Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_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: 3817888
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 19
Found at i:2180093 original size:25 final size:25
Alignment explanation
Indices: 2180056--2180128 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
2180046 AGAGTCAAGG
* *
2180056 ATTCTACGCGGTCCTTTGGGATAAA
1 ATTCTACGCGGTCCTTTAGGACAAA
* *
2180081 TTTCTACGTGGTCCTTTAGGACAAA
1 ATTCTACGCGGTCCTTTAGGACAAA
*
2180106 ATTCTACAG-AGTCCTTTAGGACA
1 ATTCTAC-GCGGTCCTTTAGGACA
2180129 TATTTACGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 40 0.98
26 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (25 bp):
ATTCTACGCGGTCCTTTAGGACAAA
Found at i:2183300 original size:23 final size:22
Alignment explanation
Indices: 2183274--2183339 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
2183264 CACCACAGCT
*
2183274 CGTATAATTGCACCGAAGTGCCG
1 CGTA-AATTGCACCGAAGTGCCA
* *
2183297 CGTAGAAATGCACCGTAGTGCCA
1 CGTA-AATTGCACCGAAGTGCCA
*
2183320 CGTAAGATTGCACCAAAGTG
1 CGTAA-ATTGCACCGAAGTG
2183340 TCATATAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
22 1 0.03
23 34 0.97
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (22 bp):
CGTAAATTGCACCGAAGTGCCA
Found at i:2188185 original size:28 final size:26
Alignment explanation
Indices: 2188154--2188218 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 26
2188144 TTACTCATTT
*
2188154 AATCATACAATTCACATATCAT-CATATA
1 AATCATACAATACA-AT-TCATACATA-A
*
2188182 AATCATATAATACAATTCATAGCATAA
1 AATCATACAATACAATTCATA-CATAA
2188209 AATCATACAA
1 AATCATACAA
2188219 ATTACATGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 4 0.12
27 12 0.38
28 16 0.50
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.29
Consensus pattern (26 bp):
AATCATACAATACAATTCATACATAA
Found at i:2189856 original size:20 final size:20
Alignment explanation
Indices: 2189831--2189904 Score: 130
Period size: 20 Copynumber: 3.7 Consensus size: 20
2189821 TTCCCCTTGA
*
2189831 AGTGCATCGATGCATTATAC
1 AGTGCATCGATGCATTCTAC
*
2189851 AGTGCATCGAGGCATTCTAC
1 AGTGCATCGATGCATTCTAC
2189871 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
2189891 AGTGCATCGATGCA
1 AGTGCATCGATGCA
2189905 CTACCCATGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:2189969 original size:64 final size:63
Alignment explanation
Indices: 2189892--2190053 Score: 177
Period size: 64 Copynumber: 2.5 Consensus size: 63
2189882 GCATTCTACA
* ** *
2189892 GTGCATCGATGCACTACCCATGCATCGATACAC-AA-TTTATCTTCGATGTTTTCA-TTTTAAGG
1 GTGCATCGATGCACT-CCAATGCATCGATACACTAACTGCA--TTCGATGTTTCCATTTTTAA-G
2189954 GG
62 GG
* * *
2189956 GTGCATTGATGCACTCCTAATGCATCGATGCACTAACTGCATTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCC-AATGCATCGATACACTAACTGCATTCGATGTTTCCATTTTTAAGGG
*
2190020 GTGCATCGATGCACTTCCTATGCATCGATACACT
1 GTGCATCGATGCAC-TCCAATGCATCGATACACT
2190054 CTGAACAATT
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
63 2 0.02
64 68 0.82
65 11 0.13
66 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTCCAATGCATCGATACACTAACTGCATTCGATGTTTCCATTTTTAAGGG
Found at i:2194555 original size:45 final size:45
Alignment explanation
Indices: 2194481--2194624 Score: 134
Period size: 45 Copynumber: 3.2 Consensus size: 45
2194471 AATACACCAT
* * *
2194481 TATGCACTTTAAATTATAGCATACTTTTCTATTGATAATGCACCCA
1 TATGCA-TTTCAACTATAGCATACTTTTCTATTGAAAATGCACCCA
* * * *
2194527 TATGCATTTCAACTATAGTATATTTTTCTGTTGAAAATGTACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTATTGAAAATGCACCCA
* *
2194572 TATAG-ATTTCAACTATGGCAT-CCTTTC-A-TGCTAATAATGCACCCA
1 TAT-GCATTTCAACTATAGCATACTTTTCTATTG--AA-AATGCACCCA
2194617 TATGCATT
1 TATGCATT
2194625 ATTATTTTCA
Statistics
Matches: 80, Mismatches: 13, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
42 2 0.03
44 7 0.09
45 64 0.80
46 7 0.09
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.39
Consensus pattern (45 bp):
TATGCATTTCAACTATAGCATACTTTTCTATTGAAAATGCACCCA
Found at i:2196227 original size:15 final size:15
Alignment explanation
