Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008953.1 Hibiscus syriacus cultivar Beakdansim tig00112281_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2822058
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 15
Found at i:2451008 original size:19 final size:18
Alignment explanation
Indices: 2450984--2451033 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
2450974 AGGGCTGGAA
2450984 ACCGGTTTGACCGGTTTCG
1 ACCGGTTTGACCGGTTT-G
*
2451003 ACCGGTTCGAACCGGTTTG
1 ACCGGTTTG-ACCGGTTTG
* *
2451022 GCCGGTCTGACC
1 ACCGGTTTGACC
2451034 CGACCCGATC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 15 0.58
20 8 0.31
ACGTcount: A:0.12, C:0.30, G:0.32, T:0.26
Consensus pattern (18 bp):
ACCGGTTTGACCGGTTTG
Found at i:2451051 original size:17 final size:17
Alignment explanation
Indices: 2451029--2451067 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
2451019 TTGGCCGGTC
*
2451029 TGACCCGACCCGATCGT
1 TGACCCGACCCGACCGT
2451046 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
2451063 TGACC
1 TGACC
2451068 GTTGACTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.44, G:0.23, T:0.15
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:2451083 original size:21 final size:20
Alignment explanation
Indices: 2451057--2451100 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 20
2451047 GACCCGACCC
2451057 GACCGTTGACCGTTGACTGTT
1 GACCGTTGACCG-TGACTGTT
2451078 GACCGTTGACCGTGACTGTT
1 GACCGTTGACCGTGACTGTT
2451098 GAC
1 GAC
2451101 TTCCTTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.30
Consensus pattern (20 bp):
GACCGTTGACCGTGACTGTT
Found at i:2451101 original size:7 final size:7
Alignment explanation
Indices: 2451057--2451100 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
2451047 GACCCGACCC
2451057 GACCGTT
1 GACCGTT
2451064 GACCGTT
1 GACCGTT
*
2451071 GACTGTT
1 GACCGTT
2451078 GACCGTT
1 GACCGTT
2451085 GACCG-T
1 GACCGTT
*
2451091 GACTGTT
1 GACCGTT
2451098 GAC
1 GAC
2451101 TTCCTTTGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 5 0.15
7 28 0.85
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.30
Consensus pattern (7 bp):
GACCGTT
Found at i:2455990 original size:35 final size:35
Alignment explanation
Indices: 2455951--2456021 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
2455941 TAAATATGAA
* * *
2455951 AAAAATTAAATGGTAAGTATTGAATAAAAGTAAAT
1 AAAAAGTAAATGGTAAGTACTGAATAAAAGGAAAT
* *
2455986 AAAAAGTAAATGGTAAGTGCTGAATGAAAGGAAAT
1 AAAAAGTAAATGGTAAGTACTGAATAAAAGGAAAT
2456021 A
1 A
2456022 TATAAAACGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.55, C:0.01, G:0.20, T:0.24
Consensus pattern (35 bp):
AAAAAGTAAATGGTAAGTACTGAATAAAAGGAAAT
Found at i:2460636 original size:39 final size:38
Alignment explanation
Indices: 2460571--2460649 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 38
2460561 TTAAAATTTT
*
2460571 ATTTAGAATGTTATGGTGACAAAATTTAAGAAATTAGGA
1 ATTTAGAATGTTATGGCGACAAAATTTAAG-AATTAGGA
* *
2460610 ATTTAGAATGTTA-GAGCG-CAATAATTTGAGAATTATGA
1 ATTTAGAATGTTATG-GCGACAA-AATTTAAGAATTAGGA
2460648 AT
1 AT
2460650 AAAAAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
38 13 0.37
39 22 0.63
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (38 bp):
ATTTAGAATGTTATGGCGACAAAATTTAAGAATTAGGA
Found at i:2461990 original size:3 final size:3
Alignment explanation
Indices: 2461982--2462015 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
2461972 ATAGAAAAAT
2461982 ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2462016 TGATTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 25 0.86
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2461996 original size:14 final size:14
Alignment explanation
Indices: 2461979--2462015 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2461969 ATTATAGAAA
2461979 AATATAATAATAAT
1 AATATAATAATAAT
2461993 AATATAATAATAAT
1 AATATAATAATAAT
*
2462007 AATAAAATA
1 AATATAATA
2462016 TGATTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATATAATAATAAT
Found at i:2467066 original size:20 final size:21
Alignment explanation
Indices: 2467029--2467068 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2467019 AAATAATTAA
2467029 AAAAAGATAATAAAAAACATT
1 AAAAAGATAATAAAAAACATT
* *
2467050 AAAAATATAA-AATAAACAT
1 AAAAAGATAATAAAAAACAT
2467069 AAACATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (21 bp):
AAAAAGATAATAAAAAACATT
Found at i:2468912 original size:115 final size:116
Alignment explanation
Indices: 2468709--2468919 Score: 307
Period size: 115 Copynumber: 1.8 Consensus size: 116
2468699 TTAGGGAAGT
* * * * * *
2468709 TTGAATTAGAGTAGACTTGTTTCGTTGTCTCTGAAGGGAATATCAAATCTTGGAATATAGGAATC
1 TTGAATTAGAGCAGACTTGTTCCGTTGTCACTGAAGGGAATATCAAACCTTGGAAAAGAGGAATC
*
2468774 TGTTCCGCTTCTTCTGAAGGGAATATCAGATATGGAAAGAGATGTGATCCA
66 TGTTCCGCTTCTTCTAAAGGGAATATCAGATATGGAAAGAGATGTGATCCA
* * * * *
2468825 TTGAATTAGGGCAGATTTGTTCCGTTGTCACT-CAGGGAATATCAAACCTTGGAAAAGAGGGATT
1 TTGAATTAGAGCAGACTTGTTCCGTTGTCACTGAAGGGAATATCAAACCTTGGAAAAGAGGAATC
2468889 TGTTCCGCTTCTTCTAAAGGGAATATCAGAT
66 TGTTCCGCTTCTTCTAAAGGGAATATCAGAT
2468920 CTTAAAGGAG
Statistics
Matches: 83, Mismatches: 12, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
115 56 0.67
116 27 0.33
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (116 bp):
TTGAATTAGAGCAGACTTGTTCCGTTGTCACTGAAGGGAATATCAAACCTTGGAAAAGAGGAATC
TGTTCCGCTTCTTCTAAAGGGAATATCAGATATGGAAAGAGATGTGATCCA
Found at i:2469054 original size:48 final size:48
Alignment explanation
Indices: 2469002--2469182 Score: 233
Period size: 48 Copynumber: 3.8 Consensus size: 48
2468992 GGGGAAGAGT
2469002 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAGAGATA
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAGAGATA
* * * * *
2469050 TGTTCCGCTTACTCTAAAGGGAATATCAAATATTTGAGAAGAAAGACATA
1 TGTTCCACTTACTCTGAAGGGAATATCAAAT-CTTG-GAAAAAAGAGATA
* * *
2469100 --TTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACT-
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAGAGA-TA
*
2469146 TGTTCCACTTACTCTGACGGGAATATCAAATCTTGGA
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGA
2469183 TTTGCTTCAC
Statistics
Matches: 115, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
46 7 0.06
47 4 0.03
48 90 0.78
49 3 0.03
50 11 0.10
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (48 bp):
TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAGAGATA
Found at i:2469223 original size:37 final size:37
Alignment explanation
Indices: 2469181--2469435 Score: 420
Period size: 37 Copynumber: 6.9 Consensus size: 37
2469171 TCAAATCTTG
* *
2469181 GATTTGCTTCACTACTCTTTCGTGAAGGCTTAAGATT
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
* *
2469218 GATTTGCTTCACTACTCATTGGTGAAGGCTTAAAATG
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
*
2469255 GATTTGCTTCACTACTATTTGGTGAAGGCTTAAAATT
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
2469292 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
2469329 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
* * * *
2469366 GATTTTCTTCACTACTCTTTGGTGAAAGCTTAAGATG
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
*
2469403 GATTTGCTTCACTACTATTTGGTGAAGGCTTAA
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAA
2469436 GATGGCCCAG
Statistics
Matches: 203, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 203 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.40
Consensus pattern (37 bp):
GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
Found at i:2469959 original size:149 final size:149
Alignment explanation
Indices: 2469478--2470180 Score: 1044
Period size: 151 Copynumber: 4.7 Consensus size: 149
2469468 AAGACTTATA
*
2469478 ATGGCCCGAAGGACTTATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
1 ATGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTC-
* * * * *
2469543 AAAATTTCAAATCTCAGATTTAAATGAGAAACCTCTCTCATATTTTAATAGACATTTGAAAACAT
65 AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACAT
* *
2469608 CCTGCCCAAAGGACTTACGG
130 CCTGCCCAAAGGTCTTATGG
*
2469628 GTGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
1 ATGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTC-
* * * * *
2469693 AAAATTTCAATTTTCAGATTTAATATGAGAAACCTTTCTCATATTTCAAAAGACATGTGAAAACA
65 AAAATTTCAAATTTCAAATTTGA-ATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACA
*
2469758 TCCTACCCAAAGGTCTTATGG
129 TCCTGCCCAAAGGTCTTATGG
* ** **
2469779 ATGGCCTGAAAAACTTATAAATTTTTTAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
1 ATGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
*
2469844 AATATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATA-TTTGATAGACATGTGAAAACAT
66 AA-ATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACAT
2469908 CAC-GCCCAAAGGTCTTATGG
130 C-CTGCCCAAAGGTCTTATGG
*
2469928 ATGGCCCGAAGGACGTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTC-
1 ATGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
* *
2469992 -AA----AAATTTCAAATTTGAATGAGAATCCTTTCTCATATTTTGATAGACATGTGAAAACATC
66 AAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACATC
*
2470052 CTGCCCAAAGCTCTTATGG
131 CTGCCCAAAGGTCTTATGG
* *
2470071 ATGGCCCGAAAGACTTATAATTTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
1 ATGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
* *
2470136 AAATTTCAAATTTCAAATTTGAATGAGAAACATTTCTCATTTTTT
66 AAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTT
2470181 CATTTATAAA
Statistics
Matches: 504, Mismatches: 38, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
142 34 0.07
143 100 0.20
145 2 0.00
146 1 0.00
147 1 0.00
149 129 0.26
150 107 0.21
151 130 0.26
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (149 bp):
ATGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
AAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACATC
CTGCCCAAAGGTCTTATGG
Found at i:2470113 original size:292 final size:296
Alignment explanation
Indices: 2469478--2470180 Score: 1060
Period size: 292 Copynumber: 2.4 Consensus size: 296
2469468 AAGACTTATA
* * *
2469478 ATGGCCCGAAGGACTTATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
1 ATGGCCCGAAAGACTTATAATTTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTC-
* * * * *
2469543 AAAATTTCAAATCTCAGATTTAAATGAGAAACCTCTCTCATATTTTAATAGACATTTGAAAACAT
65 AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACAT
* *
2469608 CCTGCCCAAAGGACTTACGGGTGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAA
130 CCTGCCCAAAGGACTTACGGATGGCCCGAAGGACGTATAAATTTTGGAAATATTTTACTAGGTAA
2469673 GAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAATATGAGAAACCTTTCTCATATT
195 GAAACCTTTCTTACTTTTCAAAAATTTCAA---T-AGATTTAATATGAGAAACCTTTCTCATATT
*
2469738 TCAAAAGACATGTGAAAACATCCTACCCAAAGGTCTTATGG
256 TCAAAAGACATGTGAAAACATCCTACCCAAAGCTCTTATGG
* * *
2469779 ATGGCCTGAAAAACTTATAAATTTTT-TAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTC
1 ATGGCCCGAAAGACTTAT-AATTTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTC
*
2469843 AAATATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATA-TTTGATAGACATGTGAAAACA
65 AAA-ATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACA
* *
2469907 TCAC-GCCCAAAGGTCTTATGGATGGCCCGAAGGACGTATAAATTTTGGAAATATTTTACTAGGT
129 TC-CTGCCCAAAGGACTTACGGATGGCCCGAAGGACGTATAAATTTTGGAAATATTTTACTAGGT
* * *
2469971 AAGAAACCTTTCTTACTTTTCAAAAATTTC-A-A-ATTTGA-ATGAGAATCCTTTCTCATATTTT
193 AAGAAACCTTTCTTACTTTTCAAAAATTTCAATAGATTTAATATGAGAAACCTTTCTCATATTTC
* * *
2470032 GATAGACATGTGAAAACATCCTGCCCAAAGCTCTTATGG
258 AAAAGACATGTGAAAACATCCTACCCAAAGCTCTTATGG
2470071 ATGGCCCGAAAGACTTATAATTTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
1 ATGGCCCGAAAGACTTATAATTTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
* *
2470136 AAATTTCAAATTTCAAATTTGAATGAGAAACATTTCTCATTTTTT
66 AAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTT
2470181 CATTTATAAA
Statistics
Matches: 369, Mismatches: 28, Indels: 19
0.89 0.07 0.05
Matches are distributed among these distances:
291 44 0.12
292 115 0.31
293 5 0.01
294 1 0.00
299 1 0.00
300 110 0.30
301 87 0.24
302 6 0.02
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (296 bp):
ATGGCCCGAAAGACTTATAATTTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
AAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACATC
CTGCCCAAAGGACTTACGGATGGCCCGAAGGACGTATAAATTTTGGAAATATTTTACTAGGTAAG
AAACCTTTCTTACTTTTCAAAAATTTCAATAGATTTAATATGAGAAACCTTTCTCATATTTCAAA
AGACATGTGAAAACATCCTACCCAAAGCTCTTATGG
Found at i:2478293 original size:2 final size:2
Alignment explanation
Indices: 2478288--2478312 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2478278 AAAATCTTTG
2478288 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
2478313 TAAAAAAATA
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:2479585 original size:32 final size:32
Alignment explanation
Indices: 2479544--2479620 Score: 145
Period size: 32 Copynumber: 2.4 Consensus size: 32
2479534 GCCAATTTGG
*
2479544 AGCCGTCAAATTTCTGTTTGAAAATATGATAT
1 AGCCGTCAAATTTCTGTTTGAAAAGATGATAT
2479576 AGCCGTCAAATTTCTGTTTGAAAAGATGATAT
1 AGCCGTCAAATTTCTGTTTGAAAAGATGATAT
2479608 AGCCGTCAAATTT
1 AGCCGTCAAATTT
