Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 113 of 318
Found at i:34558174 original size:28 final size:28
Alignment explanation
Indices: 34558105--34558205 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
34558095 GACAAGATTG
* * * *
34558105 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
34558135 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34558163 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
34558192 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
34558206 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:34558199 original size:29 final size:28
Alignment explanation
Indices: 34558134--34558205 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
34558124 AAAATTGTAC
*
34558134 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
34558162 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
34558191 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
34558206 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:34563458 original size:24 final size:24
Alignment explanation
Indices: 34563426--34563542 Score: 182
Period size: 24 Copynumber: 4.9 Consensus size: 24
34563416 GGGTAGAAAG
*
34563426 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTATGTGTGCGA
34563450 TTTACTATGGCACTATGTGTGCGA
1 TTTACTATGGCACTATGTGTGCGA
*
34563474 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTATGTGTGCGA
34563498 TTTACTATGGCACTATGTGTGCGA
1 TTTACTATGGCACTATGTGTGCGA
* * *
34563522 TCTAATA-AGCACTATGTGTGC
1 TTTACTATGGCACTATGTGTGC
34563543 CACATTCGGT
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
23 13 0.15
24 74 0.85
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.37
Consensus pattern (24 bp):
TTTACTATGGCACTATGTGTGCGA
Found at i:34571214 original size:24 final size:24
Alignment explanation
Indices: 34571182--34571304 Score: 237
Period size: 24 Copynumber: 5.1 Consensus size: 24
34571172 AGGGGTAGAA
34571182 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
34571206 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
34571230 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
34571254 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
*
34571278 GATTTACTATGGCACTATGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
34571302 GAT
1 GAT
34571305 CATAATAAGC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 98 1.00
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.37
Consensus pattern (24 bp):
GATTTACTATGGCACTGTGTGTGC
Found at i:34571317 original size:72 final size:72
Alignment explanation
Indices: 34571182--34571325 Score: 227
Period size: 72 Copynumber: 2.0 Consensus size: 72
34571172 AGGGGTAGAA
* * * * *
34571182 GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTG
1 GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATAGCACTA
34571247 TGTGTGC
66 TGTGTGC
34571254 GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATCATAATA-AGCACT
1 GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGAT-ATAATATAGCACT
34571318 ATGTGTGC
65 ATGTGTGC
34571326 CACATTCGGT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 62 0.94
73 4 0.06
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (72 bp):
GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATAGCACTA
TGTGTGC
Found at i:34575250 original size:46 final size:46
Alignment explanation
Indices: 34575200--34575324 Score: 135
Period size: 46 Copynumber: 2.7 Consensus size: 46
34575190 TCTCGTAGTC
* * * *
34575200 GATGCATATCCCAAACATGTCTTGCACTGGC-TTCCGTCTCGAGGCT
1 GATGCATATCCCAAACATGTCTTACACTAGCACT-CGTCTCAAGGCT
* * * * *
34575246 GATGCATGTCCTAGACATGTGTTACACTAGCACTCGTCTCAATGCT
1 GATGCATATCCCAAACATGTCTTACACTAGCACTCGTCTCAAGGCT
34575292 GATGCCATATCCCAAACATGGTCTTACACTAGC
1 GATG-CATATCCCAAACAT-GTCTTACACTAGC
34575325 TCTCATAATG
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
46 39 0.62
47 12 0.19
48 12 0.19
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATATCCCAAACATGTCTTACACTAGCACTCGTCTCAAGGCT
Found at i:34578362 original size:40 final size:40
Alignment explanation
Indices: 34578256--34578439 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
34578246 TGCTGGAAAT
* * * * * **
34578256 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
34578296 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
34578336 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
34578374 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
34578415 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
34578440 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:34582953 original size:48 final size:48
Alignment explanation
Indices: 34582863--34582981 Score: 118
Period size: 48 Copynumber: 2.5 Consensus size: 48
34582853 AAGAGCATGT
* * *
34582863 CTGGGACATGGCATTGGCAGCG-CTGTGAGATCCCATACAAGACGAT-G
1 CTGGGACATGGCATTGGCATCGACTGT-AGATCCCACACAAGACCATAG
** *
34582910 CATGGGACATGGCATTGGCATCGACATGT-GATCCCACGTAAGACCATAT
1 C-TGGGACATGGCATTGGCATCGAC-TGTAGATCCCACACAAGACCATAG
* *
34582959 CTAGGATATGGCATTGGCATCGA
1 CTGGGACATGGCATTGGCATCGA
34582982 TATGAGACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
47 1 0.02
48 54 0.90
49 2 0.03
50 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (48 bp):
CTGGGACATGGCATTGGCATCGACTGTAGATCCCACACAAGACCATAG
Found at i:34585219 original size:27 final size:27
Alignment explanation
Indices: 34585189--34585250 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
34585179 ATTTACTAAA
34585189 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
*
34585216 ATACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
34585242 ATACCCCTA
1 ATACCCCTA
34585251 GGGTGAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 2 0.06
26 22 0.69
27 8 0.25
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:34585421 original size:28 final size:26
Alignment explanation
Indices: 34585353--34585468 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 26
34585343 ATGGAGGAAG
*
34585353 TGTTCTGGTGGCTCTGCCACAAATATC
1 TGTTCTGGTGGCTCTACCAC-AATATC
* *
34585380 TGATCTGGTGGCTCTACCACAAATATT
1 TGTTCTGGTGGCTCTACCAC-AATATC
* *
34585407 TGTTTCTGGTGGCTCTGCCACAATATT
1 TG-TTCTGGTGGCTCTACCACAATATC
* *
34585434 TGTATCTGGTGACTCTATCACAATATC
1 TGT-TCTGGTGGCTCTACCACAATATC
34585461 TGTTCTGG
1 TGTTCTGG
34585469 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.08
27 56 0.72
28 16 0.21
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (26 bp):
TGTTCTGGTGGCTCTACCACAATATC
Found at i:34585441 original size:55 final size:53
Alignment explanation
Indices: 34585353--34585468 Score: 162
Period size: 55 Copynumber: 2.2 Consensus size: 53
34585343 ATGGAGGAAG
* *
34585353 TGTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTACCACAAATATT
1 TGTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTACCAC-AATATC
* *
34585407 TGTTTCTGGTGGCTCTGCCAC-AATATTTGTATCTGGTGACTCTATCACAATATC
1 TG-TTCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGACTCTACCACAATATC
34585461 TGTTCTGG
1 TGTTCTGG
34585469 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
53 6 0.11
54 16 0.29
55 34 0.61
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (53 bp):
TGTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTACCACAATATC
Found at i:34589526 original size:41 final size:42
Alignment explanation
Indices: 34589465--34589617 Score: 182
Period size: 42 Copynumber: 3.6 Consensus size: 42
34589455 ACTAAGACTA
34589465 CGTGTAAGACCATATCTAGGATATGGCATC-ATATGAGATTT
1 CGTGTAAGACCATATCTAGGATATGGCATCAATATGAGATTT
* *
34589506 CGTGTAAGACCATATTTAGGATATGGCGTCAATATGAGATTT
1 CGTGTAAGACCATATCTAGGATATGGCATCAATATGAGATTT
* * * * * *
34589548 CGTGTAAAACCATAGCTGGGGTATTGGCATCGATATGAGATTA
1 CGTGTAAGACCATATCTAGGATA-TGGCATCAATATGAGATTT
* * * *
34589591 CATGTAAGAACATATTTGGGATATGGC
1 CGTGTAAGACCATATCTAGGATATGGC
34589618 GTTGGTATGG
Statistics
Matches: 94, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
41 28 0.30
42 33 0.35
43 33 0.35
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCATATCTAGGATATGGCATCAATATGAGATTT
Found at i:34589606 original size:85 final size:83
Alignment explanation
Indices: 34589465--34589619 Score: 220
Period size: 85 Copynumber: 1.8 Consensus size: 83
34589455 ACTAAGACTA
* * * * *
34589465 CGTGTAAGACCATATCTAGGATATGGCATCATATGAGATTTCGTGTAAGACCATATTTAGGATAT
1 CGTGTAAAACCATAGCTAGGATATGGCATCATATGAGATTACATGTAAGAACATATTTAGGATAT
34589530 GGCGTCAATATGAGATTT
66 GGCGTCAATATGAGATTT
* * *
34589548 CGTGTAAAACCATAGCTGGGGTATTGGCATCGATATGAGATTACATGTAAGAACATATTTGGGAT
1 CGTGTAAAACCATAGCTAGGATA-TGGCATC-ATATGAGATTACATGTAAGAACATATTTAGGAT
34589613 ATGGCGT
64 ATGGCGT
34589620 TGGTATGGCA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 19 0.31
84 7 0.11
85 36 0.58
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (83 bp):
CGTGTAAAACCATAGCTAGGATATGGCATCATATGAGATTACATGTAAGAACATATTTAGGATAT
GGCGTCAATATGAGATTT
Found at i:34591014 original size:42 final size:42
Alignment explanation
Indices: 34590937--34591020 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
34590927 ATTGACTTGA
34590937 GATTTACGTGTAAGACCATTTCTGCGACATCGGCATCGTATAT
1 GATTTACGTGTAAGACCATTTCTGCGACATCGGCATC-TATAT
*
34590980 GATTT-CGTGTAAGACC-TTGTCTGGGACAGT-GGCATCTATAT
1 GATTTACGTGTAAGACCATT-TCTGCGACA-TCGGCATCTATAT
34591021 TTGACTACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
41 7 0.18
42 25 0.66
43 6 0.16
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (42 bp):
GATTTACGTGTAAGACCATTTCTGCGACATCGGCATCTATAT
Found at i:34601544 original size:42 final size:43
Alignment explanation
Indices: 34601467--34601569 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 43
34601457 ATTGACTTGA
* *
34601467 GATTTACGTATAAGACCATTTCTGGGACATCGGCATC-GTATAT
1 GATTT-CGTGTAAGACCATTTCTGGGACATCGGCATCAATATAT
* *
34601510 GATTTCGTGTAAGACC-TTGTCTGGGATAGT-GGCATCAATATTT
1 GATTTCGTGTAAGACCATT-TCTGGGACA-TCGGCATCAATATAT
* *
34601553 GATTACATGTAAGACCA
1 GATTTCGTGTAAGACCA
34601570 CGTCTAAGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.04
42 24 0.48
43 24 0.48
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATTTCTGGGACATCGGCATCAATATAT
