAGTCATCTCTAATCTTTGACT
259 TTTAATCCCGATCATTTAATTACTCCGACTTGCGGTTCAATCCCAGTCATCTCTAATCTTTGACT
*
9733511 CACTATTTAATCCTGATCATTTCATTCTC
324 CACTGTTTAATCCTGATCATTTCATTCTC
* * *
9733540 TGACTTGCGGTTCAGTCTCAGTCATCTCTAATCTTTGACTCATGGTTTAATCTTGGTCATTTTAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCTGGTCATTTTAT
*
9733605 TCTCT-GACTTGCGGTGT-AGTCCCAGTCATTTTTAATCCTTGACTCGCGGTTTAATCTCGGTCA
66 TCTCTCGACTTGCGGT-TCAGTCCCAGTCATATTTAATCCTTGACTCGCGGTTTAATCTCGGTCA
* *
9733668 TTTCATTAATTCT-TCGACTTGCGGTTCAGTCCCAGTCATATTTAAT-CTTTGACTCGTGGTTTA
130 TTTCACTAATTCTCT-GACTTGCGGTTCAGTCCCAGTCATATTTAATCCTTTGACTCGCGGTTTA
* *
9733731 ATCCCGATCATTTCATTCTCTGACTTGCAGTTCAGTCCTAGTCATCTTTATCCTTTGACTCGTGG
194 ATCCCGATCATTTCATTCTCTGACTTGCGGTTCAGTTCTAGTCATCTTTATCCTTTGACTCGTGG
* *
9733796 TTTAATCCCGATCA-TTAATTACT-CGACTTACGGTTCAATCGCAGTCATCTCTAATCTTTGACT
259 TTTAATCCCGATCATTTAATTACTCCGACTTGCGGTTCAATCCCAGTCATCTCTAATCTTTGACT
**
9733859 CGTTGTTTAAT-CTCGATCATTTCATTCTC
324 CACTGTTTAATCCT-GATCATTTCATTCTC
*
9733888 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATAGTTTAATCCTGGTCATTTTAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCTGGTCATTTTAT
* * * * *
9733953 TCTCT-GACTTGCGGTTTAGTCCCAATTATCTTTAATCCTTGACTCGCGATTTAATCTCGGTCAT
66 TCTCTCGACTTGCGGTTCAGTCCCAGTCATATTTAATCCTTGACTCGCGGTTTAATCTCGGTCAT
* * ** * * *
9734017 TTCATTAATTAT-TCGACTTATGGTTCAGTCCTAATCATATTTAAT-CTTTGACTCGCAGTTTAA
131 TTCACTAATTCTCT-GACTTGCGGTTCAGTCCCAGTCATATTTAATCCTTTGACTCGCGGTTTAA
* * * * ** *
9734080 TCACGGTCATTTCATTCTCTGACTTGTGGTTCAGTCCTAGTCATCTTTATTGTTTGACTCGTGAT
195 TCCCGATCATTTCATTCTCTGACTTGCGGTTCAGTTCTAGTCATCTTTATCCTTTGACTCGTGGT
* ** * *
9734145 TTAATCCCGATCA-TTAATTAC-CCGACTTACGGTTCAATCGTAGTCATATCTAATCTTTGGCTC
260 TTAATCCCGATCATTTAATTACTCCGACTTGCGGTTCAATCCCAGTCATCTCTAATCTTTGACTC
* * *
9734208 ACGGTTTAATCCCGATCATTTCATGCTC
325 ACTGTTTAATCCTGATCATTTCATTCTC
* * * *
9734236 TGACTTGCTGTTCAGTCCCAGTCATCTCTAATCTTTAACTCATGGTTTAATCCCGGTCATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCTGGTCA-TT--T
* * * * * *
9734301 TAATTCT-TCGACTTGCGATTCAGTCCTAATCATATTTAATCTTTGACTCGTGGTTTAATCCCGG
63 T-ATTCTCTCGACTTGCGGTTCAGTCCCAGTCATATTTAATCCTTGACTCGCGGTTTAATCTCGG
* * * **
9734365 TCATTT--C--ATTCTCTGACTTGCAGTTCAGTCCTAGTCATCTTT-ATCCTTTGACTCATGGTT
127 TCATTTCACTAATTCTCTGACTTGCGGTTCAGTCCCAGTCATATTTAATCCTTTGACTCGCGGTT
* * * * *
9734425 TAATCCCGATCA-TTAATTACTC-GACTTACGGTTCA-ATCGCAGTCATCTCTAAT-CTTTGACT
192 TAATCCCGATCATTTCATT-CTCTGACTTGCGGTTCAGTTC-TAGTCATCT-TTATCCTTTGACT
* * *
9734486 CGCT-GTTTAATCCCGATCATTTCATT-CTCTGACTTGCGGTTCAGTCCCAGTCATCTCTAATCT
254 CG-TGGTTTAATCCCGATCATTTAATTACTCCGACTTGCGGTTCAATCCCAGTCATCTCTAATCT
* *
9734549 TTGACTCA-TGGTTTAATCCTGGTCATTTTATTCTC
318 TTGACTCACT-GTTTAATCCTGATCATTTCATTCTC
* * * ** * *
9734584 TGACTTGCGGTTTAGTCCCAATCATCTTTAATCCTTGACTCGCGATTTAAT-CTCGATCATTTCA
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCT-GGTCA-TT--
* * * * *
9734648 TTAATTCT-TCGACTTACGGTTCAGTCCTAGTCATATTTAATCTTTGACTCGCAGTTTAATCCCG
62 TT-ATTCTCTCGACTTGCGGTTCAGTCCCAGTCATATTTAATCCTTGACTCGCGGTTTAATCTCG
* * * *
9734712 GTCATTT--C--ATTCTCTGACTTGTGGTTCAGTCCTAGTCATCTTT-ATCCTTTGACTCGTGGT
126 GTCATTTCACTAATTCTCTGACTTGCGGTTCAGTCCCAGTCATATTTAATCCTTTGACTCGCGGT
* * * * * *
9734772 TTAATCCCGATCA-TTAATTAC-CCGACTTGCGGTTCA-ATCGTAGTCATATCTAAT-CTTTGGC
191 TTAATCCCGATCATTTCATT-CTCTGACTTGCGGTTCAGTTC-TAGTCATCT-TTATCCTTTGAC
** * * * ** * *
9734833 TCACGGTTTAATCCCAATCATTTCA-TGCTTTGACTTGCTGTTCAGTCCCAGTCATCTCTAATCT
253 TCGTGGTTTAATCCCGATCATTTAATTACTCCGACTTGCGGTTCAATCCCAGTCATCTCTAATCT
* * *
9734897 TTAACTCA-TGGTTTAATCCTGGTCATTTTATTCTC
318 TTGACTCACT-GTTTAATCCTGATCATTTCATTCTC
* * * *
9734932 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACTCGTGGTTTAATCCCGGTCATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCTGGTCATTTTAT
** * ** *
9734997 TAACTCTTCGACCCGCAGTTCAGTCCTTGTCATCTTTAATCCTTGACTCGCGGT
66 T--CTC-TCGACTTGCGGTTCAGTCCCAGTCATATTTAATCCTTGACTCGCGGT
9735051 GTCATCCCGA
Statistics
Matches: 1643, Mismatches: 180, Indels: 85
0.86 0.09 0.04
Matches are distributed among these distances:
344 3 0.00
345 1 0.00
346 3 0.00
347 58 0.04
348 1268 0.77
349 8 0.00
351 4 0.00
352 62 0.04
353 57 0.03
354 3 0.00
356 2 0.00
357 113 0.07
358 7 0.00
360 3 0.00
361 51 0.03
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (352 bp):
TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCTGGTCATTTTAT
TCTCTCGACTTGCGGTTCAGTCCCAGTCATATTTAATCCTTGACTCGCGGTTTAATCTCGGTCAT
TTCACTAATTCTCTGACTTGCGGTTCAGTCCCAGTCATATTTAATCCTTTGACTCGCGGTTTAAT
CCCGATCATTTCATTCTCTGACTTGCGGTTCAGTTCTAGTCATCTTTATCCTTTGACTCGTGGTT
TAATCCCGATCATTTAATTACTCCGACTTGCGGTTCAATCCCAGTCATCTCTAATCTTTGACTCA
CTGTTTAATCCTGATCATTTCATTCTC
Found at i:9733706 original size:38 final size:34
Alignment explanation
Indices: 9733609--9733721 Score: 109
Period size: 35 Copynumber: 3.1 Consensus size: 34
9733599 TTTTATTCTC
9733609 TGACTTGCGGTGTAGTCCCAGTCATTTTTAATCCT
1 TGACTTGCGGT-TAGTCCCAGTCATTTTTAATCCT
* * * * *
9733644 TGACTCGCGGTTTAATCTCGGTCATTTCATTAATTCT
1 TGACTTGCGG-TTAGTCCCAGTCATTT--TTAATCCT
* *
9733681 TCGACTTGCGGTTCAGTCCCAGTCATATTTAATCTT
1 T-GACTTGCGGTT-AGTCCCAGTCATTTTTAATCCT
9733717 TGACT
1 TGACT
9733722 CGTGGTTTAA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
35 25 0.41
36 8 0.13
37 10 0.16
38 18 0.30
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (34 bp):
TGACTTGCGGTTAGTCCCAGTCATTTTTAATCCT
Found at i:9734180 original size:627 final size:625
Alignment explanation
Indices: 9732904--9735063 Score: 2768
Period size: 627 Copynumber: 3.4 Consensus size: 625
9732894 ATTAATTCTT
* * * ** *
9732904 CGACTTGTGGTTCAGTC-TCAGTCATATTTAATCTTTGACTCGTGGTTTAATCTCGATCATTTCA
1 CGACTTGCGGTTCAATCGT-AGTCATATCTAATCTTTGACTCACGGTTTAATCCCGATCATTTC-
* * * * *
9732968 TTAATTCTCTGACTTGTGGTTCAGTCCCAGTCAT-TTTTATCCTTTAACTCGCGGTTTAATCCAG
64 ---ATGCTCTGACTTGCGGTTCAGTCCCAGTCATCTCTAATCC-TTAACTCACGGTTTAATCCAG