2479621 ATGTGAAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (32 bp):
AGCCGTCAAATTTCTGTTTGAAAAGATGATAT
Found at i:2480851 original size:29 final size:29
Alignment explanation
Indices: 2480809--2480864 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
2480799 TAAAAATGTA
2480809 ATTTTCCAGAAAAATGATCGATCCCTTGC
1 ATTTTCCAGAAAAATGATCGATCCCTTGC
*
2480838 ATTTTTCAGAAAAATGATCGATCCCTT
1 ATTTTCCAGAAAAATGATCGATCCCTT
2480865 TTTGTGAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (29 bp):
ATTTTCCAGAAAAATGATCGATCCCTTGC
Found at i:2483773 original size:23 final size:23
Alignment explanation
Indices: 2483736--2483799 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
2483726 CAGCTTTTAT
2483736 AAATGCA-CGGAAGTGCCACGTAG
1 AAATGCACCGG-AGTGCCACGTAG
* *
2483759 AATTGCACCGGAGTGCCGCGTAG
1 AAATGCACCGGAGTGCCACGTAG
* *
2483782 AAATGCACTGTAGTGCCA
1 AAATGCACCGGAGTGCCA
2483800 TATAAGATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 31 0.91
24 3 0.09
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.17
Consensus pattern (23 bp):
AAATGCACCGGAGTGCCACGTAG
Found at i:2484654 original size:19 final size:19
Alignment explanation
Indices: 2484605--2484656 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
2484595 CATTTTCAGC
* *
2484605 TCCATACATCATACTTCACT
1 TCCATACAT-ATACCTAACT
*
2484625 TCCTTTA-ATATACCTAACT
1 TCC-ATACATATACCTAACT
2484644 TCCATACATATAC
1 TCCATACATATAC
2484657 TTAAACTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 2 0.08
19 17 0.65
20 5 0.19
21 2 0.08
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.37
Consensus pattern (19 bp):
TCCATACATATACCTAACT
Found at i:2490617 original size:23 final size:23
Alignment explanation
Indices: 2490577--2490645 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
2490567 CACCGTAGCT
* *
2490577 CGTATAAATGCACTGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * **
2490600 CGTAGAATTGCATCGAAGTACTG
1 CGTAGAAATGCACCGAAGTGCCA
*
2490623 CGTAGAAATGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
2490646 TATAAGATGT
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:2492203 original size:21 final size:20
Alignment explanation
Indices: 2492179--2492237 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 20
2492169 CAAGCTTTTC
2492179 TAGCTCAATGGATCGATCCCT
1 TAGC-CAATGGATCGATCCCT
* *
2492200 TAGCAAAAT-AATC-ATCCCT
1 TAGC-CAATGGATCGATCCCT
*
2492219 TTGACCAATGGATCGATCC
1 TAG-CCAATGGATCGATCC
2492238 ATTTGAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
19 11 0.38
20 7 0.24
21 11 0.38
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (20 bp):
TAGCCAATGGATCGATCCCT
Found at i:2492249 original size:21 final size:20
Alignment explanation
Indices: 2492189--2492260 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
2492179 TAGCTCAATG
* *
2492189 GATCGATCCCTTAGCAAAAT
1 GATCGATCCCTTTGAAAAAT
* **
2492209 AATC-ATCCCTTTGACCAAT
1 GATCGATCCCTTTGAAAAAT
*
2492228 GGATCGATCCATTTGAAAAAT
1 -GATCGATCCCTTTGAAAAAT
*
2492249 GACCGATCCCTT
1 GATCGATCCCTT
2492261 GGATTCCAAT
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
19 11 0.28
20 16 0.41
21 12 0.31
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (20 bp):
GATCGATCCCTTTGAAAAAT
Found at i:2492305 original size:21 final size:21
Alignment explanation
Indices: 2492279--2492329 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
2492269 ATAGGTTTGG
*
2492279 GATCGATCCCTCAAGGAAAAA
1 GATCGATCCCTCAACGAAAAA
** *
2492300 GATCGATCCCTTGACGAAAAT
1 GATCGATCCCTCAACGAAAAA
2492321 GATCGATCC
1 GATCGATCC
2492330 ATTATCTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (21 bp):
GATCGATCCCTCAACGAAAAA
Found at i:2492415 original size:21 final size:21
Alignment explanation
Indices: 2492403--2492457 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
2492393 TTTCATAAAA
2492403 GGATCGATCCCTTTCACTTAT
1 GGATCGATCCCTTTCACTTAT
2492424 GGATCGATCCCTTTCACTTAT
1 GGATCGATCCCTTTCACTTAT
2492445 GGATCGATCCCTT
1 GGATCGATCCCTT
2492458 ATGCATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.18, C:0.29, G:0.16, T:0.36
Consensus pattern (21 bp):
GGATCGATCCCTTTCACTTAT
Found at i:2493710 original size:60 final size:60
Alignment explanation
Indices: 2493598--2493714 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
2493588 TTTCAATTGA
* * * * * *
2493598 TCCTTAAACTTTTAAATATTTTAATTTTATCCCTAAACTATGACTATAATTCTAAATTAG
1 TCCTCAAACTTTTAAACATTTGAATTTCATCCATAAACTATAACTATAATTCTAAATTAG
* *
2493658 TCCTCAAACTTTTAAACATTTGAATTTCATCCATAAATTATAACCTA-GATTCTAAAT
1 TCCTCAAACTTTTAAACATTTGAATTTCATCCATAAACTATAA-CTATAATTCTAAAT
2493715 GAATCCCTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 45 0.94
61 3 0.06
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (60 bp):
TCCTCAAACTTTTAAACATTTGAATTTCATCCATAAACTATAACTATAATTCTAAATTAG
Found at i:2497420 original size:11 final size:12
Alignment explanation
Indices: 2497406--2497434 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
2497396 TTGATCCCGT
2497406 TTAATATTA-TA
1 TTAATATTATTA
2497417 TTAATATTATTA
1 TTAATATTATTA
2497429 TTAATA
1 TTAATA
2497435 ATACTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTAATATTATTA
Found at i:2501575 original size:11 final size:11
Alignment explanation
Indices: 2501559--2501592 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2501549 CAACACCTTT
2501559 CATTGCATTTA
1 CATTGCATTTA
**
2501570 CATTGCATCCA
1 CATTGCATTTA
2501581 CATTGCATTTA
1 CATTGCATTTA
2501592 C
1 C
2501593 TTATCTCATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.38
Consensus pattern (11 bp):
CATTGCATTTA
Found at i:2504041 original size:134 final size:134
Alignment explanation
Indices: 2503881--2505168 Score: 1294
Period size: 134 Copynumber: 9.6 Consensus size: 134
2503871 ACGAATCAAA
* * **
2503881 CTCGATTTAATCTTCT-ATGAGTGACAGTGGAATGAATCAACGTCCCCTGATCTGATTTTTTCTC
1 CTCGATTCAATCTTCTCA-GAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
* * *
2503945 AAGAAGAATCTGAACATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
65 AAGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
*
2504010 TCTGT
130 TCTGC
* * ** * *
2504015 CTCGATTCAATCTTCTCAAAGTGACAGTGGAATGAATCAACTTCATCTGATCTGATTTTCCCACA
1 CTCGATTCAATCTTCTCAGAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
* * * ** * * *
2504080 AGAAAAAGCGGGATAAATCCCCCACTTTCAAGATTTGATATTCCCCGAGTAATAGTGGAACAAGT
66 AGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
*
2504145 CTAC
131 CTGC
* * * * * *
2504149 CTCGATTAAATCTTCCTTA-AGTGACTA-TGGAATGGATCAA-TTCCCCTATATCTTATTTTCCC
1 CTCGATTCAATCTT-CTCAGAGTGAC-AGTGGAATGAATCAACGTCCCC-AGATCTGATTTTCCC
* * *
2504211 TCAAGAAGAAGCAGAACAAATCCATCTCTTTCAAGATTTCATATTCCCTTAGTAACAGTGGAACA
63 TCAAGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACA
2504276 AGTCTGC
128 AGTCTGC
* * * ** * * * * * *
2504283 CTCGATTCAATCATCCCAAAGTGGTAGTAGAATGAATCAACGTCCCTAGATCTGATATTGCATCC
1 CTCGATTCAATCTTCTCAGAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
* * * * * * * *
2504348 AGAAGAAGTGGAACATATCCCTTTATTACAAGATTTGATATTCCTTGAGTAACAGTGGAGCAAGT
66 AGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
*
2504413 CTAC
131 CTGC
* * * ** * *
2504417 CTCGATTCAATATT-TCCTGAGTGACAGTGGAATGGAT-AAAATCCCCCACATATGATTTTCCCT
1 CTCGATTCAATCTTCT-CAGAGTGACAGTGGAATGAATCAACGT-CCCCAGATCTGATTTTCCCT
** * *
2504480 CAAGAAGAAGCATAACAAATCTATCTCTTTCAAGATTTGATATTCCCTGAGTAACACTGGAACAA
64 CAAGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
2504545 GTCTGC
129 GTCTGC
* * * * * *
2504551 CTTGATTCAATCTTC-CATGAGTGATAGTGGAATGGATCAACATCCCCAAATCT-AATTTCCCTC
1 CTCGATTCAATCTTCTCA-GAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
* * * *
2504614 AAGAATAAGCAGAACAAATTCC-TCTCTTTCAAGATTTGATATTCCATGAGTAACATTGGAACAA
65 AAGAAGAAGCGGAACAAA-TCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
2504678 GTCTGC
129 GTCTGC
* * * * * *
2504684 CTCGATTCAATCTTC-CATGAGTGACAGAGGAATGGATCAAC-TCCTCATATTTGATTTTCCCTT
1 CTCGATTCAATCTTCTCA-GAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
* * *
2504747 AAGAAGAAGGGGAACAAATCTC-TCTCTTTCAAGA-TTGATTTTCCTTGAGTAACAGTGGAACAA
65 AAGAAGAAGCGGAACAAATC-CATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
*
2504810 GTCCGC
129 GTCTGC
* * * * *
2504816 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGGATCAATGTCCTCAGATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCTCAGAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
* * * * * *
2504881 AGAAAAAGCAGAACAAATCCCTTTCTTTCAAGATTTGATATTCCCTAAGTGACAGTGGAACAAGT
66 AGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
* *
2504946 ATAC
131 CTGC
* * * *
2504950 CTCGATTCAATCTTCTCTGAGTGATAGTGGAATGAATCAACTTCCCCAGATATGATTTTCCCTCA
1 CTCGATTCAATCTTCTCAGAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
* * * * * * *
2505015 AGAATAAGGGGAGCATATCCA-CGTCTTTCAAGATTTTATATTCCCTGAGTAAAAGTGGAATAAG
66 AGAAGAAGCGGAACAAATCCATC-TCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
**
2505079 TCTAT
130 TCTGC
* * * * *
2505084 CTCGATTCGATCTTCCCTGAG-CATCAGTGGAATGAATCAACGTCCCCAGATCTAATGTTT-CCT
1 CTCGATTCAATCTTCTCAGAGTGA-CAGTGGAATGAATCAACGTCCCCAGATCTGAT-TTTCCCT
* * *
2505147 CAAGGAGAAGCGAAACAGATCC
64 CAAGAAGAAGCGGAACAAATCC
2505169 CTCATCATAT
Statistics
Matches: 952, Mismatches: 180, Indels: 44
0.81 0.15 0.04
Matches are distributed among these distances:
132 78 0.08
133 205 0.22
134 653 0.69
135 16 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (134 bp):
CTCGATTCAATCTTCTCAGAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
AGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
CTGC
Found at i:2505312 original size:3 final size:3
Alignment explanation
Indices: 2505304--2505329 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2505294 TCGTCTCATT
2505304 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
2505330 TTTAATACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2505341 original size:13 final size:13
Alignment explanation
Indices: 2505301--2505344 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
2505291 TTTTCGTCTC
2505301 ATTTAATAATAAT
1 ATTTAATAATAAT
*
2505314 AATAATAATAATAAT
1 -AT-TTAATAATAAT
*
2505329 ATTTAATACTAAT
1 ATTTAATAATAAT
2505342 ATT
1 ATT
2505345 ATTATTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 12 0.46
14 4 0.15
15 10 0.38
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
ATTTAATAATAAT
Found at i:2505350 original size:19 final size:19
Alignment explanation
Indices: 2505304--2505342 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2505294 TCGTCTCATT
*
2505304 TAATAATA-ATAATAATAA
1 TAATAATATTTAATAATAA
*
2505322 TAATAATATTTAATACTAA
1 TAATAATATTTAATAATAA
2505341 TA
1 TA
2505343 TTATTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATAATATTTAATAATAA
Found at i:2506750 original size:28 final size:28
Alignment explanation
Indices: 2506692--2506761 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
2506682 CGTCAATATG
*
2506692 TTTTTATTTATTTTAATTCGTCCATAAA
1 TTTTTATTTATTTTAATTCGTCCACAAA
* * * *
2506720 TTTTAATTTATTTTAATTTGTCCCCACA
1 TTTTTATTTATTTTAATTCGTCCACAAA
*
2506748 TTTTTATTTTTTTT
1 TTTTTATTTATTTT
2506762 CCTTGTATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.63
Consensus pattern (28 bp):
TTTTTATTTATTTTAATTCGTCCACAAA
Found at i:2507620 original size:168 final size:171
Alignment explanation
Indices: 2507339--2507675 Score: 653
Period size: 168 Copynumber: 2.0 Consensus size: 171
2507329 TAATAGTACA
2507339 TGCCAACTATATCTGAAAGAACAAAAATACATATTATCTTTACTTTTCTTATATGAACTTCGTAA
1 TGCCAACTATATCTGAAAGAACAAAAATACATATTATCTTTACTTTTCTTATATGAACTTCGTAA
2507404 GGAAAATGTTGACCTATCTTGCTCCTCTTAGCTTCTCTTCTCGCTTTCCAACCTACGTGTGAAAC
66 GGAAAATGTTGACCTATCTTGCTCCTCTTAGCTTCTCTTCTCGCTTTCCAACCTACGTGTGAAAC
2507469 ATTCATACGCTAAGTCGACGACTTAGTGAGGCATATAAACT
131 ATTCATACGCTAAGTCGACGACTTAGTGAGGCATATAAACT
2507510 TGCCAACTATATCTGAAAGAA-AAAAATACATA-TATCTTTAC-TTTCTTATATGAACTTCGTAA
1 TGCCAACTATATCTGAAAGAACAAAAATACATATTATCTTTACTTTTCTTATATGAACTTCGTAA
2507572 GGAAAATGTTGACCTATCTTGCTCCTCTTAGCTTCTCTTCTCGCTTTCCAACCTACGTGTGAAAC
66 GGAAAATGTTGACCTATCTTGCTCCTCTTAGCTTCTCTTCTCGCTTTCCAACCTACGTGTGAAAC
2507637 ATTCATACGCTAAGTCGACGACTTAGTGAGGCATATAAA
131 ATTCATACGCTAAGTCGACGACTTAGTGAGGCATATAAA
2507676 ACTTATAATG
Statistics
Matches: 166, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
168 125 0.75
169 9 0.05
170 11 0.07
171 21 0.13
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (171 bp):
TGCCAACTATATCTGAAAGAACAAAAATACATATTATCTTTACTTTTCTTATATGAACTTCGTAA
GGAAAATGTTGACCTATCTTGCTCCTCTTAGCTTCTCTTCTCGCTTTCCAACCTACGTGTGAAAC
ATTCATACGCTAAGTCGACGACTTAGTGAGGCATATAAACT
Found at i:2508052 original size:23 final size:23
Alignment explanation
Indices: 2508026--2508070 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2508016 TCTCGTATAA
2508026 TACACCAAAGTGCCACGTAGAAT
1 TACACCAAAGTGCCACGTAGAAT
** *
2508049 TACACCGTAGTGCCGCGTAGAA
1 TACACCAAAGTGCCACGTAGAA
2508071 ATGCTCTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (23 bp):
TACACCAAAGTGCCACGTAGAAT
Found at i:2508907 original size:33 final size:34
Alignment explanation
Indices: 2508853--2508916 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 34
2508843 AGTTTTCTTC
*