Found at i:34603228 original size:15 final size:16
Alignment explanation
Indices: 34603202--34603232 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
34603192 ACAAACCTTC
34603202 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
34603218 AGTAA-GTTATGATTG
1 AGTAAGGTTATGATTG
34603233 TAAGATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:34604726 original size:21 final size:20
Alignment explanation
Indices: 34604702--34604740 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34604692 GTGTAAATGT
34604702 AGTAACATAATTGTTATTTTA
1 AGTAACATAA-TGTTATTTTA
**
34604723 AGTAATTTAATGTTATTT
1 AGTAACATAATGTTATTT
34604741 ATATGATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (20 bp):
AGTAACATAATGTTATTTTA
Found at i:34609953 original size:31 final size:31
Alignment explanation
Indices: 34609917--34609980 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
34609907 CTGAAAAATG
*
34609917 TTAGCAAAGTTTCAAGATATTAAAAGCATTA
1 TTAGCAAAGTTTCAAGAAATTAAAAGCATTA
34609948 TTAGCAAAGTTTCAAGAAATTAAAAGCATTA
1 TTAGCAAAGTTTCAAGAAATTAAAAGCATTA
34609979 TT
1 TT
34609981 GACTGAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (31 bp):
TTAGCAAAGTTTCAAGAAATTAAAAGCATTA
Found at i:34613173 original size:41 final size:42
Alignment explanation
Indices: 34613116--34613265 Score: 169
Period size: 43 Copynumber: 3.6 Consensus size: 42
34613106 TAAGACTACA
* * *
34613116 TGTAAGGCCATATCTGGGATATGGCATC-GTATGTGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTCG
*
34613157 TGTAAGACCATATCTGGGATATGGCGTCAATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTCG
* ** * *
34613199 TGTAAGACTATGGCTAGGGA-ATTGGCATCAATATGAGATTACA
1 TGTAAGACCATATCT-GGGATA-TGGCATCAATATGAGATTTCG
* *
34613242 TGTAAGACCATAACTGAGATATGG
1 TGTAAGACCATATCTGGGATATGG
34613266 GGTTGGTATG
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
41 26 0.29
42 30 0.33
43 35 0.38
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTCG
Found at i:34633722 original size:27 final size:26
Alignment explanation
Indices: 34633682--34633793 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
34633672 AGGAAGCGTC
*
34633682 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
34633709 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
34633736 CTGGTGGCTCTGCCCCAATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
34633764 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
34633790 CTGG
1 CTGG
34633794 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:34633786 original size:54 final size:54
Alignment explanation
Indices: 34633682--34633793 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
34633672 AGGAAGCGTC
*
34633682 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
34633736 CTGGTGGCTCTGCCCCAATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
34633790 CTGG
1 CTGG
34633794 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:34637771 original size:50 final size:50
Alignment explanation
Indices: 34637709--34637941 Score: 218
Period size: 50 Copynumber: 4.7 Consensus size: 50
34637699 CATGCTGAAC
**
34637709 TACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAG
1 TACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAG
* * * ** * * * * *
34637759 TACTAACTGCAGGCTGCTATGCATACCCGACAACTTCA-ATCACGTGTGTAG
1 TACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGTCACATGTGTAG
* * * * *
34637810 TACTAAGTGCACGCTACTACGTGTATCAGATGGTTAGGTTACATGTTTAG
1 TACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAG
* * * * *
34637860 TACTAAGTGCAGCCTTCTAGGTGTACCAGATTGTT-GGTCGCATGTGTAG
1 TACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAG
* *
34637909 TACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 TACTAAGTGCAGGCTACTACGTGTACCAGATAG
34637942 CTTGGGTTAC
Statistics
Matches: 139, Mismatches: 41, Indels: 7
0.74 0.22 0.04
Matches are distributed among these distances:
49 40 0.29
50 64 0.46
51 34 0.24
52 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (50 bp):
TACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAG
Found at i:34643465 original size:29 final size:29
Alignment explanation
Indices: 34643423--34643506 Score: 159
Period size: 29 Copynumber: 2.9 Consensus size: 29
34643413 TATTTTTGTT
*
34643423 TCTCAACTATTTGACTTCCTGAGTCAAAA
1 TCTCAACTGTTTGACTTCCTGAGTCAAAA
34643452 TCTCAACTGTTTGACTTCCTGAGTCAAAA
1 TCTCAACTGTTTGACTTCCTGAGTCAAAA
34643481 TCTCAACTGTTTGACTTCCTGAGTCA
1 TCTCAACTGTTTGACTTCCTGAGTCA
34643507 TATCTAGTCT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (29 bp):
TCTCAACTGTTTGACTTCCTGAGTCAAAA
Found at i:34648841 original size:49 final size:49
Alignment explanation
Indices: 34648785--34649154 Score: 590
Period size: 49 Copynumber: 7.7 Consensus size: 49
34648775 AGATTTACGC
* * *
34648785 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
34648834 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
*
34648883 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
*
34648932 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
34648981 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
*
34649030 GATGAATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
34649077 GATGAATGTGAAAGTGTAT--ATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
*
34649124 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATACATATGTGATAAG
34649155 TCCCGAAGGG
Statistics
Matches: 308, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 97 0.31
48 1 0.00
49 210 0.68
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
Found at i:34651261 original size:40 final size:40
Alignment explanation
Indices: 34651206--34651437 Score: 410
Period size: 40 Copynumber: 5.8 Consensus size: 40
34651196 GAGAATTGAG
34651206 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
34651246 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
34651286 AGTGATGTATTCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
34651326 AGTGATCTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
34651366 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
34651406 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
34651438 ATCATGCTGG
Statistics
Matches: 185, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 185 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:34655277 original size:47 final size:47
Alignment explanation
Indices: 34655090--34655407 Score: 492
Period size: 47 Copynumber: 6.7 Consensus size: 47
34655080 AAGATTACGC
* *
34655090 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCGATGT
34655139 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
*
34655188 GATGAATGTGAAAGCGTATAATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTAT-ATATGTGATAAGGCCTAATGGCCGATGT
34655236 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
34655283 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
34655330 GATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
34655377 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAAGTGTATATATGTGATAAG
34655408 TCCCGAAGGG
Statistics
Matches: 254, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
47 148 0.58
48 46 0.18
49 57 0.22
51 3 0.01
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:34657925 original size:29 final size:29
Alignment explanation
Indices: 34657891--34657955 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
34657881 CTCGCACACC
*
34657891 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
34657920 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
34657949 AGTGCCA
1 AGTGCCA
34657956 ATCTCGTCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:34665879 original size:29 final size:29
Alignment explanation
Indices: 34665847--34665919 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
34665837 CTTCGAGCTC
*
34665847 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
34665876 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
34665905 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
34665920 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:34674617 original size:24 final size:24
Alignment explanation
Indices: 34674585--34674707 Score: 237
Period size: 24 Copynumber: 5.1 Consensus size: 24
34674575 AGGGGTAGAA
34674585 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
34674609 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
34674633 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
34674657 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
*
34674681 GATTTACTATGGCACTATGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
34674705 GAT
1 GAT
34674708 CATAATAAGC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 98 1.00
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.37
Consensus pattern (24 bp):
GATTTACTATGGCACTGTGTGTGC
Found at i:34674720 original size:72 final size:72
Alignment explanation
Indices: 34674585--34674728 Score: 227
Period size: 72 Copynumber: 2.0 Consensus size: 72
34674575 AGGGGTAGAA
* * * * *
34674585 GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTG
1 GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATAGCACTA
34674650 TGTGTGC
66 TGTGTGC
34674657 GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATCATAATA-AGCACT
1 GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGAT-ATAATATAGCACT
34674721 ATGTGTGC
65 ATGTGTGC
34674729 CACATTCGGT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 62 0.94
73 4 0.06
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (72 bp):
GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATAGCACTA
TGTGTGC
Found at i:34678300 original size:53 final size:54
Alignment explanation
Indices: 34678232--34678747 Score: 445
Period size: 53 Copynumber: 9.9 Consensus size: 54
34678222 TTTCCTTTTT
* * **
34678232 GAACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTAT-
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* *
34678285 GAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* * *
34678339 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-
1 G-AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