Indices: 2196186--2196236 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
2196176 ATGTTTTATA
*
2196186 TGAAAATGTTCTATG
1 TGAAAATGTTCTAAG
2196201 T-AAAAT-TATCTAAG
1 TGAAAATGT-TCTAAG
*
2196215 TGAAAATGTTCTACG
1 TGAAAATGTTCTAAG
2196230 TGAAAAT
1 TGAAAAT
2196237 ACCCTATGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 1 0.03
14 11 0.35
15 18 0.58
16 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (15 bp):
TGAAAATGTTCTAAG
Found at i:2196403 original size:25 final size:25
Alignment explanation
Indices: 2196368--2196422 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
2196358 GAGTCGAGGG
* * *
2196368 TTCTACGTGGTCTTTCGGGACAAAT
1 TTCTACATGGTCCTTCGGGACAAAA
2196393 TTCTACATGGTCCTTCGGGACAAAA
1 TTCTACATGGTCCTTCGGGACAAAA
2196418 TTCTA
1 TTCTA
2196423 TGCGATACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (25 bp):
TTCTACATGGTCCTTCGGGACAAAA
Found at i:2204256 original size:2 final size:2
Alignment explanation
Indices: 2204249--2204273 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2204239 GCTAAAACAA
2204249 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
2204274 TGCTTACAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2206837 original size:27 final size:26
Alignment explanation
Indices: 2206780--2206831 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2206770 TTTTAAGTTA
* * *
2206780 GATGATAAATTTGTAAAATTTAAAGG
1 GATGATAAACTTATAAAATTTAAAAG
2206806 GATGATAAACTTATAAAATTTTAAAA
1 GATGATAAACTTATAAAA-TTTAAAA
2206832 TTATGAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.50, C:0.02, G:0.13, T:0.35
Consensus pattern (26 bp):
GATGATAAACTTATAAAATTTAAAAG
Found at i:2206877 original size:24 final size:25
Alignment explanation
Indices: 2206827--2206877 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
2206817 TATAAAATTT
* * **
2206827 TAAAATTATGAAAATATATCTTTAA
1 TAAAATTATAAAAAAATATCTAAAA
2206852 TAAAA-TATAAAAAAATATCTAAAA
1 TAAAATTATAAAAAAATATCTAAAA
2206876 TA
1 TA
2206878 TTAAAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (25 bp):
TAAAATTATAAAAAAATATCTAAAA
Found at i:2208797 original size:2 final size:2
Alignment explanation
Indices: 2208792--2208830 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2208782 TATTTGGATA
2208792 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2208831 GAATATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2221382 original size:15 final size:16
Alignment explanation
Indices: 2221350--2221385 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2221340 ATTAATAATA
*
2221350 AATAATATTATGTTTT
1 AATAATATCATGTTTT
2221366 AATAATATCAT-TTTT
1 AATAATATCATGTTTT
2221381 AATAA
1 AATAA
2221386 AATATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
AATAATATCATGTTTT
Found at i:2221491 original size:23 final size:25
Alignment explanation
Indices: 2221455--2221508 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
2221445 TTGAACGTAT
2221455 TATTATAATATTTTAAAAATAATAA
1 TATTATAATATTTTAAAAATAATAA
**
2221480 TATTA-AA-ATTTTTCAAATAATAA
1 TATTATAATATTTTAAAAATAATAA
*
2221503 TTTTAT
1 TATTAT
2221509 TTATTGTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 18 0.72
24 2 0.08
25 5 0.20
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TATTATAATATTTTAAAAATAATAA
Found at i:2223419 original size:19 final size:20
Alignment explanation
Indices: 2223395--2223437 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
2223385 ATTATGCACC
2223395 AAAAAAT-TGTAATTTTAA-T
1 AAAAAATAT-TAATTTTAATT
2223414 AAAAAATATTAATTTTAATT
1 AAAAAATATTAATTTTAATT
2223434 AAAA
1 AAAA
2223438 CATCAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AAAAAATATTAATTTTAATT
Found at i:2223437 original size:18 final size:19
Alignment explanation
Indices: 2223404--2223448 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
2223394 CAAAAAATTG
*
2223404 TAATTTTAATAAAAAATAT
1 TAATTTTAATAAAAAACAT
*
2223423 TAATTTTAAT-TAAAACAT
1 TAATTTTAATAAAAAACAT
*
2223441 CAATTTTA
1 TAATTTTA
2223449 CTGTCTGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATTTTAATAAAAAACAT
Found at i:2225717 original size:22 final size:22