2508853 AATTCTCCATAAATCATATAACTCTA-ATACATT
1 AATTCTCCATAAATCATATAACACTATATACATT
* *
2508886 AATTCT-CATAATTGATCATAACACTATATAC
1 AATTCTCCATAAATCAT-ATAACACTATATAC
2508917 TTATAACACC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
32 8 0.31
33 14 0.54
34 4 0.15
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (34 bp):
AATTCTCCATAAATCATATAACACTATATACATT
Found at i:2509815 original size:23 final size:23
Alignment explanation
Indices: 2509789--2509847 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
2509779 CATATAAATG
2509789 CACCGAAGTGCCACATAGAATTA
1 CACCGAAGTGCCACATAGAATTA
* *
2509812 CACCGAAGTGCCGCGTAGAATTA
1 CACCGAAGTGCCACATAGAATTA
2509835 CACCGAAGTGCCA
1 CACCGAAGTGCCA
2509848 TATAAAATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.34, C:0.29, G:0.22, T:0.15
Consensus pattern (23 bp):
CACCGAAGTGCCACATAGAATTA
Found at i:2515618 original size:92 final size:91
Alignment explanation
Indices: 2515432--2515631 Score: 327
Period size: 92 Copynumber: 2.2 Consensus size: 91
2515422 CTTATTCTTG
2515432 AACTCTTCTA-CAA-TTTCTATTGTATCATTTGATATTTTACATCCTTTGTTGACATTGTTCACC
1 AACTC-TCTATCAACTTT-TATTGTATCATTTGATATTTTACATCCTTTGTTGACATTGTTCACC
2515495 ATATTCTATCCTATCCACGTAATAACAA
64 ATATTCTATCCTATCCACGTAATAACAA
2515523 AACTACTCTATCAACTTTTATTGTATCATTTGATATTTTA-ATCCTTATGTTGACACTTGTTCAC
1 AACT-CTCTATCAACTTTTATTGTATCATTTGATATTTTACATCCTT-TGTTGACA-TTGTTCAC
2515587 CATATTCTATCCTATCCACGTAATAAC-A
63 CATATTCTATCCTATCCACGTAATAACAA
2515615 AACTCTCTATCAACTTT
1 AACTCTCTATCAACTTT
2515632 CTGATTCAAA
Statistics
Matches: 104, Mismatches: 0, Indels: 10
0.91 0.00 0.09
Matches are distributed among these distances:
91 27 0.26
92 39 0.38
93 38 0.37
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (91 bp):
AACTCTCTATCAACTTTTATTGTATCATTTGATATTTTACATCCTTTGTTGACATTGTTCACCAT
ATTCTATCCTATCCACGTAATAACAA
Found at i:2516090 original size:49 final size:51
Alignment explanation
Indices: 2516021--2516117 Score: 180
Period size: 49 Copynumber: 1.9 Consensus size: 51
2516011 AGTCTGAGGT
2516021 GTCACATTGACTTTTCAAACGTTTTTCTTTACC-AAATGGTAAAAATTGAG
1 GTCACATTGACTTTTCAAACGTTTTTCTTTACCAAAATGGTAAAAATTGAG
2516071 GTCACA-TGACTTTTCAAACGTTTTTCTTTACCAAAATGGTAAAAATT
1 GTCACATTGACTTTTCAAACGTTTTTCTTTACCAAAATGGTAAAAATT
2516118 TAAATCACAG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
49 26 0.57
50 20 0.43
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (51 bp):
GTCACATTGACTTTTCAAACGTTTTTCTTTACCAAAATGGTAAAAATTGAG
Found at i:2520946 original size:268 final size:268
Alignment explanation
Indices: 2520410--2520951 Score: 851
Period size: 268 Copynumber: 2.0 Consensus size: 268
2520400 TAAATTACAC
* * * *
2520410 ATTTAGTAGCTGAACTTTACTCTATCTCTTATTCCACTCATCGCACTTTCAGTTATTTTTTTTCA
1 ATTTGGTAGCTGAACTTTACTC-ATCTCCTATTCCACTCATCGCAATTTCAGCTATTTTTTTTCA
* **
2520475 ATTTAATCACTGAAACCATATAGATTAATTTTTTGGTCACTTCGTCGTTAATCTTGTAACAACAT
65 ATTTAATCACTGAAACCATATAGATTAATTTTTTGGTCACTCCGTCAATAATCTTGTAACAACAT
2520540 TATGCGGATTAGATAAATTTTTTAATCGTTAAAATAGTGTAAATAACACGTAAGAAAAAATAAAA
130 TATGCGGATTAGATAAATTTTTTAATCGTTAAAATAGTGTAAATAACACGTAAGAAAAAATAAAA
** *
2520605 TTACTAAAAAATTAAGATAAATAAATTACCCAATTGACTATTCGTTTAACTTTGATTTACCTAAA
195 TTACTAAAAAATTAAGATAAATAAATTACCCAAACGACTATTCGTTTAACCTTGATTTACCTAAA
2520670 GCACGGAGA
260 GCACGGAGA
* * * *
2520679 ATTTGGTAGCTGAATTTTACTC-TCTCCTATTCTATTCATCGCAATTTCA-CT-TTTTTTTTCTA
1 ATTTGGTAGCTGAACTTTACTCATCTCCTATTCCACTCATCGCAATTTCAGCTATTTTTTTTCAA
*
2520741 TTTAATCACTGAAACCATATAGA-TATTTTTTTGGTCACTCCGTCAATAATCTTGTAACAACATT
66 TTTAATCACTGAAACCATATAGATTAATTTTTTGGTCACTCCGTCAATAATCTTGTAACAACATT
*
2520805 ATGATGGATTAGAT-AATGATTTTTAATCGTTAAAATAGTGTAAATAACACGTAAGAAAATAATA
131 ATG-CGGATTAGATAAAT--TTTTTAATCGTTAAAATAGTGTAAATAACACGTAAGAAAA-AATA
2520869 AAATTACTAAAAAATTAAGATAAATAAAATTACCCAAACGACTATTCGTTTAACCTTGATTTACC
192 AAATTACTAAAAAATTAAGATAAAT-AAATTACCCAAACGACTATTCGTTTAACCTTGATTTACC
2520934 TAAAGCACGGAGA
256 TAAAGCACGGAGA
2520947 ATTTG
1 ATTTG
2520952 CTTCTCAAAT
Statistics
Matches: 252, Mismatches: 16, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
264 43 0.17
265 42 0.17
266 41 0.16
267 52 0.21
268 54 0.21
269 20 0.08
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (268 bp):
ATTTGGTAGCTGAACTTTACTCATCTCCTATTCCACTCATCGCAATTTCAGCTATTTTTTTTCAA
TTTAATCACTGAAACCATATAGATTAATTTTTTGGTCACTCCGTCAATAATCTTGTAACAACATT
ATGCGGATTAGATAAATTTTTTAATCGTTAAAATAGTGTAAATAACACGTAAGAAAAAATAAAAT
TACTAAAAAATTAAGATAAATAAATTACCCAAACGACTATTCGTTTAACCTTGATTTACCTAAAG
CACGGAGA
Found at i:2522491 original size:138 final size:137
Alignment explanation
Indices: 2522284--2522632 Score: 499
Period size: 138 Copynumber: 2.5 Consensus size: 137
2522274 TCTCACATTA
*
2522284 ACATCTCGATTATTCAATTCT-ATAATTGGTTAA-AAATTAGGG-TAATATTAGAGCCTCCATTT
1 ACATTTCGATTATTCAATT-TAATAATTGGTTAATAAATTAGGGTTAATATTAGAGCCTCCATTT
* *
2522346 TATGTTTAATTTCACTTTAGTCCTCTAATTTATGGATAATTTGAATTGGCTCTCGCATTAACATG
65 TAGGTTTAATTTCACTTTAGTCCTCTAATTTAGGGATAATTTGAATTGGCTCTCGCATTAACATG
*
2522411 CTCGAGGG
130 CCCGAGGG
* * *
2522419 ACATTTCGATTATTCAATTTAATAATTGATTAACTAAATTAGGGTTAATATTATAGCCTCCAATT
1 ACATTTCGATTATTCAATTTAATAATTGGTTAA-TAAATTAGGGTTAATATTAGAGCCTCCATTT
*
2522484 TAGGTTTAATTTCACTTTAGTCCTTTAATTTAGGGATAATTTGAATTGGCTCTCGCATTAACATG
65 TAGGTTTAATTTCACTTTAGTCCTCTAATTTAGGGATAATTTGAATTGGCTCTCGCATTAACATG
2522549 CCCGAGGG
130 CCCGAGGG
* * * *
2522557 ACCCA-TTCGATTATTCTATTCAATAATTGGTTAAAATAAATTAGGATTAATATTAGAGTCTCCA
1 A--CATTTCGATTATTCAATTTAATAATTGGTT--AATAAATTAGGGTTAATATTAGAGCCTCCA
2522621 TTTTCAGGTTTA
62 TTTT-AGGTTTA
2522633 GTCCTCTATG
Statistics
Matches: 190, Mismatches: 15, Indels: 12
0.88 0.07 0.06
Matches are distributed among these distances:
134 1 0.01
135 29 0.15
137 9 0.05
138 88 0.46
139 24 0.13
140 30 0.16
141 9 0.05
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (137 bp):
ACATTTCGATTATTCAATTTAATAATTGGTTAATAAATTAGGGTTAATATTAGAGCCTCCATTTT
AGGTTTAATTTCACTTTAGTCCTCTAATTTAGGGATAATTTGAATTGGCTCTCGCATTAACATGC
CCGAGGG
Found at i:2539662 original size:20 final size:20
Alignment explanation
Indices: 2539637--2539674 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2539627 TTTGGTTCGC
*
2539637 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAGTG
2539657 GGAATAAAAGATTACCAG
1 GGAATAAAAGATTACCAG
2539675 GAATACGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.21
Consensus pattern (20 bp):
GGAATAAAAGATTACCAGTG
Found at i:2544113 original size:26 final size:25
Alignment explanation
Indices: 2544032--2544118 Score: 147
Period size: 25 Copynumber: 3.4 Consensus size: 25
2544022 GAAAAGTGGA
2544032 GAGAGAAGCTTAAGGGATTATTAAAC
1 GAGA-AAGCTTAAGGGATTATTAAAC
2544058 GAGAAAGCTTAAGGGATTATTAAAC
1 GAGAAAGCTTAAGGGATTATTAAAC
*
2544083 GAGAAAGCTTAAGGGATTTGTTAAAC
1 GAGAAAGCTTAAGGGA-TTATTAAAC
2544109 GAGAAAGCTT
1 GAGAAAGCTT
2544119 CAGATTTGGG
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
25 37 0.63
26 22 0.37
ACGTcount: A:0.41, C:0.08, G:0.26, T:0.24
Consensus pattern (25 bp):
GAGAAAGCTTAAGGGATTATTAAAC
Found at i:2546511 original size:82 final size:82
Alignment explanation
Indices: 2546384--2546770 Score: 375
Period size: 82 Copynumber: 4.7 Consensus size: 82
2546374 CTTTAGCGGC
* * ** *
2546384 GTTTTTATACAAACGTCGTAATAGGGTCATCTCTAGTGGTGTTTTTTCAACAAATGCCGCAATAG
1 GTTTTTATACAAACGTCGCAATAGGGTCATCTATAGTGGCATTTTTTCAACAAACGCCGCAATAG
*
2546449 AGTAATACTTTAGTGAT
66 AGTAGTACTTTAGTGAT
* * * **
2546466 GTTTTTATACAAATGACGCAATAGGGTTCATTTATAGTGG-ATTTTTTCAACAAACGCCGCAACG
1 GTTTTTATACAAACGTCGCAATAGGG-TCATCTATAGTGGCATTTTTTCAACAAACGCCGCAATA
* **
2546530 GAGTAGTACTTTAGCGGC
65 GAGTAGTACTTTAGTGAT
* ** *
2546548 CTTTTTATACAAACGTCGCAATAAAGTCATCTATAGTGGCATTTTTTCAACAAACGTCGCAATAG
1 GTTTTTATACAAACGTCGCAATAGGGTCATCTATAGTGGCATTTTTTCAACAAACGCCGCAATAG
2546613 AGTAGTACTTTAGT-AGT
66 AGTAGTACTTTAGTGA-T
* ** * * * * *
2546630 GTTTTTATATAAACGTCGCAATAGGGTTCATCTATAGTGGTTTGTTTTTCTACAAACGTCACGAC
1 GTTTTTATACAAACGTCGCAATAGGG-TCATCTATAGTGGCAT-TTTTTCAACAAACGCCGCAAT
* * * **
2546695 AAAGTATTACTTTAGCGGC
64 AGAGTAGTACTTTAGTGAT
* * * * *
2546714 GTTTTTATACAAAC-ACAGTAATAGGGTTTATCTATAATGGCATTTTTTTAACAAACG
1 GTTTTTATACAAACGTC-GCAATAGGG-TCATCTATAGTGGCATTTTTTCAACAAACG
2546771 GTGCTAAAAG
Statistics
Matches: 249, Mismatches: 49, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
81 12 0.05
82 135 0.54
83 38 0.15
84 64 0.26
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (82 bp):
GTTTTTATACAAACGTCGCAATAGGGTCATCTATAGTGGCATTTTTTCAACAAACGCCGCAATAG
AGTAGTACTTTAGTGAT
Found at i:2546635 original size:41 final size:41
Alignment explanation
Indices: 2546373--2546727 Score: 187
Period size: 41 Copynumber: 8.6 Consensus size: 41
2546363 CAAAATTATA
* * * *
2546373 ACTTTAGCGGCGTTTTTATACAAACGTCGTAATAGGGTCA-T
1 ACTTTAGTGGTGTTTTTATACAAACGTCGCAATAGAGT-AGT
* * * *
2546414 -CTCTAGTGGTGTTTTT-TCAACAAATGCCGCAATAGAGTAAT
1 ACTTTAGTGGTGTTTTTAT--ACAAACGTCGCAATAGAGTAGT
* * * *
2546455 ACTTTAGTGATGTTTTTATACAAATGACGCAATAGGGT--T
1 ACTTTAGTGGTGTTTTTATACAAACGTCGCAATAGAGTAGT
* * **
2546494 CATTTATAGTGGAT-TTTTTCA-ACAAACGCCGCAACGGAGTAGT
1 -ACTT-TAGTGG-TGTTTTT-ATACAAACGTCGCAATAGAGTAGT
* ** *
2546537 ACTTTAGCGGCCTTTTTATACAAACGTCGCAATAAAGTCA-T
1 ACTTTAGTGGTGTTTTTATACAAACGTCGCAATAGAGT-AGT
*
2546578 -CTATAGTGGCAT-TTTTTCA-ACAAACGTCGCAATAGAGTAGT
1 ACTTTAGTGG--TGTTTTT-ATACAAACGTCGCAATAGAGTAGT
* * *
2546619 ACTTTAGTAGTGTTTTTATATAAACGTCGCAATAGGGT--T
1 ACTTTAGTGGTGTTTTTATACAAACGTCGCAATAGAGTAGT
* * * * * * *
2546658 CATCTATAGTGGTTTGTTTTTCTACAAACGTCACGACAAAGTATT
1 -A-CTTTAGTGG--TGTTTTTATACAAACGTCGCAATAGAGTAGT
* *
2546703 ACTTTAGCGGCGTTTTTATACAAAC
1 ACTTTAGTGGTGTTTTTATACAAAC
2546728 ACAGTAATAG
Statistics
Matches: 241, Mismatches: 46, Indels: 54
0.71 0.13 0.16
Matches are distributed among these distances:
39 3 0.01
40 29 0.12
41 149 0.62
42 28 0.12
43 30 0.12
44 1 0.00
45 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (41 bp):
ACTTTAGTGGTGTTTTTATACAAACGTCGCAATAGAGTAGT
Found at i:2546652 original size:164 final size:166
Alignment explanation
Indices: 2546373--2546727 Score: 482
Period size: 164 Copynumber: 2.2 Consensus size: 166
2546363 CAAAATTATA
* ** * **
2546373 ACTTTAGCGGCGTTTTTATACAAACGTCGTAATAGGGTCATCTCTAGTGGTGTTTTTTCAACAAA
1 ACTTTAGCGGCGTTTTTATACAAACGTCGCAATAAAGTCATCTATAGTGGCATTTTTTCAACAAA
* * *
2546438 TGCCGCAATAGAGTAATACTTTAGTGATGTTTTTATACAAATGACGCAATAGGGTTCATTTATAG
66 CGCCGCAATAGAGTAATACTTTAGTGATGTTTTTATACAAACGACGCAATAGGGTTCATCTATAG
* **
2546503 TGG-AT-TTTTTCAACAAACGCCGCAACGGAGTAGT
131 TGGTATGTTTTTCAACAAACGCCACAACAAAGTAGT
*
2546537 ACTTTAGCGGCCTTTTTATACAAACGTCGCAATAAAGTCATCTATAGTGGCATTTTTTCAACAAA
1 ACTTTAGCGGCGTTTTTATACAAACGTCGCAATAAAGTCATCTATAGTGGCATTTTTTCAACAAA
* * * *
2546602 CGTCGCAATAGAGTAGTACTTTAGT-AGTGTTTTTATATAAACGTCGCAATAGGGTTCATCTATA
66 CGCCGCAATAGAGTAATACTTTAGTGA-TGTTTTTATACAAACGACGCAATAGGGTTCATCTATA
* * * * *
2546666 GTGGTTTGTTTTTCTACAAACGTCACGACAAAGTATT
130 GTGGTATGTTTTTCAACAAACGCCACAACAAAGTAGT
2546703 ACTTTAGCGGCGTTTTTATACAAAC
1 ACTTTAGCGGCGTTTTTATACAAAC
2546728 ACAGTAATAG
Statistics
Matches: 165, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
163 1 0.01
164 117 0.71
165 1 0.01
166 46 0.28
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (166 bp):
ACTTTAGCGGCGTTTTTATACAAACGTCGCAATAAAGTCATCTATAGTGGCATTTTTTCAACAAA
CGCCGCAATAGAGTAATACTTTAGTGATGTTTTTATACAAACGACGCAATAGGGTTCATCTATAG
TGGTATGTTTTTCAACAAACGCCACAACAAAGTAGT
Found at i:2548489 original size:72 final size:69
Alignment explanation
Indices: 2548384--2548520 Score: 231
Period size: 72 Copynumber: 1.9 Consensus size: 69
2548374 TAAGTATATG
2548384 CAGTAGGAAATACACACAATACATATAGGTCAGAAATTAATACTGGTTTGTCAAAAAAAAAAAAA
1 CAGTAGGAAATACACACAATACATATAGGTCAGAAATTAATACTGGTTTGTCAAAAAAAAAAAAA
2548449 GATT
66 GATT
2548453 CAGTAGGAAATATCAAGCACAATACATA-AGGTTCAGAAATTAATACTGGTTTGTCAAAAAAAAA
1 CAGTAGGAAATA-C-A-CACAATACATATAGG-TCAGAAATTAATACTGGTTTGTCAAAAAAAAA
2548517 AAAA
62 AAAA
2548521 AAAGATTAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
69 12 0.19
70 1 0.02
71 4 0.06
72 47 0.73
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.23
Consensus pattern (69 bp):
CAGTAGGAAATACACACAATACATATAGGTCAGAAATTAATACTGGTTTGTCAAAAAAAAAAAAA
GATT
Found at i:2549137 original size:17 final size:17
Alignment explanation
Indices: 2549115--2549152 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
2549105 GCCTTCCATT
2549115 TGACTATAGCAAGCGTA
1 TGACTATAGCAAGCGTA
2549132 TGACTATAGCAAGCGTA
1 TGACTATAGCAAGCGTA
2549149 TGAC
1 TGAC
2549153 GGCCTCCGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (17 bp):
TGACTATAGCAAGCGTA
Found at i:2555845 original size:21 final size:21
Alignment explanation
Indices: 2555815--2555885 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
2555805 GATAGACACT
*
2555815 TTACAATATAACCACTACCTA
1 TTACATTATAACCACTACCTA
*
2555836 TTACATTATAAACGA-TACCTA
1 TTACATTAT-AACCACTACCTA
* *
2555857 TTACATTATATAAGCGCTACCTA
1 TTACA-T-TATAACCACTACCTA
2555880 TTACAT
1 TTACAT
2555886 CATATTTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 19 0.46
22 8 0.20
23 14 0.34
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (21 bp):
TTACATTATAACCACTACCTA