34678393 GAGCTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-A
* * * * * *
34678448 TAACTCATCAATGCCATGTCTTGACATGGTCTT-CATGATTTCCTTGCCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
34678501 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACAT-G-AT--AT-CCTTAT-
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
** * *
34678549 ---CTTACCAAATGCCATGTTCC-AAACATGGTCTTACATGGTATCATTGTCTTATA
1 GAACTTACC-AATGCCATG--CCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
34678602 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACAT-G-AT--AT-CCTTAT-
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
** *
34678650 ---CTTACCAAATGCCATGTTCC-AAACATGGTCTTACATGGTATCC-TGTCTTATA
1 GAACTTACC-AATGCCATG--CCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
34678702 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
34678748 ATCTTACCAA
Statistics
Matches: 374, Mismatches: 53, Indels: 71
0.75 0.11 0.14
Matches are distributed among these distances:
45 10 0.03
46 18 0.05
47 26 0.07
48 6 0.02
49 15 0.04
50 3 0.01
51 6 0.02
52 14 0.04
53 140 0.37
54 41 0.11
55 88 0.24
56 7 0.02
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:34678715 original size:201 final size:206
Alignment explanation
Indices: 34678255--34678800 Score: 680
Period size: 201 Copynumber: 2.6 Consensus size: 206
34678245 CCATGTCTTG
** *
34678255 ACATGGTCTTATGTGGTATCCTTGCCTTAT-GAACTTACCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
* * * ***
34678319 CATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATG-TCTTGACATGGTCTTACATGGTATC
66 CAT--GA--TAT-CCTTAT-CTTAC-CA--AATGCCATGTTCCAAACATGGTCTTACATGGTATC
* * *
34678383 CTTGCCTTATGAGCTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAA
122 CTTGTCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACAT-GGA-CTATGCCTTATAA
***
34678448 TAACTCATCAATGCCATGTCTTG
185 TAACTCA-CAATGCCATGTCCAA
* *
34678471 ACATGGTCTT-CATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
*
34678535 CATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCATTGTCTTA
66 CATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTA
* * * *
34678600 TAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACAT-GA-TAT-CCTTAT-CTTAC-CA-AA
131 T-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGACTATGCCTTATAATAACTCACAA
34678659 TGCCATGTTCCAA
195 TGCCATG-TCCAA
*
34678672 ACATGGTCTTACATGGTATCC-TGTCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
*
34678736 CATGATATCCTTATCTTACCAAATGCCATATTCCAAACATGGTCTTACATGGTATCCTTGTCTTA
66 CATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTA
34678801 ATGCCAATGC
Statistics
Matches: 298, Mismatches: 27, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
200 9 0.03
201 117 0.39
202 10 0.03
203 3 0.01
204 6 0.02
205 2 0.01
207 11 0.04
208 30 0.10
209 36 0.12
210 3 0.01
211 6 0.02
212 2 0.01
214 2 0.01
215 15 0.05
216 46 0.15
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (206 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
CATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTA
TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGACTATGCCTTATAATAACTCACAAT
GCCATGTCCAA
Found at i:34678770 original size:100 final size:100
Alignment explanation
Indices: 34678255--34678800 Score: 641
Period size: 108 Copynumber: 5.3 Consensus size: 100
34678245 CCATGTCTTG
** *
34678255 ACATGGTCTTATGTGGTATCCTTGCCTTAT-GAACTTACCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
* * * * ***
34678319 CATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTG
66 CAT--GA--TAT-CCTTAT-CTTAC-CA--AATGCCATTTCCAA
* * *
34678363 ACATGGTCTTACATGGTATCCTTGCCTTAT-GAGCTCACCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
* * * * ***
34678427 CATGGGACCTTTGCCTTATAATAACTCATCAATGCCATGTCTTG
66 CAT--GA--TAT-CCTTAT-CTTAC-CA--AATGCCATTTCCAA
* *
34678471 ACATGGTCTT-CATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
34678535 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
66 CATGATATCCTTATCTTACCAAATGCCAT-TTCCAA
* *
34678571 ACATGGTCTTACATGGTATCATTGTCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
34678636 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
66 CATGATATCCTTATCTTACCAAATGCCAT-TTCCAA
*
34678672 ACATGGTCTTACATGGTATCC-TGTCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
34678736 CATGATATCCTTATCTTACCAAATGCCATATTCCAA
66 CATGATATCCTTATCTTACCAAATGCCAT-TTCCAA
*
34678772 ACATGGTCTTACATGGTATCCTTGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTA
34678801 ATGCCAATGC
Statistics
Matches: 411, Mismatches: 23, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
99 8 0.02
100 111 0.27
101 115 0.28
102 3 0.01
103 6 0.01
104 2 0.00
106 2 0.00
107 17 0.04
108 147 0.36
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (100 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
CATGATATCCTTATCTTACCAAATGCCATTTCCAA
Found at i:34679005 original size:44 final size:44
Alignment explanation
Indices: 34678938--34679022 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
34678928 ATCCTTAACC
* *
34678938 GTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTTT
1 GTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTTT
* * * *
34678982 GTCAATTCTTTCTTAATTTCCATGGTACAACCATGGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
34679023 GACATATCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTTT
Found at i:34681178 original size:38 final size:39
Alignment explanation
Indices: 34681127--34681206 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 39
34681117 CCAATTGAGC
*
34681127 TTTGAACCATTAAAACCCTAATTCTCCTTTTT-TTTCTT
1 TTTGAACCATTAAAACCCTAATTCTCCTTTTTCTTTCCT
34681165 TTTGAACCATTAAAACCCTAATTCTCCTTTTTCTTTCCT
1 TTTGAACCATTAAAACCCTAATTCTCCTTTTTCTTTCCT
34681204 TTT
1 TTT
34681207 CTTTCTCCCT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
38 32 0.80
39 8 0.20
ACGTcount: A:0.23, C:0.25, G:0.03, T:0.50
Consensus pattern (39 bp):
TTTGAACCATTAAAACCCTAATTCTCCTTTTTCTTTCCT
Found at i:34681259 original size:20 final size:21
Alignment explanation
Indices: 34681234--34681275 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
34681224 CGTTTCTATG
34681234 TTTTGTTTCATTT-TTTATTA
1 TTTTGTTTCATTTATTTATTA
*
34681254 TTTTGTTTTATTTATTTATTA
1 TTTTGTTTCATTTATTTATTA
34681275 T
1 T
34681276 AATAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTTGTTTCATTTATTTATTA
Found at i:34681350 original size:43 final size:44
Alignment explanation
Indices: 34681269--34681355 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 44
34681259 TTTTATTTAT
*
34681269 TTATTATAATAAAATATAATATATTTAATTAACTTTTAAGTTTTC
1 TTATTATAAT-AAATATAATATATTTAATTAACTTTTAAATTTTC
* **
34681314 TTATTATAAT-ATTATAATATATATTTTTTAAC-TTTAAATTTT
1 TTATTATAATAAATATAATATAT-TTAATTAACTTTTAAATTTT
34681356 TAAATAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 20 0.54
44 7 0.19
45 10 0.27
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.55
Consensus pattern (44 bp):
TTATTATAATAAATATAATATATTTAATTAACTTTTAAATTTTC
Found at i:34686024 original size:20 final size:20
Alignment explanation
Indices: 34685999--34686043 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34685989 AGGGGCTAAA
* *
34685999 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTATAAAATTTG
*
34686019 ATGAAAAATTATAAAATTTT
1 ATGAAAAATTATAAAATTTG
34686039 ATGAA
1 ATGAA
34686044 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:34691979 original size:3 final size:3
Alignment explanation
Indices: 34691971--34691995 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
34691961 TAGTTCAACA
34691971 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
34691996 TCACCTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34697958 original size:19 final size:19
Alignment explanation
Indices: 34697924--34697962 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
34697914 TATTTCGTAC
*
34697924 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
34697944 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
34697962 T
1 T
34697963 CTTTTGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:34708169 original size:24 final size:24
Alignment explanation
Indices: 34708137--34708281 Score: 263
Period size: 24 Copynumber: 6.0 Consensus size: 24
34708127 GGGTAGAAAG
34708137 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
*
34708161 TTTATTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
34708185 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
34708209 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
*
34708233 TTTACTATGGCACTGTGTGCGCGA
1 TTTACTATGGCACTGTGTGTGCGA
*
34708257 TTTACTATGGCACTATGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
34708281 T
1 T
34708282 CATAATAAGC
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 116 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (24 bp):
TTTACTATGGCACTGTGTGTGCGA
Found at i:34708294 original size:72 final size:72
Alignment explanation
Indices: 34708146--34708302 Score: 235
Period size: 72 Copynumber: 2.2 Consensus size: 72
34708136 GTTTACTATG
* * * *
34708146 GCACTGTGTGTGCGATTTATTATGGCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATT
1 GCACTGTGTGTGCGATTTACTATGGCACTGTGTGCGCGATTTACTATGGCACTATGTGTGCGATA
* *
34708211 TACTATG
66 TAATATA
34708218 GCACTGTGTGTGCGATTTACTATGGCACTGTGTGCGCGATTTACTATGGCACTATGTGTGCGATC
1 GCACTGTGTGTGCGATTTACTATGGCACTGTGTGCGCGATTTACTATGGCACTATGTGTGCGAT-
34708283 ATAATA-A
65 ATAATATA
*
34708290 GCACTATGTGTGC
1 GCACTGTGTGTGC
34708303 CACATTCGGT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
72 73 0.95
73 4 0.05
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (72 bp):
GCACTGTGTGTGCGATTTACTATGGCACTGTGTGCGCGATTTACTATGGCACTATGTGTGCGATA
TAATATA
Found at i:34716059 original size:24 final size:24
Alignment explanation
Indices: 34715982--34716124 Score: 263
Period size: 24 Copynumber: 6.0 Consensus size: 24
34715972 GGGTAGAAAG
34715982 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
34716006 TTTA-TATGGCACTGTGTGTGC-A
1 TTTACTATGGCACTGTGTGTGCGA
