Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_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: 3688897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 16
Found at i:2621023 original size:39 final size:34
Alignment explanation
Indices: 2620973--2621067 Score: 91
Period size: 39 Copynumber: 2.6 Consensus size: 34
2620963 AAATATCAAC
* * *
2620973 TATACTATATAGTTTATATATAAACTATAGTTTATA
1 TATAATATATAGTTTATATATAAACCATA--CTATA
* * *
2621009 TAGTTTTATATATAGTTCATATGTAAACCATACTATA
1 TA---TAATATATAGTTTATATATAAACCATACTATA
2621046 TATAATATATAGTTTATATATA
1 TATAATATATAGTTTATATATA
2621068 TAATATAAGG
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
34 17 0.36
36 2 0.04
37 6 0.13
39 22 0.47
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.46
Consensus pattern (34 bp):
TATAATATATAGTTTATATATAAACCATACTATA
Found at i:2621067 original size:20 final size:20
Alignment explanation
Indices: 2621042--2621114 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
2621032 TAAACCATAC
2621042 TATATATAATATATAGTTTA
1 TATATATAATATATAGTTTA
*
2621062 TATATATAATATA-AGGTATA
1 TATATATAATATATA-GTTTA
*
2621082 TAAATATAA-ACTATAGTTTA
1 TATATATAATA-TATAGTTTA
*
2621102 TATATATTATATA
1 TATATATAATATA
2621115 CTACATAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 2 0.05
20 40 0.91
21 2 0.05
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (20 bp):
TATATATAATATATAGTTTA
Found at i:2621135 original size:38 final size:39
Alignment explanation
Indices: 2621045--2621137 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 39
2621035 ACCATACTAT
* *
2621045 ATATAATATATAGTTTATATATATAATATAAGGTATATAA
1 ATAT-ATATATAGTTTATATATATAATATAAGCTACATAA
* *
2621085 ATATAAACTATAGTTTATATATATTATAT-A-CTACATAA
1 ATATATA-TATAGTTTATATATATAATATAAGCTACATAA
*
2621123 ATAGTTTATATAGTT
1 ATA-TATATATAGTT
2621138 AATTAATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
38 16 0.36
39 5 0.11
40 24 0.53
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (39 bp):
ATATATATATAGTTTATATATATAATATAAGCTACATAA
Found at i:2621343 original size:30 final size:29
Alignment explanation
Indices: 2621282--2621352 Score: 70
Period size: 30 Copynumber: 2.4 Consensus size: 29
2621272 TAAAATTCTC
* *
2621282 TTAAAAAAATTTCGAGGACTAAATTAAATT
1 TTAATAAAA-TTCGAGGACTAAATGAAATT
* * *
2621312 TTAATTAAATTCGGGGACTAAAGTGACATT
1 TTAATAAAATTCGAGGACTAAA-TGAAATT
*
2621342 TTGATAAAATT
1 TTAATAAAATT
2621353 TGGATCCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (29 bp):
TTAATAAAATTCGAGGACTAAATGAAATT
Found at i:2621941 original size:17 final size:17
Alignment explanation
Indices: 2621919--2621952 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2621909 ACTTTGACCA
2621919 AAAAGTCAAATTTTTTG
1 AAAAGTCAAATTTTTTG
* *
2621936 AAAAGTTATATTTTTTG
1 AAAAGTCAAATTTTTTG
2621953 TTTTTCAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
AAAAGTCAAATTTTTTG
Found at i:2622747 original size:39 final size:39
Alignment explanation
Indices: 2622693--2622785 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 39
2622683 CTTTCCTCAG
* * *
2622693 GCTCCTCGGCTTTGTGCTCAGGGTAA-ATCCTTA-CTGCAA
1 GCTCCTCTGCTTTGTGCACAGGATAAGA-CCTTATC-GCAA
*
2622732 GCTCCTCTGCTTTGTGCACAGGATAAGACCTTATCGCAG
1 GCTCCTCTGCTTTGTGCACAGGATAAGACCTTATCGCAA
2622771 GCTCCTCTGCTTTGT
1 GCTCCTCTGCTTTGT
2622786 AAATAGGGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 46 0.96
40 2 0.04
ACGTcount: A:0.16, C:0.29, G:0.23, T:0.32
Consensus pattern (39 bp):
GCTCCTCTGCTTTGTGCACAGGATAAGACCTTATCGCAA
Found at i:2628380 original size:28 final size:29
Alignment explanation
Indices: 2628326--2628381 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
2628316 AACAAGATTT
2628326 ATATGATATCTGATTTACTGTATATTTTTG
1 ATATGATATCTGATTTACTG-ATATTTTTG
*
2628356 ATATGATCTCTGGA-TTACTG-TATTTT
1 ATATGATATCT-GATTTACTGATATTTT
2628382 CGTATCTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.25
30 16 0.67
31 2 0.08
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (29 bp):
ATATGATATCTGATTTACTGATATTTTTG
Found at i:2629610 original size:2 final size:2
Alignment explanation
Indices: 2629603--2629769 Score: 70
Period size: 2 Copynumber: 79.0 Consensus size: 2
2629593 CAATATAGTT
* * *
2629603 TA TA TA TA TA TA TA TA T- TCA TA TG TA AA CTA TA TA GTT TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA -TA TA TA -TA TA TA
* * * * *
2629645 TA GTT TA TA TA TA TA GTA TG TA CTA TA TA AA TA GTT TA TA TA GTT
1 TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA TA -TA
* * *
2629690 TA T- TA -A TA AA CTA TA TA TA TA TT TA TA TT TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
2629731 TA TA TA TT TCA TA TG TA AA CTA TA TA GTT TA TA TA TA TA
1 TA TA TA TA T-A TA TA TA TA -TA TA TA -TA TA TA TA TA TA
2629770 GTTAATATGT
Statistics
Matches: 120, Mismatches: 30, Indels: 30
0.67 0.17 0.17
Matches are distributed among these distances:
1 3 0.03
2 103 0.86
3 14 0.12
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2629769 original size:33 final size:32
Alignment explanation
Indices: 2629719--2629800 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 32
2629709 TATTTATATT
* *
2629719 TATATATATATATATATATTTCATATGTAAAC
1 TATATATATATATATATAGTTAATATGTAAAC
*
2629751 TATATAGTTTATATATATAGTTAATATGTAAAC
1 TATATA-TATATATATATAGTTAATATGTAAAC
*
2629784 TACTAAACTATATATAT
1 TA-TATA-TATATATAT
2629801 TATAATTTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
32 6 0.14
33 25 0.60
34 11 0.26
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (32 bp):
TATATATATATATATATAGTTAATATGTAAAC
Found at i:2629777 original size:11 final size:13
Alignment explanation
Indices: 2629641--2629777 Score: 59
Period size: 13 Copynumber: 10.1 Consensus size: 13
2629631 CTATATAGTT
2629641 TATATAGTTTATA
1 TATATAGTTTATA
2629654 TATATAGTATGTACTA
1 TATATAGT-T-TA-TA
2629670 TATAAATAGTTTATA
1 TAT--ATAGTTTATA
* *
2629685 TAGTTTA-TTAATA
1 TA-TATAGTTTATA
* *
2629698 AACTATA-TATATA
1 TA-TATAGTTTATA
*
2629711 TTTATA-TTTATA
1 TATATAGTTTATA
2629723 TATATA-TATATATA
1 TATATAGT-T-TATA
* * *
2629737 TTTCATA-TGTAAA
1 TAT-ATAGTTTATA
2629750 CTATATAGTTTATA
1 -TATATAGTTTATA
*
2629764 TATATAGTTAATA
1 TATATAGTTTATA
2629777 T
1 T
2629778 GTAAACTACT
Statistics
Matches: 95, Mismatches: 18, Indels: 22
0.70 0.13 0.16
Matches are distributed among these distances:
12 15 0.16
13 41 0.43
14 15 0.16
15 10 0.11
16 8 0.08
17 1 0.01
18 5 0.05
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:2629833 original size:24 final size:24
Alignment explanation
Indices: 2629792--2629850 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
2629782 ACTACTAAAC
2629792 TATATATATTATAATTTACATAGTT
1 TATATATA-TATAATTTACATAGTT
*
2629817 TATATATATATAATTTATATAGTT
1 TATATATATATAATTTACATAGTT
*
2629841 TATACATATA
1 TATATATATA
2629851 GTTCATATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 24 0.75
25 8 0.25
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (24 bp):
TATATATATATAATTTACATAGTT
Found at i:2630051 original size:26 final size:27
Alignment explanation
Indices: 2630008--2630064 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 27
2629998 TACTTAACTA
2630008 TATAATTTATACACAATATATATTA-TT
1 TATAATTTATACACAATATATA-TAGTT
*
2630035 TATAA-TTATACATAATATATATAGTT
1 TATAATTTATACACAATATATATAGTT
2630061 TATA
1 TATA
2630065 TATAGTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 2 0.07
26 21 0.75
27 5 0.18
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (27 bp):
TATAATTTATACACAATATATATAGTT
Found at i:2630064 original size:11 final size:11
Alignment explanation
Indices: 2630050--2630128 Score: 58
Period size: 11 Copynumber: 7.4 Consensus size: 11
2630040 TTATACATAA
2630050 TATATATAGTT
1 TATATATAGTT
2630061 TATATATAGTT
1 TATATATAGTT
* *
2630072 TATAT-TAATA
1 TATATATAGTT
*
2630082 AACTATATAGTT
1 TA-TATATAGTT
*
2630094 TAT-TA-A-TAA
1 TATATATAGT-T
2630103 TATATATAGTT
1 TATATATAGTT
* *
2630114 TACATATAGTA
1 TATATATAGTT
2630125 TATA
1 TATA
2630129 ATAATATAAC
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
8 1 0.02
9 4 0.08
10 8 0.16
11 33 0.65
12 5 0.10
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (11 bp):
TATATATAGTT
Found at i:2630126 original size:20 final size:20
Alignment explanation
Indices: 2630061--2630128 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
2630051 ATATATAGTT
2630061 TATATATAGTTTATATTAATAA
1 TATATATAGTTTA-A-TAATAA
*
2630083 -ACTATATAGTTTATTAATAA
1 TA-TATATAGTTTAATAATAA
*
2630103 TATATATAGTTTACAT-ATAG
1 TATATATAGTTTA-ATAATAA
2630123 TATATA
1 TATATA
2630129 ATAATATAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 26 0.65
21 3 0.08
22 11 0.28
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (20 bp):
TATATATAGTTTAATAATAA
Found at i:2630136 original size:79 final size:79
Alignment explanation
Indices: 2629973--2630117 Score: 197
Period size: 79 Copynumber: 1.8 Consensus size: 79
2629963 ACCCTAAACC
* * *
2629973 ATATATA-TATATATATAGTTTATATTACTTAACTATATAATTTATACACAATATATATTATTTA
1 ATATATAGTTTATATATAGTTTATATTAATAAACTATATAATTTATACACAATATATATTATTTA
*
2630037 TAATTATACATAAT
66 CAATTATACATAAT
* *
2630051 ATATATAGTTTATATATAGTTTATATTAATAAACTATATAGTTTATTA-ATAATATATA-TAGTT
1 ATATATAGTTTATATATAGTTTATATTAATAAACTATATAATTTA-TACACAATATATATTA-TT
2630114 TACA
64 TACA
2630118 TATAGTATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 9 0.16
79 47 0.81
80 2 0.03
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (79 bp):
ATATATAGTTTATATATAGTTTATATTAATAAACTATATAATTTATACACAATATATATTATTTA
CAATTATACATAAT
Found at i:2630151 original size:30 final size:30
Alignment explanation
Indices: 2630036--2630166 Score: 101
Period size: 30 Copynumber: 4.3 Consensus size: 30
2630026 TATATTATTT
*
2630036 ATAAT-TATACATAATA-TATATAGTTTATA
1 ATAATATATATATAA-ACTATATAGTTTATA
* *
2630065 TATAGTTTATATTAATAAACTATATAGTTTATTA
1 -ATAATATATA-T-ATAAACTATATAGTTTA-TA
** *
2630099 ATAATATATATAGTTTAC-ATATAGTATATA
1 ATAATATATATA-TAAACTATATAGTTTATA
2630129 ATAATATA-ACTATAAACTATATAGTTTAT-
1 ATAATATATA-TATAAACTATATAGTTTATA
*
2630158 ATATTATAT
1 ATAATATAT
2630167 TATTATATAG
Statistics
Matches: 81, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
29 11 0.14
30 26 0.32
31 14 0.17
32 5 0.06
33 23 0.28
34 2 0.02
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (30 bp):
ATAATATATATATAAACTATATAGTTTATA
Found at i:2630161 original size:26 final size:24
Alignment explanation
Indices: 2630132--2630190 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 24
2630122 GTATATAATA
2630132 ATATAACTATAAACTATATAGTTTAT
1 ATATAA-TAT-AACTATATAGTTTAT
* * * *
2630158 ATATTATATTATTATATAGTTTTT
1 ATATAATATAACTATATAGTTTAT
2630182 ATAT-ATATA
1 ATATAATATA
2630191 GATTTTCTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 4 0.14