Found at i:2555877 original size:23 final size:22
Alignment explanation
Indices: 2555820--2555890 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
2555810 ACACTTTACA
*
2555820 ATATAACCACTACCTATTACATT
1 ATATAA-CGCTACCTATTACATT
*
2555843 ATA-AACGATACCTATTACATT
1 ATATAACGCTACCTATTACATT
*
2555864 ATATAAGCGCTACCTATTACATC
1 ATATAA-CGCTACCTATTACATT
2555887 ATAT
1 ATAT
2555891 TTTTACCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.40
22 4 0.10
23 21 0.50
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (22 bp):
ATATAACGCTACCTATTACATT
Found at i:2556003 original size:423 final size:424
Alignment explanation
Indices: 2555477--2556507 Score: 1867
Period size: 416 Copynumber: 2.5 Consensus size: 424
2555467 ATTACATTAT
2555477 TTATATTGAAAGTGTCC--ACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTT
1 TTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTT
2555540 ATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
66 ATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
2555605 TGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATA
131 TGCACAAAAAATTATTTGATTATTTGATA-TTTATAAAATATTATTTAGAATTTTTAATTTAATA
2555670 ATAATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTA
195 AT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTA
2555734 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTG-AAAAAGTATGGACACTTTTA
258 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACAC-TTTA
2555798 TAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACA-T-TATAAACGATACCTATTAC
322 TAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTAC
2555861 ATTATATAAGCGCTACCTATTACATCATATTTTTACCTA
387 ATTATATAAGCGCTACCTATTACATCATA-TTTTACCTA
2555900 TTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTC-TTTAAAGTTATGTAATTT
1 TTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTT
2555964 ATGTTTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
66 ATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
*
2556028 TGCAC---AAATTATTTGATTA-TTGATATTT-TAAAATATTATTTAGAATTTTTATTTTAATAA
131 TGCACAAAAAATTATTTGATTATTTGATATTTATAAAATATTATTTAGAATTTTTAATTTAATAA
2556088 TAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTAAAA
196 TAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTAAAA
*
2556153 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTATAAA
261 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTTTATAAA
2556218 AAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTA
326 AAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTA
2556283 TATAAGCGCTACCTATTACATCATATTTTACCTA
391 TATAAGCGCTACCTATTACATCATATTTTACCTA
2556317 TTATATTGAAAGTGTCCATACTTTTTATAAAAA-GATCGATACTTCTTTTAAAGTTATGTAATTT
1 TTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTT
2556381 ATGTTTCAATTTTTTTTAATAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAATTTCAT
66 ATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAT
* *
2556445 TTGCATAAAAAATTATTTGATTTTTTGATATTTATAAAATATTATTTAGAATTTTTAATTTAA
130 TTGCACAAAAAATTATTTGATTATTTGATATTTATAAAATATTATTTAGAATTTTTAATTTAA
2556508 CAACATTAAC
Statistics
Matches: 589, Mismatches: 5, Indels: 28
0.95 0.01 0.05
Matches are distributed among these distances:
415 14 0.02
416 148 0.25
417 117 0.20
418 89 0.15
419 26 0.04
420 14 0.02
421 13 0.02
422 9 0.02
423 105 0.18
424 27 0.05
425 27 0.05
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.42
Consensus pattern (424 bp):
TTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTT
ATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
TGCACAAAAAATTATTTGATTATTTGATATTTATAAAATATTATTTAGAATTTTTAATTTAATAA
TAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTAAAA
CTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTTTATAAA
AAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTA
TATAAGCGCTACCTATTACATCATATTTTACCTA
Found at i:2556220 original size:20 final size:20
Alignment explanation
Indices: 2556195--2556233 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2556185 TCTACAGTGA
* *
2556195 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
2556215 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
2556234 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:2556272 original size:23 final size:23
Alignment explanation
Indices: 2556246--2556308 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2556236 ATATAACCAC
2556246 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2556269 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2556292 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2556309 TTTACCTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2556774 original size:38 final size:39
Alignment explanation
Indices: 2556723--2556807 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
2556713 CAAGTTGTAG
*
2556723 ATTTTGATTTCC-TTTGCTTGGCATCATATGAGATTTAA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTAA
* **
2556761 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTAA
2556800 ATTTTGAT
1 ATTTTGAT
2556808 GAGCATCGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 12 0.29
39 30 0.71
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTAA
Found at i:2557552 original size:20 final size:20
Alignment explanation
Indices: 2557527--2557577 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
2557517 TATATAACGA
* *
2557527 ATTACATTATAGCGCTACCT
1 ATTACATTATAACGATACCT
2557547 ATTACATTATATAACGATACCT
1 ATTACA-T-TATAACGATACCT
2557569 ATTACATTA
1 ATTACATTA
2557578 GATACTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 2 0.07
22 17 0.63
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (20 bp):
ATTACATTATAACGATACCT
Found at i:2560429 original size:181 final size:182
Alignment explanation
Indices: 2560033--2560688 Score: 1155
Period size: 181 Copynumber: 3.6 Consensus size: 182
2560023 GACACTTTTA
** *
2560033 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGATCATACA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
*
2560098 ACCGGTATATTT-TACCTGTTATATTAC-AAATTATCTA-TACA-TATAATTATGGGTTTCCGAT
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGG-TTCCGAT
2560159 GTGTAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
130 GTGTAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
2560212 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
2560277 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
2560342 TGTAAATGTCGACACTTTTTAAATCGTATCGACAC-TTTTTCTTCCAATATG
131 TGTAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
* *
2560393 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATACA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
*
2560458 ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
2560523 TGTAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCC-ATATG
131 TGTAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
2560574 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
* * * *
2560639 ACCGGTATATTTATACCGGTTATATTGCAAATTTACCTATT-TATTATAAT
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
2560689 ATGTTGAAAG
Statistics
Matches: 458, Mismatches: 14, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
179 74 0.16
180 22 0.05
181 293 0.64
182 57 0.12
183 12 0.03
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (182 bp):
GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
TGTAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
Found at i:2562146 original size:3 final size:3
Alignment explanation
Indices: 2562138--2562206 Score: 57
Period size: 3 Copynumber: 23.0 Consensus size: 3
2562128 ACTTGTTTGG
* * * ** * *
2562138 ATC ATC ATC TTC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC AGC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* *
2562186 ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC
2562207 GTCAGCTTCA
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:2562155 original size:12 final size:12
Alignment explanation
Indices: 2562138--2562221 Score: 78
Period size: 12 Copynumber: 7.0 Consensus size: 12
2562128 ACTTGTTTGG
2562138 ATCATCATCTTC
1 ATCATCATCTTC
*
2562150 ATCATCATCATC
1 ATCATCATCTTC
*
2562162 GTCATCATCTTC
1 ATCATCATCTTC
** *
2562174 ATCGCCAGCTTC
1 ATCATCATCTTC
*
2562186 ATCATCATCGTC
1 ATCATCATCTTC
* *
2562198 ATCTTCATCGTC
1 ATCATCATCTTC
* *
2562210 AGCTTCATCTTC
1 ATCATCATCTTC
2562222 TACGACCGCT
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 58 1.00
ACGTcount: A:0.21, C:0.35, G:0.07, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:2562161 original size:18 final size:18
Alignment explanation
Indices: 2562138--2562221 Score: 78
Period size: 18 Copynumber: 4.7 Consensus size: 18
2562128 ACTTGTTTGG
2562138 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* * *
2562156 ATCATCGTCATCATCTTC
1 ATCATCATCTTCATCATC
** *
2562174 ATCGCCAGCTTCATCATC
1 ATCATCATCTTCATCATC
* *
2562192 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
2562210 AGCTTCATCTTC
1 ATCATCATCTTC
2562222 TACGACCGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.21, C:0.35, G:0.07, T:0.37
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:2562188 original size:30 final size:30
Alignment explanation
Indices: 2562154--2562218 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
2562144 ATCTTCATCA
*
2562154 TCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCTTCATCGCCAGCT
* *
2562184 TCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCTTCATCGCCAGCT
2562214 TCATC
1 TCATC
2562219 TTCTACGACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.20, C:0.35, G:0.09, T:0.35
Consensus pattern (30 bp):
TCATCATCATCATCATCTTCATCGCCAGCT
Found at i:2562221 original size:6 final size:6
Alignment explanation
Indices: 2562142--2562221 Score: 61
Period size: 6 Copynumber: 13.3 Consensus size: 6
2562132 GTTTGGATCA
* * * * * * * *
2562142 TCATCT TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT TCATCA
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * *
2562190 TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TC
2562222 TACGACCGCT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.20, C:0.35, G:0.07, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:2564792 original size:197 final size:197
Alignment explanation
Indices: 2563673--2564941 Score: 2383
Period size: 196 Copynumber: 6.5 Consensus size: 197
2563663 TTTAAATTAG
2563673 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2563738 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2563803 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
2563868 AA
196 AA
2563870 TATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2563934 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2563999 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
2564064 AA
196 AA
2564066 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT-
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
2564130 TTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2564195 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
2564260 AA
196 AA
* *
2564262 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATACTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2564327 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
2564392 CGACAC-TTTT-TATATGGATCGACATTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
2564454 AA
196 AA
*
2564456 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATA--CTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2564519 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2564584 CGACACTTTTTATATATGGATCGACAC-TTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AAAA
2564648 AAA
195 AAA
2564651 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2564716 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2564781 CGACGCTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
2564846 AA
196 AA
*
2564848 TATCGACACAAACTATATTAGTGTCGACGCATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2564913 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
2564942 CCTTTTGGCC
Statistics
Matches: 1050, Mismatches: 13, Indels: 18
0.97 0.01 0.02
Matches are distributed among these distances:
192 90 0.09
193 36 0.03
194 62 0.06
195 95 0.09
196 392 0.37
197 343 0.33
198 32 0.03
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AA
Found at i:2564867 original size:586 final size:588
Alignment explanation
Indices: 2563673--2564941 Score: 2377
Period size: 586 Copynumber: 2.2 Consensus size: 588
2563663 TTTAAATTAG
2563673 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2563738 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2563803 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
*
2563868 AATATCGACACAAACTATATTAGTGTCGACACATTATTAGACATATTCTCACATAAAACCGGTAT
196 AATATCGACACAAAATATATTAGTGTCGACACATTATTAGACATA-TCTCACATAAAACCGGTAT
2563933 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
260 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
*
2563998 TCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
325 TCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
2564063 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