34716028 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
34716052 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
34716076 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
*
34716100 TTTACTATGGCACTATGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
34716124 T
1 T
34716125 CATAATAAGC
Statistics
Matches: 116, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
22 5 0.04
23 34 0.29
24 77 0.66
ACGTcount: A:0.17, C:0.16, G:0.28, T:0.38
Consensus pattern (24 bp):
TTTACTATGGCACTGTGTGTGCGA
Found at i:34716137 original size:72 final size:70
Alignment explanation
Indices: 34715991--34716145 Score: 231
Period size: 72 Copynumber: 2.2 Consensus size: 70
34715981 GTTTACTATG
* *
34715991 GCACTGTGTGTGCGATTTATATGGCACTGTGTGTGCATTTACTATGGCACTGTGTGTGCGATTTA
1 GCACTGTGTGTGCGATTTATATGGCACTGTGTGTGCATTTACTATGGCACTATGTGTGCGATATA
* *
34716056 CTATG
66 ATATA
34716061 GCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATC
1 GCACTGTGTGTGCGATTTA-TATGGCACTGTGTGTGC-ATTTACTATGGCACTATGTGTGCGAT-
34716126 ATAATA-A
63 ATAATATA
*
34716133 GCACTATGTGTGC
1 GCACTGTGTGTGC
34716146 CACATTCGGT
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
70 19 0.25
71 17 0.22
72 37 0.48
73 4 0.05
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (70 bp):
GCACTGTGTGTGCGATTTATATGGCACTGTGTGTGCATTTACTATGGCACTATGTGTGCGATATA
ATATA
Found at i:34720858 original size:27 final size:27
Alignment explanation
Indices: 34720825--34720919 Score: 129
Period size: 27 Copynumber: 3.5 Consensus size: 27
34720815 CCTTAGGGGC
34720825 ATTTCGGTAATTTTACAAGTCGAGGGT
1 ATTTCGGTAATTTTACAAGTCGAGGGT
* *
34720852 ATTTCGGTAATTGTACAGGTCGAGGGT
1 ATTTCGGTAATTTTACAAGTCGAGGGT
* * *
34720879 ATTTCGGTAATTTCACAAAT-TAGGGGT
1 ATTTCGGTAATTTTACAAGTCGA-GGGT
34720906 ATTTCGGTAATTTT
1 ATTTCGGTAATTTT
34720920 CTTTTATTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
26 1 0.02
27 58 0.98
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (27 bp):
ATTTCGGTAATTTTACAAGTCGAGGGT
Found at i:34724164 original size:21 final size:21
Alignment explanation
Indices: 34724139--34724181 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
34724129 CCATTAGTTT
34724139 ATAATTATAATTAA-TAAGTAA
1 ATAATTA-AATTAATTAAGTAA
*
34724160 ATAATTAACTTAATTAAGTAA
1 ATAATTAAATTAATTAAGTAA
34724181 A
1 A
34724182 ACATGATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (21 bp):
ATAATTAAATTAATTAAGTAA
Found at i:34727632 original size:32 final size:32
Alignment explanation
Indices: 34727586--34727650 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
34727576 TTGTGTTTAA
34727586 GTTAACTTGGATGTTCATGATCTTGGTCTAAT
1 GTTAACTTGGATGTTCATGATCTTGGTCTAAT
* *
34727618 GTTATCTTGGATGTTCATGTTCTTGGTCTAAT
1 GTTAACTTGGATGTTCATGATCTTGGTCTAAT
34727650 G
1 G
34727651 ATGTTGATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.18, C:0.12, G:0.23, T:0.46
Consensus pattern (32 bp):
GTTAACTTGGATGTTCATGATCTTGGTCTAAT
Found at i:34727663 original size:32 final size:31
Alignment explanation
Indices: 34727591--34727676 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 31
34727581 TTTAAGTTAA
34727591 CTTGGATGTTCATGATCTTGGTCTAATGTTAT
1 CTTGGATGTTCATGATCTTGGTCTAATG-TAT
*
34727623 CTTGGATGTTCATGTTCTTGGTCTAATG-AT
1 CTTGGATGTTCATGATCTTGGTCTAATGTAT
*
34727653 GTTGATGATGTTCGATGAT-TTGGT
1 CTTG--GATGTTC-ATGATCTTGGT
34727677 ATTATTAAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 5 0.10
32 39 0.81
33 4 0.08
ACGTcount: A:0.17, C:0.10, G:0.26, T:0.47
Consensus pattern (31 bp):
CTTGGATGTTCATGATCTTGGTCTAATGTAT
Found at i:34728468 original size:33 final size:34
Alignment explanation
Indices: 34728424--34728492 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
34728414 AGTAACAGTC
*
34728424 CAGTATTAGTGTGGG-CTTAGCCCATTACAATAA
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAATAA
*
34728457 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAATAA
34728491 CA
1 CA
34728493 ATAACAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
33 14 0.42
34 19 0.58
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCTTAGCCCATTACAATAA
Found at i:34734745 original size:56 final size:56
Alignment explanation
Indices: 34734659--34734775 Score: 198
Period size: 56 Copynumber: 2.1 Consensus size: 56
34734649 TCTTAGTACG
*
34734659 GAAGTATGATATATGTGAGCCCTTGTGGCTAATTCTGTCAAATGCGCCTTTGTGGT
1 GAAGTATGATATATGTGAGCCCTTGTGGCTAATTCTGTCAAATGCACCTTTGTGGT
* * *
34734715 GAAGTATGTTATATGTGAGCCCTTGTGGCTAATTTTGTTAAATGCACCTTTGTGGT
1 GAAGTATGATATATGTGAGCCCTTGTGGCTAATTCTGTCAAATGCACCTTTGTGGT
34734771 GAAGT
1 GAAGT
34734776 CTGTCATGTG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.38
Consensus pattern (56 bp):
GAAGTATGATATATGTGAGCCCTTGTGGCTAATTCTGTCAAATGCACCTTTGTGGT
Found at i:34734753 original size:29 final size:29
Alignment explanation
Indices: 34734663--34734754 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
34734653 AGTACGGAAG
*
34734663 TATGATATATGTGAGCCCTTGTGGCTAAT
1 TATGTTATATGTGAGCCCTTGTGGCTAAT
* * * * * *
34734692 TCTGTCA-A-ATGCGCCTTTGTGG-TGAAG
1 TATGTTATATGTGAGCCCTTGTGGCT-AAT
34734719 TATGTTATATGTGAGCCCTTGTGGCTAAT
1 TATGTTATATGTGAGCCCTTGTGGCTAAT
*
34734748 TTTGTTA
1 TATGTTA
34734755 AATGCACCTT
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
26 1 0.02
27 18 0.40
28 2 0.04
29 23 0.51
30 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.25, T:0.40
Consensus pattern (29 bp):
TATGTTATATGTGAGCCCTTGTGGCTAAT
Found at i:34739506 original size:2 final size:2
Alignment explanation
Indices: 34739499--34739523 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34739489 CAATGGTATT
34739499 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
34739524 TAATGGTTAT
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:34743787 original size:40 final size:40
Alignment explanation
Indices: 34743743--34743933 Score: 287
Period size: 40 Copynumber: 4.8 Consensus size: 40
34743733 GGATATAGCT
* * *
34743743 ACTCGCTCAAATGCCTTCGGGACATAGCAC-GATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * *
34743783 ACTCGCACCAATGCCTTTGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
34743823 ACTCGCACAAATGCCTTCGGGACTTAG-CCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
34743862 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
34743902 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
34743934 TTATCATCCG
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 37 0.27
40 96 0.70
41 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:34743886 original size:79 final size:79
Alignment explanation
Indices: 34743743--34743930 Score: 306
Period size: 79 Copynumber: 2.4 Consensus size: 79
34743733 GGATATAGCT
* * * * *
34743743 ACTCGCTCAAATGCCTTCGGGACATAGCACGATTATAGTAACTCGCACCAATGCCTTTGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGC-CGAATATAGTAACTCGCACAAATGCCTTCGGGACTT
34743808 AGCCCGGATTTGGTA
65 AGCCCGGATTTGGTA
34743823 ACTCGCACAAATGCCTTCGGGACTTAGCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCC-GAATATAGTAACTCGCACAAATGCCTTCGGGACTT
34743887 AGCCCGGATTTGGTA
65 AGCCCGGATTTGGTA
34743902 ACTCGCACAAATGCCTTCGGGACTTAGCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCC
34743931 CGGTTATCAT
Statistics
Matches: 102, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
79 73 0.72
80 29 0.28
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTA
GCCCGGATTTGGTA
Found at i:34751808 original size:40 final size:39
Alignment explanation
Indices: 34751764--34751956 Score: 289
Period size: 40 Copynumber: 4.9 Consensus size: 39
34751754 GGATATAGCT
* *
34751764 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT-TAGTA
* *
34751804 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
**
34751844 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTAGTA
34751883 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTT-GTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG--TTTAGTA
34751923 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
34751957 ATCATCCGAA
Statistics
Matches: 140, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
38 2 0.01
39 36 0.26
40 98 0.70
41 4 0.03
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTAGTA
Found at i:34751899 original size:79 final size:80
Alignment explanation
Indices: 34751764--34751953 Score: 312
Period size: 79 Copynumber: 2.4 Consensus size: 80
34751754 GGATATAGCT
* * ** *
34751764 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACCAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTT
34751829 AGCCCGG-ATTTGGTA
66 AGCCCGGAATTT-GTA
34751844 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTT
34751908 AGCCCGGAATTTGTA
66 AGCCCGGAATTTGTA
34751923 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
34751954 GTTATCATCC
Statistics
Matches: 104, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
79 70 0.67
80 34 0.33
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGAATTTGTA
Found at i:34757338 original size:79 final size:81
Alignment explanation
Indices: 34757237--34757421 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
34757227 ACGACTCGCT
** * *
34757237 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
34757300 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
34757317 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
34757381 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
34757397 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34757422 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:34757421 original size:40 final size:39
Alignment explanation
Indices: 34757230--34757421 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
34757220 GGATATAACG
* ** * *
34757230 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
34757270 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
34757310 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
34757349 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
34757389 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
34757422 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:34766985 original size:46 final size:46