24 16 0.57
25 3 0.11
26 5 0.18
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (24 bp):
ATATAATATAACTATATAGTTTAT
Found at i:2631791 original size:20 final size:19
Alignment explanation
Indices: 2631766--2631804 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2631756 GTGAAGGCAT
2631766 TTCATTTCTCCGAGCGACCC
1 TTCA-TTCTCCGAGCGACCC
**
2631786 TTCATTCTCTTAGCGACCC
1 TTCATTCTCCGAGCGACCC
2631805 CTATTAGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.15, C:0.38, G:0.13, T:0.33
Consensus pattern (19 bp):
TTCATTCTCCGAGCGACCC
Found at i:2638234 original size:37 final size:37
Alignment explanation
Indices: 2638192--2638295 Score: 109
Period size: 37 Copynumber: 2.8 Consensus size: 37
2638182 ACAGAACTTT
2638192 ATCTCACTTGAGATAGTTTTTCCTCAAAAATAGTTTC
1 ATCTCACTTGAGATAGTTTTTCCTCAAAAATAGTTTC
* * * * * * * *
2638229 GTCTCACTTGAGAGAGTTTCTCTTGAAACATATTTTT
1 ATCTCACTTGAGATAGTTTTTCCTCAAAAATAGTTTC
* * *
2638266 ATCTCAATGGAGATAGTTTTTCCTTAAAAA
1 ATCTCACTTGAGATAGTTTTTCCTCAAAAA
2638296 CAATTTTTGT
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (37 bp):
ATCTCACTTGAGATAGTTTTTCCTCAAAAATAGTTTC
Found at i:2638359 original size:36 final size:36
Alignment explanation
Indices: 2638282--2638359 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
2638272 ATGGAGATAG
* * * *
2638282 TTTTTCCTTAAAAACAATTTTTGTCTCACTCGGGAC
1 TTTTTCATTAAAAACAAATTTTATCTCACTCGAGAC
* *
2638318 ATTTTCATTAAAAACAAAATTTTATCTCACTTGAGA-
1 TTTTTCATTAAAAAC-AAATTTTATCTCACTCGAGAC
2638354 TTTTTC
1 TTTTTC
2638360 CCTTGAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
36 18 0.53
37 16 0.47
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.44
Consensus pattern (36 bp):
TTTTTCATTAAAAACAAATTTTATCTCACTCGAGAC
Found at i:2638544 original size:72 final size:71
Alignment explanation
Indices: 2638453--2638629 Score: 203
Period size: 72 Copynumber: 2.5 Consensus size: 71
2638443 TTTTTTTTAT
* *
2638453 CTCACTCGAGACAGTTTCTCTCGAAATAAAATTGCATCTCCCTGGAAATATTTTACCTTG-AAAC
1 CTCACTCGAGACAGTTTCTCTCGAAAAAAAATTGCATCTCCCTGGAAATATTTTACCATGAAAAC
2638517 TTTATCGC
66 -TT-TCGC
* * * * * * * *
2638525 CTCACTCGAGTCAATTTCTCTTGAAACAAAAATTTCATCTCTCTTGAGATATTTTCCCATGAAAA
1 CTCACTCGAGACAGTTTCTCTCGAAA-AAAAATTGCATCTCCCTGGAAATATTTTACCATGAAAA
*
2638590 CTTTCGT
65 CTTTCGC
* *
2638597 CTCACTCGAGACAGTTTATCTCGAAACAAAATT
1 CTCACTCGAGACAGTTTCTCTCGAAAAAAAATT
2638630 TTATCTCACT
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
71 6 0.07
72 48 0.55
73 29 0.33
74 4 0.05
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (71 bp):
CTCACTCGAGACAGTTTCTCTCGAAAAAAAATTGCATCTCCCTGGAAATATTTTACCATGAAAAC
TTTCGC
Found at i:2638577 original size:73 final size:71
Alignment explanation
Indices: 2638150--2638735 Score: 347
Period size: 74 Copynumber: 8.0 Consensus size: 71
2638140 CACTTCAAAT
* * * *
2638150 TTTTTGTCTCACTCGAGACAGTTTCTCTC-AGAACAGAACTTT-ATCTCACTTGAGATAGTTTTT
1 TTTTCGTCTCACTCGAGACAATTTCTCTCGA-AACA-AAATTTCATCTCACTTGAGATA-TTTTC
** *
2638213 CCTCAAAAA
63 CCTTGAAAC
* * * * * * * * * *
2638222 TAGTTTCGTCTCACTTGAGAGAGTTTCTCTTGAAACATATTTTTATCTCAATGGAGATAGTTTTT
1 T--TTTCGTCTCACTCGAGACAATTTCTCTCGAAACAAAATTTCATCTCACTTGAGATA-TTTTC
*
2638287 CCTTAAAAAC
63 CCTT-GAAAC
* * * ** *
2638297 AATTTTTGTCTCACTCGGGACATTTTCAT-TAAAAACAAAATTTTATCTCACTTGAGAT-TTTTC
1 --TTTTCGTCTCACTCGAGACAATTTC-TCTCGAAACAAAATTTCATCTCACTTGAGATATTTTC
*
2638360 CCTTGAAAA
63 CCTTGAAAC
* * * * * **
2638369 TTTT-GTCTCATTCGAGACAATTTCTCTTGAAATAAAAATGTTTTCATCTCCCTTGATATCGTTT
1 TTTTCGTCTCACTCGAGACAATTTCTCTCGAAA-CAAAA---TTTCATCTCACTTGAGATATTTT
* *
2638433 CTCTTGAATATTT
62 CCCTTGAA-A--C
** * * * * * * *
2638446 TTTTTATCTCACTCGAGACAGTTTCTCTCGAAATAAAATTGCATCTCCCTGGAAATATTTTACCT
1 TTTTCGTCTCACTCGAGACAATTTCTCTCGAAACAAAATTTCATCTCACTTGAGATATTTTCCCT
2638511 TGAAAC
66 TGAAAC
* * * *
2638517 TTTATCGCCTCACTCGAGTCAATTTCTCTTGAAACAAAAATTTCATCTCTCTTGAGATATTTTCC
1 TTT-TCGTCTCACTCGAGACAATTTCTCTCGAAAC-AAAATTTCATCTCACTTGAGATATTTTCC
*
2638582 CATGAAAAC
64 CTTG-AAAC
* * *
2638591 -TTTCGTCTCACTCGAGACAGTTTATCTCGAAACAAAATTTTATCTCACTTGAGATAGTTTTCCC
1 TTTTCGTCTCACTCGAGACAATTTCTCTCGAAACAAAATTTCATCTCACTTGAGATA-TTTTCCC
**
2638655 TCAAAAAC
65 T-TGAAAC
* * * * * * * * *
2638663 AATTTTTGTCTCACTCAAAACAGTTTCTCTAGAAACGAAAATTTTATTTCCCTTCAGATATTTTC
1 --TTTTCGTCTCACTCGAGACAATTTCTCTCGAAAC-AAAATTTCATCTCACTTGAGATATTTTC
2638728 CCTTGAAA
63 CCTTGAAA
2638736 ATGTTTTTGT
Statistics
Matches: 405, Mismatches: 82, Indels: 52
0.75 0.15 0.10
Matches are distributed among these distances:
68 1 0.00
69 21 0.05
70 8 0.02
71 24 0.06
72 65 0.16
73 57 0.14
74 91 0.22
75 84 0.21
76 21 0.05
77 9 0.02
78 24 0.06
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (71 bp):
TTTTCGTCTCACTCGAGACAATTTCTCTCGAAACAAAATTTCATCTCACTTGAGATATTTTCCCT
TGAAAC
Found at i:2638704 original size:147 final size:144
Alignment explanation
Indices: 2638151--2638736 Score: 448
Period size: 147 Copynumber: 4.0 Consensus size: 144
2638141 ACTTCAAATT
* * * *
2638151 TTTTGTCTCACTCGAGACAGTTTCTCTC-AGAACAGAACTTTATCTCACTTGAGATAGTTTTTCC
1 TTTTGTCTCACTCGAGACAGTTTATCTCGA-AACAAAATTTTATCTCACTTGAGATA-TTTTCCC
* * * * * * * * ** *
2638215 TCAAAAATAGTTTCGTCTCACTTGAGAGAGTTTCTCTTGAAAC-ATATTTTTATCTCAATGGAGA
64 T-AAAAAAATTTTCGTCTCACTCGAGACAATTTCTCTTGAAACAAAAATTTCATCTCCCTTGAGA
* *
2638279 TAGTTTTTCCTTAAAAAC
128 TA-TTTTCCCTTGAAAAC
* * **
2638297 AATTTTTGTCTCACTCGGGACATTTTCAT-TAAAAACAAAATTTTATCTCACTTGAGAT-TTTTC
1 ---TTTTGTCTCACTCGAGACAGTTT-ATCTCGAAACAAAATTTTATCTCACTTGAGATATTTTC
** * *
2638360 CCT-TGAAAATTTT-GTCTCATTCGAGACAATTTCTCTTGAAATAAAAATGTTTTCATCTCCCTT
62 CCTAAAAAAATTTTCGTCTCACTCGAGACAATTTCTCTTGAAACAAAAA---TTTCATCTCCCTT
* ** * **
2638423 GATATCGTTTCTCTTGAATATTTT
124 GAGATATTTTCCCTTGAA-A--AC
* * * ** * * * *
2638447 TTTTATCTCACTCGAGACAGTTTCTCTCGAAATAAAATTGCATCTCCCTGGAAATATTTTACCT-
1 TTTTGTCTCACTCGAGACAGTTTATCTCGAAACAAAATTTTATCTCACTTGAGATATTTTCCCTA
** * * * *
2638511 TGAAACTTTATCGCCTCACTCGAGTCAATTTCTCTTGAAACAAAAATTTCATCTCTCTTGAGATA
66 AAAAAATTT-TCGTCTCACTCGAGACAATTTCTCTTGAAACAAAAATTTCATCTCCCTTGAGATA
*
2638576 TTTTCCCATGAAAAC
130 TTTTCCCTTGAAAAC
*
2638591 TTTCGTCTCACTCGAGACAGTTTATCTCGAAACAAAATTTTATCTCACTTGAGATAGTTTTCCCT
1 TTTTGTCTCACTCGAGACAGTTTATCTCGAAACAAAATTTTATCTCACTTGAGATA-TTTTCCCT
* * * * * * * * *
2638656 CAAAAACAATTTTTGTCTCACTCAAAACAGTTTCTCTAGAAACGAAAATTTTATTTCCCTTCAGA
65 -AAAAA-AATTTTCGTCTCACTCGAGACAATTTCTCTTGAAACAAAAATTTCATCTCCCTTGAGA
2638721 TATTTTCCCTTGAAAA
128 TATTTTCCCTTGAAAA
2638737 TGTTTTTGTC
Statistics
Matches: 338, Mismatches: 82, Indels: 36
0.74 0.18 0.08
Matches are distributed among these distances:
144 71 0.21
145 15 0.04
146 2 0.01
147 139 0.41
148 33 0.10
149 46 0.14
150 32 0.09
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (144 bp):
TTTTGTCTCACTCGAGACAGTTTATCTCGAAACAAAATTTTATCTCACTTGAGATATTTTCCCTA
AAAAAATTTTCGTCTCACTCGAGACAATTTCTCTTGAAACAAAAATTTCATCTCCCTTGAGATAT
TTTCCCTTGAAAAC
Found at i:2640694 original size:17 final size:17
Alignment explanation
Indices: 2640672--2640709 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
2640662 GATTGTAACC
*
2640672 AAAAAAATGGCAACAAT
1 AAAAAAATGCCAACAAT
*
2640689 AAAAAAATGCCAGCAAT
1 AAAAAAATGCCAACAAT
2640706 AAAA
1 AAAA
2640710 GAGAAACCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.66, C:0.13, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAAAATGCCAACAAT
Found at i:2642150 original size:20 final size:20
Alignment explanation
Indices: 2642122--2642166 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
2642112 GCTTTAGACC
*
2642122 TAAACCAAAACGAAAAT-AAA
1 TAAAACAAAA-GAAAATAAAA
2642142 TAAAACAAAAGAAAATAAAA
1 TAAAACAAAAGAAAATAAAA
2642162 TAAAA
1 TAAAA
2642167 AGAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.76, C:0.09, G:0.04, T:0.11
Consensus pattern (20 bp):
TAAAACAAAAGAAAATAAAA
Found at i:2642157 original size:15 final size:14
Alignment explanation
Indices: 2642128--2642175 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
2642118 GACCTAAACC
*
2642128 AAAACGAAAATAAAT
1 AAAAC-AAAAAAAAT
2642143 AAAACAAAAGAAAAT
1 AAAACAAAA-AAAAT
* *
2642158 AAAATAAAAAGAAT
1 AAAACAAAAAAAAT
2642172 AAAA
1 AAAA
2642176 ATTAAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.10
Consensus pattern (14 bp):
AAAACAAAAAAAAT
Found at i:2642230 original size:18 final size:18
Alignment explanation
Indices: 2642207--2642248 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
2642197 ATGTATTATA
2642207 TATATATACTTT-AAAAAC
1 TATATAT-CTTTCAAAAAC
*
2642225 TATATATTTTTCAAAAAC
1 TATATATCTTTCAAAAAC
2642243 TATATA
1 TATATA
2642249 ATATATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (18 bp):
TATATATCTTTCAAAAAC
Found at i:2642268 original size:27 final size:27
Alignment explanation
Indices: 2642234--2642299 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
2642224 CTATATATTT
2642234 TTCAAAAACTATATAATATATTATATA
1 TTCAAAAACTATATAATATATTATATA
2642261 TTCAAAAACTATATAATATATTATATA
1 TTCAAAAACTATATAATATATTATATA
2642288 TTCAAAAACTAT
1 TTCAAAAACTAT
2642300 GTTATCATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (27 bp):
TTCAAAAACTATATAATATATTATATA
Found at i:2642344 original size:19 final size:19
Alignment explanation
Indices: 2642317--2642372 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
2642307 TAAATTATAC
*
2642317 ATTATATATGTTTTCAAAA
1 ATTAAATATGTTTTCAAAA
2642336 ATTAAATA--TTTTC-AAA
1 ATTAAATATGTTTTCAAAA
2642352 ATTATAATATGTTTTCAAAA
1 ATTA-AATATGTTTTCAAAA
2642372 A
1 A
2642373 CTACATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 7 0.22
17 9 0.28
19 12 0.38
20 4 0.12
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (19 bp):
ATTAAATATGTTTTCAAAA
Found at i:2642447 original size:22 final size:23
Alignment explanation
Indices: 2642414--2642475 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 23
2642404 TTATATAATG
2642414 TACTTTCAAAAACTATATTATATA
1 TACTTTC-AAAACTATATTATATA
2642438 TA-TTTCAAAACTATATATTATATA
1 TACTTTCAAAAC--TATATTATATA
*
2642462 TATTTTCAAAACTA
1 TACTTTCAAAACTA
2642476 CATATTACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.14
23 6 0.17
24 15 0.43
25 9 0.26
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.44
Consensus pattern (23 bp):
TACTTTCAAAACTATATTATATA
Found at i:2642459 original size:24 final size:25
Alignment explanation
Indices: 2642386--2642482 Score: 91
Period size: 25 Copynumber: 4.1 Consensus size: 25
2642376 CATTTTTGAA
*
2642386 TATATATA-TATTCAAAAAT-TATA-
1 TATATATACT-TTCAAAACTATATAT
*
2642409 TA-ATGTACTTTCAAAA--ACTATAT
1 TATATATACTTTCAAAACTA-TATAT
2642432 TATATATA-TTTCAAAACTATATAT
1 TATATATACTTTCAAAACTATATAT
* *
2642456 TATATATATTTTCAAAACTACATAT
1 TATATATACTTTCAAAACTATATAT
2642481 TA
1 TA
2642483 CATAATATAT
Statistics