390 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
*
2564128 ATTTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
455 ATATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
2564193 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
520 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
*
2564258 TAAA
585 AAAA
* *
2564262 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATACTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2564327 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
2564392 CGACAC-TTTT-TATATGGATCGACATTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
2564454 AATATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATA-CTCACATAAAACCGGTAT
196 AATATCGACACAAAATATATTAGTGTCGACACATTA-TTAGACATATCTCACATAAAACCGGTAT
2564518 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
260 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
2564583 TCGACACTTTTTATATATGGATCGACAC-TTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
325 TCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
2564647 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGG
389 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGG
2564712 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
454 TAT-ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
2564777 GGATCGACGCTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGA
518 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGA
2564842 AAAAAA
583 AAAAAA
*
2564848 TATCGACACAAACTATATTAGTGTCGACGCATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2564913 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
2564942 CCTTTTGGCC
Statistics
Matches: 665, Mismatches: 12, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
584 32 0.05
585 181 0.27
586 258 0.39
587 56 0.08
588 4 0.01
589 134 0.20
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (588 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AATATCGACACAAAATATATTAGTGTCGACACATTATTAGACATATCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
TATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAA
Found at i:2565112 original size:19 final size:19
Alignment explanation
Indices: 2565066--2565114 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2565056 TTATATTCAC
*
2565066 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
2565085 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2565104 ATACAAAATTA
1 ATACAAAATTA
2565115 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2566934 original size:33 final size:33
Alignment explanation
Indices: 2566897--2566962 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2566887 CATCTTAATA
*
2566897 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
2566930 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
2566963 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:2567035 original size:21 final size:21
Alignment explanation
Indices: 2566995--2567059 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
2566985 CCCCTTATGC
* *
2566995 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
2567016 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
2567037 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
2567058 CT
1 CT
2567060 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:2569306 original size:17 final size:18
Alignment explanation
Indices: 2569284--2569326 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
2569274 ATATATCCGA
2569284 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
2569301 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
2569321 TATCAT
1 TATCAT
2569327 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:2569344 original size:20 final size:19
Alignment explanation
Indices: 2569289--2569335 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
2569279 TCCGATATCA
2569289 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
2569308 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
2569329 TTTTACC
1 TTTTACC
2569336 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:2569482 original size:20 final size:20
Alignment explanation
Indices: 2569456--2569501 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
2569446 CACTTTTAAA
2569456 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
2569475 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
2569496 TTTACC
1 TTTACC
2569502 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:2586912 original size:16 final size:16
Alignment explanation
Indices: 2586890--2586928 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
2586880 ATAAAAAAAG
*
2586890 CATACATCAACATATA
1 CATACATCAACACATA
*
2586906 TATACATCAACACATA
1 CATACATCAACACATA
2586922 CATACAT
1 CATACAT
2586929 GTTTCATGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
CATACATCAACACATA
Found at i:2587391 original size:37 final size:37
Alignment explanation
Indices: 2587350--2587480 Score: 187
Period size: 37 Copynumber: 3.6 Consensus size: 37
2587340 AACAAGTGTC
*
2587350 GTCTCGCTAT-AGACAAGTTTTCT-TAAAAACCAATTTT
1 GTCTCGCT-TGAGAC-AGTTTTCTCTAAAAACAAATTTT
2587387 GTCTCGCTTGAGACAGTTTTCTCTAAAAACAAATTTT
1 GTCTCGCTTGAGACAGTTTTCTCTAAAAACAAATTTT
* * *
2587424 GTCTCGCTTGAGACA-ATTTCTCTCAAAACAAATTTC
1 GTCTCGCTTGAGACAGTTTTCTCTAAAAACAAATTTT
2587460 GTCTCGCTTGAGACAGTTTTC
1 GTCTCGCTTGAGACAGTTTTC
2587481 CCTTGAGATG
Statistics
Matches: 86, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
36 42 0.49
37 44 0.51
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (37 bp):
GTCTCGCTTGAGACAGTTTTCTCTAAAAACAAATTTT
Found at i:2587452 original size:36 final size:36
Alignment explanation
Indices: 2587329--2587474 Score: 161
Period size: 37 Copynumber: 4.0 Consensus size: 36
2587319 CTTTGAGAGT
** * *
2587329 ATTTCTCTCGAAACAAGTGTCGTCTCGCTAT-AGACA
1 ATTTCTCTAAAAACAAATTTCGTCTCGCT-TGAGACA
* *
2587365 AGTTT-TCTTAAAAACCAATTTTGTCTCGCTTGAGACA
1 A-TTTCTC-TAAAAACAAATTTCGTCTCGCTTGAGACA
* *
2587402 GTTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
1 -ATTTCTCTAAAAACAAATTTCGTCTCGCTTGAGACA
*
2587439 ATTTCTCTCAAAACAAATTTCGTCTCGCTTGAGACA
1 ATTTCTCTAAAAACAAATTTCGTCTCGCTTGAGACA
2587475 GTTTTCCCTT
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
36 37 0.39
37 55 0.59
38 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (36 bp):
ATTTCTCTAAAAACAAATTTCGTCTCGCTTGAGACA
Found at i:2587738 original size:99 final size:101
Alignment explanation
Indices: 2587627--2587815 Score: 249
Period size: 101 Copynumber: 1.9 Consensus size: 101
2587617 CAAAACAAAT
* ** *
2587627 TTCATCTCGCTTGAGATAA-TT-CTATCGGAACACAAATTTT-AAAGTTATTTTACTTGAAACAA
1 TTCATCTCGCTTGAGACAATTTCCTATCAAAACACAAATTTTGAAA-TTATTTCACTTGAAACAA
* * *
2587689 ACTTAATCTCACTTGAGGTTGTTTTTTCATAAACAGA
65 AATTAATCTCACTTGAGATTATTTTTTCATAAACAGA
* * * *
2587726 TTCATCTCGCTTGATACAATTTCCTCTTAAAACACAAATTTTGAAATTGTTTCACTTGAAACAAA
1 TTCATCTCGCTTGAGACAATTTCCTATCAAAACACAAATTTTGAAATTATTTCACTTGAAACAAA
2587791 ATTAATCTCACTTGAGATTATTTTT
66 ATTAATCTCACTTGAGATTATTTTT
2587816 CTAAAAACAA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
99 17 0.22
100 2 0.03
101 54 0.71
102 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (101 bp):
TTCATCTCGCTTGAGACAATTTCCTATCAAAACACAAATTTTGAAATTATTTCACTTGAAACAAA
ATTAATCTCACTTGAGATTATTTTTTCATAAACAGA
Found at i:2587856 original size:101 final size:101
Alignment explanation
Indices: 2587655--2587845 Score: 242
Period size: 101 Copynumber: 1.9 Consensus size: 101
2587645 ATTCTATCGG
* * * * *
2587655 AACACAAATTTTAAAGTTATTTTACTTGAAACAAACTTAATCTCACTTGAGGTTGTTTTTTCATA
1 AACACAAATTTTAAAGTTATTTCACTTGAAACAAAATTAATCTCACTTGAGATTATTTTTTCAAA
* * *
2587720 AACAGATTCATCTCGCTTGATACAATTTCCTCTTAA
66 AACAAATTCATCTCACTTGAGACAATTTCCTCTTAA
*
2587756 AACACAAATTTTGAAA-TTGTTTCACTTGAAACAAAATTAATCTCACTTGAGATTA-TTTTTCTA
1 AACACAAATTTT-AAAGTTATTTCACTTGAAACAAAATTAATCTCACTTGAGATTATTTTTTC-A
**
2587819 AAAACAAACTTTGTCTCACTTGAGACA
64 AAAACAAA-TTCATCTCACTTGAGACA
2587846 GTCTTCCTTA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
100 6 0.08
101 53 0.70
102 17 0.22
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (101 bp):
AACACAAATTTTAAAGTTATTTCACTTGAAACAAAATTAATCTCACTTGAGATTATTTTTTCAAA
AACAAATTCATCTCACTTGAGACAATTTCCTCTTAA
Found at i:2587954 original size:67 final size:67
Alignment explanation
Indices: 2587820--2588184 Score: 391
Period size: 67 Copynumber: 5.5 Consensus size: 67
2587810 ATTTTTCTAA
* * * * * * *
2587820 AAACAAA-CTTTGTCTCACTTGAGACAGTCTTCCTTAAGAT-ATAATCTTTGAGTTTGTTTCCCT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTTTCTTAAAATAAAAATCTTTGAGTCTGTTTCCCT
2587883 TG
66 TG
* * * *
2587885 AAACAATGCTTTGTCTCTCTTGAGACAGTTTTTCTTAAAATAAAAATCTTTGAGTTTATTTCCCT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTTTCTTAAAATAAAAATCTTTGAGTCTGTTTCCCT
2587950 TG
66 TG
* * * * *
2587952 AAACAAAGTTTTGTCTCTCTTGAGAAAATTTCTCTTGAAACAAAAAAAATATTTGAGTCTGTTTC
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTTTCTT--AA-AATAAAAATCTTTGAGTCTGTTTC
2588017 CCTTG
63 CCTTG
* * *
2588022 AAAAAAAGTTTTGTCTCTCTTGAGACA-TTTTCTCTTGCAAA-AAAAATCTTTGAGTATGTTTCC
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTT-TCTT-AAAATAAAAATCTTTGAGTCTGTTTCC
2588085 CTTG
64 CTTG
* * * * * * * *
2588089 AAACGAAGTTTTGTCTCTCTTAAGACAATTTCTCTTGAAACAAAAGTATTTGAGTCTGTTTCCCT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTTTCTTAAAATAAAAATCTTTGAGTCTGTTTCCCT
2588154 TG
66 TG
*
2588156 AAACATA-TTTTGTCTCTCTT-AGACAGTTT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTT
2588185 CTATTGAAAC
Statistics
Matches: 258, Mismatches: 34, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
65 14 0.05
66 45 0.17
67 134 0.52
68 5 0.02
69 6 0.02
70 54 0.21
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (67 bp):
AAACAAAGTTTTGTCTCTCTTGAGACAGTTTTTCTTAAAATAAAAATCTTTGAGTCTGTTTCCCT
TG
Found at i:2588035 original size:137 final size:135
Alignment explanation
Indices: 2587866--2588193 Score: 461
Period size: 137 Copynumber: 2.4 Consensus size: 135
2587856 AGATATAATC
* * *
2587866 TTTGAGTTTGTTTCCCTTGAAACAATGCTTTGTCTCTCTTGAGACAGTTTT-TCTT-AAAATAAA
1 TTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTTCTCTTGAAAA-AAA
* *
2587929 AATCTTTGAGTTTATTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGAAAATTTCTCTTGAAACA
65 AATCTTTGAGTATATTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGAAAATTTCTCTTGAAAC-
2587994 AAAAAAATA
129 --AAAAATA
* *
2588003 TTTGAGTCTGTTTCCCTTGAAAAAAAGTTTTGTCTCTCTTGAGACA-TTTTCTCTTGCAAAAAAA
1 TTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTTCTCTTGAAAAAAAA
* * *
2588067 ATCTTTGAGTATGTTTCCCTTGAAACGAAGTTTTGTCTCTCTTAAGACAATTTCTCTTGAAACAA
66 ATCTTTGAGTATATTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGAAAATTTCTCTTGAAACAA
*
2588132 AAGTA
131 AAATA
* *
2588137 TTTGAGTCTGTTTCCCTTGAAACATA-TTTTGTCTCTCTT-AGACAG-TTTCTATTGAAA
1 TTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTTCTCTTGAAA
2588194 CAAATCCCTA
Statistics
Matches: 173, Mismatches: 15, Indels: 11
0.87 0.08 0.06
Matches are distributed among these distances:
132 15 0.09
133 13 0.08
134 30 0.17
136 4 0.02
137 108 0.62
138 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (135 bp):
TTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTTCTCTTGAAAAAAAA
ATCTTTGAGTATATTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGAAAATTTCTCTTGAAACAA
AAATA
Found at i:2588439 original size:131 final size:131
Alignment explanation
Indices: 2588201--2588687 Score: 501
Period size: 131 Copynumber: 3.7 Consensus size: 131
2588191 AAACAAATCC
* * *** * *
2588201 CTAAAGATGGCCAACCGTCCTCATCACGTAGGAATTGTGTCATCCACTGACCATATCTCCTCATC
1 CTAAAGATGGCCATCCATCCTCATCACGTAGGAACAATGTCATCCACCGACCAGATCTCCTCATC
** * * * *
2588266 ACGTAGGAGTTGCGTCAACTTTAGATAACCAAACTTCTTCATCACATAGGAACCATGTTATCATC
66 ACGTAGGAGCCGTGTCACCTTTAGATAACCAAACATCCTCATCACATAGGAACCATGTTATCATC
2588331 T
131 T
* * *
2588332 CTAAAGATGGCCATCCATCCTCATCACGTAGGAATC-GTGTCATCCCCCAACCAGATCTCCTCAT
1 CTAAAGATGGCCATCCATCCTCATCACGTAGGAA-CAATGTCATCCACCGACCAGATCTCCTCAT
* * ** *
2588396 CACATAGGAGCCGTGTCACCTTTCGATAACCAGTCGTCCTCATCACATAGGAACCATGTTATCAT
65 CACGTAGGAGCCGTGTCACCTTTAGATAACCAAACATCCTCATCACATAGGAACCATGTTATCAT
*
2588461 CC
130 CT
* * * * *
2588463 CTAAAGATGGCC-TACCATCATCATCACGTAGGAACTATATCATCCACCGACCAAACCTCCTCAT
1 CTAAAGATGGCCAT-CCATCCTCATCACGTAGGAACAATGTCATCCACCGACCAGATCTCCTCAT
* ** * *** *
2588527 CACGTAAGAGCCGTGTCACCCCTAGATAACCAACCATCCTCATCGTGTAGGAACCTTGTTATCAC
65 CACGTAGGAGCCGTGTCACCTTTAGATAACCAAACATCCTCATCACATAGGAACCATGTTATCA-
*
2588592 CCTT
129 TC-T
* ** * *
2588596 CCTAAAGATGACCAAGACGTCCTCATCACGTATGAACAATGTCATCCACCGACCAGATCTCCTCA
1 -CTAAAGATGGCC-ATCCATCCTCATCACGTAGGAACAATGTCATCCACCGACCAGATCTCCTCA
** * *
2588661 TCACGTACAAGCCGTGCCACCCTTAGA
64 TCACGTAGGAGCCGTGTCACCTTTAGA
2588688 CGACAGAACT
Statistics
Matches: 295, Mismatches: 53, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
130 2 0.01
131 217 0.74
132 1 0.00
134 11 0.04
135 64 0.22
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (131 bp):
CTAAAGATGGCCATCCATCCTCATCACGTAGGAACAATGTCATCCACCGACCAGATCTCCTCATC
ACGTAGGAGCCGTGTCACCTTTAGATAACCAAACATCCTCATCACATAGGAACCATGTTATCATC
T