* * * * **
9733032 ATCATTTCATTAATTCTCTGACTTGTGGTTCAGTCTCAGTCATCTTT-ATCCTTTGACTCACGGT
125 GTCATTTCATTAATTCTCTGACTTGCGGTTCAGTCCCAGTCATATTTAAT-CTTTGACTCGTGGT
* * * * *
9733096 TTAATCCTGATCATTTCATTAATTCTCCGACTTGCGGTTCAGTCCCAGTCATTTTTAATCCTTGA
189 TTAATCCCGATCATTTC----ATTCTCTGACTTGCAGTTCAGTCCTAGTCATCTTTAATCCTTGA
* * * *
9733161 CTCGCGGTTTAATCCCGATCATTTCATT-CTCTGACTTGCGGTTCAGTCCCAGTCATCTCTAATC
250 CTCGCGGTTTAATCCCGATCA-TTAATTACTC-GACTTACGGTTCAATCGCAGTCATCTCTAATC
* * * * * *
9733225 TTTGACTCATGGTTTAATCCTGGTCATTTTATTCTCTGACTTGCAGTTTAGTCCCAGTCATCTTT
313 TTTGACTCGTTGTTTAATCC-GATCATTTCATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTT
* * * * *
9733290 AATCCTTGACTCACGGTTTAATCCTGGTCATTTCACTAATTCT-TCGACTTACGATTCAGTCCCA
377 AATCTTTGACTCATGGTTTAATCCTGGTCATTT---T-ATTCTCT-GACTTGCGGTTTAGTCCCA
* * * * * * * * *
9733354 GTCATATCTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCATT--CTCT-GACTTGCGGTTC
437 ATCATCTTTAATCCTTGACTCGCGATTTAATCTCGGTCATTTCATTAATTTTCGACTTACGGTTC
* * ** * * *
9733416 AGTTCTAGTCATCTTT-ATCCTTTGACTCGTGGTTTAATCCCGATCA-TTAATTAC-CCGACTTG
502 AGTCCTAGTCATATTTAAT-CTTTGACTCGCAGTTTAATCCCGGTCATTTCATT-CTCTGACTTG
** * * * * * *
9733478 CAGTTCAATCAC-AGTCATCTCTAATCTTTGACTCACT-ATTTAATCCTGATCATTTCATT-CTC
565 TGGTTCAGTC-CTAGTCATCTTTATTCTTTGACTC-GTGATTTAATCCCGATCA-TTAATTAC-C
* * * * ** * *
9733540 TGACTTGCGGTTCAGTC-TCAGTCATCTCTAATCTTTGACTCATGGTTTAATCTTGGTCATTTTA
1 CGACTTGCGGTTCAATCGT-AGTCATATCTAATCTTTGACTCACGGTTTAATCCCGATCATTTCA
* * * * *
9733604 TTCTCTGACTTGCGGTGT-AGTCCCAGTCATTTTTAATCCTTGACTCGCGGTTTAATCTC-GGTC
65 TGCTCTGACTTGCGGT-TCAGTCCCAGTCATCTCTAATCCTTAACTCACGGTTTAATC-CAGGTC
9733667 ATTTCATTAATTCT-TCGACTTGCGGTTCAGTCCCAGTCATATTTAATCTTTGACTCGTGGTTTA
128 ATTTCATTAATTCTCT-GACTTGCGGTTCAGTCCCAGTCATATTTAATCTTTGACTCGTGGTTTA
*
9733731 ATCCCGATCATTTCATTCTCTGACTTGCAGTTCAGTCCTAGTCATCTTT-ATCCTTTGACTCGTG
192 ATCCCGATCATTTCATTCTCTGACTTGCAGTTCAGTCCTAGTCATCTTTAATCC-TTGACTCGCG
9733795 GTTTAATCCCGATCATTAATTACTCGACTTACGGTTCAATCGCAGTCATCTCTAATCTTTGACTC
256 GTTTAATCCCGATCATTAATTACTCGACTTACGGTTCAATCGCAGTCATCTCTAATCTTTGACTC
9733860 GTTGTTTAATCTCGATCATTTCATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTG
321 GTTGTTTAATC-CGATCATTTCATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTG
* *
9733925 ACTCATAGTTTAATCCTGGTCATTTTATTCTCTGACTTGCGGTTTAGTCCCAATTATCTTTAATC
385 ACTCATGGTTTAATCCTGGTCATTTTATTCTCTGACTTGCGGTTTAGTCCCAATCATCTTTAATC
* *
9733990 CTTGACTCGCGATTTAATCTCGGTCATTTCATTAATTATTCGACTTATGGTTCAGTCCTAATCAT
450 CTTGACTCGCGATTTAATCTCGGTCATTTCATTAATT-TTCGACTTACGGTTCAGTCCTAGTCAT
*
9734055 ATTTAATCTTTGACTCGCAGTTTAATCACGGTCATTTCATTCTCTGACTTGTGGTTCAGTCCTAG
514 ATTTAATCTTTGACTCGCAGTTTAATCCCGGTCATTTCATTCTCTGACTTGTGGTTCAGTCCTAG
*
9734120 TCATCTTTATTGTTTGACTCGTGATTTAATCCCGATCATTAATTACC
579 TCATCTTTATTCTTTGACTCGTGATTTAATCCCGATCATTAATTACC
* *
9734167 CGACTTACGGTTCAATCGTAGTCATATCTAATCTTTGGCTCACGGTTTAATCCCGATCATTTCAT
1 CGACTTGCGGTTCAATCGTAGTCATATCTAATCTTTGACTCACGGTTTAATCCCGATCATTTCAT
* * * *
9734232 GCTCTGACTTGCTGTTCAGTCCCAGTCATCTCTAATCTTTAACTCATGGTTTAATCCCGGTCATT
66 GCTCTGACTTGCGGTTCAGTCCCAGTCATCTCTAATCCTTAACTCACGGTTTAATCCAGGTCATT
* * *
9734297 TCATTAATTCT-TCGACTTGCGATTCAGTCCTAATCATATTTAATCTTTGACTCGTGGTTTAATC
131 TCATTAATTCTCT-GACTTGCGGTTCAGTCCCAGTCATATTTAATCTTTGACTCGTGGTTTAATC
* **
9734361 CCGGTCATTTCATTCTCTGACTTGCAGTTCAGTCCTAGTCATCTTT-ATCCTTTGACTCATGGTT
195 CCGATCATTTCATTCTCTGACTTGCAGTTCAGTCCTAGTCATCTTTAATCC-TTGACTCGCGGTT
*
9734425 TAATCCCGATCATTAATTACTCGACTTACGGTTCAATCGCAGTCATCTCTAATCTTTGACTCGCT
259 TAATCCCGATCATTAATTACTCGACTTACGGTTCAATCGCAGTCATCTCTAATCTTTGACTCGTT
*
9734490 GTTTAATCCCGATCATTTCATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTCTAATCTTTGACT
324 GTTTAAT-CCGATCATTTCATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACT
9734555 CATGGTTTAATCCTGGTCATTTTATTCTCTGACTTGCGGTTTAGTCCCAATCATCTTTAATCCTT
388 CATGGTTTAATCCTGGTCATTTTATTCTCTGACTTGCGGTTTAGTCCCAATCATCTTTAATCCTT
*
9734620 GACTCGCGATTTAATCTCGATCATTTCATTAATTCTTCGACTTACGGTTCAGTCCTAGTCATATT
453 GACTCGCGATTTAATCTCGGTCATTTCATTAATT-TTCGACTTACGGTTCAGTCCTAGTCATATT
9734685 TAATCTTTGACTCGCAGTTTAATCCCGGTCATTTCATTCTCTGACTTGTGGTTCAGTCCTAGTCA
517 TAATCTTTGACTCGCAGTTTAATCCCGGTCATTTCATTCTCTGACTTGTGGTTCAGTCCTAGTCA
* *
9734750 TCTTTATCCTTTGACTCGTGGTTTAATCCCGATCATTAATTACC
582 TCTTTATTCTTTGACTCGTGATTTAATCCCGATCATTAATTACC
* *
9734794 CGACTTGCGGTTCAATCGTAGTCATATCTAATCTTTGGCTCACGGTTTAATCCCAATCATTTCAT
1 CGACTTGCGGTTCAATCGTAGTCATATCTAATCTTTGACTCACGGTTTAATCCCGATCATTTCAT
* * * * *
9734859 GCTTTGACTTGCTGTTCAGTCCCAGTCATCTCTAATCTTTAACTCATGGTTTAATCCTGGTCA-T
66 GCTCTGACTTGCGGTTCAGTCCCAGTCATCTCTAATCCTTAACTCACGGTTTAATCCAGGTCATT
* *
9734923 T--TT-ATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACTCGTGGTTTAATCC
131 TCATTAATTCTCTGACTTGCGGTTCAGTCCCAGTCATATTTAATCTTTGACTCGTGGTTTAATCC
* ** *
9734985 CGGTCATTTCATTAACTCTTCGACCCGCAGTTCAGTCCTTGTCATCTTTAATCCTTGACTCGCGG
196 CGATCATTTCATT--CTC-T-GACTTGCAGTTCAGTCCTAGTCATCTTTAATCCTTGACTCGCGG
* *
9735050 TGTCATCCCGATCA
257 TTTAATCCCGATCA
9735064 CTTTCTTTTA
Statistics
Matches: 1376, Mismatches: 119, Indels: 67
0.88 0.08 0.04
Matches are distributed among these distances:
623 125 0.09
624 5 0.00
625 4 0.00
626 6 0.00
627 934 0.68
628 120 0.09
631 1 0.00
632 115 0.08
633 11 0.01
636 55 0.04
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.41
Consensus pattern (625 bp):
CGACTTGCGGTTCAATCGTAGTCATATCTAATCTTTGACTCACGGTTTAATCCCGATCATTTCAT
GCTCTGACTTGCGGTTCAGTCCCAGTCATCTCTAATCCTTAACTCACGGTTTAATCCAGGTCATT
TCATTAATTCTCTGACTTGCGGTTCAGTCCCAGTCATATTTAATCTTTGACTCGTGGTTTAATCC
CGATCATTTCATTCTCTGACTTGCAGTTCAGTCCTAGTCATCTTTAATCCTTGACTCGCGGTTTA
ATCCCGATCATTAATTACTCGACTTACGGTTCAATCGCAGTCATCTCTAATCTTTGACTCGTTGT
TTAATCCGATCATTTCATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCAT
GGTTTAATCCTGGTCATTTTATTCTCTGACTTGCGGTTTAGTCCCAATCATCTTTAATCCTTGAC