Matches: 63, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
22 15 0.24
23 13 0.21
24 17 0.27
25 18 0.29
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.43
Consensus pattern (25 bp):
TATATATACTTTCAAAACTATATAT
Found at i:2651062 original size:15 final size:15
Alignment explanation
Indices: 2651021--2651072 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
2651011 TAAAATAATC
2651021 AAGTAAACTAAATTA
1 AAGTAAACTAAATTA
*
2651036 AA-TAAAATTAAATTA
1 AAGT-AAACTAAATTA
* *
2651051 AAGTAAAGTAAAGTAA
1 AAGTAAACTAAA-TTA
2651067 AAGTAA
1 AAGTAA
2651073 TAAGAATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 1 0.03
15 21 0.68
16 9 0.29
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (15 bp):
AAGTAAACTAAATTA
Found at i:2651934 original size:24 final size:22
Alignment explanation
Indices: 2651880--2651941 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
2651870 TAATTCTAAC
* *
2651880 AAACTAAAAATCCTAATTAATA
1 AAACTAAAAATTCTAAATAATA
*
2651902 AAGATTAAAAATTCTAAATAATA
1 AA-ACTAAAAATTCTAAATAATA
2651925 GTAAACTAAAAATTCTA
1 --AAACTAAAAATTCTA
2651942 TGCAAACTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 2 0.06
23 17 0.52
24 12 0.36
25 2 0.06
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (22 bp):
AAACTAAAAATTCTAAATAATA
Found at i:2657657 original size:24 final size:23
Alignment explanation
Indices: 2657603--2657664 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
2657593 TAATTCTAAC
* *
2657603 AAACTAAAAATCCTAATTAATAT
1 AAACTAAAAATTCTAAATAATAT
* *
2657626 ATATTAAAAATTCTAAATAATAGT
1 AAACTAAAAATTCTAAATAATA-T
2657650 AAACTAAAAATTCTA
1 AAACTAAAAATTCTA
2657665 TGCAAACTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 18 0.56
24 14 0.44
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (23 bp):
AAACTAAAAATTCTAAATAATAT
Found at i:2661315 original size:45 final size:45
Alignment explanation
Indices: 2661261--2661812 Score: 795
Period size: 45 Copynumber: 12.3 Consensus size: 45
2661251 ATTATTCATT
2661261 ATTTCCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
1 ATTT-CATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
** *
2661307 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCATTGGTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
*
2661352 ATTTCATTTATGGCATCCTTAT-ATGTCTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTT-TCATGCCTTTAATGCACCGTTATGC
* * * *
2661397 ATTTCATTTATGGCATCATTTCAGGCTTTTAATGCACTGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * **
2661442 ATTTCATTTATGGAATCCTTTCATGCCTTTAAAGCACTATTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
*
2661487 ATTTCATTTCTGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
*
2661532 ATTTCATTTATGGTATCCTTTCATGCCTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * *
2661577 ATTTTATTTATGACATCATTTCATG-CTTT-ATAGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAAT-GCACCGTTATGC
* *
2661621 ATTTCATTTATGGCATCCTTTCATTCCTTTAAAGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * * *
2661666 ATTTCATTTATGGTATTCATTCATGCCTTTAATGCACCATTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * ** *
2661711 ATTTCATTTATGGCATACATTCATGCCTTTAAAACACCTTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
*
2661756 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
2661801 ATTTCATTTATG
1 ATTTCATTTATG
2661813 AAATAAAAAC
Statistics
Matches: 450, Mismatches: 51, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
43 2 0.00
44 38 0.08
45 404 0.90
46 6 0.01
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (45 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
Found at i:2662303 original size:40 final size:40
Alignment explanation
Indices: 2662228--2662343 Score: 160
Period size: 40 Copynumber: 2.9 Consensus size: 40
2662218 TTTTTTGAAC
* *
2662228 AAACGCTGGTAAATACTTGTGCTTTAGTGGCGTTTTTATAT
1 AAACGCTGCTAAATA-TTGTACTTTAGTGGCGTTTTTATAT
* * *
2662269 AAATGCTGCTAAATATTGTACTTTAGTGGTGTTTTTTTAT
1 AAACGCTGCTAAATATTGTACTTTAGTGGCGTTTTTATAT
* *
2662309 AAACGCCGCTAAATAATGTACTTTAGTGGCGTTTT
1 AAACGCTGCTAAATATTGTACTTTAGTGGCGTTTT
2662344 AAGCACAAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 53 0.80
41 13 0.20
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (40 bp):
AAACGCTGCTAAATATTGTACTTTAGTGGCGTTTTTATAT
Found at i:2662362 original size:81 final size:80
Alignment explanation
Indices: 2662276--2662502 Score: 247
Period size: 81 Copynumber: 2.8 Consensus size: 80
2662266 TATAAATGCT
* * * *
2662276 GCTAAATATTGTACTTTAGTGGTGTTTTTTTATAAACGCCGCTAAATAATGTACTTTAGTGGCGT
1 GCTAAATATTGTACTTTAGTGGTGTTTCTATATAAACGCCGCTAAA-AATATACTTTAGTGGCAT
2662341 TTTAAGCACAAACACC
65 TTTAAGCACAAACACC
* * * * * *
2662357 TCTAAATGCTCGTATTTTAGTGGTGTTTCTATATAAACGCCGCTAAAACTATTCTTTAGTGGCAT
1 GCTAAAT-ATTGTACTTTAGTGGTGTTTCTATATAAACGCCGCTAAAAATATACTTTAGTGGCAT
*
2662422 TTTAAGCACAAACGCC
65 TTTAAGCACAAACACC
* * * * * **
2662438 GCTAAATACTATACTTTAGTAGTGTTTCAATCACAAACGCCGCTAAACGCTCATACTTTAGTGGC
1 GCTAAATATTGTACTTTAGTGGTGTTTCTAT-ATAAACGCCGCTAAA-AAT-ATACTTTAGTGGC
2662503 GTTTCTATAC
Statistics
Matches: 120, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
80 17 0.14
81 55 0.46
82 36 0.30
83 12 0.10
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (80 bp):
GCTAAATATTGTACTTTAGTGGTGTTTCTATATAAACGCCGCTAAAAATATACTTTAGTGGCATT
TTAAGCACAAACACC
Found at i:2662403 original size:41 final size:41
Alignment explanation
Indices: 2662226--2662644 Score: 310
Period size: 41 Copynumber: 10.3 Consensus size: 41
2662216 TATTTTTTGA
* * * *
2662226 ACAAACGCTGGTAAATACTTGTGCTTTAGTGGCGTTTTTAT
1 ACAAACGCCGCTAAATACTCGTACTTTAGTGGCGTTTTTAT
* * * * * *
2662267 ATAAATGCTGCTAAATA-TTGTACTTTAGTGGTGTTTTTTT
1 ACAAACGCCGCTAAATACTCGTACTTTAGTGGCGTTTTTAT
* * * *
2662307 ATAAACGCCGCTAAATAAT-GTACTTTAGTGGCGTTTTAAGC
1 ACAAACGCCGCTAAATACTCGTACTTTAGTGGCGTTTTTA-T
* * * * * *
2662348 ACAAACACCTCTAAATGCTCGTATTTTAGTGGTGTTTCTAT
1 ACAAACGCCGCTAAATACTCGTACTTTAGTGGCGTTTTTAT
* * * * * *
2662389 ATAAACGCCGCTAAA-ACT-ATTCTTTAGTGGCATTTTAAGC
1 ACAAACGCCGCTAAATACTCGTACTTTAGTGGCGTTTTTA-T
* * * **
2662429 ACAAACGCCGCTAAATACT-ATACTTTAGTAGTGTTTCAAT
1 ACAAACGCCGCTAAATACTCGTACTTTAGTGGCGTTTTTAT
** * *
2662469 CACAAACGCCGCTAAACGCTCATACTTTAGTGGCGTTTCTAT
1 -ACAAACGCCGCTAAATACTCGTACTTTAGTGGCGTTTTTAT
* * * * **
2662511 ACAAATGCCACCAAATACCCGTACTTTAGTGGAATTTTTAT
1 ACAAACGCCGCTAAATACTCGTACTTTAGTGGCGTTTTTAT
* * * **
2662552 ACAAATGCCGCCAAAGACTCGTACTTTAGTGATGTTTTTAT
1 ACAAACGCCGCTAAATACTCGTACTTTAGTGGCGTTTTTAT
* * * *
2662593 ACGAACGCCG-TCAAAGACCCGTACTTTAGTGGCATTTTTAT
1 ACAAACGCCGCT-AAATACTCGTACTTTAGTGGCGTTTTTAT
2662634 ACAAACGCCGC
1 ACAAACGCCGC
2662645 CAAAGACCTT
Statistics
Matches: 299, Mismatches: 70, Indels: 17
0.77 0.18 0.04
Matches are distributed among these distances:
39 13 0.04
40 68 0.23
41 184 0.62
42 34 0.11
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (41 bp):
ACAAACGCCGCTAAATACTCGTACTTTAGTGGCGTTTTTAT
Found at i:2665887 original size:18 final size:18
Alignment explanation
Indices: 2665853--2665885 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2665843 CTCCCACGTT
2665853 GTTTTCTTTCTCTTTTTG
1 GTTTTCTTTCTCTTTTTG
2665871 GTTTT-TTT-TCTTTTT
1 GTTTTCTTTCTCTTTTT
2665886 TTTTAACACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (18 bp):
GTTTTCTTTCTCTTTTTG
Found at i:2677390 original size:19 final size:19
Alignment explanation
Indices: 2677366--2677404 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2677356 TCGAATGCAT
2677366 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
* *
2677385 TCCATGCATCGATGGACTC
1 TCCATGCACCGATGCACTC
2677404 T
1 T
2677405 GAATATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:2677529 original size:64 final size:65
Alignment explanation
Indices: 2677352--2677514 Score: 204
Period size: 65 Copynumber: 2.5 Consensus size: 65
2677342 GAATTAATTG
* * * * *
2677352 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGGACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* * ** **
2677417 AACATCAAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
2677480 A
65 A
2677481 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
2677515 TGGTGCACCG
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
64 35 0.43
65 47 0.57
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:2679062 original size:117 final size:118
Alignment explanation
Indices: 2678851--2679064 Score: 265
Period size: 117 Copynumber: 1.8 Consensus size: 118
2678841 ATCTTATTTT
*
2678851 GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGGAGTTAGAGCTTTCAAAAA
1 GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGAAGTTAGAGCTTTCAAAAA
*
2678916 TAAAATCGGAAAACTTTGAAAAAGAAATTTTCAAATTAAACAAACTTCTTCTA
66 TAAAATCGGAAAACTTGGAAAAAGAAATTTTCAAATTAAACAAACTTCTTCTA
* * * * *
2678969 GAAA-CTAAAATGGATTTTGAAAA-ACAAAATGAAAT-TTCGAAGAAGAATTTAGAGCTTTCAAA
1 GAAAGCTAAAAAGGACTTGGAAAATA-AAAATGAAATGTT-GAAAAAGAAGTTAGAGCTTTCAAA
* ** * *
2679031 GATAAAATTTG-AAAGTATGGAAAAGGAAATTTTC
64 AATAAAATCGGAAAACT-TGGAAAAAGAAATTTTC
2679065 GATTTAGAAG
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
116 7 0.09
117 70 0.86
118 4 0.05
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (118 bp):
GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGAAGTTAGAGCTTTCAAAAA
TAAAATCGGAAAACTTGGAAAAAGAAATTTTCAAATTAAACAAACTTCTTCTA
Found at i:2679633 original size:20 final size:21
Alignment explanation
Indices: 2679600--2679639 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2679590 TTTTAACGTA
2679600 ATTGATATTCATTTT-AAACC
1 ATTGATATTCATTTTCAAACC
2679620 ATTGATA-TCAATTTTCAAAC
1 ATTGATATTC-ATTTTCAAAC
2679640 AATTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 12 0.67
21 4 0.22
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATTCATTTTCAAACC
Found at i:2679647 original size:22 final size:20
Alignment explanation
Indices: 2679599--2679643 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2679589 ATTTTAACGT
2679599 AATTGATATTCATTTTAAAC
1 AATTGATATTCATTTTAAAC
*
2679619 CATTGATA-TCAATTTTCAAAC
1 AATTGATATTC-ATTTT-AAAC
2679640 AATT
1 AATT
2679644 TGATTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.57
21 7 0.33
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (20 bp):
AATTGATATTCATTTTAAAC
Found at i:2684625 original size:19 final size:19
Alignment explanation
Indices: 2684601--2684639 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2684591 TCGAATGCAT
2684601 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
2684620 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
2684639 T
1 T
2684640 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:2684656 original size:65 final size:64
Alignment explanation
Indices: 2684538--2684746 Score: 203