Found at i:2588896 original size:21 final size:22
Alignment explanation
Indices: 2588867--2588911 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
2588857 TGTCCGGGTC
2588867 TTAAAAA-T-TATTATTACTATT
1 TTAAAAATTATATTATTAC-ATT
*
2588888 TTAACAATTATATTATTACATT
1 TTAAAAATTATATTATTACATT
2588910 TT
1 TT
2588912 GTAGGCCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 6 0.29
23 9 0.43
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAAAAATTATATTATTACATT
Found at i:2589733 original size:24 final size:25
Alignment explanation
Indices: 2589685--2589730 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
2589675 TCCTCTCTCT
2589685 AAAAATAATTTAAAAAAATGAAATG
1 AAAAATAATTTAAAAAAATGAAATG
*
2589710 AAAATTAA-TTAAAAAAA-GAAA
1 AAAAATAATTTAAAAAAATGAAA
2589731 ATGTTGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (25 bp):
AAAAATAATTTAAAAAAATGAAATG
Found at i:2593233 original size:10 final size:10
Alignment explanation
Indices: 2593218--2593243 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
2593208 TTTTGTAAAG
2593218 ATAAAACAAA
1 ATAAAACAAA
2593228 ATAAAACAAA
1 ATAAAACAAA
2593238 ATAAAA
1 ATAAAA
2593244 ATAAAAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.12
Consensus pattern (10 bp):
ATAAAACAAA
Found at i:2594083 original size:14 final size:14
Alignment explanation
Indices: 2594066--2594124 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 14
2594056 TGCTTCTTAT
2594066 CTTTTTTTTCTTTG
1 CTTTTTTTTCTTTG
**
2594080 CTTTTTCCTCTTTG
1 CTTTTTTTTCTTTG
*
2594094 CTCTTTGTTTTCTTTT
1 CT-TTT-TTTTCTTTG
2594110 CTTTTCTTTTTCTTT
1 C-TTT-TTTTTCTTT
2594125 TTGCTTTTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 14 0.39
15 3 0.08
16 17 0.47
17 2 0.06
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.75
Consensus pattern (14 bp):
CTTTTTTTTCTTTG
Found at i:2594131 original size:7 final size:6
Alignment explanation
Indices: 2594101--2594138 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
2594091 TTGCTCTTTG
2594101 TTTTC- TTTTC- TTTTCT TTTTCT TTTTGCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTT-CT TTTTCT TTT
2594139 GGCTTTGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 10 0.32
6 15 0.48
7 6 0.19
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:2596138 original size:20 final size:20
Alignment explanation
Indices: 2596113--2596155 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
2596103 TCTAAAAGCC
*
2596113 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
2596133 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
2596153 CAT
1 CAT
2596156 GTGGTGGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:2604366 original size:47 final size:47
Alignment explanation
Indices: 2604284--2604458 Score: 289
Period size: 47 Copynumber: 3.7 Consensus size: 47
2604274 TTATGGCATT
* *
2604284 CTTTCATTCCTTAATGCAT-TTTTCATGCATTTTAGTTTGTGGCTTC
1 CTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTTGTGGCTTC
* *
2604330 ATTTCATGCCTTAATGCATCTTTTCATGCATTTTAGTTTGTGGCTTC
1 CTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTTGTGGCTTC
* *
2604377 CTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTTATGGCATC
1 CTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTTGTGGCTTC
2604424 CTTTCATGCCTTAATGCATCCTTTCATGCATTTTA
1 CTTTCATGCCTTAATGCATCCTTTCATGCATTTTA
2604459 ATTATGGATT
Statistics
Matches: 122, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
46 17 0.14
47 105 0.86
ACGTcount: A:0.18, C:0.22, G:0.13, T:0.48
Consensus pattern (47 bp):
CTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTTGTGGCTTC
Found at i:2604382 original size:27 final size:27
Alignment explanation
Indices: 2604345--2604432 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 27
2604335 ATGCCTTAAT
* *
2604345 GCATCTTTTCATGCATTTTAGTTTGTG
1 GCATCCTTTCATGCATTTTAGTTTATG
* *
2604372 GCTTCCTTTCATGC--CTTA----AT-
1 GCATCCTTTCATGCATTTTAGTTTATG
2604392 GCATCCTTTCATGCATTTTAGTTTATG
1 GCATCCTTTCATGCATTTTAGTTTATG
2604419 GCATCCTTTCATGC
1 GCATCCTTTCATGC
2604433 CTTAATGCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
20 13 0.27
21 1 0.02
22 3 0.06
25 3 0.06
26 2 0.04
27 26 0.54
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.47
Consensus pattern (27 bp):
GCATCCTTTCATGCATTTTAGTTTATG
Found at i:2604400 original size:20 final size:20
Alignment explanation
Indices: 2604375--2604452 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
2604365 GTTTGTGGCT
2604375 TCCTTTCATGCCTTAATGCA
1 TCCTTTCATGCCTTAATGCA
*
2604395 TCCTTTCATGCATTTTAGTTTATGGCA
1 TCCTTTCATGC--CTTA----AT-GCA
2604422 TCCTTTCATGCCTTAATGCA
1 TCCTTTCATGCCTTAATGCA
2604442 TCCTTTCATGC
1 TCCTTTCATGC
2604453 ATTTTAATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
20 25 0.51
21 2 0.04
22 3 0.06
25 3 0.06
26 2 0.04
27 14 0.29
ACGTcount: A:0.18, C:0.27, G:0.12, T:0.44
Consensus pattern (20 bp):
TCCTTTCATGCCTTAATGCA
Found at i:2604931 original size:19 final size:19
Alignment explanation
Indices: 2604861--2604932 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
2604851 TGGCTCCTCA
**
2604861 GTATCGATATCCCTACAATG
1 GTATCGATA-CCCTATTATG
*
2604881 GTATTGATACTACCATATTATG
1 GTATCGATAC--CC-TATTATG
* *
2604903 GTACCAATACCCTATTATG
1 GTATCGATACCCTATTATG
2604922 GTATCGATACC
1 GTATCGATACC
2604933 ATTTTTTCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
19 17 0.41
20 10 0.24
21 2 0.05
22 12 0.29
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (19 bp):
GTATCGATACCCTATTATG
Found at i:2610624 original size:47 final size:46
Alignment explanation
Indices: 2610543--2610694 Score: 225
Period size: 47 Copynumber: 3.3 Consensus size: 46
2610533 AAATTATGAC
*
2610543 ATCCTTTCATG-CTTAATGCATCATTTCATGCATTTTAGTTTATGGT
1 ATCCTTTCATGCCTTAATGCATC-TTTCATGCATTTTAGTTTATGGA
*
2610589 ATCCTTTCATGCCTTAATGCATGCTTTCATTCATTTTAGTTTATGGA
1 ATCCTTTCATGCCTTAATGCAT-CTTTCATGCATTTTAGTTTATGGA
* * *
2610636 ATCCTTTCATTCCTTAATGCATCCTTTCATGCATTTTAGGTTATGGC
1 ATCCTTTCATGCCTTAATGCAT-CTTTCATGCATTTTAGTTTATGGA
2610683 ATCCTTTCATGC
1 ATCCTTTCATGC
2610695 ATTTTAGTTT
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
46 11 0.11
47 84 0.88
48 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.46
Consensus pattern (46 bp):
ATCCTTTCATGCCTTAATGCATCTTTCATGCATTTTAGTTTATGGA
Found at i:2610643 original size:27 final size:27
Alignment explanation
Indices: 2610607--2610767 Score: 118
Period size: 27 Copynumber: 6.5 Consensus size: 27
2610597 ATGCCTTAAT
* *
2610607 GCATGCTTTCATTCATTTTAGTTTATG
1 GCATCCTTTCATGCATTTTAGTTTATG
* * *
2610634 GAATCCTTTCATTC--CTTA----ATG
1 GCATCCTTTCATGCATTTTAGTTTATG
*
2610655 -CATCCTTTCATGCATTTTAGGTTATG
1 GCATCCTTTCATGCATTTTAGTTTATG
2610681 GCATCCTTTCATGCATTTTAGTTTATG
1 GCATCCTTTCATGCATTTTAGTTTATG
* * * *
2610708 ACATCATTTCCTGC--CTTA----AT-
1 GCATCCTTTCATGCATTTTAGTTTATG
*
2610728 GCATCCTTTCATGCATTTTA-ATTATG
1 GCATCCTTTCATGCATTTTAGTTTATG
2610754 GCATCCTTTCATGC
1 GCATCCTTTCATGC
2610768 CTTAATGAAT
Statistics
Matches: 106, Mismatches: 15, Indels: 27
0.72 0.10 0.18
Matches are distributed among these distances:
20 22 0.21
21 5 0.05
22 6 0.06
25 8 0.08
26 17 0.16
27 48 0.45
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.45
Consensus pattern (27 bp):
GCATCCTTTCATGCATTTTAGTTTATG
Found at i:2610701 original size:74 final size:73
Alignment explanation
Indices: 2610607--2610767 Score: 243
Period size: 74 Copynumber: 2.2 Consensus size: 73
2610597 ATGCCTTAAT
* * * *
2610607 GCATGCTTTCATTCATTTTAGTTTATGGA-ATCCTTTCATTCCTTAATGCATCCTTTCATGCATT
1 GCATCCTTTCATGCATTTTAGTTTAT-GACATCATTTCATGCCTTAATGCATCCTTTCATGCATT
*
2610671 TTAGGTTATG
65 TTA-ATTATG
*
2610681 GCATCCTTTCATGCATTTTAGTTTATGACATCATTTCCTGCCTTAATGCATCCTTTCATGCATTT
1 GCATCCTTTCATGCATTTTAGTTTATGACATCATTTCATGCCTTAATGCATCCTTTCATGCATTT
2610746 TAATTATG
66 TAATTATG
2610754 GCATCCTTTCATGC
1 GCATCCTTTCATGC
2610768 CTTAATGAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
73 21 0.26
74 59 0.74
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.45
Consensus pattern (73 bp):
GCATCCTTTCATGCATTTTAGTTTATGACATCATTTCATGCCTTAATGCATCCTTTCATGCATTT
TAATTATG
Found at i:2610772 original size:46 final size:46
Alignment explanation
Indices: 2610681--2610800 Score: 177
Period size: 46 Copynumber: 2.6 Consensus size: 46
2610671 TTAGGTTATG
* * *
2610681 GCATCCTTTCATGCATTTTAGTTTATGACATCATTTCCTGCCTTAAT
1 GCATCCTTTCATGCATTTTA-ATTATGGCATCATTTCATGCCTTAAT
*
2610728 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCATTTCATGCCTTAAT
* *
2610774 GAATCATTTCATGCATTTTAATTATGG
1 GCATCCTTTCATGCATTTTAATTATGG
2610801 ATTTTTTAGA
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
46 47 0.70
47 20 0.30
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (46 bp):
GCATCCTTTCATGCATTTTAATTATGGCATCATTTCATGCCTTAAT
Found at i:2619791 original size:16 final size:16
Alignment explanation
Indices: 2619729--2619804 Score: 53
Period size: 16 Copynumber: 4.3 Consensus size: 16
2619719 AACTACAAAA
2619729 TAAATAAAATAAAATAC
1 TAAA-AAAATAAAATAC
* * *
2619746 TAAAAAATTTAAATAAT
1 TAAAAAAATAAAAT-AC
2619763 TAAATAATTAAATAAAATAC
1 T-AA-AA--AAATAAAATAC
*
2619783 TAAAAAAATAAATATAA
1 TAAAAAAATAAA-ATAC
2619800 TAAAA
1 TAAAA
2619805 TATAATATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
16 15 0.33
17 14 0.30
18 4 0.09
19 4 0.09
20 2 0.04
21 7 0.15
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAAAAATAAAATAC
Found at i:2619800 original size:38 final size:37
Alignment explanation
Indices: 2619725--2619806 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
2619715 TTATAACTAC
* *
2619725 AAAATAAATAAAATAAAATACTAAAAAATTTAAATAAT
1 AAAAT-AATAAAATAAAATACTAAAAAAATAAAATAAT
* *
2619763 TAAATAATTAAATAAAATACTAAAAAAATAAATATAAT
1 AAAATAATAAAATAAAATACTAAAAAAATAAA-ATAAT
2619801 AAAATA
1 AAAATA
2619807 TAATATATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
37 24 0.63
38 14 0.37
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (37 bp):
AAAATAATAAAATAAAATACTAAAAAAATAAAATAAT
Found at i:2619809 original size:16 final size:16
Alignment explanation
Indices: 2619728--2619813 Score: 51
Period size: 15 Copynumber: 5.6 Consensus size: 16
2619718 TAACTACAAA
*
2619728 ATAAATAAAATAAAAT
1 ATAAATATAATAAAAT
*
2619744 ACTAAA-A-AATTTAAAT
1 A-TAAATATAA-TAAAAT
* *
2619760 AATTAA-ATAATTAAAT
1 -ATAAATATAATAAAAT
2619776 A-AAATACTAA-AAAA-
1 ATAAATA-TAATAAAAT
2619790 ATAAATATAATAAAAT
1 ATAAATATAATAAAAT
2619806 AT-AATATA
1 ATAAATATA
2619814 TTACCTTCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
14 6 0.11
15 22 0.39
16 22 0.39
17 7 0.12
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAATATAATAAAAT
Found at i:2622279 original size:21 final size:19
Alignment explanation
Indices: 2622230--2622279 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 19
2622220 TAATTTTGAT
*
2622230 TCTAATTTGGTAATTAAGG
1 TCTAATTTGGGAATTAAGG
2622249 TACTCAATTTGGGAATTAAGG
1 T-CT-AATTTGGGAATTAAGG
2622270 ATCTATATTT
1 -TCTA-ATTT
2622280 TGGCCTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
20 3 0.12
21 21 0.81
22 1 0.04
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (19 bp):
TCTAATTTGGGAATTAAGG
Found at i:2623892 original size:23 final size:23
Alignment explanation
Indices: 2623860--2623914 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
2623850 CCCCTTAGGC
*
2623860 TACAAGAGAGCTCCGCCTCTGCA
1 TACAATAGAGCTCCGCCTCTGCA
2623883 TACAATAGAGCTCCGCCTCTGCA
1 TACAATAGAGCTCCGCCTCTGCA
2623906 TACAATAGA
1 TACAATAGA
2623915 CCTATGCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (23 bp):
TACAATAGAGCTCCGCCTCTGCA
Found at i:2627525 original size:2 final size:2
Alignment explanation
Indices: 2627512--2627546 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
2627502 AGTACTTTAA
* *
2627512 AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2627547 GAGAAAAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2629772 original size:116 final size:117
Alignment explanation
Indices: 2629589--2629812 Score: 414
Period size: 116 Copynumber: 1.9 Consensus size: 117
2629579 ATATATATAA
* *
2629589 ATGATTATTTATATATAATTTATAAATTAATTAATCTAAATCTCCTATTATACAAATTCTTTATA
1 ATGATTATTGATATATAATTTATAAATTAATTAATCTAAATCTACTATTATACAAATTCTTTATA
2629654 AAGTTAATTCTTTAAATTCAATTTT-TCTTTTAAATGTTAATATGTACGTAT
66 AAGTTAATTCTTTAAATTCAATTTTCTCTTTTAAATGTTAATATGTACGTAT
*
2629705 ATGATTATTGATATATAATTTATCAATTAATTAATCTAAATCTACTATTATACAAATTCTTTATA
1 ATGATTATTGATATATAATTTATAAATTAATTAATCTAAATCTACTATTATACAAATTCTTTATA
2629770 AAGTTAATTCTTTAAATTCAATTTTCTCTTTTAAATGTTAATA
66 AAGTTAATTCTTTAAATTCAATTTTCTCTTTTAAATGTTAATA
2629813 CATTTTAGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
116 87 0.84
117 17 0.16
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (117 bp):
ATGATTATTGATATATAATTTATAAATTAATTAATCTAAATCTACTATTATACAAATTCTTTATA
AAGTTAATTCTTTAAATTCAATTTTCTCTTTTAAATGTTAATATGTACGTAT
Found at i:2630938 original size:20 final size:19
Alignment explanation
Indices: 2630913--2630965 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
2630903 AACTTTAGGG
*
2630913 AAAGTTTCAAAACTGTTGA
1 AAAGTTTCAAAACTCTTGA
*
2630932 AATAGTTTCGAAACTCTTGA
1 AA-AGTTTCAAAACTCTTGA
2630952 AAA-TTATCAAAACT
1 AAAGTT-TCAAAACT