TCGCGATTTAATCTCGGTCATTTCATTAATTTTCGACTTACGGTTCAGTCCTAGTCATATTTAAT
CTTTGACTCGCAGTTTAATCCCGGTCATTTCATTCTCTGACTTGTGGTTCAGTCCTAGTCATCTT
TATTCTTTGACTCGTGATTTAATCCCGATCATTAATTACC
Found at i:9734772 original size:35 final size:33
Alignment explanation
Indices: 9734665--9734772 Score: 90
Period size: 35 Copynumber: 3.1 Consensus size: 33
9734655 TTCGACTTAC
*
9734665 GGTTCAGTCCTAGTCATATTTAATCTTTGACTCGC
1 GGTTCAGTCCTAGTCAT-TTT-ATCTTTGACTCGT
* * * ** * * *
9734700 AGTTTAATCCCGGTCATTTCATTCTCTGACTTGT
1 GGTTCAGTCCTAGTCATTTTA-TCTTTGACTCGT
9734734 GGTTCAGTCCTAGTCATCTTTATCCTTTGACTCGT
1 GGTTCAGTCCTAGTCAT-TTTAT-CTTTGACTCGT
9734769 GGTT
1 GGTT
9734773 TAATCCCGAT
Statistics
Matches: 53, Mismatches: 17, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
33 1 0.02
34 24 0.45
35 28 0.53
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.43
Consensus pattern (33 bp):
GGTTCAGTCCTAGTCATTTTATCTTTGACTCGT
Found at i:9735020 original size:279 final size:277
Alignment explanation
Indices: 9732831--9735068 Score: 2024
Period size: 279 Copynumber: 8.0 Consensus size: 277
9732821 TCTATAATTT
* * * * * * *
9732831 TGACTTACGGTTTAGTCCCAGTCATTTTTAATGC-TTGACTCGCGGTTTAATCCTGGTCATTTCA
1 TGACTTGCGGTTCAGTCCCAGTCATCTCTAAT-CTTTGACTCGTGGTTTAATCCCGATCATTTCA
* * *
9732895 TTAATTCTTCGACTTG-TGGTTCAGTCTCAGTCATATTTAATCTTTGACTCGTGGTTTAAT-CTC
65 TT--CTC-T-GACTTGCT-GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCT-
* * * *
9732958 GATCATTTCATTAATTCTCTGACTTGTGGTTCAGTCCCAGTCAT-TTTTATCCTTTAACTCGCGG
124 GATCA-TT--TT-ATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCC-TTGACTCGTGG
* * *
9733022 TTTAATCCAGATCATTTCATTAATTCTCTGACTTGTGGTTCAGT-CTCAGTCATCTTTATCCTTT
184 TTTAATCCCGATCATTTCATT-ACTCTC-GACTTGCGGTTCAGTCCT-AGTCATCTTTAT-CTTT
* *
9733086 GACTCACGGTTTAATCCTGATCATTTCATTAATTCTC
245 GACTCGCGGTTTAATCCCGATCATTTC----ATTCTC
* * * * *
9733123 CGACTTGCGGTTCAGTCCCAGTCATTTTTAATCCTTGACTCGCGGTTTAATCCCGATCATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTCTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
* * * *
9733188 TCTCTGACTTGCGGTTCAGTCCCAGTCATCTCTAATCTTTGACTCATGGTTTAATCCTGGTCATT
66 TCTCTGACTTGCTGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGATCATT
* * ** * *
9733253 TTATTCTCTGACTTGCAGTTTAGTCCCAGTCATCTTTAATCCTTGACTCACGGTTTAATCCTGGT
131 TTATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACTCGTGGTTTAATCCCGAT
* * * * * * *
9733318 CATTTCACTAATTCTTCGACTTACGATTCAGTCCCAGTCATATCTAATCTTTGACTCGCGGTTTA
196 CATTTCA-TTACTC-TCGACTTGCGGTTCAGTCCTAGTCATCT-TTATCTTTGACTCGCGGTTTA
*
9733383 ATCCCGGTCATTTCATTCTC
258 ATCCCGATCATTTCATTCTC
* * * *
9733403 TGACTTGCGGTTCAGTTCTAGTCATCT-TTATCCTTTGACTCGTGGTTTAATCCCGATCA-TTAA
1 TGACTTGCGGTTCAGTCCCAGTCATCTCTAAT-CTTTGACTCGTGGTTTAATCCCGATCATTTCA
* * * * * * *
9733466 TTAC-CCGACTTGCAGTTCAATCACAGTCATCTCTAATCTTTGACTCACT-ATTTAATCCTGATC
65 TT-CTCTGACTTGCTGTTCAGTCCCAGTCATCTTTAATCTTTGACTC-GTGGTTTAATCCTGATC
* * * * * **
9733529 ATTTCATTCTCTGACTTGCGGTTCAGTCTCAGTCATCTCTAATCTTTGACTCATGGTTTAATCTT
128 ATTTTATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACTCGTGGTTTAATCCC
* * * * *
9733594 GGTCATTTTATT-CTCT-GACTTGCGGTGT-AGTCCCAGTCATTTTTAATCCTTGACTCGCGGTT
193 GATCATTTCATTACTCTCGACTTGCGGT-TCAGTCCTAGTCATCTTT-ATCTTTGACTCGCGGTT
* * *
9733656 TAATCTCGGTCATTTCATTAATTC
256 TAATCCCGATCATTTCATT--CTC
* *
9733680 TTCGACTTGCGGTTCAGTCCCAGTCATATTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTC
1 -T-GACTTGCGGTTCAGTCCCAGTCATCTCTAATCTTTGACTCGTGGTTTAATCCCGATCATTTC
* * *
9733745 ATTCTCTGACTTGCAGTTCAGTCCTAGTCATCTTT-ATCCTTTGACTCGTGGTTTAATCCCGATC
64 ATTCTCTGACTTGCTGTTCAGTCCCAGTCATCTTTAAT-CTTTGACTCGTGGTTTAATCCTGATC
* * * * * * * *
9733809 A-TTAATTACTC-GACTTACGGTTCAATCGCAGTCATCTCTAATCTTTGACTCGTTGTTTAATCT
128 ATTTTATT-CTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACTCGTGGTTTAATCC
* ***
9733872 CGATCATTTCATT-CTCT-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATAGTT
192 CGATCATTTCATTACTCTCGACTTGCGGTTCAGTCCTAGTCATCTTT-ATCTTTGACTCGCGGTT
* * *
9733935 TAATCCTGGTCATTTTATTCTC
256 TAATCCCGATCATTTCATTCTC
* * * * * * * * *
9733957 TGACTTGCGGTTTAGTCCCAATTATCTTTAATCCTTGACTCGCGATTTAATCTCGGTCATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTCTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
* * * * * * **
9734022 TAATTATTCGACTT-ATGGTTCAGTCCTAATCATATTTAATCTTTGACTCGCAGTTTAATCAC-G
66 T--CT-CT-GACTTGCT-GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATC-CTG
* * * * * ** *
9734085 GTCATTTCATTCTCTGACTTGTGGTTCAGTCCTAGTCATCTTTATTGTTTGACTCGTGATTTAAT
125 ATCATTTTATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACTCGTGGTTTAAT
* * * * * * * *
9734150 CCCGATCA-TTAATTAC-C-CGACTTACGGTTCAATCGTAGTCATATCTAATCTTTGGCTCACGG
190 CCCGATCATTTCATTACTCTCGACTTGCGGTTCAGTCCTAGTCATCT-TTATCTTTGACTCGCGG
*
9734212 TTTAATCCCGATCATTTCATGCTC
254 TTTAATCCCGATCATTTCATTCTC
* * * *
9734236 TGACTTGCTGTTCAGTCCCAGTCATCTCTAATCTTTAACTCATGGTTTAATCCCGGTCATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTCTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
* * * * * *
9734301 TAATTCTTCGACTTGC-GATTCAGTCCTAATCATATTTAATCTTTGACTCGTGGTTTAATCCCGG
66 T--CTC-T-GACTTGCTG-TTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGA
* * * *
9734365 TCATTTCATTCTCTGACTTGCAGTTCAGTCCTAGTCATCTTT-ATCCTTTGACTCATGGTTTAAT
126 TCATTTTATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCC-TTGACTCGTGGTTTAAT
* * * * *
9734429 CCCGATCA-TTAATTA--CTCGACTTACGGTTCAATCGC-AGTCATCTCTAATCTTTGACTCGCT
190 CCCGATCATTTCATTACTCTCGACTTGCGGTTCAGTC-CTAGTCATCT-TTATCTTTGACTCGCG
9734490 GTTTAATCCCGATCATTTCATTCTC
253 GTTTAATCCCGATCATTTCATTCTC
* * * *
9734515 TGACTTGCGGTTCAGTCCCAGTCATCTCTAATCTTTGACTCATGGTTTAATCCTGGTCATTTTAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTCTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
* * * * * *
9734580 TCTCTGACTTGCGGTTTAGTCCCAATCATCTTTAATCCTTGACTCGCGATTTAAT-CTCGATCAT
66 TCTCTGACTTGCTGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCT-GATCA-
* * * * **
9734644 TTCATTAATTCT-TCGACTTACGGTTCAGTCCTAGTCATATTTAATCTTTGACTCGCAGTTTAAT
129 TT--TT-ATTCTCT-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACTCGTGGTTTAAT
* * *
9734708 CCCGGTCATTTCATT-CTCT-GACTTGTGGTTCAGTCCTAGTCATCTTTATCCTTTGACTCGTGG
190 CCCGATCATTTCATTACTCTCGACTTGCGGTTCAGTCCTAGTCATCTTTAT-CTTTGACTCGCGG
*
9734771 TTTAATCCCGATCA-TTAATTAC-C
254 TTTAATCCCGATCATTTCATT-CTC
* * ** * * ** *
9734794 CGACTTGCGGTTCAATCGTAGTCATATCTAATCTTTGGCTCACGGTTTAATCCCAATCATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTCTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
* * * * * *
9734859 GCTTTGACTTGCTGTTCAGTCCCAGTCATCTCTAATCTTTAACTCATGGTTTAATCCTGGTCATT
66 TCTCTGACTTGCTGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGATCATT
*
9734924 TTATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACTCGTGGTTTAATCCCGGT
131 TTATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACTCGTGGTTTAATCCCGAT
** * * * * *
9734989 CATTTCATTAACTCTTCGACCCGCAGTTCAGTCCTTGTCATCTTTAATCCTTGACTCGCGGTGTC
196 CATTTCATT-ACTC-TCGACTTGCGGTTCAGTCCTAGTCATCTTT-ATCTTTGACTCGCGGTTTA
9735054 ATCCCGATCACTTTC
258 ATCCCGATCA-TTTC
9735069 TTTTATTCGA
Statistics
Matches: 1645, Mismatches: 235, Indels: 143
0.81 0.12 0.07
Matches are distributed among these distances:
274 2 0.00
275 221 0.13
276 10 0.01
277 12 0.01
278 13 0.01
279 917 0.56
280 230 0.14
281 4 0.00
284 105 0.06
285 16 0.01
287 2 0.00
288 48 0.03
289 3 0.00
290 2 0.00
291 1 0.00
292 59 0.04
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.41
Consensus pattern (277 bp):
TGACTTGCGGTTCAGTCCCAGTCATCTCTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
TCTCTGACTTGCTGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGATCATT
TTATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACTCGTGGTTTAATCCCGAT
CATTTCATTACTCTCGACTTGCGGTTCAGTCCTAGTCATCTTTATCTTTGACTCGCGGTTTAATC
CCGATCATTTCATTCTC
Found at i:9735610 original size:25 final size:24
Alignment explanation
Indices: 9735528--9735615 Score: 77
Period size: 25 Copynumber: 3.6 Consensus size: 24
9735518 AAATACGGTT
* **
9735528 GGAATCCCCTTCAATCTGGCTCTGG
1 GGAATTCCCTTCAATCTCCCTCT-G
* **
9735553 GGAATTCCCTTCAATCTCCTTCAAA
1 GGAATTCCCTTCAATCTCCCTC-TG
** *
9735578 AAAATCCCCTTCAATCTCCCTCTG
1 GGAATTCCCTTCAATCTCCCTCTG
9735602 GGAATTCCCTTCAA
1 GGAATTCCCTTCAA
9735616 CAGATCTCGA
Statistics
Matches: 47, Mismatches: 15, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
24 11 0.23
25 36 0.77
ACGTcount: A:0.24, C:0.34, G:0.12, T:0.30
Consensus pattern (24 bp):
GGAATTCCCTTCAATCTCCCTCTG
Found at i:9736088 original size:2 final size:2
Alignment explanation
Indices: 9736081--9736118 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9736071 CCCCAGAGCA
9736081 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9736119 TTTTTTGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9736864 original size:16 final size:16
Alignment explanation
Indices: 9736812--9736900 Score: 80
Period size: 16 Copynumber: 5.9 Consensus size: 16
9736802 TTTTAATTTT
9736812 CAAAAT-CCTAAAATC
1 CAAAATCCCTAAAATC
*
9736827 C-AAA-CCCCAAAAT-
1 CAAAATCCCTAAAATC
*
9736840 CAAAATCCCTTAAATC
1 CAAAATCCCTAAAATC
* *
9736856 CAAACTCCCCAAAATC
1 CAAAATCCCTAAAATC
* *
9736872 CAAAATCCCTGAACTC
1 CAAAATCCCTAAAATC
*
9736888 CAAAGT-CCTAAAA
1 CAAAATCCCTAAAA
9736901 ATCCTAAAGA
Statistics
Matches: 57, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
13 1 0.02
14 13 0.23
15 13 0.23
16 30 0.53
ACGTcount: A:0.47, C:0.34, G:0.02, T:0.17
Consensus pattern (16 bp):
CAAAATCCCTAAAATC
Found at i:9736902 original size:32 final size:32
Alignment explanation
Indices: 9736812--9736904 Score: 104
Period size: 32 Copynumber: 3.0 Consensus size: 32
9736802 TTTTAATTTT
*
9736812 CAAAAT-CCTAAAATCCAAAC-CCC-AAAAT-
1 CAAAATCCCTGAAATCCAAACTCCCAAAAATC
* *
9736840 CAAAATCCCTTAAATCCAAACTCCCCAAAATC
1 CAAAATCCCTGAAATCCAAACTCCCAAAAATC
* * *
9736872 CAAAATCCCTGAACTCCAAAGTCCTAAAAATC
1 CAAAATCCCTGAAATCCAAACTCCCAAAAATC
9736904 C
1 C
9736905 TAAAGACACG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
28 6 0.11
29 13 0.24
30 3 0.05
31 5 0.09
32 28 0.51
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.17
Consensus pattern (32 bp):
CAAAATCCCTGAAATCCAAACTCCCAAAAATC
Found at i:9738923 original size:8 final size:8
Alignment explanation
Indices: 9738903--9739018 Score: 97
Period size: 7 Copynumber: 15.0 Consensus size: 8
9738893 TTTCCTTTCA
9738903 CATTTTTT
1 CATTTTTT
9738911 C--TTTTT
1 CATTTTTT
9738917 CA-TTTTT
1 CATTTTTT
9738924 CA-TTTTT
1 CATTTTTT
9738931 CA-TTTTT
1 CATTTTTT
9738938 CATTTTTTTT
1 CA--TTTTTT
9738948 CATTTTTT
1 CATTTTTT
9738956 -ATTTTTT
1 CATTTTTT
*
9738963 TATTTTTTTT
1 CA--TTTTTT
9738973 CATTTTTT
1 CATTTTTT
*
9738981 CACTTCTTT
1 CA-TTTTTT
9738990 --TTTTTT
1 CATTTTTT
9738996 -ATTTTTT
1 CATTTTTT
*
9739003 TATTTTTT
1 CATTTTTT
9739011 CATTTTTT
1 CATTTTTT
9739019 TGATACTTCC
Statistics
Matches: 94, Mismatches: 4, Indels: 20
0.80 0.03 0.17
Matches are distributed among these distances:
6 11 0.12
7 34 0.36
8 30 0.32
9 5 0.05
10 14 0.15
ACGTcount: A:0.11, C:0.10, G:0.00, T:0.78
Consensus pattern (8 bp):
CATTTTTT
Found at i:9739018 original size:25 final size:26
Alignment explanation
Indices: 9738933--9739019 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 26
9738923 TCATTTTTCA
9738933 TTTTTCATTTTTTTTCATTTTTT-A-TT
1 TTTTTCA-TTTTTTT-ATTTTTTCATTT
9738959 TTTTT-ATTTTTTTTCATTTTTTCACTTCTTT
1 TTTTTCA-TTTTTTT-ATTTTTTCA----TTT
*
9738990 TTTTTTATTTTTTTATTTTTTCATTT
1 TTTTTCATTTTTTTATTTTTTCATTT
9739016 TTTT
1 TTTT
9739020 GATACTTCCA
Statistics
Matches: 54, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
25 17 0.31
26 13 0.24
30 9 0.17
31 14 0.26
32 1 0.02
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTCATTTTTTTATTTTTTCATTT
Found at i:9743950 original size:2 final size:2