Period size: 65 Copynumber: 3.2 Consensus size: 64
2684528 TATTCAAAGG
* *
2684538 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAACATCGAATGC
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC--TGAATAT-TTTCAAACATCGAATGC
*
2684599 ATTC
61 ATTT
2684603 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTT
* * *** * ** *
2684668 GATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTCAAACATCAAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATTT
*
2684732 CATGCATCGATGCAC
1 CATGCACCGATGCAC
2684747 ACTTGGTGCA
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
63 7 0.06
64 51 0.41
65 65 0.52
66 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTT
Found at i:2684742 original size:64 final size:65
Alignment explanation
Indices: 2684587--2684747 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
2684577 GAATTAATTG
* * *** *
2684587 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
2684652 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
2684715 A
65 A
*
2684716 AACATCAAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
2684748 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 35 0.42
65 49 0.58
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:2685962 original size:45 final size:45
Alignment explanation
Indices: 2685912--2686302 Score: 615
Period size: 45 Copynumber: 8.7 Consensus size: 45
2685902 TTTATGGCAT
* *
2685912 CCTTTAATGCACCGTTATGCATTTCATTTATGGAATTCTTTCATG
1 CCTTTAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATG
* *
2685957 CCTTTAATGCACCGGTAAT-CATTTCATTTATGGCAGCCTTTCATG
1 CCTTTAATGCACC-GTTATGCATTTCATTTATGGCATCCTTTCATG
* * *
2686002 CCTTTAATGCATCGTTCTGCATTTCATTTATGGCATCATTTCATG
1 CCTTTAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATG
* **
2686047 CCTTTAATGCAACGTTATGCATTTCATTTATGAAATCCTTTCATG
1 CCTTTAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATG
*
2686092 CCTTTAATGCACCGTTATGCATTTCATTTATGTCATCCTTTCATG
1 CCTTTAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATG
*
2686137 CCTTTAATACACCGTTATGCATTTCATTTATGGCATCCTTTCATG
1 CCTTTAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATG
* *
2686182 CC-TTAATGCACCGTTATGCATTTCATGTATGGCATCCTTTCATT
1 CCTTTAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATG
*
2686226 CCTTTAATGCATCGTTATGCATTTCATTTATGGCATCCTTTCATG
1 CCTTTAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATG
*
2686271 CCTTTAATGCATCGTTATGCATTTCATTTATG
1 CCTTTAATGCACCGTTATGCATTTCATTTATG
2686303 AAATAAAAAC
Statistics
Matches: 318, Mismatches: 25, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
44 44 0.14
45 270 0.85
46 4 0.01
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.43
Consensus pattern (45 bp):
CCTTTAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATG
Found at i:2689082 original size:14 final size:15
Alignment explanation
Indices: 2689053--2689082 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2689043 TATGAAAACA
2689053 AGAACATGTGATATG
1 AGAACATGTGATATG
2689068 AGAACATGT-ATATG
1 AGAACATGTGATATG
2689082 A
1 A
2689083 TTATGAGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (15 bp):
AGAACATGTGATATG
Found at i:2691583 original size:134 final size:134
Alignment explanation
Indices: 2691343--2691613 Score: 515
Period size: 134 Copynumber: 2.0 Consensus size: 134
2691333 ATTGCAAGGC
*
2691343 AATTAGAGAATGATAAGGAAATTTATTGATTGATTGATTTATGATTTTGAGTAATAAGAACTAAT
1 AATTAGAGAATGATAAGGAAATTGATTGATTGATTGATTTATGATTTTGAGTAATAAGAACTAAT
*
2691408 GTTACTGTCTACATGATAAGTGTCATGATATGGAAATATTAAGGAAAAAGGTAGTTAAAGAATTG
66 GTTACTGTCTACATGATAAGTGACATGATATGGAAATATTAAGGAAAAAGGTAGTTAAAGAATTG
2691473 AAGT
131 AAGT
*
2691477 AATTAGAGAATGATAAGGAAATTGATTGATTGATTGATTTATGATTTTGAGTAATAAGAACTGAT
1 AATTAGAGAATGATAAGGAAATTGATTGATTGATTGATTTATGATTTTGAGTAATAAGAACTAAT
2691542 GTTACTGTCTACATGATAAGTGACATGATATGGAAATATTAAGGAAAAAGGTAGTTAAAGAATTG
66 GTTACTGTCTACATGATAAGTGACATGATATGGAAATATTAAGGAAAAAGGTAGTTAAAGAATTG
2691607 AAGT
131 AAGT
2691611 AAT
1 AAT
2691614 GAAATCCAAG
Statistics
Matches: 134, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 134 1.00
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (134 bp):
AATTAGAGAATGATAAGGAAATTGATTGATTGATTGATTTATGATTTTGAGTAATAAGAACTAAT
GTTACTGTCTACATGATAAGTGACATGATATGGAAATATTAAGGAAAAAGGTAGTTAAAGAATTG
AAGT
Found at i:2693942 original size:12 final size:12
Alignment explanation
Indices: 2693925--2693953 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
2693915 TGGAAGCATT
2693925 ATGTAGAATGAA
1 ATGTAGAATGAA
2693937 ATGTAGAATGAA
1 ATGTAGAATGAA
2693949 ATGTA
1 ATGTA
2693954 CATGCATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (12 bp):
ATGTAGAATGAA
Found at i:2701237 original size:29 final size:29
Alignment explanation
Indices: 2701199--2701264 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 29
2701189 AAGTATAAAT
*
2701199 AAATATTGGACTTAAAAGATTTAAGTAATG
1 AAAT-TTGGACTTAAAAGAATTAAGTAATG
*
2701229 AAATTTGGACTTAAAATAATTAAGTAATG
1 AAATTTGGACTTAAAAGAATTAAGTAATG
2701258 AAATTTG
1 AAATTTG
2701265 CAATTGCCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 30 0.88
30 4 0.12
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.35
Consensus pattern (29 bp):
AAATTTGGACTTAAAAGAATTAAGTAATG
Found at i:2702435 original size:20 final size:20
Alignment explanation
Indices: 2702387--2702475 Score: 90
Period size: 20 Copynumber: 4.3 Consensus size: 20
2702377 ATAACCAACA
* **
2702387 AATTCGCAACGCGAATTTTCC
1 AATTCGCAACTC-AATTTTGT
*
2702408 AGATTCGCAACTCAGTTTTGT
1 A-ATTCGCAACTCAATTTTGT
2702429 AATTCGCAACTCAATTTTGT
1 AATTCGCAACTCAATTTTGT
* *
2702449 AATTCGCAA-TGCGATTTTCT
1 AATTCGCAACT-CAATTTTGT
2702469 AATTCGC
1 AATTCGC
2702476 GATGCTAATT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 41 0.69
21 7 0.12
22 10 0.17
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (20 bp):
AATTCGCAACTCAATTTTGT
Found at i:2702487 original size:20 final size:20
Alignment explanation
Indices: 2702448--2702498 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2702438 CTCAATTTTG
*
2702448 TAATTCGCAATGCGATTTTC
1 TAATTCGCAATGCGAATTTC
* *
2702468 TAATTCGCGATGCTAATTTC
1 TAATTCGCAATGCGAATTTC
* *
2702488 GAATTCACAAT
1 TAATTCGCAAT
2702499 TCATGACGCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (20 bp):
TAATTCGCAATGCGAATTTC
Found at i:2702526 original size:20 final size:20
Alignment explanation
Indices: 2702503--2702752 Score: 124
Period size: 20 Copynumber: 12.1 Consensus size: 20
2702493 CACAATTCAT
*
2702503 GACGCTAGTTCCGAATTCGC
1 GACGCTAATTCCGAATTCGC
* *
2702523 GACGCTAGTTCCTAATTCGC
1 GACGCTAATTCCGAATTCGC
* *
2702543 GACGCTAATTTCGAATTCGT
1 GACGCTAATTCCGAATTCGC
** *
2702563 GACGCTAATTTTGAATTCAC
1 GACGCTAATTCCGAATTCGC
*
2702583 GACGCTAATTCCTAATTCGC
1 GACGCTAATTCCGAATTCGC
* * *
2702603 GATTCGCAACGCGATTTTCCAAATTCGT
1 GA--CGCTA----A--TTCCGAATTCGC
* * * * * *
2702631 AATGCGATTTTCTAATTCGC
1 GACGCTAATTCCGAATTCGC
* *
2702651 GATGCTAATTCCTAATTCGC
1 GACGCTAATTCCGAATTCGC
* * *
2702671 GACGATAATTCCAAATTCAC
1 GACGCTAATTCCGAATTCGC
* **
2702691 AACGC-AATTTTGTAATTCGC
1 GACGCTAATTCCG-AATTCGC
* * * * *
2702711 AACGCGATTTTCTAATTCGC
1 GACGCTAATTCCGAATTCGC
*
2702731 GACGCTAATTCCTAATTCGC
1 GACGCTAATTCCGAATTCGC
2702751 GA
1 GA
2702753 TTCACAACGC
Statistics
Matches: 177, Mismatches: 43, Indels: 20
0.74 0.18 0.08
Matches are distributed among these distances:
19 4 0.02
20 150 0.85
21 4 0.02
22 4 0.02
26 4 0.02
28 11 0.06
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (20 bp):
GACGCTAATTCCGAATTCGC
Found at i:2702558 original size:40 final size:40
Alignment explanation
Indices: 2702503--2702752 Score: 153
Period size: 40 Copynumber: 6.0 Consensus size: 40
2702493 CACAATTCAT
* * *
2702503 GACGCTAGTTCCGAATTCGCGACGCTAGTTCCTAATTCGC
1 GACGCTAATTCCTAATTCGCGACGCTAATTCCTAATTCGC
* * * * *
2702543 GACGCTAATTTCGAATTCGTGACGCTAATT-TTGAATTCAC
1 GACGCTAATTCCTAATTCGCGACGCTAATTCCT-AATTCGC
* * *
2702583 GACGCTAATTCCTAATTCGCGATTCGCAACGCGATTTTCCAAATTCGT
1 GACGCTAATTCCTAATTCGCGA--CGCTA----A--TTCCTAATTCGC
* * * * * *
2702631 AATGCGATTTTCTAATTCGCGATGCTAATTCCTAATTCGC
1 GACGCTAATTCCTAATTCGCGACGCTAATTCCTAATTCGC
* * * * **
2702671 GACGATAATTCCAAATTCACAACGC-AATTTTGTAATTCGC
1 GACGCTAATTCCTAATTCGCGACGCTAA-TTCCTAATTCGC
* * * *
2702711 AACGCGATTTTCTAATTCGCGACGCTAATTCCTAATTCGC
1 GACGCTAATTCCTAATTCGCGACGCTAATTCCTAATTCGC
2702751 GA
1 GA
2702753 TTCACAACGC
Statistics
Matches: 152, Mismatches: 46, Indels: 24
0.68 0.21 0.11
Matches are distributed among these distances:
39 3 0.02
40 114 0.75
41 2 0.01
42 5 0.03
46 4 0.03
48 24 0.16
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (40 bp):
GACGCTAATTCCTAATTCGCGACGCTAATTCCTAATTCGC
Found at i:2702701 original size:60 final size:60
Alignment explanation
Indices: 2702619--2702748 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 60
2702609 CAACGCGATT
** * * * * *
2702619 TTCCAAATTCGTAATGCGATTTTCTAATTCGCGATGCTAATTCCTAATTCGCGACGATAA
1 TTCCAAATTCACAACGCAATTTTCTAATTCGCAACGCGAATTCCTAATTCGCGACGATAA
* * * *
2702679 TTCCAAATTCACAACGCAATTTTGTAATTCGCAACGCGATTTTCTAATTCGCGACGCTAA
1 TTCCAAATTCACAACGCAATTTTCTAATTCGCAACGCGAATTCCTAATTCGCGACGATAA
*
2702739 TTCCTAATTC
1 TTCCAAATTC
2702749 GCGATTCACA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (60 bp):
TTCCAAATTCACAACGCAATTTTCTAATTCGCAACGCGAATTCCTAATTCGCGACGATAA
Found at i:2702852 original size:39 final size:39
Alignment explanation
Indices: 2702777--2702877 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
2702767 TTGTAATTCA
* *
2702777 GAATTAGCGTCGCGAATTCGAAATTAGCGTCGCGAATTAG
1 GAATTAGCGTCGCGAATTAG-AATTAGCGTCGCGAATCAG
*
2702817 GAATTAGCGTCGCGAATTAGAATTAGCGTCGCGAATCCG
1 GAATTAGCGTCGCGAATTAGAATTAGCGTCGCGAATCAG
*
2702856 GAATTAGCGTCACGAATTAGAA
1 GAATTAGCGTCGCGAATTAGAA
2702878 AATCGCGTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 38 0.67
40 19 0.33
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.24
Consensus pattern (39 bp):
GAATTAGCGTCGCGAATTAGAATTAGCGTCGCGAATCAG
Found at i:2702939 original size:20 final size:20
Alignment explanation
Indices: 2702771--2702940 Score: 153
Period size: 20 Copynumber: 8.2 Consensus size: 20
2702761 GCGATTTTGT
*
2702771 AATTCAGAATTAGCGTCGCG
1 AATTCGGAATTAGCGTCGCG
*
2702791 AATTCGAAATTAGCGTCGCG
1 AATTCGGAATTAGCGTCGCG
*
2702811 AATTAGGAATTAGCGTCGCG
1 AATTCGGAATTAGCGTCGCG
*
2702831 AATT-AGAATTAGCGTCGCG
1 AATTCGGAATTAGCGTCGCG
* *
2702850 AATCCGGAATTAGCGTCACG
1 AATTCGGAATTAGCGTCGCG
* * * * *
2702870 AATTAGAAAATCGCGTTGCCAATCG
1 AATTCGGAATTAGCG-T--C--GCG
*
2702895 TAAATTCGGAATTAGCGTCACG
1 --AATTCGGAATTAGCGTCGCG
*
2702917 AATTCGGAATTAGCGTCGTG
1 AATTCGGAATTAGCGTCGCG
2702937 AATT
1 AATT
2702941 AGAAAATCAC
Statistics
Matches: 121, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