Alignment explanation
Indices: 34766932--34767098 Score: 164
Period size: 47 Copynumber: 3.6 Consensus size: 46
34766922 GATTTGTGCA
34766932 CTAGTGTAAGA-CATGTCTGGGACATGCTTCGGCCACATTATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGCTTCGGCCA-ATTATGAGAG
* * *
34766978 CTAGTGTAAGACCATGTCTGGGACATGGCATCGG-TATTTA-GACGAGGG
1 CTAGTGTAAGACCATGTCTGGGACAT-GCTTCGGCCAATTATGA-GA--G
* * * *
34767026 CTAGTGTAAGA-TATGTCTGGGACATGCATT-AGCCATACTATGATAG
1 CTAGTGTAAGACCATGTCTGGGACATGC-TTCGGCCA-ATTATGAGAG
*
34767072 CCAGTGTAAGACCATGTCTGGGACATG
1 CTAGTGTAAGACCATGTCTGGGACATG
34767099 GCATCGGCAC
Statistics
Matches: 99, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
45 2 0.02
46 30 0.30
47 44 0.44
48 21 0.21
49 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (46 bp):
CTAGTGTAAGACCATGTCTGGGACATGCTTCGGCCAATTATGAGAG
Found at i:34767093 original size:94 final size:94
Alignment explanation
Indices: 34766932--34767105 Score: 278
Period size: 94 Copynumber: 1.9 Consensus size: 94
34766922 GATTTGTGCA
* * *
34766932 CTAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCTAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCTTCAGCCACACTATGAGAGCCAGTGTAAGACCATGTCT
34766997 GGGACATGGCATCGGTATTTAGACGAGGG
66 GGGACATGGCATCGGTATTTAGACGAGGG
* * *
34767026 CTAGTGTAAGATATGTCTGGGACATGCATT-AGCCATACTATGATAGCCAGTGTAAGACCATGTC
1 CTAGTGTAAGACATGTCTGGGACATGC-TTCAGCCACACTATGAGAGCCAGTGTAAGACCATGTC
34767090 TGGGACATGGCATCGG
65 TGGGACATGGCATCGG
34767106 CACAGAGATG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
94 71 0.97
95 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (94 bp):
CTAGTGTAAGACATGTCTGGGACATGCTTCAGCCACACTATGAGAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGGTATTTAGACGAGGG
Found at i:34767326 original size:3 final size:3
Alignment explanation
Indices: 34767318--34767385 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
34767308 TATTCCAATT
34767318 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34767366 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
34767386 TCTTTTCTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:34768215 original size:6 final size:6
Alignment explanation
Indices: 34768204--34768234 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
34768194 ACAAATTTGA
*
34768204 AACAGT AACAGT AACAGT AACGGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
34768235 TTCGACACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:34768274 original size:12 final size:12
Alignment explanation
Indices: 34768257--34768281 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34768247 AGTGTCGAAT
34768257 CGGTAACAGTAA
1 CGGTAACAGTAA
34768269 CGGTAACAGTAA
1 CGGTAACAGTAA
34768281 C
1 C
34768282 AGTAGTCGGC
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:34769368 original size:5 final size:5
Alignment explanation
Indices: 34769358--34769387 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
34769348 TTTCTTTTAT
34769358 ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA
34769388 CTTAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:34775248 original size:2 final size:2
Alignment explanation
Indices: 34775241--34775267 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34775231 ATCATTCGAT
34775241 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
34775268 CATTCTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34775551 original size:12 final size:12
Alignment explanation
Indices: 34775534--34775558 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34775524 AGTGTCGAAT
34775534 CGGTAACAGTAA
1 CGGTAACAGTAA
34775546 CGGTAACAGTAA
1 CGGTAACAGTAA
34775558 C
1 C
34775559 AGTAGTCGGC
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:34776639 original size:5 final size:5
Alignment explanation
Indices: 34776629--34776685 Score: 96
Period size: 5 Copynumber: 11.0 Consensus size: 5
34776619 TTTCTTTTAT
34776629 ATATA ATATA ATATA ATATA ATATA ATATA ATATAA TATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATAT-A -ATATA ATATA ATATA
34776681 ATATA
1 ATATA
34776686 CTTAATTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
5 44 0.88
6 2 0.04
7 4 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:34776714 original size:17 final size:18
Alignment explanation
Indices: 34776626--34776685 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 18
34776616 TTGTTTCTTT
34776626 TATATATAATATAATATAA
1 TATATATAATA-AATATAA
34776645 TATAATATAATATAATAT-A
1 TAT-ATATAATA-AATATAA
34776664 -ATATATAATATAATATAA
1 TATATATAATA-AATATAA
34776682 TATA
1 TATA
34776686 CTTAATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 14 0.37
18 3 0.08
19 7 0.18
20 14 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATATATAATAAATATAA
Found at i:34779022 original size:10 final size:11
Alignment explanation
Indices: 34779002--34779030 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
34778992 GTTCTAATTT
34779002 TTATATTTGGG
1 TTATATTTGGG
34779013 TTAT-TTTGGG
1 TTATATTTGGG
34779023 TTATATTT
1 TTATATTT
34779031 TTGTAATACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.17, C:0.00, G:0.21, T:0.62
Consensus pattern (11 bp):
TTATATTTGGG
Found at i:34779806 original size:2 final size:2
Alignment explanation
Indices: 34779793--34779846 Score: 54
Period size: 2 Copynumber: 27.0 Consensus size: 2
34779783 TGTATGGTGG
* * * * *
34779793 GT GT GT GG GT GT GT GG GT GT GT GG GT GT GG GG GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
*
34779835 GT GT GT GA GT GT
1 GT GT GT GT GT GT
34779847 AGTTGATGTA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.02, C:0.00, G:0.59, T:0.39
Consensus pattern (2 bp):
GT
Found at i:34779846 original size:8 final size:8
Alignment explanation
Indices: 34779789--34779839 Score: 84
Period size: 8 Copynumber: 6.4 Consensus size: 8
34779779 GGCATGTATG
34779789 GTGGGTGT
1 GTGGGTGT
34779797 GTGGGTGT
1 GTGGGTGT
34779805 GTGGGTGT
1 GTGGGTGT
34779813 GTGGGTGT
1 GTGGGTGT
*
34779821 GGGGGTGT
1 GTGGGTGT
*
34779829 GTGTGTGT
1 GTGGGTGT
34779837 GTG
1 GTG
34779840 TGAGTGTAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (8 bp):
GTGGGTGT
Found at i:34795398 original size:41 final size:41
Alignment explanation
Indices: 34795352--34795434 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
34795342 TAAGAAAACT
34795352 AACACCAAAACTTTTAGCCTCTCAACCTGACAATTCGATTC
1 AACACCAAAACTTTTAGCCTCTCAACCTGACAATTCGATTC
*
34795393 AACACCAAAATTTTTAGCCTCTCAACCTGACAATTCGATTC
1 AACACCAAAACTTTTAGCCTCTCAACCTGACAATTCGATTC
34795434 A
1 A
34795435 CCCTGATATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (41 bp):
AACACCAAAACTTTTAGCCTCTCAACCTGACAATTCGATTC
Found at i:34803077 original size:48 final size:48
Alignment explanation
Indices: 34803006--34803230 Score: 344
Period size: 48 Copynumber: 4.7 Consensus size: 48
34802996 ATGTCATGTT
* * **
34803006 CGATGCCATGTCTCAGACATGGTCTTACACTAAAGCACATATCAACGC
1 CGATGCCATGTCCCAGACTTGGTCTTACACTAGTGCACATATCAACGC
*
34803054 CGATGCCATGTCCCAGACTTGGTCTTACACTAGTGCACATATCAACAC
1 CGATGCCATGTCCCAGACTTGGTCTTACACTAGTGCACATATCAACGC
*
34803102 CGATGCCATGTCCCAGACTTGGTCTTACACTAGTGCACATTTCAACGC
1 CGATGCCATGTCCCAGACTTGGTCTTACACTAGTGCACATATCAACGC
* * *
34803150 CGATGCCATATCCCAGACATGGTCTTACACTAGCGCACATATCAACGC
1 CGATGCCATGTCCCAGACTTGGTCTTACACTAGTGCACATATCAACGC
*
34803198 CGATGTCATGTCCCAGACATT-GTCTTACACTAG
1 CGATGCCATGTCCCAGAC-TTGGTCTTACACTAG
34803231 CTCTCATGAT
Statistics
Matches: 162, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
48 161 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACTTGGTCTTACACTAGTGCACATATCAACGC
Found at i:34803288 original size:96 final size:95
Alignment explanation
Indices: 34803006--34803289 Score: 317
Period size: 96 Copynumber: 3.0 Consensus size: 95
34802996 ATGTCATGTT
* * **
34803006 CGATGCCATGTCTCAGACATGGTCTTACACTAAAGCACATATCAACGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACTTGGTCTTACACTAGTGCACATATCAACGCCGATGCCATGTCCCAGA
*
34803071 CTTGGTCTTACACTAGTGCAC-ATATCAACAC
66 CATGGTCTTACACT-G-GCACAATATCAACAC
* *
34803102 CGATGCCATGTCCCAGACTTGGTCTTACACTAGTGCACATTTCAACGCCGATGCCATATCCCAGA
1 CGATGCCATGTCCCAGACTTGGTCTTACACTAGTGCACATATCAACGCCGATGCCATGTCCCAGA
*
34803167 CATGGTCTTACACTAGCGCAC-ATATCAACGC
66 CATGGTCTTACACT-G-GCACAATATCAACAC
* * *** * *
34803198 CGATGTCATGTCCCAGACATT-GTCTTACACTAGCT-CTCATGAT-GTGGTCGATGCCATGTTCC
1 CGATGCCATGTCCCAGAC-TTGGTCTTACACTAG-TGCACAT-ATCAACGCCGATGCCATGTCCC
*
34803260 AAACATGGTCTTACACTGGCACAAATATCA
63 AGACATGGTCTTACACTGGCAC-AATATCA
34803290 CCCAAATGTC
Statistics
Matches: 164, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
94 4 0.02
95 1 0.01
96 155 0.95
97 4 0.02
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACTTGGTCTTACACTAGTGCACATATCAACGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGGCACAATATCAACAC
Found at i:34805640 original size:13 final size:13
Alignment explanation
Indices: 34805622--34805646 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34805612 ACCAGGGGAC
34805622 ACATGACCGTGTA
1 ACATGACCGTGTA
34805635 ACATGACCGTGT
1 ACATGACCGTGT
34805647 GTCACACACG
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:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (13 bp):
ACATGACCGTGTA
Found at i:34806803 original size:31 final size:31
Alignment explanation
Indices: 34806762--34806825 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
34806752 CCTTTTCATA
*
34806762 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
34806793 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
34806824 TT
1 TT
34806826 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:34807046 original size:24 final size:24
Alignment explanation
Indices: 34807019--34807207 Score: 276
Period size: 24 Copynumber: 8.0 Consensus size: 24
34807009 GCTTTATCAT
* *
34807019 ATAACTGGAGGCCT-AGCCTTTTTA
1 ATAACTGG-GGCATAAGCCCTTTTA
* *
34807043 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
34807067 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
34807090 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