Alignment explanation
Indices: 9743943--9743967 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9743933 ATATTAAGTG
9743943 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9743968 TAAAGAGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9744886 original size:19 final size:17
Alignment explanation
Indices: 9744862--9744922 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 17
9744852 TGTTCATGAG
9744862 TTTAATGAAATTTTTATAT
1 TTTAAT-AAA-TTTTATAT
9744881 TTTAATATAATTTTAT-T
1 TTTAATA-AATTTTATAT
9744898 TTTAATTAAAAATTTTATTAT
1 TTTAA-T--AAATTTTA-TAT
9744919 TTTA
1 TTTA
9744923 TCCTTTTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
17 6 0.17
18 8 0.22
19 15 0.42
20 2 0.06
21 5 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTAATAAATTTTATAT
Found at i:9746141 original size:2 final size:2
Alignment explanation
Indices: 9746124--9746168 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
9746114 ATATTGAGTG
* * *
9746124 TA TA CA TA TA TG TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9746166 TA T
1 TA T
9746169 TCCATTGTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:9748042 original size:23 final size:23
Alignment explanation
Indices: 9748006--9748050 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9747996 TTTGATAAAT
*
9748006 TAAATCAATCAATA-TATAATTAA
1 TAAATCAATAAATACTA-AATTAA
*
9748029 TAAATTAATAAATACTAAATTA
1 TAAATCAATAAATACTAAATTA
9748051 TATTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAATCAATAAATACTAAATTAA
Found at i:9748432 original size:269 final size:268
Alignment explanation
Indices: 9747890--9748708 Score: 1187
Period size: 269 Copynumber: 3.0 Consensus size: 268
9747880 TAATATAAAA
* * * *
9747890 ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTAACCTTAAATCACTCACAATT
1 ATAATTCAAAAAACTAAATTGATTATATTTATGTTTTTATTATTGACTTTAAATCACTCTCAATT
* *
9747955 CAATTCATATTGAAAGCATTAAAATTTTAAAAATTTCTTAATTTGATAAATTAAATCAATCAATA
66 CAATTCATATTAAAAGCATTAAAATTTT-AAAATTTCTTAATTTGACAAATTAAATCAATCAATA
* * *
9748020 TATAATTAATAAATTAATAAATACTAAATTA-TATTATAAAATAGTTTATTCTCTAGTCAATTAT
130 TATAATTAATAAATTAATAAATACTAAATTACAATTATAAAATAGTTGATTCTCTAATCAATTAT
* * * *
9748084 TTGATCCATTTATATTTGATTAAATATAG-AATCTAGCAATTAATGTATTTCATGTGTAAATATA
195 TTGATACATTTATATTTGATTAAATATAGTATTC-AGTAATTGATGTATTTCATGTGTAAATATA
9748148 TAAAGCAAAT
259 TAAAGCAAAT
9748158 ATAATTCAAAAAACTAAATTGATTATATTTATGTTTTTATTATTGACTTTAAATCACTCTCAATT
1 ATAATTCAAAAAACTAAATTGATTATATTTATGTTTTTATTATTGACTTTAAATCACTCTCAATT
* * *
9748223 CAATTCATATTAAAAGCACTAAAATTTTAAATTTTCTTAATTTGACAAATGAAATCAATCAATAT
66 CAATTCATATTAAAAGCATTAAAATTTTAAAATTTCTTAATTTGACAAATTAAATCAATCAATAT
* * * *
9748288 AAAATTAATAAATTAATAAATACTACAATTACAATTATAAAAAAGCTGATTCTCCAATCAATTAT
131 ATAATTAATAAATTAATAAATACTA-AATTACAATTATAAAATAGTTGATTCTCTAATCAATTAT
*
9748353 TTGATACATTTATATTTAATTAAATATAGTATTCAGTAATTGATGTATTTCATGTGTAAATATAT
195 TTGATACATTTATATTTGATTAAATATAGTATTCAGTAATTGATGTATTTCATGTGTAAATATAT
9748418 AAAGCAAAT
260 AAAGCAAAT
*
9748427 ATAATTCAAAAAACTAAATTGATTATATTTATGTTTTTATTATTGATTTTAAATCACTCTCAATT
1 ATAATTCAAAAAACTAAATTGATTATATTTATGTTTTTATTATTGACTTTAAATCACTCTCAATT
** * *
9748492 CAATTCATATTAAAA-TTTTAAAAATTTAAAAAATTTCTCAATTTGACAAATTAAATCAATCAAT
66 CAATTCATATTAAAAGCATT-AAAATTT-TAAAATTTCTTAATTTGACAAATTAAATCAATCAAT
* *
9748556 ATATAATTAATAAATTAATAAATACTATAATTACAATTATAAAATAGTTGATT-TTTAATTAATT
129 ATATAATTAATAAATTAATAAATACTA-AATTACAATTATAAAATAGTTGATTCTCTAATCAATT
* *
9748620 ATTTGATACATTTATATTTGATTAGATATAGTATCCATTTGAGTAATTGATGTATTTCATGATGT
193 ATTTGATACATTTATATTTGATTAAATATAG--T--A-TTCAGTAATTGATGTATTTC---ATG-
*
9748685 ATGTAAATATATAAAGCTAAT
249 -TGTAAATATATAAAGCAAAT
9748706 ATA
1 ATA
9748709 TGAAATTAAT
Statistics
Matches: 496, Mismatches: 40, Indels: 19
0.89 0.07 0.03
Matches are distributed among these distances:
267 58 0.12
268 93 0.19
269 215 0.43
270 84 0.17
271 1 0.00
273 1 0.00
274 19 0.04
277 3 0.01
279 22 0.04
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.42
Consensus pattern (268 bp):
ATAATTCAAAAAACTAAATTGATTATATTTATGTTTTTATTATTGACTTTAAATCACTCTCAATT
CAATTCATATTAAAAGCATTAAAATTTTAAAATTTCTTAATTTGACAAATTAAATCAATCAATAT
ATAATTAATAAATTAATAAATACTAAATTACAATTATAAAATAGTTGATTCTCTAATCAATTATT
TGATACATTTATATTTGATTAAATATAGTATTCAGTAATTGATGTATTTCATGTGTAAATATATA
AAGCAAAT
Found at i:9749517 original size:31 final size:32
Alignment explanation
Indices: 9749445--9749520 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
9749435 GATTTCATTT
* * *
9749445 GATTTCATTAGGTAAAATACTAATGCATGTTTG
1 GATTTCATTTGATAAAATACTAATGCA-GCTTG
*
9749478 G-TTTCATTTGATAAAATATTAATGCA-CTTG
1 GATTTCATTTGATAAAATACTAATGCAGCTTG
9749508 GATTTCATTTGAT
1 GATTTCATTTGAT
9749521 TTCATTTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 4 0.11
31 11 0.29
32 22 0.58
33 1 0.03
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (32 bp):
GATTTCATTTGATAAAATACTAATGCAGCTTG
Found at i:9751591 original size:15 final size:14
Alignment explanation
Indices: 9751571--9751614 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
9751561 ATAATATTAA
9751571 AATTTATTTATTTAT
1 AATTTA-TTATTTAT
*
9751586 AATTTATTATATACT
1 AATTTATTATTTA-T
9751601 AATTTATTATTTAT
1 AATTTATTATTTAT
9751615 TAGTCTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTTATTATTTAT
Found at i:9751605 original size:30 final size:31
Alignment explanation
Indices: 9751568--9751649 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 31
9751558 TATATAATAT
*
9751568 TAAAATTTATTTATTTA-TAATTTATTATA-
1 TAAAATTTATTTATTTATTAATCTATTATAG
* *
9751597 TACTAATTTA-TTATTTATTAGTCTATTATAG
1 TA-AAATTTATTTATTTATTAATCTATTATAG
9751628 TAAAATTTATTTATTATATTAA
1 TAAAATTTATTTATT-TATTAA
9751650 ATTAAATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
29 9 0.21
30 22 0.51
31 7 0.16
32 5 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (31 bp):
TAAAATTTATTTATTTATTAATCTATTATAG