19 17 0.14
20 85 0.70
21 1 0.01
22 2 0.02
23 1 0.01
24 1 0.01
25 2 0.02
26 1 0.01
27 11 0.09
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (20 bp):
AATTCGGAATTAGCGTCGCG
Found at i:2703079 original size:20 final size:20
Alignment explanation
Indices: 2703012--2703081 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
2703002 ACAAATTCGC
**
2703012 GTTGCGAATTTCAAAACTGA
1 GTTGCGAATTTGGAAACTGA
* * * *
2703032 GTAGCGAATCTGGAAAATTTGC
1 GTTGCGAATTTGG-AAA-CTGA
*
2703054 GTTGCGAATTTGGAAACTGT
1 GTTGCGAATTTGGAAACTGA
2703074 GTTGCGAA
1 GTTGCGAA
2703082 ATTGAAGTTC
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
20 19 0.50
21 6 0.16
22 13 0.34
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (20 bp):
GTTGCGAATTTGGAAACTGA
Found at i:2704208 original size:22 final size:22
Alignment explanation
Indices: 2704183--2704240 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
2704173 TCACTCTCTA
*
2704183 CGACGATATCCGTCCCCATCTC
1 CGACGAAATCCGTCCCCATCTC
* *
2704205 CGACGAAATCCATCCTCATCTC
1 CGACGAAATCCGTCCCCATCTC
*
2704227 CGGCGAAATCCGTC
1 CGACGAAATCCGTC
2704241 TATCTCCATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.22, C:0.41, G:0.16, T:0.21
Consensus pattern (22 bp):
CGACGAAATCCGTCCCCATCTC
Found at i:2704668 original size:20 final size:20
Alignment explanation
Indices: 2704610--2704695 Score: 104
Period size: 20 Copynumber: 4.4 Consensus size: 20
2704600 AAATCGCATC
*
2704610 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
2704629 GCGATTTTCA-TTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
** *
2704648 GCGATAGTCATTTTCGTGTT
1 GCGATTTTCATTTTCGCGTT
*
2704668 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCATTTTCGCGTT
*
2704688 GTGATTTT
1 GCGATTTT
2704696 AAGTTTCAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
19 25 0.42
20 34 0.58
ACGTcount: A:0.12, C:0.15, G:0.23, T:0.50
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:2706650 original size:34 final size:34
Alignment explanation
Indices: 2706605--2706703 Score: 137
Period size: 34 Copynumber: 2.9 Consensus size: 34
2706595 CACGAAACTT
**
2706605 AAAATCGCAATGCGAAAATGACTATCGCAACGGG
1 AAAATCGCAATGCGAAAATGAAAATCGCAACGGG
* * *
2706639 ATAATCGCAATGCG-AAATAAAAATCGCAACGTG
1 AAAATCGCAATGCGAAAATGAAAATCGCAACGGG
*
2706672 AAAATCGCAATGCAAAAATGAAAATCGCAACG
1 AAAATCGCAATGCGAAAATGAAAATCGCAACG
2706704 CGAATTTAGT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
33 27 0.48
34 29 0.52
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.15
Consensus pattern (34 bp):
AAAATCGCAATGCGAAAATGAAAATCGCAACGGG
Found at i:2706813 original size:20 final size:20
Alignment explanation
Indices: 2706785--2706832 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
2706775 CGATTATCTT
*
2706785 GTTGAGATAGTCAAATT-CGC
1 GTTGCGATAGTC-AATTCCGC
*
2706805 GTTGCGATAGTCATTTCCGC
1 GTTGCGATAGTCAATTCCGC
2706825 GTTGCGAT
1 GTTGCGAT
2706833 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (20 bp):
GTTGCGATAGTCAATTCCGC
Found at i:2706848 original size:20 final size:20
Alignment explanation
Indices: 2706825--2706862 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2706815 TCATTTCCGC
2706825 GTTGCGATTTTAAGTTTCGT
1 GTTGCGATTTTAAGTTTCGT
2706845 GTTGCGATTTTAAGTTTC
1 GTTGCGATTTTAAGTTTC
2706863 AGAAACTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.11, G:0.24, T:0.50
Consensus pattern (20 bp):
GTTGCGATTTTAAGTTTCGT
Found at i:2707389 original size:42 final size:42
Alignment explanation
Indices: 2707330--2707452 Score: 138
Period size: 42 Copynumber: 2.9 Consensus size: 42
2707320 GCCTGACTCA
** * *
2707330 CCTATCATCGTTCAAGAGGCCTCTCCTATCATTCAAGAGGCC
1 CCTATCATCCCTCAAGAGGCCCCTCCCATCATTCAAGAGGCC
* *
2707372 CCTATCATCCCTCAAGAGTCCCCTCCCATCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGGCCCCTCCCATCATTCAAGAGGCC
* ** * * *
2707414 CCTGTCATCGTTGAAGAGGTCCCTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGAGGCCCCTCCCATCATTCAAGAG
2707453 CCCGATTCAC
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.24
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGGCCCCTCCCATCATTCAAGAGGCC
Found at i:2707415 original size:21 final size:21
Alignment explanation
Indices: 2707335--2707452 Score: 110
Period size: 21 Copynumber: 5.6 Consensus size: 21
2707325 ACTCACCTAT
*
2707335 CATCGTTCAAGAGGCCTCTCC
1 CATCGTTCAAGAGGCCCCTCC
* * **
2707356 TATCATTCAAGAGGCCCCTAT
1 CATCGTTCAAGAGGCCCCTCC
** *
2707377 CATCCCTCAAGAGTCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
**
2707398 CATCGTTCAAGAGGCCCCTGT
1 CATCGTTCAAGAGGCCCCTCC
* *
2707419 CATCGTTGAAGAGGTCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
* *
2707440 CACCATTCAAGAG
1 CATCGTTCAAGAG
2707453 CCCGATTCAC
Statistics
Matches: 74, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 74 1.00
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:2708982 original size:20 final size:20
Alignment explanation
Indices: 2708957--2709040 Score: 116
Period size: 20 Copynumber: 4.2 Consensus size: 20
2708947 AGGTACACTT
* *
2708957 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAAGTCAAAA
2708977 TCGCAACGCGAAAGTCAAAA
1 TCGCAACGCGAAAGTCAAAA
*
2708997 TCGCAATGCGAAAGTCAAAA
1 TCGCAACGCGAAAGTCAAAA
*
2709017 TCGCAATGCGAAAG-CAAAAA
1 TCGCAACGCGAAAGTC-AAAA
2709037 TCGC
1 TCGC
2709041 GTTACGATAG
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
19 1 0.02
20 59 0.98
ACGTcount: A:0.44, C:0.25, G:0.18, T:0.13
Consensus pattern (20 bp):
TCGCAACGCGAAAGTCAAAA
Found at i:2709067 original size:40 final size:39
Alignment explanation
Indices: 2708984--2709221 Score: 191
Period size: 40 Copynumber: 6.1 Consensus size: 39
2708974 AAATCGCAAC
** * * **
2708984 GCGAAAGTCAAAATCGCAATGCGAAAGTCAAAATCGCAAT
1 GCGAAAG-CAAAATCGCGTTGCGATAGTCAAATTCGCGTT
* * *
2709024 GCGAAAGCAAAAATCGCGTTACGATAGTTAAATTCCCGTT
1 GCGAAAGC-AAAATCGCGTTGCGATAGTCAAATTCGCGTT
* *
2709064 GCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTT
1 GCGA-AAGCAAAATCGCGTTGCGATAGTCAAATTCGCGTT
* * *
2709104 GCGATAGTCAAACTCGCGTTGCGATAGTCATATTCGCGTT
1 GCGAAAG-CAAAATCGCGTTGCGATAGTCAAATTCGCGTT
* * *
2709144 GCGATAGTCAAATTCGCGTTGCGAT--T----TTTGCGTT
1 GCGAAAG-CAAAATCGCGTTGCGATAGTCAAATTCGCGTT
* * * *
2709178 GCGATAGTCAAATTCGCGTTGTGATAGTCAAATTCGCATT
1 GCGAAAG-CAAAATCGCGTTGCGATAGTCAAATTCGCGTT
2709218 GCGA
1 GCGA
2709222 TATTCAAATG
Statistics
Matches: 166, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
34 31 0.19
36 1 0.01
38 1 0.01
39 2 0.01
40 128 0.77
41 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (39 bp):
GCGAAAGCAAAATCGCGTTGCGATAGTCAAATTCGCGTT
Found at i:2709067 original size:60 final size:60
Alignment explanation
Indices: 2709003--2709168 Score: 147
Period size: 60 Copynumber: 2.8 Consensus size: 60
2708993 AAAATCGCAA
* *
2709003 TGCGAAAGTCAAAATCGCAATGCGAAAG-CAAAAATCGCGTTACGATAGTTAAATTCCCGT
1 TGCGAAAGTCAAAATCGCAATGCGAAAGTC-AAAATCGCGTTACGATAGTCAAACTCCCGT
* ** * * * *
2709063 TGCGATAA-TCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAACTCGCGT
1 TGCGA-AAGTCAAAATCGCAATGCGAAAGTCAAAATCGCGTTACGATAGTCAAACTCCCGT
* * * ** * * *
2709123 TGCGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 TGCGAAAGTCAAAATCGCAATGCGAAAGTCAAAATCGCGTTACGAT
2709169 TTTTGCGTTG
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
59 1 0.01
60 88 0.96
61 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (60 bp):
TGCGAAAGTCAAAATCGCAATGCGAAAGTCAAAATCGCGTTACGATAGTCAAACTCCCGT
Found at i:2709068 original size:20 final size:20
Alignment explanation
Indices: 2709037--2709230 Score: 256
Period size: 20 Copynumber: 10.0 Consensus size: 20
2709027 AAAGCAAAAA
* *
2709037 TCGCGTTACGATAGTTAAAT
1 TCGCGTTGCGATAGTCAAAT
* *
2709057 TCCCGTTGCGATAATCAAAT
1 TCGCGTTGCGATAGTCAAAT
2709077 TCGCGTTGCGATAGTCAAAT
1 TCGCGTTGCGATAGTCAAAT
*
2709097 TCGCGTTGCGATAGTCAAAC
1 TCGCGTTGCGATAGTCAAAT
*
2709117 TCGCGTTGCGATAGTCATAT
1 TCGCGTTGCGATAGTCAAAT
2709137 TCGCGTTGCGATAGTCAAAT
1 TCGCGTTGCGATAGTCAAAT
2709157 TCGCGTTGCGAT--T----T
1 TCGCGTTGCGATAGTCAAAT
*
2709171 TTGCGTTGCGATAGTCAAAT
1 TCGCGTTGCGATAGTCAAAT
*
2709191 TCGCGTTGTGATAGTCAAAT
1 TCGCGTTGCGATAGTCAAAT
* *
2709211 TCGCATTGCGATATTCAAAT
1 TCGCGTTGCGATAGTCAAAT
2709231 GAATGTGTAA
Statistics
Matches: 152, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
14 12 0.08
16 1 0.01
18 1 0.01
20 138 0.91
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (20 bp):
TCGCGTTGCGATAGTCAAAT
Found at i:2709453 original size:140 final size:140
Alignment explanation
Indices: 2709201--2709483 Score: 521
Period size: 140 Copynumber: 2.0 Consensus size: 140
2709191 TCGCGTTGTG
* *
2709201 ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCACATTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
* *
2709266 TAGCAATGTTCAAACTCAAGTTACTAATACATGGCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
2709331 AATACACATA
131 AATACACATA
*
2709341 ATAGTCAAATTCACGTTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCACATTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
2709406 TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
2709471 AATACACATA
131 AATACACATA
2709481 ATA
1 ATA
2709484 CAACGTTTGC
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 138 1.00
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCACATTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:2709564 original size:18 final size:18
Alignment explanation
Indices: 2709541--2709575 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2709531 AAGCCGGTTG
*
2709541 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
2709559 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
2709576 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:2711630 original size:14 final size:14
Alignment explanation
Indices: 2711611--2711647 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2711601 TCCCGTGGCA
2711611 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
2711625 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
2711639 TTCTTCTTC
1 TT-TTCTTC
2711648 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:2711871 original size:24 final size:24
Alignment explanation
Indices: 2711837--2711890 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
2711827 CTGAAACATC
* *
2711837 ATCAAAATCCGATTATTGACGAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
2711861 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2711885 ATCAAA
1 ATCAAA
2711891 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2712740 original size:20 final size:20
Alignment explanation
Indices: 2712712--2712842 Score: 165
Period size: 20 Copynumber: 6.5 Consensus size: 20
2712702 TTGAAATTTA
*
2712712 GCGTTGCGACAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
* *
2712732 GCATTGCGATAGTCAAAATC