34807114 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
34807138 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
34807162 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34807185 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
34807208 TCACTTCCTC
Statistics
Matches: 152, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
23 46 0.30
24 106 0.70
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:34807094 original size:47 final size:47
Alignment explanation
Indices: 34807039--34807207 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
34807029 GCCTAGCCTT
* *
34807039 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
34807086 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
34807133 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
34807181 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
34807208 TCACTTCCTC
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
47 70 0.61
48 45 0.39
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:34807118 original size:71 final size:72
Alignment explanation
Indices: 34807019--34807208 Score: 287
Period size: 71 Copynumber: 2.7 Consensus size: 72
34807009 GCTTTATCAT
* * *
34807019 ATAACTGGAGGCCT-AGCCTTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAG
1 ATAACTGG-GGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAG
34807083 CCC-TTTA
65 CCCTTTTA
* * *
34807090 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
34807155 CCTTTTG
66 CCTTTTA
34807162 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
34807209 CACTTCCTCC
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
70 4 0.04
71 83 0.77
72 21 0.19
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:34807182 original size:95 final size:95
Alignment explanation
Indices: 34807019--34807207 Score: 308
Period size: 95 Copynumber: 2.0 Consensus size: 95
34807009 GCTTTATCAT
* * *
34807019 ATAACTGGAGGCCTAGCCTTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGC
1 ATAACTGGAGGCATAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
*
34807084 CCTTTAATAACTGGGGCGTAAGCCCTTTTG
66 CCTTTAATAACTGGGGCATAAGCCCTTTTG
* *
34807114 ATAACTGG-GGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 ATAACTGGAGGCAT-AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAG
34807178 CCCTTTAATAACTGGGGCATAAGCCCTTTT
65 CCCTTTAATAACTGGGGCATAAGCCCTTTT
34807208 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 4 0.05
95 83 0.95
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (95 bp):
ATAACTGGAGGCATAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTAATAACTGGGGCATAAGCCCTTTTG
Found at i:34807284 original size:20 final size:20
Alignment explanation
Indices: 34807261--34807323 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
34807251 GAACATCTCG
*
34807261 TGTGCATATCATACATATCA
1 TGTGCATATCATACATGTCA
34807281 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATGTCA
34807301 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATGTCA
34807321 TGT
1 TGT
34807324 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATGTCA
Found at i:34807406 original size:25 final size:25
Alignment explanation
Indices: 34807360--34807407 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
34807350 ATATATAAAC
* * * *
34807360 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
34807385 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
34807408 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:34808609 original size:27 final size:27
Alignment explanation
Indices: 34808579--34808659 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
34808569 CATTTTGCCA
34808579 TACAGGGG-TATTACGGTCACTTTACCT
1 TACAGGGGCT-TTACGGTCACTTTACCT
*
34808606 TACAGGGGCTTTACGGTCACTTTACCC
1 TACAGGGGCTTTACGGTCACTTTACCT
**
34808633 TACAGGGGCTTTACGGTCTTTTTACCT
1 TACAGGGGCTTTACGGTCACTTTACCT
34808660 AATAGGGGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
TACAGGGGCTTTACGGTCACTTTACCT
Found at i:34808742 original size:27 final size:27
Alignment explanation
Indices: 34808712--34808941 Score: 140
Period size: 27 Copynumber: 8.4 Consensus size: 27
34808702 GTAAATCTAC
*
34808712 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
34808739 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
34808767 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
34808795 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
34808822 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
34808849 AAACCAAGGGTATTT-TGATAATTTTAC
1 AAACCAAGGGTATTTCAG-TAATTTTAT
* * ** *
34808876 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
34808903 AAACTAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
34808930 AAATCGAGGGTA
1 AAACCAAGGGTA
34808942 AAATAGTAAT
Statistics
Matches: 162, Mismatches: 35, Indels: 12
0.78 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 132 0.81
28 15 0.09
29 14 0.09
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:34808860 original size:54 final size:54
Alignment explanation
Indices: 34808802--34808941 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
34808792 TGTAAATCAG
34808802 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * * * *
34808856 GGGTATTTTGATAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* ** *
34808910 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
34808942 AAATAGTAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 71 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:34808948 original size:27 final size:27
Alignment explanation
Indices: 34808918--34809130 Score: 236
Period size: 27 Copynumber: 7.9 Consensus size: 27
34808908 AAGGGTATTT
*
34808918 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
34808945 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
34808972 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
34808999 CTA-TAATTCTGTAAATCGAGGGTAAAA
1 -TAGTAATTCTGTAAATCGAGGGTAAAA
** *
34809026 CGGTAATTCTGTAAGTCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
34809053 -CGATAATTATGTAAATC-AGGGGTAAAA
1 TAG-TAATTCTGTAAATCGA-GGGTAAAA
** * *
34809080 CGGTAATTATGTAAATCGGGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
34809107 -CGATAATTCTGTAAATCGGGGGTA
1 TAG-TAATTCTGTAAATCGAGGGTA
34809131 CTTTGGTAAT
Statistics
Matches: 164, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
26 3 0.02
27 158 0.96
28 3 0.02
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:34809122 original size:54 final size:54
Alignment explanation
Indices: 34808920--34809130 Score: 282
Period size: 54 Copynumber: 3.9 Consensus size: 54
34808910 GGGTATTTTA
* * * **
34808920 GTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCAGGGGTAAAACG
* *
34808974 GTAATTCTATAAATCGAGGGTAAAACTATAATTCTGTAAATC-GAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCAG-GGGTAAAACG
* *
34809028 GTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCAGGGGTAAAACG
* * *
34809082 GTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCAGGGGTA
34809131 CTTTGGTAAT
Statistics
Matches: 140, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
54 137 0.98
55 3 0.02
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCAGGGGTAAAACG
Found at i:34809157 original size:27 final size:27
Alignment explanation
Indices: 34809136--34809225 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
34809126 GGGTACTTTG
*
34809136 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
34809163 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
34809190 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
34809217 GTAATTTTA
1 GTAATTTTA
34809226 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:34809177 original size:54 final size:54
Alignment explanation
Indices: 34809119--34809225 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
34809109 ATAATTCTGT
* * *
34809119 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
34809173 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
34809226 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:34809239 original size:27 final size:27
Alignment explanation
Indices: 34809136--34809240 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
34809126 GGGTACTTTG
* *
34809136 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
34809163 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
34809190 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
34809217 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
34809241 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:34810634 original size:23 final size:23
Alignment explanation
Indices: 34810608--34810660 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
34810598 GCTAGGAGTA
34810608 GGAATATGAATCAGCTAGGCTTG
1 GGAATATGAATCAGCTAGGCTTG
34810631 GGAATATGAATCAGCTAGGCTTG
1 GGAATATGAATCAGCTAGGCTTG
34810654 GGTAATA
1 GG-AATA
34810661 AAGAAAATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.26
Consensus pattern (23 bp):
GGAATATGAATCAGCTAGGCTTG
Found at i:34813835 original size:89 final size:89
Alignment explanation
Indices: 34813684--34813861 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
34813674 TTCTGTTTTT
34813684 GGAAAATCACTATAATTTGTACAAAAATGGTTATGAGATAAGATTTATATGCTTAGACTCCTTAA
1 GGAAAATCACTATAATTTGTACAAAAATGGTTATGAGATAAGATTTATATGCTTAGACTCCTTAA
34813749 TGAGTCTAGTTTAAAATGGAATCA
66 TGAGTCTAGTTTAAAATGGAATCA
34813773 GGAAAATCACTATAATTTGTACAAAAATGGTTATGAGATAAGATTTATATGCTTAGACTCCTTAA
1 GGAAAATCACTATAATTTGTACAAAAATGGTTATGAGATAAGATTTATATGCTTAGACTCCTTAA
34813838 TGAGTCTAGTTTAAAATGGAATCA
66 TGAGTCTAGTTTAAAATGGAATCA
34813862 AATAGAACAC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (89 bp):
GGAAAATCACTATAATTTGTACAAAAATGGTTATGAGATAAGATTTATATGCTTAGACTCCTTAA
TGAGTCTAGTTTAAAATGGAATCA
Found at i:34814279 original size:49 final size:49
Alignment explanation
Indices: 34814219--34814668 Score: 760
Period size: 49 Copynumber: 9.2 Consensus size: 49
34814209 TTTGTATGAG
*
34814219 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGC
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
34814268 GTATATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