2630966 TTTTGGACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 2 0.07
19 10 0.34
20 17 0.59
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.32
Consensus pattern (19 bp):
AAAGTTTCAAAACTCTTGA
Found at i:2642549 original size:6 final size:6
Alignment explanation
Indices: 2642538--2642583 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
2642528 ACTATGCCTG
2642538 AAAAGA AAAAGA AAAAGAAA AAAAGA AAAAG- AAAAG- AAAAGA AAAA
1 AAAAGA AAAAGA AAAAG--A AAAAGA AAAAGA AAAAGA AAAAGA AAAA
2642584 AGGAGAGGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.27
6 21 0.57
8 6 0.16
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:2642552 original size:5 final size:5
Alignment explanation
Indices: 2642537--2642582 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
2642527 TACTATGCCT
2642537 GAAAA GAAAAA GAAAA -AGAAA -AAAA GAAAAA GAAAA GAAAA GAAAA
1 GAAAA G-AAAA GAAAA GA-AAA GAAAA G-AAAA GAAAA GAAAA GAAAA
2642583 AAGGAGAGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 4 0.11
5 23 0.62
6 10 0.27
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:2642562 original size:14 final size:15
Alignment explanation
Indices: 2642543--2642583 Score: 66
Period size: 14 Copynumber: 2.7 Consensus size: 15
2642533 GCCTGAAAAG
2642543 AAAAAGAAAAAG-AA
1 AAAAAGAAAAAGAAA
2642557 AAAAAGAAAAAGAAA
1 AAAAAGAAAAAGAAA
2642572 AGAAAAGAAAAA
1 A-AAAAGAAAAA
2642584 AGGAGAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 12 0.48
15 3 0.12
16 10 0.40
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAGAAA
Found at i:2642563 original size:20 final size:19
Alignment explanation
Indices: 2642538--2642577 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
2642528 ACTATGCCTG
2642538 AAAAGAAAAAGAAAAAGAAA
1 AAAAGAAAAAG-AAAAGAAA
2642558 AAAAGAAAAAGAAAAGAAA
1 AAAAGAAAAAGAAAAGAAA
2642577 A
1 A
2642578 GAAAAAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAGAAAAGAAA
Found at i:2649040 original size:23 final size:21
Alignment explanation
Indices: 2648988--2649049 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
2648978 TTTTGGTGCA
*
2648988 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
2649008 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
2649029 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
2649050 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:2653004 original size:44 final size:44
Alignment explanation
Indices: 2652939--2654474 Score: 616
Period size: 44 Copynumber: 34.7 Consensus size: 44
2652929 TCAACTTTTT
* * * * *
2652939 GCTCGATTCTATCACAAAAGGAGGTAGATCGGCATCGACATCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * **** *
2652983 GTTCGATTCCATCACAGAAGGAGGTGGATCAACATTTTTATTTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACA-TCTC
* * * * * * * *
2653028 GCTCAAATCCATCGCAGAAGGAGTTTGATCAGCATCAACTTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * *
2653072 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * * * **
2653116 GTTCGATTCTATCACAAAAGGAGATGGATC-G-AT-ATTTTATCTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCA--ACATC-TC
* * * * * * * * *
2653160 GCTCAAATCCATCGCAGAAGGAGTTGGATCAACGTCAACTTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * * * *
2653204 GTTCGATTCTATCACAGAAGGAAGTAGATCAGCACCAACATCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * **** *
2653248 GTTCAATTCCATCACAGAAGGAGGTGGATC-GACATTTTTATTTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCAACA-TCTC
* * ** ** * * * *
2653293 GCTCAAATCCATCGTAGAAGGACTTGGATCAGCGTCAACTTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * * * *
2653337 GCTCGTTTCTATCACA-AGAGGAGGTAGATCAGCATCGACATATC
1 GCTCGATTCCATCACAGA-AGGAGGTGGATCAGCATCAACATCTC
* * * ****
2653381 GTTTGATTTCCATCACAGAAGGAGGTGGATCAACATTTTTATCTTC
1 GCTCGA-TTCCATCACAGAAGGAGGTGGATCAGCATCAACATC-TC
* * ** * * * * *
2653427 GCTCAAATCCATCGTAGAAGGAGTTGGATCAGCGTCAACTTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * * * * *
2653471 GCTCGATTCTATTAAAGAATGAGGTAGATCAGCATCGACATCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * * ****
2653515 GTTCGATTCTATCACAAAAGGAGGTGGATC-GACATTTTTATCTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCAACATC-TC
* * * * * * * *
2653560 GCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * * *
2653604 GCTTGATTCTATCACA-AAGGAGGTAGATCAGCACCAACATCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * * **** *
2653647 GTTCGATTCCATCACAGAAGCAGGTGGATC-GATATTTTTATTTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCAACA-TCTC
* * ** ** * * * *
2653692 GCTCAAATCCATCGTAGAAGGACTTGGATCAGCGTCAACTTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * * * * *
2653736 TCTCGTTTCTATCACAGAAGGAGGTAGATCA-CATCGACATATC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * * ****
2653779 GTTTGATTTCCATCACAGAAGGAGGTGGATCAACATTTTTATCTTC
1 GCTCGA-TTCCATCACAGAAGGAGGTGGATCAGCATCAACATC-TC
* * ** * * * * * *
2653825 GCTCAAATCCATCGTAGAAGGAGTTGGATCGGCGTCAACTTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * *
2653869 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * * * ****
2653913 GTTCGATTCTATCACAAAATGAGGTGGATC-GACATTTTTATCTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCAACATC-TC
* * * * * * * * *
2653958 GCTCAAATCCATCGCAGAAAGAGTTGGATCAGCGTCAACTTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * * * * *
2654002 GCTCGATTCTATAATAGAATGAGGTAGATCAGCATCGACATCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * ***
2654046 GTTCGATTCCATCACA-AAGGATGTGGATC-GACAT-TTTATCTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCAACATC-TC
* * * * * * * * *
2654089 GCTCAAATCCATCGCAGAAGGAGTTGGATCAACGTCAACTTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* ** *
2654133 GCTCGATTCTATCACAGAAGGAGGTATATCAGCACCAACATCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * **** *
2654177 GTTCGATTCCATCACAGAATGAGGTGGATC-GACATTTTTATTTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCAACA-TCTC
* * ** * * * * *
2654222 GCTCAAATCCATCGTAGAAGGAGTTGGATCAGCGTCAACTTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * * * *
2654266 GCTCGTTTCTATCACAGAAGGAGGTAGATCAGCATCGACATATC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * * * **** *
2654310 GTTTGATTTCCATCACAGAATGAGGTGGATCAACATTTTTATTTTC
1 GCTCGA-TTCCATCACAGAAGGAGGTGGATCAGCATCAACA-TCTC
* * * * * * * *
2654356 GCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTA
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
** * * * *
2654400 GCTCGATTATATCACAAAAGGAGGTGGATCAGCATCGATATATC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
* * *
2654444 GTTCGATTTTCATCACAGAATGAGGTGGATC
1 GCTCGA-TTCCATCACAGAAGGAGGTGGATC
2654475 GACATTTTTA
Statistics
Matches: 1028, Mismatches: 426, Indels: 75
0.67 0.28 0.05
Matches are distributed among these distances:
42 6 0.01
43 79 0.08
44 601 0.58
45 318 0.31
46 23 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTC
Found at i:2653364 original size:133 final size:134
Alignment explanation
Indices: 2652928--2654548 Score: 2416
Period size: 133 Copynumber: 12.2 Consensus size: 134
2652918 TAAGGAGATT
*
2652928 GTCAACTTTTTGCTCGATTCTATCACAA-AAGGAGGTAGATCGGCATCGACATCTCGTTCGATTC
1 GTCAACTTTTTGCTCGATTCTATCACAAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTC
* * *
2652992 CATCACAGAAGGAGGTGGATCAACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTTGAT
66 CATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
2653057 CAGC
131 CAGC
*
2653061 ATCAACTTTTTGCTCGATTCTATCAC-AGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTC
1 GTCAACTTTTTGCTCGATTCTATCACAAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTC
* * * *
2653125 TATCACAAAAGGAGATGGATCGATA-TTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
66 CATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
*
2653189 CAAC
131 CAGC
* * * * *
2653193 GTCAACTTTTTGTTCGATTCTATCAC-AGAAGGAAGTAGATCAGCACCAACATCTCGTTCAATTC
1 GTCAACTTTTTGCTCGATTCTATCACAAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTC
* * *
2653257 CATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGTAGAAGGACTTGGAT
66 CATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
2653322 CAGC
131 CAGC
* * *
2653326 GTCAACTTTTTGCTCGTTTCTATCACAAG-AGGAGGTAGATCAGCATCGACATATCGTTTGATTT
1 GTCAACTTTTTGCTCGATTCTATCACAAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGA-TT
* *
2653390 CCATCACAGAAGGAGGTGGATCAACATTTTTATCTTCGCTCAAATCCATCGTAGAAGGAGTTGGA
65 CCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
2653455 TCAGC
130 TCAGC
* *
2653460 GTCAACTTTTTGCTCGATTCTATTA-AAGAATGAGGTAGATCAGCATCGACATCTCGTTCGATTC
1 GTCAACTTTTTGCTCGATTCTATCACAAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTC
* *
2653524 TATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
66 CATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
2653589 CAGC
131 CAGC
* * *
2653593 GTCAACTTTTTGCTTGATTCTATCAC-A-AAGGAGGTAGATCAGCACCAACATCTCGTTCGATTC
1 GTCAACTTTTTGCTCGATTCTATCACAAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTC
* * * * *
2653656 CATCACAGAAGCAGGTGGATCGATATTTTTATTTTCGCTCAAATCCATCGTAGAAGGACTTGGAT
66 CATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
2653721 CAGC
131 CAGC
* * * *
2653725 GTCAACTTTTTTCTCGTTTCTATCAC-AGAAGGAGGTAGATCA-CATCGACATATCGTTTGATTT
1 GTCAACTTTTTGCTCGATTCTATCACAAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGA-TT
* *
2653788 CCATCACAGAAGGAGGTGGATCAACATTTTTATCTTCGCTCAAATCCATCGTAGAAGGAGTTGGA
65 CCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
*
2653853 TCGGC
130 TCAGC
2653858 GTCAACTTTTTGCTCGATTCTATCAC-AGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTC
1 GTCAACTTTTTGCTCGATTCTATCACAAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTC
* * * *
2653922 TATCACAAAATGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAAGAGTTGGAT
66 CATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
2653987 CAGC
131 CAGC
*
2653991 GTCAACTTTTTGCTCGATTCTAT-A-ATAGAATGAGGTAGATCAGCATCGACATCTCGTTCGATT
1 GTCAACTTTTTGCTCGATTCTATCACA-AGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATT
*
2654054 CCATCACA-AAGGATGTGGATCGACA-TTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
65 CCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
*
2654117 TCAAC
130 TCAGC
* * *
2654122 GTCAACTTTTTGCTCGATTCTATCAC-AGAAGGAGGTATATCAGCACCAACATCTCGTTCGATTC
1 GTCAACTTTTTGCTCGATTCTATCACAAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTC
* * *
2654186 CATCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGTAGAAGGAGTTGGAT
66 CATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
2654251 CAGC
131 CAGC
* * *
2654255 GTCAACTTTTTGCTCGTTTCTATCAC-AGAAGGAGGTAGATCAGCATCGACATATCGTTTGATTT
1 GTCAACTTTTTGCTCGATTCTATCACAAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGA-TT
* * *
2654319 CCATCACAGAATGAGGTGGATCAACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
65 CCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
2654384 TCAGC
130 TCAGC
* * * * *
2654389 GTCAACTTTTAGCTCGATTATATCACAA-AAGGAGGTGGATCAGCATCGATATATCGTTCGATTT
1 GTCAACTTTTTGCTCGATTCTATCACAAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGA-TT
* * * *
2654453 TCATCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGCAGTTGGA
65 CCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
2654518 TCAGC
130 TCAGC
* *
2654523 GTCATCTTCTTGCTCGATTC-ATCACA
1 GTCAACTTTTTGCTCGATTCTATCACA
2654549 CATGGAGTTG
Statistics
Matches: 1355, Mismatches: 116, Indels: 34
0.90 0.08 0.02
Matches are distributed among these distances:
131 105 0.08
132 285 0.21
133 616 0.45
134 348 0.26
135 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (134 bp):
GTCAACTTTTTGCTCGATTCTATCACAAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTC
CATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
CAGC
Found at i:2653939 original size:398 final size:399
Alignment explanation
Indices: 2652928--2654548 Score: 2545
Period size: 398 Copynumber: 4.1 Consensus size: 399
2652918 TAAGGAGATT
* * *
2652928 GTCAACTTTTTGCTCGATTCTATCACAAAAGGAGGTAGATCGGCATCGACATCTCGTTCGATTCC
1 GTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATATCGTTCGATTCC
* * *
2652993 ATCACAGAAGGAGGTGGATCAACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTTGATC
66 ATCACAGAAGGAGGTGGATCAACATTTTTATCTTCGCTCAAATCCATCGTAGAAGGAGTTGGATC
*
2653058 AGCATCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGAT
131 AGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGAT
* *
2653123 TCTATCACAAAAGGAGATGGATCGATA-TTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGG
196 TCTATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGG
* * *
2653187 ATCAACGTCAACTTTTTGTTCGATTCTATCACAGAAGGAAGTAGATCAGCACCAACATCTCGTTC
261 ATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTC
* *
2653252 AATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGTAGAAGGACT
326 GATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGACT
2653317 TGGATCAGC
391 TGGATCAGC
* *
2653326 GTCAACTTTTTGCTCGTTTCTATCACA-AGAGGAGGTAGATCAGCATCGACATATCGTTTGATTT
1 GTCAACTTTTTGCTCGATTCTATCACAGA-AGGAGGTAGATCAGCATCGACATATCGTTCGA-TT
2653390 CCATCACAGAAGGAGGTGGATCAACATTTTTATCTTCGCTCAAATCCATCGTAGAAGGAGTTGGA