1 GCGTTGCGATAGTCAGAATC
*
2712752 ACGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
*
2712772 GTGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
**
2712792 GCGTTGCGATTATGT-ATTATC
1 GCGTTGCGA-TA-GTCAGAATC
*
2712813 GTGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
2712833 GCGTTGCGAT
1 GCGTTGCGAT
2712843 TTACATATTC
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
19 2 0.02
20 75 0.81
21 14 0.15
22 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (20 bp):
GCGTTGCGATAGTCAGAATC
Found at i:2712862 original size:61 final size:61
Alignment explanation
Indices: 2712712--2712902 Score: 163
Period size: 61 Copynumber: 3.1 Consensus size: 61
2712702 TTGAAATTTA
* ** * *
2712712 GCGTTGCGACAGTCAGAATCGCATTGCGA-TA-GTCAAAATCACGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATCGCAACGCGATTATG-GAAAATCGCGTTGCGATAGTCAGAATC
* *** * ** *
2712772 GTGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGTGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATCGCAACGCGATTATGGAAAATCGCGTTGCGATAGTCAGAATC
* * * * ** *
2712833 GCGTTGCGAT-TTACATATTCGCAACGCGATTTTGGAAAATCGCAATGCGATAGTCAAAATC
1 GCGTTGCGATAGT-CAGAATCGCAACGCGATTATGGAAAATCGCGTTGCGATAGTCAGAATC
2712894 GCGTTGCGA
1 GCGTTGCGA
2712903 ATCTGGAAAC
Statistics
Matches: 105, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
60 27 0.26
61 77 0.73
62 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (61 bp):
GCGTTGCGATAGTCAGAATCGCAACGCGATTATGGAAAATCGCGTTGCGATAGTCAGAATC
Found at i:2715441 original size:18 final size:18
Alignment explanation
Indices: 2715418--2715460 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2715408 CTTTAGATTA
**
2715418 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTACCT
*
2715436 TTTATTTAATTCTTACCT
1 TTTATTTAATTATTACCT
2715454 TTTATTT
1 TTTATTT
2715461 TAAAAATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTAATTATTACCT
Found at i:2715518 original size:8 final size:8
Alignment explanation
Indices: 2715500--2715545 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
2715490 TCTTTATTAC
2715500 TATTA-TT
1 TATTATTT
2715507 TATTATTT
1 TATTATTT
2715515 TATTATTT
1 TATTATTT
2715523 TATCT-TTT
1 TAT-TATTT
*
2715531 ATTTTATTT
1 -TATTATTT
2715540 TATTAT
1 TATTAT
2715546 ACCTTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
7 5 0.15
8 22 0.67
9 6 0.18
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (8 bp):
TATTATTT
Found at i:2715551 original size:22 final size:20
Alignment explanation
Indices: 2715485--2715558 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 20
2715475 AAAAACCTAT
*
2715485 TTTTATCTTTATTACTATTAT-
1 TTTTAT-TTTATTA-TTTTATC
2715506 TTATTATTTTATTATTTTATC
1 TT-TTATTTTATTATTTTATC
2715527 TTTTATTTTATT-TTATTATACC
1 TTTTATTTTATTATT-TTAT--C
2715549 TTTTATTTTA
1 TTTTATTTTA
2715559 CCTTTATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
19 2 0.04
20 19 0.40
21 11 0.23
22 15 0.32
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATTTTATTATTTTATC
Found at i:2715569 original size:12 final size:12
Alignment explanation
Indices: 2715517--2715568 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
2715507 TATTATTTTA
*
2715517 TTATTTTATCTT
1 TTATTTTACCTT
2715529 TTATTTTA--TT
1 TTATTTTACCTT
*
2715539 TTATTATACCTT
1 TTATTTTACCTT
2715551 TTATTTTACC-T
1 TTATTTTACCTT
2715562 TTATTTT
1 TTATTTT
2715569 TTTCCTTGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
10 9 0.25
11 8 0.22
12 19 0.53
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTTTACCTT
Found at i:2715623 original size:5 final size:5
Alignment explanation
Indices: 2715604--2715703 Score: 51
Period size: 5 Copynumber: 18.4 Consensus size: 5
2715594 AACACTTCTT
*
2715604 TTTTAA TTTTA TTTTG TTTTA TCTTTA TTTTTCCA CTTCTTTA TTTTA TTTTA
1 TTTT-A TTTTA TTTTA TTTTA T-TTTA -TTTT--A -TT-T-TA TTTTA TTTTA
* * * *
2715657 TTTTA TTTTGT TTTTA TTTTG TTTT- TTAGTA TTTT- TTATA TTTTA TT
1 TTTTA TTTT-A TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TT
2715704 ATTTTTCTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
4 5 0.07
5 42 0.57
6 18 0.24
7 3 0.04
8 4 0.05
9 1 0.01
10 1 0.01
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:2715630 original size:43 final size:41
Alignment explanation
Indices: 2715574--2715665 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 41
2715564 ATTTTTTTCC
2715574 TTGTATTTTCTTTAAAATTTAACACTTCTTT-TTTAATTTTATT
1 TTGT-TTTTCTTT--AATTTAACACTTCTTTATTTAATTTTATT
* ** *
2715617 TTGTTTTATCTTTATTTTTCCACTTCTTTATTTTATTTTATT
1 TTGTTTT-TCTTTAATTTAACACTTCTTTATTTAATTTTATT
*
2715659 TTATTTT
1 TTGTTTT
2715666 GTTTTTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
41 13 0.31
42 20 0.48
43 9 0.21
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (41 bp):
TTGTTTTTCTTTAATTTAACACTTCTTTATTTAATTTTATT
Found at i:2715673 original size:42 final size:41
Alignment explanation
Indices: 2715596--2715676 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 41
2715586 TAAAATTTAA
*
2715596 CACTTCTTTTTTAATTTTATTTTGTTTTATCTTTATTTTTC
1 CACTTCTTTTTTAATTTTATTTTATTTTATCTTTATTTTTC
* * *
2715637 CACTTCTTTATTTTATTTTATTTTATTTTGTTTTTATTTT
1 CACTTCTTT-TTTAATTTTATTTTATTTTATCTTTATTTT
2715677 GTTTTTTAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 9 0.26
42 26 0.74
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (41 bp):
CACTTCTTTTTTAATTTTATTTTATTTTATCTTTATTTTTC
Found at i:2715684 original size:12 final size:11
Alignment explanation
Indices: 2715647--2715682 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
2715637 CACTTCTTTA
*
2715647 TTTTATTTT-A
1 TTTTATTTTGT
2715657 TTTTATTTTGT
1 TTTTATTTTGT
2715668 TTTTATTTTGT
1 TTTTATTTTGT
2715679 TTTT
1 TTTT
2715683 TAGTATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (11 bp):
TTTTATTTTGT
Found at i:2715780 original size:15 final size:14
Alignment explanation
Indices: 2715753--2715779 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2715743 TTATTTTTCT
2715753 TTTAACATTTTTTA
1 TTTAACATTTTTTA
2715767 TTTAACATTTTTT
1 TTTAACATTTTTT
2715780 TTAAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTAACATTTTTTA
Found at i:2720200 original size:42 final size:42
Alignment explanation
Indices: 2720060--2720200 Score: 108
Period size: 42 Copynumber: 3.3 Consensus size: 42
2720050 TTGGTTCAGA
* *
2720060 CCCGCGAAGGGGAACCGCCTGAAGAATATACCACATGACTTT
1 CCCGCGAAGGGGAACCACCTGAAGAATATACCACATGGCTTT
* ** * * * *
2720102 CCCGTGAAGGGGAGTCATCC-AAAG-ATCATATCACCTGG-TTCAGA
1 CCCGCGAAGGGGAACCA-CCTGAAGAAT-ATACCACATGGCTT---T
* *
2720146 CCCACGAAGGGGAACCACCTGAAGAATATACCACTTGGCTTT
1 CCCGCGAAGGGGAACCACCTGAAGAATATACCACATGGCTTT
*
2720188 CCCGTGAAGGGGA
1 CCCGCGAAGGGGA
2720201 TTCAACTAAA
Statistics
Matches: 72, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
41 4 0.06
42 35 0.49
43 4 0.06
44 25 0.35
45 4 0.06
ACGTcount: A:0.30, C:0.27, G:0.26, T:0.18
Consensus pattern (42 bp):
CCCGCGAAGGGGAACCACCTGAAGAATATACCACATGGCTTT
Found at i:2720212 original size:86 final size:86
Alignment explanation
Indices: 2720005--2720200 Score: 320
Period size: 86 Copynumber: 2.3 Consensus size: 86
2719995 AAGAACATCT
* * * *
2720005 CACATGACTTTCCAGTGAAGGGGAGTCATCCAAAGATAATCTCACTTGGTTCAGACCCGCGAAGG
1 CACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATAATATCACCTGGTTCAGACCCACGAAGG
*
2720070 GGAACCGCCTGAAGAATATAC
66 GGAACCACCTGAAGAATATAC
*
2720091 CACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATCATATCACCTGGTTCAGACCCACGAAGG
1 CACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATAATATCACCTGGTTCAGACCCACGAAGG
2720156 GGAACCACCTGAAGAATATAC
66 GGAACCACCTGAAGAATATAC
* *
2720177 CACTTGGCTTTCCCGTGAAGGGGA
1 CACATGACTTTCCCGTGAAGGGGA
2720201 TTCAACTAAA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 102 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (86 bp):
CACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATAATATCACCTGGTTCAGACCCACGAAGG
GGAACCACCTGAAGAATATAC
Found at i:2720627 original size:200 final size:197
Alignment explanation
Indices: 2720267--2720784 Score: 644
Period size: 200 Copynumber: 2.6 Consensus size: 197
2720257 AGAGGAACCG
* *
2720267 TTTACAGCATAACTCAAGGCG-GTAATGGCTATATGTCAACAAAAACTTTCGAGTTGATTCAATT
1 TTTACAGCATAACTCAAGGCGAG-AAGGGCTATATGTCAAC-AAAACATTCGAGTTGATT-AATT
* * * * *
2720331 CAGATCGATGACATATAAACCGCATGGTAGCAACGAGGAACTACTTTCCGGTTGAAGTTTAAACT
63 CAGCTCAAAG-CATATCAACCGCATGGTAGCAACGAGGAACTACTTTCCGGTTAAAGTTTAAACT
* * *
2720396 GAGGTCTGTAAGTTAAGAAAAATACCTAGGTTGGCTGCGATTTAG-TAACAAGGAACTATCTCCC
127 GAGGTCTGTAAGTCAAGAAAAAGACCTAGGTTGGCTGCGATTTAGCGAA-AAGGAACTATCTCCC
2720460 AGCCGAA
191 AGCCGAA
* *
2720467 TTTACAGCATAGCTCAAGGCGAGAAGGGCTATATGTCAACAAAACATTCGAATTCGATTATATTC
1 TTTACAGCATAACTCAAGGCGAGAAGGGCTATATGTCAACAAAACATTCGAGTT-GATTA-ATTC
* *
2720532 AGCTCAAAAGCATATCAACCGCATGGTATCAACGAGGAACTACTTTCCGGTTAAAGTTTACACTG
64 AGCTC-AAAGCATATCAACCGCATGGTAGCAACGAGGAACTACTTTCCGGTTAAAGTTTAAACTG
* * * *
2720597 AGGTCTTTAAGTCAAGAAGAAGATCTAGGTTGGCTGCGATTTAGCGAAAATGAACTATCTCCCAG
128 AGGTCTGTAAGTCAAGAAAAAGACCTAGGTTGGCTGCGATTTAGCGAAAAGGAACTATCTCCCAG
2720662 CCGAA
193 CCGAA
* * * * *
2720667 TTTACAGCATAACTCTAGACGAGAAGGGCTATCTGTCAACAAATACCTTCGAGTTTGATTCCATT
1 TTTACAGCATAACTCAAGGCGAGAAGGGCTATATGTCAACAAA-ACATTCGAG-TTGATT-AATT
* ** ** * *
2720732 CAACTCGAGGGCATATCAACCATATGGTAGCATCGAGGAACTACTTTTCGGTT
63 CAGCTC-AAAGCATATCAACCGCATGGTAGCAACGAGGAACTACTTTCCGGTT
2720785 GAATTTTCAA
Statistics
Matches: 276, Mismatches: 34, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
199 13 0.05
200 198 0.72
201 63 0.23
202 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (197 bp):
TTTACAGCATAACTCAAGGCGAGAAGGGCTATATGTCAACAAAACATTCGAGTTGATTAATTCAG
CTCAAAGCATATCAACCGCATGGTAGCAACGAGGAACTACTTTCCGGTTAAAGTTTAAACTGAGG
TCTGTAAGTCAAGAAAAAGACCTAGGTTGGCTGCGATTTAGCGAAAAGGAACTATCTCCCAGCCG
AA
Found at i:2721058 original size:2 final size:2
Alignment explanation
Indices: 2721051--2721116 Score: 111
Period size: 2 Copynumber: 34.5 Consensus size: 2
2721041 TTATTTAGTG
2721051 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2721093 TA TA TA TA TA TA T- TA -A TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2721117 TTTATCTTTG
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 3 0.05
2 58 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2721780 original size:18 final size:18
Alignment explanation
Indices: 2721757--2721799 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
2721747 CTTTAGATTA
*
2721757 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTGTCT
*
2721775 TTTATTTAATTCTTGTCT
1 TTTATTTAATTATTGTCT
2721793 TTTATTT
1 TTTATTT
2721800 TAAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTGTCT
Found at i:2721844 original size:15 final size:13