Found at i:9753593 original size:7 final size:7
Alignment explanation
Indices: 9753566--9753604 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
9753556 AGCAAATTAG
9753566 AATTTATA
1 AATTTA-A
*
9753574 AAGTTAA
1 AATTTAA
*
9753581 ATTTTAA
1 AATTTAA
9753588 AATTTAA
1 AATTTAA
9753595 AATTTAA
1 AATTTAA
9753602 AAT
1 AAT
9753605 CTACATTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
7 22 0.81
8 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:9754527 original size:20 final size:19
Alignment explanation
Indices: 9754504--9754544 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
9754494 TCAATAATCG
* *
9754504 TAATTTCATATTAAATTATT
1 TAATTTAATAATAAA-TATT
9754524 TAATTTAATAATAAATATT
1 TAATTTAATAATAAATATT
9754543 TA
1 TA
9754545 TAATATTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATTTAATAATAAATATT
Found at i:9755743 original size:61 final size:60
Alignment explanation
Indices: 9755647--9755916 Score: 310
Period size: 61 Copynumber: 4.5 Consensus size: 60
9755637 TGCTTTTATA
*
9755647 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACCCCTTTTTGAAATTTTTATTTT
1 CAAG-AAAATTGATACTTTCAACTTTTCCTCAAAAATACCCCTTTTTGAAATTTTTATTTT
* * *** *
9755708 CAAGAAAAGTTGATACTTTCAACTTTTCCTAAAAAATTCTTTTTTTTGAAAATTTTATTTT
1 CAAGAAAA-TTGATACTTTCAACTTTTCCTCAAAAATACCCCTTTTTGAAATTTTTATTTT
* * * * * *
9755769 CAAGGAAAATTGATACTTTCAATTTTTTCTTAAAAATATCCTTTTTTAAAATTTTTATTTT
1 CAA-GAAAATTGATACTTTCAACTTTTCCTCAAAAATACCCCTTTTTGAAATTTTTATTTT
* * *
9755830 TAAGAAAAATTGATACTTTCAACTTTTCCTCGAAAATA--CCTTTTTGAAATCTTTATTTTT
1 CAAG-AAAATTGATACTTTCAACTTTTCCTCAAAAATACCCCTTTTTGAAATTTTTA-TTTT
* * *
9755890 CAGGAAAATTGATACTTTTAATTTTTC
1 CAAGAAAATTGATACTTTCAACTTTTC
9755917 TTTAAACTAT
Statistics
Matches: 177, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
59 35 0.20
60 11 0.06
61 126 0.71
62 5 0.03
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (60 bp):
CAAGAAAATTGATACTTTCAACTTTTCCTCAAAAATACCCCTTTTTGAAATTTTTATTTT
Found at i:9755797 original size:122 final size:121
Alignment explanation
Indices: 9755647--9755915 Score: 373
Period size: 122 Copynumber: 2.2 Consensus size: 121
9755637 TGCTTTTATA
* * *
9755647 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACCCCTTTTTGAAATTTTTATTTTCAAG
1 CAAGGAAAATTGATACTTTCAATTTTTTCTCAAAAATACCCCTTTTTAAAATTTTTATTTTCAAG
* * *
9755712 AAAAGTTGATACTTTCAACTTTTCCTAAAAAATTCTTTTTTTTGAAAAT-TTTA-TTTT
66 AAAAATTGATACTTTCAACTTTTCCTAAAAAATAC--CTTTTTG-AAATCTTTATTTTT
* * * *
9755769 CAAGGAAAATTGATACTTTCAATTTTTTCTTAAAAATATCCTTTTTTAAAATTTTTATTTTTAAG
1 CAAGGAAAATTGATACTTTCAATTTTTTCTCAAAAATACCCCTTTTTAAAATTTTTATTTTCAAG
**
9755834 AAAAATTGATACTTTCAACTTTTCCTCGAAAATACCTTTTTGAAATCTTTATTTTT
66 AAAAATTGATACTTTCAACTTTTCCTAAAAAATACCTTTTTGAAATCTTTATTTTT
*
9755890 C-AGGAAAATTGATACTTTTAATTTTT
1 CAAGGAAAATTGATACTTTCAATTTTT
9755916 CTTTAAACTA
Statistics
Matches: 132, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
119 4 0.03
120 34 0.26
121 5 0.04
122 89 0.67
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (121 bp):
CAAGGAAAATTGATACTTTCAATTTTTTCTCAAAAATACCCCTTTTTAAAATTTTTATTTTCAAG
AAAAATTGATACTTTCAACTTTTCCTAAAAAATACCTTTTTGAAATCTTTATTTTT
Found at i:9758105 original size:34 final size:34
Alignment explanation
Indices: 9758062--9758131 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
9758052 GTTAAAATCT
* *
9758062 AAAACAAAATTACCTGAACTAAAT-CGAAGTTTGA
1 AAAACAAAATGACCTAAACT-AATCCGAAGTTTGA
* *
9758096 AAAACAAAATGACTTAAACTGATCCGAAGTTTGA
1 AAAACAAAATGACCTAAACTAATCCGAAGTTTGA
9758130 AA
1 AA
9758132 TGAATAACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 2 0.06
34 29 0.94
ACGTcount: A:0.50, C:0.14, G:0.13, T:0.23
Consensus pattern (34 bp):
AAAACAAAATGACCTAAACTAATCCGAAGTTTGA
Found at i:9758242 original size:85 final size:86
Alignment explanation
Indices: 9758096--9758366 Score: 359
Period size: 85 Copynumber: 3.2 Consensus size: 86
9758086 CGAAGTTTGA
* * * * * *
9758096 AAAACAAAATGACTTAAACTGATCCG-AAGTTTGAAATGAATAACTTGGACTAAGATAAAGAAGG
1 AAAACAAAATGACCTAGACTAAACCGAAAGTCTGAAATGAATAACTTGGACTAAGCTAAAGAAGG
9758160 ATTTGACAGAAGTCGAAATCT
66 ATTTGACAGAAGTCGAAATCT
* * * **
9758181 AAAACAAAATAACCTAGACTAAACC-AAAGTCTGAAATTAATAACTTAGACTAAGCCGAAGAAGG
1 AAAACAAAATGACCTAGACTAAACCGAAAGTCTGAAATGAATAACTTGGACTAAGCTAAAGAAGG
* *
9758245 ATTTGACAAAAGTTGAAATCT
66 ATTTGACAGAAGTCGAAATCT
* * *
9758266 AAAACAAAATGACCTGGATTGAACCGAAA-TCTGAAATGAATAACTTGGACTAAGCTAAAGAAGG
1 AAAACAAAATGACCTAGACTAAACCGAAAGTCTGAAATGAATAACTTGGACTAAGCTAAAGAAGG
* *
9758330 ATTTAACAGAAGTCAAAATCT
66 ATTTGACAGAAGTCGAAATCT
9758351 AAAACAAAATGACCTA
1 AAAACAAAATGACCTA
9758367 AATGGAATCA
Statistics
Matches: 158, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
85 155 0.98
86 3 0.02
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.21
Consensus pattern (86 bp):
AAAACAAAATGACCTAGACTAAACCGAAAGTCTGAAATGAATAACTTGGACTAAGCTAAAGAAGG
ATTTGACAGAAGTCGAAATCT
Found at i:9758596 original size:34 final size:34
Alignment explanation
Indices: 9758558--9758710 Score: 96
Period size: 34 Copynumber: 4.5 Consensus size: 34
9758548 CAAGGTCCAA
* *
9758558 AGATTCACAAGAATTTCAAATTTGTAAAAATTGG
1 AGATTCACAAGAATTTCAAATTTGCAAAAATTAG
* * * * *
9758592 AGATTTACAAGATTTTTAGATTTGCAAGAATTAG
1 AGATTCACAAGAATTTCAAATTTGCAAAAATTAG
* *
9758626 ATATTCACAAG-ATTT-AGAGTTT-CACAAAATTTAG
1 AGATTCACAAGAATTTCA-AATTTGCA-AAAA-TTAG
*** * * * *
9758660 AGATTTGTAAGATTTTCAGATTTACAAGAATTAG
1 AGATTCACAAGAATTTCAAATTTGCAAAAATTAG
* *
9758694 AGATTTACAAGACTTTC
1 AGATTCACAAGAATTTC
9758711 GGATTCGTAA
Statistics
Matches: 89, Mismatches: 24, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
32 3 0.03
33 9 0.10
34 65 0.73
35 9 0.10
36 3 0.03
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (34 bp):
AGATTCACAAGAATTTCAAATTTGCAAAAATTAG
Found at i:9758612 original size:17 final size:17
Alignment explanation
Indices: 9758592--9758705 Score: 65