34814317 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* *
34814366 GTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
34814415 GTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* *
34814464 GTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
34814513 GTATATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
34814562 GTATATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * * *
34814609 GTGTATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
34814658 GTATAAATATG
1 GTATATATATG
34814669 ATAAGTCCCG
Statistics
Matches: 378, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 39 0.10
48 6 0.02
49 333 0.88
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (49 bp):
GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
Found at i:34818152 original size:14 final size:14
Alignment explanation
Indices: 34818133--34818164 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
34818123 CGCTCTTTCG
34818133 AGCTATGATCAGTA
1 AGCTATGATCAGTA
34818147 AGCTATGATCAGTA
1 AGCTATGATCAGTA
34818161 AGCT
1 AGCT
34818165 CCTCCTAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (14 bp):
AGCTATGATCAGTA
Found at i:34820243 original size:41 final size:41
Alignment explanation
Indices: 34820181--34820289 Score: 155
Period size: 41 Copynumber: 2.7 Consensus size: 41
34820171 ACCGAATAAT
* * *
34820181 CCCCTGTTTGTACTTCTGTACCCCTAAATTGCACATGCGTG
1 CCCCTGTTTGTACTTCGGTACCCCTAAATTGCACATACATG
* * *
34820222 CCCCTATTTGTACTTCGGTACCTCTGAATTGCACATACATG
1 CCCCTGTTTGTACTTCGGTACCCCTAAATTGCACATACATG
*
34820263 CCACTGTTTGTACTTCGGTACCCCTAA
1 CCCCTGTTTGTACTTCGGTACCCCTAA
34820290 GTAGCATATA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (41 bp):
CCCCTGTTTGTACTTCGGTACCCCTAAATTGCACATACATG
Found at i:34820312 original size:41 final size:39
Alignment explanation
Indices: 34820182--34820312 Score: 136
Period size: 41 Copynumber: 3.2 Consensus size: 39
34820172 CCGAATAATC
* *
34820182 CCCTGTTTGTACTTCTGTACCCCTAAATTGCACATGCGTG
1 CCCTGTTTGTACTTCGGTACCCCT-AATTGCACATACGTG
* * *
34820222 CCCCTATTTGTACTTCGGTACCTCTGAATTGCACATACATG
1 -CCCTGTTTGTACTTCGGTACCCCT-AATTGCACATACGTG
* * *
34820263 CCACTGTTTGTACTTCGGTACCCCTAAGTAGCATATATGTG
1 CC-CTGTTTGTACTTCGGTACCCCTAA-TTGCACATACGTG
34820304 CCCTTGTTT
1 CCC-TGTTT
34820313 ACACTCTGGG
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
40 5 0.07
41 70 0.93
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (39 bp):
CCCTGTTTGTACTTCGGTACCCCTAATTGCACATACGTG
Found at i:34822389 original size:12 final size:12
Alignment explanation
Indices: 34822359--34822389 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
34822349 ACTGACTTGG
*
34822359 CCACACAGTCGA
1 CCACACGGTCGA
34822371 CCACACGGTCGA
1 CCACACGGTCGA
34822383 CCACACG
1 CCACACG
34822390 CTCGTGTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.45, G:0.19, T:0.06
Consensus pattern (12 bp):
CCACACGGTCGA
Found at i:34837695 original size:49 final size:48
Alignment explanation
Indices: 34837519--34837839 Score: 450
Period size: 49 Copynumber: 6.7 Consensus size: 48
34837509 CCCTTCGGGA
* * * * *
34837519 CTTATCACAT-TTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
34837566 CCTATCACATA-TATACACTTTCACATTCATCACGTTGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
34837613 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
34837660 CCTATCACATATGTATACGCTTTCACATTCATCACATCGGCCCTTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34837709 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34837758 CTTATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34837807 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATA-TTATACACTTTCACATTCATC
34837840 GCGTTGAATC
Statistics
Matches: 254, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
47 96 0.38
49 157 0.62
50 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (48 bp):
CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34841537 original size:40 final size:40
Alignment explanation
Indices: 34841488--34841718 Score: 410
Period size: 40 Copynumber: 5.8 Consensus size: 40
34841478 CCAGCATGAT
* * *
34841488 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
34841528 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
34841568 TGCTCTTCGGAACTTAGTCCGGATAGATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
34841608 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
34841648 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
34841688 TGCTCTTCGGAACTTAGT-CGGATACATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
34841719 CTCAATTTCA
Statistics
Matches: 186, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
39 13 0.07
40 173 0.93
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:34843915 original size:93 final size:95
Alignment explanation
Indices: 34843756--34844114 Score: 555
Period size: 93 Copynumber: 3.8 Consensus size: 95
34843746 CCCTTCGGGA
* * * * * * *
34843756 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATA-TATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTATACA
34843820 CTTTCACATTCATCACAT-GGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
34843849 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA-TATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTATACA
34843913 C-TTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
*
34843942 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATGTATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT-TATAC
*
34844007 GCTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
*
34844038 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATTTAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA-TTAT
*
34844103 ACACATTCACAT
63 ACACTTTCACAT
34844115 NGCTAATTCA
Statistics
Matches: 246, Mismatches: 13, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
92 16 0.07
93 126 0.51
95 6 0.02
96 36 0.15
98 61 0.25
99 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34844025 original size:49 final size:47
Alignment explanation
Indices: 34843756--34844114 Score: 551
Period size: 47 Copynumber: 7.6 Consensus size: 47
34843746 CCCTTCGGGA
* * * * * *
34843756 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34843803 CCTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34843849 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34843896 CTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34843942 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34843989 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGC
34844038 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34844087 CTTATCTCATATTTATACACATTCACAT
1 CTTATCACATA--TATACACTTTCACAT
34844115 NGCTAATTCA
Statistics
Matches: 293, Mismatches: 11, Indels: 14
0.92 0.03 0.04
Matches are distributed among these distances:
46 88 0.30
47 102 0.35
49 100 0.34
51 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34849005 original size:29 final size:29
Alignment explanation
Indices: 34848971--34849075 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
34848961 TACTCGATTT
* * *
34848971 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
34849000 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
34849029 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
34849058 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
34849076 TATTTCCAGC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:34849063 original size:58 final size:58
Alignment explanation
Indices: 34849009--34849129 Score: 167
Period size: 58 Copynumber: 2.1 Consensus size: 58
34848999 CCGCACACAC
* *
34849009 AGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCAT-TATTTCCAGCATGCACACTT
* * *
34849067 AGTGCCATATATTTCCAGCAT-GCACACTCAGTGCCATT-TTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATTATTTCCAGCATGCACACTT
34849123 AGTGCCA
1 AGTGCCA
34849130 ATCTCGTCAC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
56 25 0.44
57 1 0.02
58 30 0.53
59 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (58 bp):
AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATTATTTCCAGCATGCACACTT
Found at i:34849116 original size:27 final size:29
Alignment explanation
Indices: 34849030--34849129 Score: 177
Period size: 29 Copynumber: 3.5 Consensus size: 29
34849020 CTTCGAGCTC
34849030 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
34849059 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
34849088 GCACACTCAGTGCCAT-T-TTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
34849115 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
34849130 ATCTCGTCAC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
27 24 0.35
28 1 0.01
29 44 0.64
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:34852029 original size:37 final size:37
Alignment explanation
Indices: 34851979--34852061 Score: 157
Period size: 37 Copynumber: 2.2 Consensus size: 37
34851969 TTATTACGAA
34851979 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
34852016 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
34852053 GTCTCACCC
1 GTCTTACCC
34852062 AGAATATATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:34852180 original size:48 final size:48
Alignment explanation
Indices: 34852109--34852922 Score: 1362
Period size: 48 Copynumber: 17.0 Consensus size: 48
34852099 TGTTACAACA
* *
34852109 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
34852157 TTCACATTCGCCATTCAGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
34852205 TTCACATTAGCCATTCGGCTTTACCACATATACATATCGCACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
34852253 TTCACATTAGCCATTCGGCTTTACCACATATACATATCGCACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
34852301 TTCACATTAGCCATTCGGCTTTACCACATATACATATCGCACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
34852349 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
34852397 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
34852445 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
34852493 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