Alignment explanation
Indices: 2721826--2721884 Score: 66
Period size: 12 Copynumber: 4.3 Consensus size: 13
2721816 AAACCTCTTT
2721826 TTATCTTTATTACTA
1 TTAT-TTTATT-CTA
2721841 TTATTTATTATTCTA
1 TTA-TT-TTATTCTA
*
2721856 TTATTTTA-TCTT
1 TTATTTTATTCTA
2721868 TTATTTTATTCTA
1 TTATTTTATTCTA
2721881 TTAT
1 TTAT
2721885 ACCTTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 11 0.28
13 10 0.26
14 2 0.05
15 10 0.26
16 6 0.15
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTTTATTCTA
Found at i:2721864 original size:16 final size:16
Alignment explanation
Indices: 2721832--2721861 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2721822 CTTTTTATCT
2721832 TTATTACTATTATTTA
1 TTATTACTATTATTTA
2721848 TTATT-CTATTATTT
1 TTATTACTATTATTT
2721862 TATCTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTACTATTATTTA
Found at i:2721884 original size:20 final size:20
Alignment explanation
Indices: 2721824--2721895 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
2721814 AAAAACCTCT
2721824 TTTTATCTTTATTACTATTAT-
1 TTTTAT-TTTATT-CTATTATC
* * *
2721845 TTATTATTCTATTATTTTATC
1 TT-TTATTTTATTCTATTATC
2721866 TTTTATTTTATTCTATTATACC
1 TTTTATTTTATTCTATTAT--C
2721888 TTTTATTT
1 TTTTATTT
2721896 CACCTTTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
20 19 0.46
21 9 0.22
22 13 0.32
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTTATTCTATTATC
Found at i:2723059 original size:33 final size:34
Alignment explanation
Indices: 2723022--2723129 Score: 98
Period size: 33 Copynumber: 3.2 Consensus size: 34
2723012 GGTAAGAAAT
* * *
2723022 TTATTTTTATGTTAGTAT-TTT-TTTAAATAGTTA
1 TTATTTTTATATTAATATATTTATGTAAATA-TTA
2723055 TTATTTTTATATTAATATATTTATGTAAATATTA
1 TTATTTTTATATTAATATATTTATGTAAATATTA
* * *
2723089 TT-TTTTTAT-TAAAATTATATTTATATAATTATTA
1 TTATTTTTATAT-TAA-TATATTTATGTAAATATTA
2723123 TTTATTT
1 -TTATTT
2723130 AGAATTATTA
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
32 1 0.02
33 25 0.40
34 25 0.40
35 9 0.14
36 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (34 bp):
TTATTTTTATATTAATATATTTATGTAAATATTA
Found at i:2723091 original size:31 final size:33
Alignment explanation
Indices: 2723053--2723125 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 33
2723043 TTTAAATAGT
*
2723053 TATTATTTTTATATT-AA-TATATTTATGTAAA
1 TATTATTTTTATATTAAATTATATTTATATAAA
* *
2723084 TATTATTTTTTTATTAAAATTATATTTATATAAT
1 TATTATTTTTATATT-AAATTATATTTATATAAA
2723118 TATTATTT
1 TATTATTT
2723126 ATTTAGAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 14 0.39
33 2 0.06
34 20 0.56
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (33 bp):
TATTATTTTTATATTAAATTATATTTATATAAA
Found at i:2723128 original size:19 final size:17
Alignment explanation
Indices: 2723053--2723130 Score: 60
Period size: 15 Copynumber: 4.8 Consensus size: 17
2723043 TTTAAATAGT
2723053 TATTATTT-TTATATTAA
1 TATTATTTATT-TATTAA
*
2723070 TA-TATTTATGTA--AA
1 TATTATTTATTTATTAA
*
2723084 TATTATTTTTTTATTAA
1 TATTATTTATTTATTAA
*
2723101 AATTA--TATTTATATAA
1 TATTATTTATTTAT-TAA
2723117 TTATTATTTATTTA
1 -TATTATTTATTTA
2723131 GAATTATTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
14 4 0.09
15 14 0.30
16 10 0.21
17 13 0.28
19 6 0.13
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (17 bp):
TATTATTTATTTATTAA
Found at i:2724349 original size:24 final size:24
Alignment explanation
Indices: 2724322--2724378 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
2724312 TTTTTTTGGG
* **
2724322 TATTTTTATATTTAACATTTTGAA
1 TATTTTTATATTTAAAATTTAAAA
*
2724346 TATTTTTAAATTTAAAATTTAAAA
1 TATTTTTATATTTAAAATTTAAAA
2724370 TATTTTTAT
1 TATTTTTAT
2724379 TTTTGTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (24 bp):
TATTTTTATATTTAAAATTTAAAA
Found at i:2726076 original size:29 final size:29
Alignment explanation
Indices: 2726021--2726076 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
2726011 CATAGCTAAA
*
2726021 TAAAAAATTATTTATAAATTGATAAATTT
1 TAAAAAATTATTTATAAATTGAAAAATTT
* *
2726050 TAAAAAA-TATGTTATAATTTTAAAAAT
1 TAAAAAATTAT-TTATAAATTGAAAAAT
2726077 AAATTATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (29 bp):
TAAAAAATTATTTATAAATTGAAAAATTT
Found at i:2726083 original size:19 final size:21
Alignment explanation
Indices: 2726034--2726088 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
2726024 AAAATTATTT
2726034 ATAAATTGATAAATTTTAAAAA
1 ATAAATT-ATAAATTTTAAAAA
**
2726056 ATATGTTAT-AATTTT-AAAA
1 ATAAATTATAAATTTTAAAAA
*
2726075 ATAAATTATGAATT
1 ATAAATTATAAATT
2726089 CCTATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 11 0.39
20 10 0.36
21 2 0.07
22 5 0.18
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (21 bp):
ATAAATTATAAATTTTAAAAA
Found at i:2728363 original size:12 final size:13
Alignment explanation
Indices: 2728341--2728369 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2728331 CAAATTGAAT
2728341 TTTTAAATTTTAA
1 TTTTAAATTTTAA
2728354 TTTT-AATTTTAA
1 TTTTAAATTTTAA
2728366 TTTT
1 TTTT
2728370 CGCTACTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:2732808 original size:105 final size:106
Alignment explanation
Indices: 2732098--2734169 Score: 3361
Period size: 105 Copynumber: 19.7 Consensus size: 106
2732088 AAAAGCTGAC
* * * * *
2732098 TGTCAACAAACAACTTCTCAACTTCAGAGTCAATTTCAACTTCAAAGCGAAGGATATTGGACTCA
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
2732163 AGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * *
2732204 TGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
2732269 AGACAAC-CTAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGC-AAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * *
2732310 TGTTAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCC
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
2732375 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* ** * *
2732416 TGTCAACAAACAATTTCCCAATTTTGGAGCCAATTTCAACTTCACAGAGAAGGATATTGGACTCT
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
2732481 AGACAATGCAAGTTCAACTTCACGACGAAGGAACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * *
2732522 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACGTCACAACGAAGGATATTAGACTCC
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
2732587 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
2732628 TGTCAACAAACAACTTC-CTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TGTCAACAAACAATTTCTC-AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
*
2732692 CAGACAGCGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
65 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
2732734 TGTCAACAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
2732798 AGACAACGCAAGTTCAAATTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
2732839 TGTCAACAAAC-ATTTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
2732903 AGACAACTCAAGTTCAACTTCACGACGAAGGAACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
2732944 TGTCAACAAAC-ATTTTTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
2733008 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
2733049 TGTCAACAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCC
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
2733113 AGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
2733154 TGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
2733219 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
2733260 TGTCAACAAACAACTTC-CTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TGTCAACAAACAATTTCTC-AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
**
2733324 CAGACAGTGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
65 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
2733366 TGTCAACAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
2733430 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
2733471 TGTCAACAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
2733535 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
2733576 TGTCAAC--A-AATTTTTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
2733638 AGACAACGCAAGTTCAACTTCACGACGAATGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
2733679 TGTCAACAAAC-ATTTCTCAATTTCACAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
2733743 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
2733784 TGTCAAC-AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
2733848 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
2733889 TGTCAAC-AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
2733953 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * *
2733994 TGTCAACAAACAATTTCCCAATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGGACTCG
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
2734059 AGACAA--CAAGTTCAACTTCACAACGAAGGGA-CGACTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGT
* * *
2734098 TGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCG
1 TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
2734163 AGACAAC
66 AGACAAC
2734170 ATAACTTTCA
Statistics
Matches: 1861, Mismatches: 90, Indels: 31
0.94 0.05 0.02
Matches are distributed among these distances:
103 101 0.05
104 100 0.05
105 898 0.48
106 761 0.41
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
TGTCAACAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
Found at i:2736575 original size:12 final size:13
Alignment explanation
Indices: 2736553--2736581 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2736543 CAAATTGAAT
2736553 TTTTAAATTTTAA
1 TTTTAAATTTTAA
2736566 TTTT-AATTTTAA
1 TTTTAAATTTTAA
2736578 TTTT
1 TTTT
2736582 CGCTACTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:2740140 original size:98 final size:98
Alignment explanation
Indices: 2739971--2740176 Score: 376
Period size: 98 Copynumber: 2.1 Consensus size: 98
2739961 GTTTAAAGGA
2739971 TATTCATTTTGGGATTCCAACATCAATGTAGTGTATTTCTAATCCTTTAGAGTATCAAGCTTTCA
1 TATTCATTTTGGGATTCCAACATCAATGTAGTGTATTTCTAATCCTTTAGAGTATCAAGCTTTCA
2740036 TAAATTTGGAGATTTTGCTAACATTTGGTTATT
66 TAAATTTGGAGATTTTGCTAACATTTGGTTATT
* *
2740069 TATTCTTTTTGGGATTCCAACATCAATGTAGTGTATTTCTAATCCTTTAGAGTATTAAGCTTTCA
1 TATTCATTTTGGGATTCCAACATCAATGTAGTGTATTTCTAATCCTTTAGAGTATCAAGCTTTCA
*
2740134 TAAATTTGGAGATTTTGCTAATATTTGGTTATT
66 TAAATTTGGAGATTTTGCTAACATTTGGTTATT
*
2740167 TATGCATTTT
1 TATTCATTTT
2740177 AGGGTTTACT
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 103 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (98 bp):
TATTCATTTTGGGATTCCAACATCAATGTAGTGTATTTCTAATCCTTTAGAGTATCAAGCTTTCA
TAAATTTGGAGATTTTGCTAACATTTGGTTATT
Found at i:2741495 original size:20 final size:19
Alignment explanation
Indices: 2741464--2741540 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 19
2741454 ACTATTGTCT