Period size: 17 Copynumber: 6.7 Consensus size: 17
9758582 TAAAAATTGG
9758592 AGATTTACAAGATTTTT
1 AGATTTACAAGATTTTT
* *
9758609 AGATTTGCAAGA--ATT
1 AGATTTACAAGATTTTT
9758624 AGATATTCACAAGA--TTT
1 AGAT-TT-ACAAGATTTTT
* **
9758641 AGAGTTTCACAAAATTTAG
1 AGA-TTT-ACAAGATTTTT
** *
9758660 AGATTTGTAAGATTTTC
1 AGATTTACAAGATTTTT
* **
9758677 AGATTTACAAGAATTAG
1 AGATTTACAAGATTTTT
9758694 AGATTTACAAGA
1 AGATTTACAAGA
9758706 CTTTCGGATT
Statistics
Matches: 75, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
15 6 0.08
16 2 0.03
17 59 0.79
18 4 0.05
19 4 0.05
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (17 bp):
AGATTTACAAGATTTTT
Found at i:9758637 original size:68 final size:70
Alignment explanation
Indices: 9758558--9758710 Score: 172
Period size: 68 Copynumber: 2.2 Consensus size: 70
9758548 CAAGGTCCAA
* * * *
9758558 AGATTCACAAGAATTTCA-AATTTGTA-AAAA-TTGGAGATTTACAAGATTTTTAGATTTGCAAG
1 AGATTCACAAGAATTTCAGAATTT-CACAAAATTTAGAGATTTACAAGATTTTCAGATTTACAAG
9758620 AATTAG
65 AATTAG
* * **
9758626 ATATTCACAAG-ATTT-AGAGTTTCACAAAATTTAGAGATTTGTAAGATTTTCAGATTTACAAGA
1 AGATTCACAAGAATTTCAGAATTTCACAAAATTTAGAGATTTACAAGATTTTCAGATTTACAAGA
9758689 ATTAG
66 ATTAG
* *
9758694 AGATTTACAAGACTTTC
1 AGATTCACAAGAATTTC
9758711 GGATTCGTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
66 2 0.03
67 12 0.17
68 52 0.75
69 3 0.04
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (70 bp):
AGATTCACAAGAATTTCAGAATTTCACAAAATTTAGAGATTTACAAGATTTTCAGATTTACAAGA
ATTAG
Found at i:9758805 original size:17 final size:17
Alignment explanation
Indices: 9758785--9758826 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
9758775 AAATCTTTAT
*
9758785 ATTCGCAAGAATTAGAG
1 ATTCGCAAAAATTAGAG
*
9758802 ATTCACAAAAATTAGAG
1 ATTCGCAAAAATTAGAG
9758819 ATTCGCAA
1 ATTCGCAA
9758827 TATTTTTCAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (17 bp):
ATTCGCAAAAATTAGAG
Found at i:9764280 original size:60 final size:60
Alignment explanation
Indices: 9764145--9764432 Score: 377
Period size: 59 Copynumber: 4.8 Consensus size: 60
9764135 TCTTAAAGCA
* * * *
9764145 TTTTGACACTTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-GCTT
1 TTTTGA-AATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACCCT
* *
9764205 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAATACCCT
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACCCT
* *
9764265 TTTTGAAATTTTTATTTTCAAGAAAAGTTGATACTTTCAACTTTTTATCAAAAATACCCTT
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACCC-T
* * *
9764326 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACATCTCCT-AGAAAATA-CCT
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCA-AAAATACCCT
* * * *
9764385 TTTTGGAATCTTTATTTTCAA-AGAAAATTGATACTTTTAATTTTTTCT
1 TTTTGAAATTTTTATTTTCAAGA-AAAATTGATACTTTCAACTTTTTCT
9764433 TAAAGCATAT
Statistics
Matches: 202, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
58 1 0.00
59 85 0.42
60 66 0.33
61 50 0.25
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.47
Consensus pattern (60 bp):
TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACCCT
Found at i:9764447 original size:59 final size:58
Alignment explanation
Indices: 9764112--9764470 Score: 347
Period size: 59 Copynumber: 6.1 Consensus size: 58
9764102 TTTATACAAG
* * * * *
9764112 GAAAATTGATACTTTCAAATTTTTCT--TAAA-GC-ATTTTGACACTTTTTATTTTCAA
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTGA-AATTTTTATTTTCAA
* * *
9764167 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATGCTTTTTTGAAATTTTTATTTTTAA
1 G-AAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTGAAATTTTTATTTTCAA
* *
9764226 GAAAAATTGATACTTTTAACTTTTTCTCAAAAATACCCTTTTTGAAATTTTTATTTTCAA
1 G-AAAATTGATACTTTCAACTTTTTCTCAAAAATA-CTTTTTTGAAATTTTTATTTTCAA
*
9764286 GAAAAGTTGATACTTTCAACTTTTTATCAAAAATACCCTTTTTTGAAATTTTTATTTTCAA
1 GAAAA-TTGATACTTTCAACTTTTTCTCAAAAATA--CTTTTTTGAAATTTTTATTTTCAA
* * * * * *
9764347 GAAAAATTGATACTTTCAACATCTCCT-AGAAAATACCTTTTTGGAATCTTTATTTTCAAA
1 G-AAAATTGATACTTTCAACTTTTTCTCA-AAAATACTTTTTTGAAATTTTTATTTTC-AA
* * * * * *
9764407 GAAAATTGATACTTTTAATTTTTTCTTAAAGCATA-TTTTTT--AACTTTGATCTTTCAA
1 GAAAATTGATACTTTCAACTTTTTCTCAAA-AATACTTTTTTGAAATTTTTAT-TTTCAA
9764464 GAAAATT
1 GAAAATT
9764471 AATCCTTTAG
Statistics
Matches: 259, Mismatches: 31, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
55 1 0.00
56 23 0.09
57 15 0.06
58 7 0.03
59 97 0.37
60 64 0.25
61 48 0.19
62 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.46
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTGAAATTTTTATTTTCAA
Found at i:9764578 original size:18 final size:19
Alignment explanation
Indices: 9764550--9764585 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9764540 GATTATTCAA
*
9764550 GAAAAATAAATAGCAAAGC
1 GAAAAATAAATACCAAAGC
9764569 GAAAAA-AAATACCAAAG
1 GAAAAATAAATACCAAAG
9764586 TTTGCGCAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.67, C:0.11, G:0.14, T:0.08
Consensus pattern (19 bp):
GAAAAATAAATACCAAAGC
Found at i:9772540 original size:13 final size:13
Alignment explanation
Indices: 9772522--9772546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9772512 TAGGTGAAAT
9772522 TTTTTATTTTTTG
1 TTTTTATTTTTTG
9772535 TTTTTATTTTTT
1 TTTTTATTTTTT
9772547 AATTTTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTG
Found at i:9780711 original size:19 final size:20
Alignment explanation
Indices: 9780674--9780711 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
9780664 GCATTTATTT
* *
9780674 TTTTCTCTTTTTTTCCTTTG
1 TTTTCTCTTTCTTTACTTTG
9780694 TTTT-TCTTTCTTTACTTT
1 TTTTCTCTTTCTTTACTTT
9780712 TATTTTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTCTCTTTCTTTACTTTG
Found at i:9784757 original size:14 final size:14
Alignment explanation
Indices: 9784740--9784766 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9784730 ATATATATTA
9784740 ATTATCATTTTAAT
1 ATTATCATTTTAAT