64 CCATCACAGAAGGAGGTGGATCAACATTTTTATCTTCGCTCAAATCCATCGTAGAAGGAGTTGGA
* * *
2653455 TCAGCGTCAACTTTTTGCTCGATTCTATTAAAGAATGAGGTAGATCAGCATCGACATCTCGTTCG
129 TCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCG
2653520 ATTCTATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTT
194 ATTCTATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTT
*
2653585 GGATCAGCGTCAACTTTTTGCTTGATTCTATCACA-AAGGAGGTAGATCAGCACCAACATCTCGT
259 GGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGT
* * *
2653649 TCGATTCCATCACAGAAGCAGGTGGATCGATATTTTTATTTTCGCTCAAATCCATCGTAGAAGGA
324 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGA
2653714 CTTGGATCAGC
389 CTTGGATCAGC
* * *
2653725 GTCAACTTTTTTCTCGTTTCTATCACAGAAGGAGGTAGATCA-CATCGACATATCGTTTGATTTC
1 GTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATATCGTTCGA-TTC
2653789 CATCACAGAAGGAGGTGGATCAACATTTTTATCTTCGCTCAAATCCATCGTAGAAGGAGTTGGAT
65 CATCACAGAAGGAGGTGGATCAACATTTTTATCTTCGCTCAAATCCATCGTAGAAGGAGTTGGAT
*
2653854 CGGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGA
130 CAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGA
* *
2653919 TTCTATCACAAAATGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAAGAGTTG
195 TTCTATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTG
* * * * *
2653984 GATCAGCGTCAACTTTTTGCTCGATTCTATAATAGAATGAGGTAGATCAGCATCGACATCTCGTT
260 GATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTT
* * *
2654049 CGATTCCATCACA-AAGGATGTGGATCGACA-TTTTATCTTCGCTCAAATCCATCGCAGAAGGAG
325 CGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAC
*
2654112 TTGGATCAAC
390 TTGGATCAGC
* * * *
2654122 GTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTATATCAGCACCAACATCTCGTTCGATTCC
1 GTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATATCGTTCGATTCC
* * *
2654187 ATCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGTAGAAGGAGTTGGATC
66 ATCACAGAAGGAGGTGGATCAACATTTTTATCTTCGCTCAAATCCATCGTAGAAGGAGTTGGATC
* * *
2654252 AGCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCATCGACATATCGTTTGAT
131 AGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGA-
* * * * *
2654317 TTCCATCACAGAATGAGGTGGATCAACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTG
195 TTCTATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTG
* * * * * * * *
2654382 GATCAGCGTCAACTTTTAGCTCGATTATATCACAAAAGGAGGTGGATCAGCATCGATATATCGTT
260 GATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTT
* * *
2654447 CGATTTTCATCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGCA
325 CGA-TTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGA
*
2654512 GTTGGATCAGC
389 CTTGGATCAGC
* *
2654523 GTCATCTTCTTGCTCGATTC-ATCACA
1 GTCAACTTTTTGCTCGATTCTATCACA
2654549 CATGGAGTTG
Statistics
Matches: 1137, Mismatches: 76, Indels: 18
0.92 0.06 0.01
Matches are distributed among these distances:
397 205 0.18
398 444 0.39
399 341 0.30
400 89 0.08
401 58 0.05
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (399 bp):
GTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATATCGTTCGATTCC
ATCACAGAAGGAGGTGGATCAACATTTTTATCTTCGCTCAAATCCATCGTAGAAGGAGTTGGATC
AGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGAT
TCTATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGG
ATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTC
GATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGACT
TGGATCAGC
Found at i:2663462 original size:17 final size:20
Alignment explanation
Indices: 2663440--2663490 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
2663430 AAATAGATAA
2663440 TTTAAAAATAA-T-ATT-AT
1 TTTAAAAATAATTAATTAAT
2663457 TTTAAATAATTAATTAATTGAAT
1 TTTAAA-AA-TAATTAATT-AAT
2663480 TTTAAAAATAA
1 TTTAAAAATAA
2663491 ATAAATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 6 0.21
18 2 0.07
19 3 0.11
20 1 0.04
21 6 0.21
22 2 0.07
23 8 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TTTAAAAATAATTAATTAAT
Found at i:2664515 original size:21 final size:21
Alignment explanation
Indices: 2664463--2664505 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
2664453 TAAACTGTTT
2664463 TTTTAATTAAAAAATATTCAA
1 TTTTAATTAAAAAATATTCAA
2664484 TTTTAATTAAAAAA-ATTCAA
1 TTTTAATTAAAAAATATTCAA
2664504 TT
1 TT
2664506 GTTATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTTAATTAAAAAATATTCAA
Found at i:2681847 original size:162 final size:166
Alignment explanation
Indices: 2681580--2681908 Score: 605
Period size: 162 Copynumber: 2.0 Consensus size: 166
2681570 GTATCTCCAA
2681580 CAGGCCAAAGATCGTTTTAAGTCATTTCCTGGTTTTCATGTTTCTTTAATTCAGCGTTATTGCAA
1 CAGGCCAAAGATCGTTTTAAGTCATTTCCTGGTTTTCATGTTTCTTTAATTCAGCGTTATTGCAA
2681645 TGTGATTGTTTAGCCAAATGAGCTCTTCATTTTTTGTTTTCGTTGTTTTTTGACTGG-TT-TCTC
66 TGTGATTGTTTAGCCAAATGAGCTCTTCATTTTTTGTTTTCGTTGTTTTTTGACTGGTTTATCTC
2681708 AAAAATTA-TC-TCGGAGGTATTGAATGATT-TGGTT
131 -AAAATTACTCTTCGGAGGTATTGAATGATTATGGTT
2681742 CAGGCCAAAGATCGTTTTAAGTCATTTCCTGGTTTTCATGTTTCTTTAATTCAGCGTTATTGCAA
1 CAGGCCAAAGATCGTTTTAAGTCATTTCCTGGTTTTCATGTTTCTTTAATTCAGCGTTATTGCAA
2681807 TGTGATTGTTTAGCCAAATGAGCTCTTCATTTTTTGTTTTCGTTGTTTTTTGACTGGTTTATCTC
66 TGTGATTGTTTAGCCAAATGAGCTCTTCATTTTTTGTTTTCGTTGTTTTTTGACTGGTTTATCTC
2681872 AAAATTATCTCTTCGGAGGTATTGAATGATTATGGTT
131 AAAATTA-CTCTTCGGAGGTATTGAATGATTATGGTT
2681909 TATTTAATTC
Statistics
Matches: 161, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
162 122 0.76
163 9 0.06
164 4 0.02
165 2 0.01
166 19 0.12
167 5 0.03
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (166 bp):
CAGGCCAAAGATCGTTTTAAGTCATTTCCTGGTTTTCATGTTTCTTTAATTCAGCGTTATTGCAA
TGTGATTGTTTAGCCAAATGAGCTCTTCATTTTTTGTTTTCGTTGTTTTTTGACTGGTTTATCTC
AAAATTACTCTTCGGAGGTATTGAATGATTATGGTT
Found at i:2684524 original size:3 final size:3
Alignment explanation
Indices: 2684518--2684575 Score: 84
Period size: 3 Copynumber: 20.0 Consensus size: 3
2684508 ATTATAAATG
* *
2684518 TTA TTA TAA TTA TT- TTA TTA TTA TTA TTA TTA ATA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2684564 TTA TTA TTA TTA
1 TTA TTA TTA TTA
2684576 AATAATAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 4 0.08
3 45 0.92
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2684547 original size:26 final size:26
Alignment explanation
Indices: 2684506--2684575 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
2684496 ATATTTTTAT
* *
2684506 TTATTATAAATGTTATTA-TA-ATTA
1 TTATTATTAATATTATTATTATATTA
*
2684530 TT-TTATTATTATTATTATTAATATTA
1 TTATTATTAATATTATTATT-ATATTA
*
2684556 TTATTA-TATTATTATTATTA
1 TTATTATTAATATTATTATTA
2684576 AATAATAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 12 0.31
24 3 0.08
25 2 0.05
26 19 0.49
27 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (26 bp):
TTATTATTAATATTATTATTATATTA
Found at i:2684576 original size:26 final size:27
Alignment explanation
Indices: 2684518--2684581 Score: 89
Period size: 26 Copynumber: 2.4 Consensus size: 27
2684508 ATTATAAATG
2684518 TTATT-ATAATTATTTTATTATTATTA
1 TTATTAATAATTATTTTATTATTATTA
2684544 TTATTAAT-ATTATTATTA-TATTATTA
1 TTATTAATAATTATT-TTATTATTATTA
2684570 TTATTAAATAAT
1 TTATT-AATAAT
2684582 AAATAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
26 24 0.71
27 8 0.24
28 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TTATTAATAATTATTTTATTATTATTA
Found at i:2686473 original size:2 final size:2
Alignment explanation
Indices: 2686466--2686503 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2686456 AAAACCCTAA
2686466 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2686504 TTAATATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2687919 original size:34 final size:35
Alignment explanation
Indices: 2687879--2687945 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
2687869 GCTATACACA
*
2687879 AAAGATCATGTT-ATTAATACCAAAAGTATTCCAC
1 AAAGATCATGTTAATTAATACCAAAAGCATTCCAC
* *
2687913 AAAGATCCTGTTAGATTGATACCAAAAGCATTC
1 AAAGATCATGTTA-ATTAATACCAAAAGCATTC
2687946 TATGGTAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 11 0.39
36 17 0.61
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (35 bp):
AAAGATCATGTTAATTAATACCAAAAGCATTCCAC
Found at i:2688559 original size:6 final size:7
Alignment explanation
Indices: 2688518--2688558 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
2688508 TTTTCATACA
2688518 TGCA-TT
1 TGCATTT
2688524 TGCATTT
1 TGCATTT
2688531 TGCATCTT
1 TGCAT-TT
*
2688539 TACATTT
1 TGCATTT
2688546 T-CATTT
1 TGCATTT
2688552 TGCATTT
1 TGCATTT
2688559 GTTGTTTGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
6 10 0.32
7 15 0.48
8 6 0.19
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.56
Consensus pattern (7 bp):
TGCATTT
Found at i:2693894 original size:55 final size:55
Alignment explanation
Indices: 2693810--2693917 Score: 162
Period size: 55 Copynumber: 2.0 Consensus size: 55
2693800 CTGATGATAA
* * * * *
2693810 ATCTGGGCAGAAGCCGCATGAAATGATGAATGTGTTGTCAAATGTTTTACGAAAC
1 ATCTGGGCAGAAACCACAGGAAAGGATGAATGAGTTGTCAAATGTTTTACGAAAC
*
2693865 ATCTGTGCAGAAACCACAGGAAAGGATGAATGAGTTGTCAAATGTTTTACGAA
1 ATCTGGGCAGAAACCACAGGAAAGGATGAATGAGTTGTCAAATGTTTTACGAA
2693918 CCAGTTATGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (55 bp):
ATCTGGGCAGAAACCACAGGAAAGGATGAATGAGTTGTCAAATGTTTTACGAAAC
Found at i:2695107 original size:73 final size:74
Alignment explanation
Indices: 2694988--2695204 Score: 334
Period size: 73 Copynumber: 3.0 Consensus size: 74
2694978 TTCAAATAGT
*
2694988 AATTTATCTCACTTGAGATTGTTTTTCTTAAAAC-AAATTGC-GTCTCGCTTGAGACAGTTTCAC
1 AATTTATCTCACTTGAGATTATTTTTCTTAAAACAAAATT-CTGTCTCGCTTGAGACAGTTTCAC
2695051 TCGAAACAAC
65 TCGAAACAAC
*
2695061 AATTTATCTCACTTGAGATTATTTTTCTTAAAACAAAATT-TGTCTCGCTTGAGACAATTTCACT
1 AATTTATCTCACTTGAGATTATTTTTCTTAAAACAAAATTCTGTCTCGCTTGAGACAGTTTCACT
*
2695125 CGAAACAAT
66 CGAAACAAC
* **
2695134 AATTTATCTCACTTGAGATTTTTTTTCTTAAAACAAGCTTCT-TCTCGCTTGAGACAGTTTCACT
1 AATTTATCTCACTTGAGATTATTTTTCTTAAAACAAAATTCTGTCTCGCTTGAGACAGTTTCACT
*
2695198 AGAAACA
66 CGAAACA
2695205 GAAATTTCCA
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
73 127 0.95
74 6 0.05
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (74 bp):
AATTTATCTCACTTGAGATTATTTTTCTTAAAACAAAATTCTGTCTCGCTTGAGACAGTTTCACT
CGAAACAAC
Found at i:2695168 original size:37 final size:36
Alignment explanation
Indices: 2694988--2695169 Score: 152
Period size: 37 Copynumber: 5.0 Consensus size: 36
2694978 TTCAAATAGT
*
2694988 AATTTATCTCACTTGAGATTGTTTTTCTTAAAAC-A
1 AATTTATCTCACTTGAGATTATTTTTCTTAAAACAA
** * * ** **
2695023 AATTGCGTCTCGCTTGAGA-CAGTTTCACTCGAAACAA
1 AATT-TATCTCACTTGAGATTA-TTTTTCTTAAAACAA
2695060 CAATTTATCTCACTTGAGATTATTTTTCTTAAAACAA
1 -AATTTATCTCACTTGAGATTATTTTTCTTAAAACAA
* * ** ** **
2695097 AATTTGTCTCGCTTGAGACAATTTCACTCGAAACAA
1 AATTTATCTCACTTGAGATTATTTTTCTTAAAACAA
*
2695133 TAATTTATCTCACTTGAGATTTTTTTTCTTAAAACAA
1 -AATTTATCTCACTTGAGATTATTTTTCTTAAAACAA
2695170 GCTTCTTCTC
Statistics
Matches: 107, Mismatches: 34, Indels: 10
0.71 0.23 0.07
Matches are distributed among these distances:
35 4 0.04
36 48 0.45
37 50 0.47
38 5 0.05
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (36 bp):
AATTTATCTCACTTGAGATTATTTTTCTTAAAACAA
Found at i:2695550 original size:122 final size:122
Alignment explanation
Indices: 2695226--2695692 Score: 632
Period size: 122 Copynumber: 3.8 Consensus size: 122
2695216 CACTCGATGG
* *
2695226 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
2695291 ATAAGAAGAACTTGTTCAATTTTTTGCTCAATTCTATCACAGAAGGAGATAGATCAGCATCAAC
66 ATAAGAAGAACTTGTTCAACTTTTTGCT-GATTCTATCACAGAA-G-G--AGAT-AG-ATCAAC
*
2695355 ATCAACATTTCCAGAGAAAATTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *
2695420 ATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
66 ATAAGAAGAACTTGTTCAACTTTTTGC-TGATTCTATCACAGAAGGAGATAGATCAAC
* **
2695478 ATCAATATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * *
2695542 ATAAGAAGAACTTATTCAACATTTTGCGTGATTCTATCACAGAAAGAGATAGATCAGC
66 ATAAGAAGAACTTGTTCAACTTTTTGC-TGATTCTATCACAGAAGGAGATAGATCAAC
* * * *
2695600 ATCAACATTTCCAGA-AGGATTTCATAATGAGAAGAACTCATCTGACGAGGAAAAAGAAGTTCAT
1 ATCAACATTTCCAGAGA-AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* * *
2695664 AATGAGAATAACTTCTTCAACTTTTTGCT
65 AATAAGAAGAACTTGTTCAACTTTTTGCT
2695693 CATCACAGAA
Statistics
Matches: 308, Mismatches: 28, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
122 113 0.37
123 87 0.28
124 2 0.01
125 4 0.01
127 1 0.00
128 1 0.00
129 99 0.32
130 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (122 bp):
ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATAAGAAGAACTTGTTCAACTTTTTGCTGATTCTATCACAGAAGGAGATAGATCAAC
Found at i:2695906 original size:3 final size:3
Alignment explanation
Indices: 2695893--2695986 Score: 86
Period size: 3 Copynumber: 31.7 Consensus size: 3
2695883 TTTTTATTTA
* * * * *
2695893 TAT TTT TAT TAT TATT TATT TAT TAT AAA TGT TAT TAT AAT TAT T-T
1 TAT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2695939 TAT TA- TAT TAT TAT TAT TAA TAT TAT TCT TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2695985 TA
1 TA
2695987 AAATAAATAA
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
2 6 0.08
3 60 0.82
4 7 0.10
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Done.