*
2741464 AAGGGATTGATCCTTTTTC
1 AAGGGATCGATCCTTTTTC
*
2741483 AAGGGGATCGATCCTTTGGTC
1 AA-GGGATCGATCCTTT-TTC
* *
2741504 AAACGGATCGATCCTTTTGC
1 -AAGGGATCGATCCTTTTTC
*
2741524 TAAGGGATTGATCCTTT
1 -AAGGGATCGATCCTTT
2741541 GAGCCAGAGA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
19 2 0.04
20 28 0.60
21 15 0.32
22 2 0.04
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (19 bp):
AAGGGATCGATCCTTTTTC
Found at i:2744175 original size:41 final size:42
Alignment explanation
Indices: 2744108--2744189 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 42
2744098 ACCGTTATAC
2744108 CAAAGGGATCGATCCTTTTCCACTAGGGATCGATCCATTGGT
1 CAAAGGGATCGATCCTTTTCCACTAGGGATCGATCCATTGGT
* * * *
2744150 CAAAGGGATTGAT-TTTTTCCTCTAGGGATCGATCTATTGG
1 CAAAGGGATCGATCCTTTTCCACTAGGGATCGATCCATTGG
2744190 AAACATGACT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 24 0.67
42 12 0.33
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (42 bp):
CAAAGGGATCGATCCTTTTCCACTAGGGATCGATCCATTGGT
Found at i:2745303 original size:32 final size:32
Alignment explanation
Indices: 2745223--2745295 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
2745213 CTAGTCAGGG
*
2745223 TGCATTCAGATAATGCAAAATATGTTCAGGTT
1 TGCATTCAGATAATGCAAAATATCTTCAGGTT
* *
2745255 TGCATTTAGATAATGCATAATATCTTCAGGTT
1 TGCATTCAGATAATGCAAAATATCTTCAGGTT
*
2745287 TGTATTCAG
1 TGCATTCAG
2745296 GTGATGCACA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (32 bp):
TGCATTCAGATAATGCAAAATATCTTCAGGTT
Found at i:2754351 original size:16 final size:15
Alignment explanation
Indices: 2754316--2754392 Score: 64
Period size: 16 Copynumber: 4.7 Consensus size: 15
2754306 TGTTAGAGGG
2754316 AAAAAATGAATAAATGAA
1 AAAAAAT-AA-AAAT-AA
2754334 AAAAAATAAAGAATAA
1 AAAAAATAAA-AATAA
*
2754350 AAATAAGTAAAAATAA
1 AAA-AAATAAAAATAA
**
2754366 ATAAAAATAAAAGGAA
1 A-AAAAATAAAAATAA
2754382 AAATAAATAAA
1 AAA-AAATAAA
2754393 TAAATAAATG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
15 2 0.04
16 29 0.57
17 13 0.25
18 7 0.14
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.16
Consensus pattern (15 bp):
AAAAAATAAAAATAA
Found at i:2754354 original size:27 final size:26
Alignment explanation
Indices: 2754324--2754396 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
2754314 GGAAAAAATG
2754324 AATAAATGAAAAA-AAATAAAGAATAAA
1 AATAAAT-AAAAATAAATAAA-AATAAA
*
2754351 AATAAGTAAAAATAAATAAAAATAAA
1 AATAAATAAAAATAAATAAAAATAAA
**
2754377 AGGAAA-AATAAATAAATAAA
1 AATAAATAA-AAATAAATAAA
2754397 TAAATGAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.05
26 25 0.62
27 13 0.32
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (26 bp):
AATAAATAAAAATAAATAAAAATAAA
Found at i:2754362 original size:10 final size:10
Alignment explanation
Indices: 2754345--2754400 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
2754335 AAAAATAAAG
2754345 AATAAAAATA
1 AATAAAAATA
*
2754355 AGTAAAAATA
1 AATAAAAATA
2754365 AATAAAAATAA
1 AATAAAAAT-A
*
2754376 AAGGAAAAATA
1 AA-TAAAAATA
2754387 AAT--AAATA
1 AATAAAAATA
2754395 AATAAA
1 AATAAA
2754401 TGAAATATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 8 0.21
10 18 0.47
11 6 0.16
12 6 0.16
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (10 bp):
AATAAAAATA
Found at i:2754386 original size:22 final size:22
Alignment explanation
Indices: 2754335--2754399 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
2754325 ATAAATGAAA
* *
2754335 AAAAATAAAGAATAAAAATAAGT
1 AAAAATAAATAA-AAAAATAAGG
2754358 AAAAATAAATAAAAATAA-AAGG
1 AAAAATAAATAAAAA-AATAAGG
*
2754380 AAAAATAAATAAATAAATAA
1 AAAAATAAATAAAAAAATAA
2754400 ATGAAATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.05
22 22 0.59
23 13 0.35
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (22 bp):
AAAAATAAATAAAAAAATAAGG
Found at i:2754719 original size:2 final size:2
Alignment explanation
Indices: 2754714--2754783 Score: 62
Period size: 2 Copynumber: 38.0 Consensus size: 2
2754704 TTAAAAAAAC
* * *
2754714 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TC TA -A AA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2754754 TA TA TG TA TA TA TA -A TA -A TA -A TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2754784 GTGTAAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
1 6 0.11
2 51 0.89
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (2 bp):
TA
Found at i:2754782 original size:26 final size:26
Alignment explanation
Indices: 2754715--2754788 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
2754705 TAAAAAAACT
* *
2754715 ATATATATATATATATATATATATATA
1 ATATATA-AAATATATATGTATATATA
* *
2754742 ATATCTAAAAAATATATGTATATATA
1 ATATATAAAATATATATGTATATATA
2754768 ATA-ATAATAATATATAGTGTA
1 ATATATAA-AATATATA-TGTA
2754789 AAAAAATCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 3 0.08
26 26 0.67
27 10 0.26
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (26 bp):
ATATATAAAATATATATGTATATATA
Found at i:2754794 original size:42 final size:40
Alignment explanation
Indices: 2754705--2754794 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 40
2754695 TAAAATATTT
*
2754705 TAAAAAAACTATATATATATATATATATATATATATAATA
1 TAAAAAAAATATATATATATATATATATATATATATAATA
** * * *
2754745 TCTAAAAAATATATGTATATATA-ATAATAATAATATATAGTG
1 TAAAAAAAATATATATATATATATAT-AT-AT-ATATATAATA
2754787 TAAAAAAA
1 TAAAAAAA
2754795 TCAATTGAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
39 2 0.05
40 21 0.54
41 2 0.05
42 14 0.36
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (40 bp):
TAAAAAAAATATATATATATATATATATATATATATAATA
Found at i:2755306 original size:37 final size:37
Alignment explanation
Indices: 2755260--2755353 Score: 131
Period size: 34 Copynumber: 2.6 Consensus size: 37
2755250 GAATCTTATC
* * *
2755260 TTTAAGAGTTTAAATCATAGTAGAACTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCCTATT
*
2755297 TTTAGGAGTTTGAATCCTA--A-AATTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCCTATT
2755331 TTTAGGAGTTTGAATCCTAGTAG
1 TTTAGGAGTTTGAATCCTAGTAG
2755354 GACGAAAAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
34 32 0.64
35 1 0.02
36 1 0.02
37 16 0.32
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGTAGAACTCTATCCTATT
Found at i:2756287 original size:106 final size:106
Alignment explanation
Indices: 2756103--2757165 Score: 1644
Period size: 106 Copynumber: 10.0 Consensus size: 106
2756093 GGATTGTTCC
* * *
2756103 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
** * * *
2756167 ACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2756209 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTTGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
** * * *
2756274 CCAGCGGTCCCTTCGTTTTGAAGTTGAACTTGCATCGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
2756315 AAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
2756380 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
2756421 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
2756486 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
2756527 GAGTCCAATATCCTTCGATGTGCAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
2756592 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
2756633 GAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
2756698 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
2756739 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
2756804 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
2756845 GAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
2756910 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
2756951 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGCTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * * * * *
2757016 TCAGCCGCCCCTTCG-CTGTGAAGTTGAGCTTGTGCTGTCTT
66 CCAGCGGTCCCTTCGTC-GTGAAGTTGAACTTGCGTTGTCTG
*
2757057 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
2757122 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
2757163 GAG
1 GAG
2757166 AGAAACTGTC
Statistics
Matches: 877, Mismatches: 77, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
105 1 0.00
106 874 1.00
107 2 0.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:2757217 original size:36 final size:36
Alignment explanation
Indices: 2757170--2757303 Score: 144
Period size: 37 Copynumber: 3.7 Consensus size: 36
2757160 CTGGAGAGAA
* *
2757170 ACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAG
1 ACTGTCTCAAGCGAGACAAAATTTGTTTCAATGAAG
* * * *
2757206 ACTGTCTCAAGGGAGACGAAATTTGTTTCAAATAAAA
1 ACTGTCTCAAGCGAGACAAAATTTGTTTC-AATGAAG
* * * *
2757243 ACTATCTCAAGCAAGATAAAATCTTGTTTTAAATG-AG
1 ACTGTCTCAAGCGAGACAAAAT-TTG-TTTCAATGAAG
2757280 ACTGTCTCAAGCGAGACAAAATTT
1 ACTGTCTCAAGCGAGACAAAATTT
2757304 ATATTGGAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
36 30 0.38
37 41 0.51
38 6 0.08
39 3 0.04
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (36 bp):
ACTGTCTCAAGCGAGACAAAATTTGTTTCAATGAAG
Found at i:2758077 original size:22 final size:22
Alignment explanation
Indices: 2758051--2758126 Score: 100
Period size: 22 Copynumber: 3.5 Consensus size: 22
2758041 TTGTGTTTGG
2758051 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* * *
2758073 TCAAATGTTTGGTA-TTGATGT
1 TCAAAGGTTTGGCATTTGATGC
* *
2758094 TCAAAGGTGTGTCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
2758116 TCAAAGGTTTG
1 TCAAAGGTTTG
2758127 ATGGGGTAGC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 16 0.36
22 28 0.64
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:2758778 original size:24 final size:24
Alignment explanation
Indices: 2758732--2758821 Score: 110
Period size: 24 Copynumber: 3.6 Consensus size: 24
2758722 TTTTTGTCCC
2758732 TTTTTCTTTTTGATTTTTGTTCTTTCT
1 TTTTTC-TTTTG--TTTTGTTCTTTCT
2758759 TTTTTCTTTTGTTTTGTTCTTTCT
1 TTTTTCTTTTGTTTTGTTCTTTCT
*
2758783 TTTTTCTTTTGTTTTCTTCTTT-T
1 TTTTTCTTTTGTTTTGTTCTTTCT
* *
2758806 TTGCTTCTTTTCTTTT
1 TT-TTTCTTTTGTTTT
2758822 TTGTTTTTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
23 3 0.05
24 45 0.76
26 5 0.08
27 6 0.10
ACGTcount: A:0.01, C:0.13, G:0.07, T:0.79
Consensus pattern (24 bp):
TTTTTCTTTTGTTTTGTTCTTTCT
Found at i:2758789 original size:31 final size:32
Alignment explanation
Indices: 2758754--2758837 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 32
2758744 ATTTTTGTTC
2758754 TTTCTTTTTTCTTTTGTTTTG-TTC-TTTCTTT
1 TTTCTTTTTTCTTTT-TTTTGCTTCTTTTCTTT
2758785 TTTCTTTTGTTTTCTTCTTTTTTGCTTCTTTTCTTT
1 TTTC--TT-TTTTCTT-TTTTTTGCTTCTTTTCTTT
*
2758821 TTTGTTTTTTTCTTTTT
1 TTT-CTTTTTTCTTTTT
2758838 GTTATGATTG
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
31 4 0.09
33 5 0.11
34 19 0.42
35 7 0.16
36 10 0.22
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (32 bp):
TTTCTTTTTTCTTTTTTTTGCTTCTTTTCTTT
Done.