9784754 ATTATCATTTTAA
1 ATTATCATTTTAA
9784767 GATTTTTGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTATCATTTTAAT
Found at i:9786806 original size:22 final size:20
Alignment explanation
Indices: 9786781--9786820 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
9786771 GCAAAAGAAA
9786781 AAAATAAATAAATAAAATTGAC
1 AAAATAAA-AAA-AAAATTGAC
9786803 AAAATAAAAAAAAAATTG
1 AAAATAAAAAAAAAATTG
9786821 CCTTCATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (20 bp):
AAAATAAAAAAAAAATTGAC
Found at i:9787376 original size:2 final size:2
Alignment explanation
Indices: 9787359--9787406 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
9787349 ATATTGAGTG
* * *
9787359 TA TA CA TA TA TG TA TA TA -A AA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9787400 TA TA TA T
1 TA TA TA T
9787407 TCCATTGTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:9788577 original size:2 final size:2
Alignment explanation
Indices: 9788570--9788602 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
9788560 TAGTCAAAAT
*
9788570 GA GA GA GA GT GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
9788603 TAGGATAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.52, T:0.03
Consensus pattern (2 bp):
GA
Found at i:9788916 original size:2 final size:2
Alignment explanation
Indices: 9788909--9788933 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9788899 TATCTAAACA
9788909 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 A
9788934 ATTTACATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9790289 original size:23 final size:24
Alignment explanation
Indices: 9790253--9790298 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
9790243 TTTGACAAAT
*
9790253 TAAATCAATCAATA-TAAAATTAA
1 TAAATCAATAAATACTAAAATTAA
* *
9790276 TAAATTAATAAATACTACAATTA
1 TAAATCAATAAATACTAAAATTA
9790299 CAATTATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAATCAATAAATACTAAAATTAA
Found at i:9790423 original size:270 final size:269
Alignment explanation
Indices: 9789870--9790688 Score: 1142
Period size: 270 Copynumber: 3.0 Consensus size: 269
9789860 TAATATAAAA
* * ** * *
9789870 ATAATTCAAAAAACTAAATTAATTATATTTATATTTTTATTATTAACCTTAAACCACTCACAATT
1 ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTGATTTTAAATCACTCTCAATT
* * *
9789935 TAATTCATATTGAAAGCATTAAAATTTTAAAAATTTCTTAATTTGATAAATTAAATCAAT-AATA
66 CAATTCATATTAAAAGCATTAAAATTTTAAAAATTTCTTAATTTGACAAATTAAATCAATCAATA
* * * * * *
9789999 TATAATTAATAAATTGATAAATACTAAATTA-TATTATAAAATAGTTTATTTTCTAGTCAGTTAT
131 TATAATTAATAAATTAATAAATACTAAATTACAATTATAAAATAGTTGATTCTCTAATCAATTAT
* * * **
9790063 TTGATCCATTTATATTTGATTAAATATAG-ATTCTAGCAATTAATGTATTTCACATGTAAATATA
196 TTGATACATTTATATTTGATTAAATATAGTATTC-AGTAATTGATGTATTTCATGTGTAAATATA
9790127 TAAAGCAAAT
260 TAAAGCAAAT
9790137 ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTGATTTTAAATCACTCTCAATT
1 ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTGATTTTAAATCACTCTCAATT
* **
9790202 CAATTCATATTAAAAGCACTAAAATTTTAAATTTTTCTTAATTTGACAAATTAAATCAATCAATA
66 CAATTCATATTAAAAGCATTAAAATTTTAAAAATTTCTTAATTTGACAAATTAAATCAATCAATA
* * * *
9790267 TAAAATTAATAAATTAATAAATACTACAATTACAATTATAAAAAAGGTGATTCTCCAATCAATTA
131 TATAATTAATAAATTAATAAATACTA-AATTACAATTATAAAATAGTTGATTCTCTAATCAATTA
9790332 TTTGATACATTTATATTTGATTAAATATAGTATTCAGTAATTGATGTATTTCATGTGTAAATATA
195 TTTGATACATTTATATTTGATTAAATATAGTATTCAGTAATTGATGTATTTCATGTGTAAATATA
9790397 TAAAGCAAAT
260 TAAAGCAAAT
* **
9790407 ATAATTAAAAAAACTAAATTGATTATATTTATGGTTTTATTATTGATTTTAAATCACTCTCAATT
1 ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTGATTTTAAATCACTCTCAATT
* ** *
9790472 CAAGTCATATTAAAA-TTTTAAAATTTTAAAAATTTCTCAATTTGACAAATTAAATCAATCAATA
66 CAATTCATATTAAAAGCATTAAAATTTTAAAAATTTCTTAATTTGACAAATTAAATCAATCAATA
* *
9790536 TATAATTAATAAATTAATAAATACTATAATTACAATTATAAAATAGTTGATTCTTTAATTAATTA
131 TATAATTAATAAATTAATAAATACTA-AATTACAATTATAAAATAGTTGATTCTCTAATCAATTA
* *
9790601 TTTGATACATTTATATTTGATTAGATATAGTATCCATTTGAGTAATTGATGTATTTCATGATGTA
195 TTTGATACATTTATATTTGATTAAATATAG--T--A-TTCAGTAATTGATGTATTTC---ATG--
*
9790666 TGTAAATATATAAAGCTAAT
250 TGTAAATATATAAAGCAAAT
9790686 ATA
1 ATA
9790689 TGAAACTAAT
Statistics
Matches: 491, Mismatches: 47, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
267 113 0.23
268 28 0.06
269 135 0.27
270 165 0.34
271 5 0.01
273 1 0.00
274 19 0.04
277 3 0.01
279 22 0.04
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (269 bp):
ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTGATTTTAAATCACTCTCAATT
CAATTCATATTAAAAGCATTAAAATTTTAAAAATTTCTTAATTTGACAAATTAAATCAATCAATA
TATAATTAATAAATTAATAAATACTAAATTACAATTATAAAATAGTTGATTCTCTAATCAATTAT
TTGATACATTTATATTTGATTAAATATAGTATTCAGTAATTGATGTATTTCATGTGTAAATATAT
AAAGCAAAT
Found at i:9790909 original size:37 final size:37
Alignment explanation
Indices: 9790868--9790960 Score: 177
Period size: 37 Copynumber: 2.5 Consensus size: 37
9790858 GATTTAATTA
9790868 AAATTTAATTTGTTTTATTGTCATTATTAAATATAAT
1 AAATTTAATTTGTTTTATTGTCATTATTAAATATAAT
*
9790905 AAATTTAATTTGTTTTATTGTCCTTATTAAATATAAT
1 AAATTTAATTTGTTTTATTGTCATTATTAAATATAAT
9790942 AAATTTAATTTGTTTTATT
1 AAATTTAATTTGTTTTATT
9790961 ATTCTAAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.56
Consensus pattern (37 bp):
AAATTTAATTTGTTTTATTGTCATTATTAAATATAAT
Found at i:9791533 original size:31 final size:32
Alignment explanation
Indices: 9791461--9791536 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
9791451 GATTTCATTT
* * *
9791461 GATTTCATTAGGTAAAATACTAATGCATGTTTG
1 GATTTCATTTGATAAAATACTAATGCA-GCTTG
*
9791494 G-TTTCATTTGATAAAATATTAATGCA-CTTG
1 GATTTCATTTGATAAAATACTAATGCAGCTTG
9791524 GATTTCATTTGAT
1 GATTTCATTTGAT
9791537 TTCATTTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 4 0.11
31 11 0.29
32 22 0.58
33 1 0.03
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (32 bp):
GATTTCATTTGATAAAATACTAATGCAGCTTG
Done.