34852541 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
34852589 TTCACATTAGCCATTCGACTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
34852637 TTCACATTA--CATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
34852683 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
**
34852731 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATGCATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
34852779 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
34852827 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
34852875 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
34852923 ATATATTTAT
Statistics
Matches: 719, Mismatches: 45, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
46 43 0.06
48 676 0.94
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:34855921 original size:8 final size:9
Alignment explanation
Indices: 34855908--34855937 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
34855898 AGTGGGGAAT
34855908 TGGGGGAGG
1 TGGGGGAGG
34855917 TGGGGGAGG
1 TGGGGGAGG
34855926 TGGGGGAGG
1 TGGGGGAGG
34855935 TGG
1 TGG
34855938 AGTGTTCGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.77, T:0.13
Consensus pattern (9 bp):
TGGGGGAGG
Found at i:34855922 original size:18 final size:18
Alignment explanation
Indices: 34855901--34855937 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
34855891 GGGGCATAGT
*
34855901 GGGGAATTGGGGGAGGTG
1 GGGGAAGTGGGGGAGGTG
*
34855919 GGGGAGGTGGGGGAGGTG
1 GGGGAAGTGGGGGAGGTG
34855937 G
1 G
34855938 AGTGTTCGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.73, T:0.14
Consensus pattern (18 bp):
GGGGAAGTGGGGGAGGTG
Found at i:34857721 original size:50 final size:50
Alignment explanation
Indices: 34857646--34857775 Score: 197
Period size: 50 Copynumber: 2.6 Consensus size: 50
34857636 GTAAAGTGCT
*
34857646 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTACATAACCATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACCATGCC
* *
34857696 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATAACCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACCATGCC
** **
34857746 GATGTTATGTCTTAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
34857776 GACACATCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACCATGCC
Found at i:34862750 original size:48 final size:48
Alignment explanation
Indices: 34862679--34862994 Score: 391
Period size: 48 Copynumber: 6.6 Consensus size: 48
34862669 ATAATGTCCC
34862679 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* *
34862727 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGATCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* *
34862775 GTGTAAGACCATGTTTGGGACATGGCATCGGCGTTGATATGTAAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* * * *
34862823 GTGCAAGACCATGTCTGGGACATGGCATTGGTGTGGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* * * * * *
34862871 GTGTAAGATCATGTCTGGGACATGGCATCGGTGCTGATATATGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* * * ** * ** **
34862919 GTGTAAGACCATGTCTGGAAAATTGCATCGGCACTGACATAAGATTTC-
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGA-GCCA
*
34862967 GTGTAAGACCATGTTTGGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
34862995 TGGCACTGAC
Statistics
Matches: 231, Mismatches: 36, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
48 231 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
Found at i:34863022 original size:48 final size:48
Alignment explanation
Indices: 34862922--34863043 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 48
34862912 TGTGCTAGTG
* * * * *
34862922 TAAGACCATGTCTGGAAAATTGCATCGGCACTGACATAAGATTTCGTG
1 TAAGACCATGTTTGGGAAATGGCATCGGCACTGACATAAGATTTCATA
* * *
34862970 TAAGACCATGTTTGGGACATGGCATTGGCACTGACATGAGATTTCATA
1 TAAGACCATGTTTGGGAAATGGCATCGGCACTGACATAAGATTTCATA
* * *
34863018 TAAGACCATATTCGGGATATGGCATC
1 TAAGACCATGTTTGGGAAATGGCATC
34863044 ATGTAAGACC
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTTTGGGAAATGGCATCGGCACTGACATAAGATTTCATA
Found at i:34863063 original size:29 final size:29
Alignment explanation
Indices: 34863013--34863068 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
34863003 ACATGAGATT
*
34863013 TCATATAAGACCATATTCGGGATATGGCA
1 TCATATAAGACCATATTCGGGACATGGCA
* *
34863042 TCATGTAAGACCAT-GTCTGGGACATGG
1 TCATATAAGACCATATTC-GGGACATGG
34863069 ATTTGGCACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (29 bp):
TCATATAAGACCATATTCGGGACATGGCA
Found at i:34869625 original size:66 final size:66
Alignment explanation
Indices: 34869549--34869674 Score: 225
Period size: 66 Copynumber: 1.9 Consensus size: 66
34869539 CATCGAAACA
*
34869549 AGATTACATGTAAGACCATATCTGGGATATGGCATTGGTATGGAACCATGTGTACGGGACGATAC
1 AGATTACATGTAAGACCATATCTGGGATATGGCATTGGTATGGAACCATGTGCACGGGACGATAC
34869614 G
66 G
* *
34869615 AGATTACATGTAAGACCATATCTGGGATATGGTATTGGTATGGTACCATGTGCACGGGAC
1 AGATTACATGTAAGACCATATCTGGGATATGGCATTGGTATGGAACCATGTGCACGGGAC
34869675 TCCCGAGTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (66 bp):
AGATTACATGTAAGACCATATCTGGGATATGGCATTGGTATGGAACCATGTGCACGGGACGATAC
G
Found at i:34875700 original size:23 final size:22
Alignment explanation
Indices: 34875666--34875747 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 22
34875656 AAAAGTGTAG
* *
34875666 AAAAATACAATAAACAGAAAAT
1 AAAAATAAAATAAAAAGAAAAT
34875688 AAAAATAGAAATAAAAAGAAAA-
1 AAAAATA-AAATAAAAAGAAAAT
**
34875710 AGAAAATTAAAATTAAAATTAAAA-
1 A-AAAA-TAAAA-TAAAAAGAAAAT
*
34875734 GAAAATAAAATAAA
1 AAAAATAAAATAAA
34875748 TGGACTCAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
21 4 0.08
22 13 0.25
23 23 0.45
24 11 0.22
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (22 bp):
AAAAATAAAATAAAAAGAAAAT
Found at i:34875714 original size:29 final size:27
Alignment explanation
Indices: 34875681--34875747 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 27
34875671 TACAATAAAC
34875681 AGAAAATAAAAATAGAAATAAAAAGAAAA
1 AGAAAATAAAAATA-AAATAAAAAG-AAA
* *
34875710 AGAAAATTAAAATTAAAATTAAAAGAAA
1 AGAAAA-TAAAAATAAAATAAAAAGAAA
*
34875738 ATAAAATAAA
1 AGAAAATAAA
34875748 TGGACTCAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.12
28 8 0.24
29 15 0.44
30 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.16
Consensus pattern (27 bp):
AGAAAATAAAAATAAAATAAAAAGAAA
Found at i:34889279 original size:34 final size:34
Alignment explanation
Indices: 34889207--34889292 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
34889197 GTACTGAATT
** ** **
34889207 GGGCTAAGGCCCACACTGATACTGTTACTCCACT
1 GGGCTAAGGCCCACACTGATACTGCCACTAAAAA
*
34889241 GGGCTAAGGCCCACACTGATATTGCCACTAAAAA
1 GGGCTAAGGCCCACACTGATACTGCCACTAAAAA
* *
34889275 GGGCTTAGGCCCAGACTG
1 GGGCTAAGGCCCACACTG
34889293 TTTTACATTG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (34 bp):
GGGCTAAGGCCCACACTGATACTGCCACTAAAAA
Found at i:34892282 original size:27 final size:27
Alignment explanation
Indices: 34892252--34892446 Score: 205
Period size: 27 Copynumber: 7.2 Consensus size: 27
34892242 CGATTTACAA
* *
34892252 AATTATTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
34892279 AATTACTGAAATACCTCAGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
34892306 AATTACTGAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
34892333 AATTACTGAAATACCTCTGTAGGGCAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
34892360 AATTACCAAAATACCCTTGTAGGGTAGG
1 AATTACTGAAATACCCCTGTAGGGTA-G
* *
34892388 AA-TACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
34892414 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
34892441 AATTAC
1 AATTAC
34892447 CATTTTGCCC
Statistics
Matches: 138, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
26 3 0.02
27 132 0.96
28 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:34892310 original size:54 final size:54
Alignment explanation
Indices: 34892259--34892446 Score: 227
Period size: 54 Copynumber: 3.5 Consensus size: 54
34892249 CAAAATTATT
* * *
34892259 GAAATACCCCTGTAAGGTAGAATTACTGAAATACCTCAGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACTGAAATACCTCAGTAGGGTAGAATTACC
* * *
34892313 GAAATACCCTTATAGGGTAGAATTACTGAAATACCTCTGTAGGGCAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACTGAAATACCTCAGTAGGGTAGAATTACC
* * * *
34892367 AAAATACCCTTGTAGGGTAGGAA-TACCGAAATACCCCTA-TAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTA-GAATTACTGAAATACCTC-AGTAGGGTAGAATTACC
* * *
34892421 GAGATACCCTTGTGGGGTAAAATTAC
1 GAAATACCCTTGTAGGGTAGAATTAC
34892447 CATTTTGCCC
Statistics
Matches: 114, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
53 2 0.02
54 109 0.96
55 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (54 bp):
GAAATACCCTTGTAGGGTAGAATTACTGAAATACCTCAGTAGGGTAGAATTACC
Found at i:34893141 original size:43 final size:43
Alignment explanation
Indices: 34893084--34893181 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
34893074 ATTCTGTTAC
* * * *
34893084 CTGATACTAATTCTGATTCTGTCACCTAATTCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTATCACCTAATTCTAATTCTAATT
*
34893127 CTGATTCTGATTCTGATTCTATCACCTGATTCTAATTCTAATT
1 CTGATTCTGATTCTGATTCTATCACCTAATTCTAATTCTAATT
* *
34893170 CTCATTTTGATT
1 CTGATTCTGATT
34893182 TTAGTTCTGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.47
Consensus pattern (43 bp):
CTGATTCTGATTCTGATTCTATCACCTAATTCTAATTCTAATT
Found at i:34893164 original size:25 final size:25
Alignment explanation
Indices: 34893062--34893171 Score: 108
Period size: 25 Copynumber: 4.7 Consensus size: 25
34893052 TTGCATTCAC
* *
34893062 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTAATTCTGATTCTGTCACCTG
* *
34893087 ATACTAATTCTGATTCTGTCACCTA
1 ATTCTAATTCTGATTCTGTCACCTG
34893112 ATTCTAATTCTGA---T-T---CTG
1 ATTCTAATTCTGATTCTGTCACCTG
* *
34893130 ATTCTGATTCTGATTCTATCACCTG
1 ATTCTAATTCTGATTCTGTCACCTG
*
34893155 ATTCTAATTCTAATTCT
1 ATTCTAATTCTGATTCT
34893172 CATTTTGATT
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
18 14 0.20
21 2 0.03
22 2 0.03
25 51 0.74
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (25 bp):
ATTCTAATTCTGATTCTGTCACCTG
Done.