Alignment explanation
Indices: 2225685--2225726 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2225675 ATGATGGCTT
* *
2225685 TTGATTTTTTTTTATTTTTTAA
1 TTGATTGTTTTTAATTTTTTAA
2225707 TTGATTGTTTTTAATTTTTT
1 TTGATTGTTTTTAATTTTTT
2225727 TTAAGTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (22 bp):
TTGATTGTTTTTAATTTTTTAA
Found at i:2226014 original size:8 final size:8
Alignment explanation
Indices: 2225985--2226020 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
2225975 GGCCTGCAAT
2225985 AATAATAA
1 AATAATAA
2225993 AAGTAATAAA
1 AA-TAAT-AA
2226003 AATAATAA
1 AATAATAA
2226011 AATAATAA
1 AATAATAA
2226019 AA
1 AA
2226021 CGAAAAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 14 0.54
9 8 0.31
10 4 0.15
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (8 bp):
AATAATAA
Found at i:2226384 original size:86 final size:85
Alignment explanation
Indices: 2226239--2226445 Score: 209
Period size: 86 Copynumber: 2.4 Consensus size: 85
2226229 GAGATCTGCT
* * * * *
2226239 CCACTGCTCTTCAAGGTAGATCAGATCTGGAAAAGTTGATTCACTTCACTACTCTTCAGGGAAAA
1 CCACTGCTC-TCAGGGAAGATCAAATATGGAAAAGTTGATTAACTTCACTACTCTTCAGGGAAAA
* *
2226304 TTAAATCGAGGTAGATTTGTC
65 TTAAATCAAAGTAGATTTGTC
* * *
2226325 CCACTGCTACTCAGGGAAGATCAAATATGGAAACA-TTGATTAATTTCACTACTTTTCAGGGAAG
1 CCACTGCT-CTCAGGGAAGATCAAATATGGAAA-AGTTGATTAACTTCACTACTCTTCAGGGAAA
* *
2226389 ATTGAATCAAAGTAGATTTGTT
64 ATTAAATCAAAGTAGATTTGTC
* * * * * *
2226411 CCAATGATTCTCTGGGAATATCAAATCTGAAAAAG
1 CCACTG-CTCTCAGGGAAGATCAAATATGGAAAAG
2226446 GGATATGCTC
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
85 1 0.01
86 95 0.96
87 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (85 bp):
CCACTGCTCTCAGGGAAGATCAAATATGGAAAAGTTGATTAACTTCACTACTCTTCAGGGAAAAT
TAAATCAAAGTAGATTTGTC
Found at i:2227848 original size:4 final size:4
Alignment explanation
Indices: 2227839--2227903 Score: 62
Period size: 4 Copynumber: 15.8 Consensus size: 4
2227829 GAACCCTTCT
*
2227839 TTTA TTTA TTTA TTTTA TTTTA TTT- TTTA TTTTA TTT- TTTA TTTTC
1 TTTA TTTA TTTA -TTTA -TTTA TTTA TTTA -TTTA TTTA TTTA -TTTA
*
2227885 TTTC TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTT
2227904 CTCTATTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
3 6 0.11
4 32 0.59
5 16 0.30
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (4 bp):
TTTA
Found at i:2227868 original size:12 final size:12
Alignment explanation
Indices: 2227838--2227899 Score: 74
Period size: 12 Copynumber: 5.1 Consensus size: 12
2227828 TGAACCCTTC
2227838 TTTTA-TTTATTT
1 TTTTATTTTA-TT
2227850 ATTTTATTTTATT
1 -TTTTATTTTATT
2227863 TTTTATTTTATT
1 TTTTATTTTATT
*
2227875 TTTTATTTTCTT
1 TTTTATTTTATT
2227887 TCTTTA-TTTATT
1 T-TTTATTTTATT
2227899 T
1 T
2227900 ATTTCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
12 30 0.67
13 11 0.24
14 4 0.09
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:2227869 original size:17 final size:18
Alignment explanation
Indices: 2227838--2227903 Score: 79
Period size: 17 Copynumber: 3.9 Consensus size: 18
2227828 TGAACCCTTC
2227838 TTTTATTTATTTATTTTA
1 TTTTATTTATTTATTTTA
2227856 TTTTATTT-TTTATTTTA
1 TTTTATTTATTTATTTTA
2227873 -TTT-TTTATTT-TCTTT-
1 TTTTATTTATTTAT-TTTA
*
2227888 CTTTATTTATTTATTT
1 TTTTATTTATTTATTT
2227904 CTCTATTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.09
16 12 0.28
17 18 0.42
18 9 0.21
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTATTTATTTATTTTA
Found at i:2261927 original size:22 final size:22
Alignment explanation
Indices: 2261902--2261947 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
2261892 TATTCTGAAG
2261902 GATGATAGATTCTCTTTTCAAA
1 GATGATAGATTCTCTTTTCAAA
*
2261924 GATGATATATTCTCTTTTCAAA
1 GATGATAGATTCTCTTTTCAAA
2261946 GA
1 GA
2261948 CAAAAGCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (22 bp):
GATGATAGATTCTCTTTTCAAA
Found at i:2262729 original size:119 final size:119
Alignment explanation
Indices: 2262518--2262786 Score: 385
Period size: 119 Copynumber: 2.3 Consensus size: 119
2262508 TCCATGAATT
* * * ** * *
2262518 TATAAAGCCTCCAGGTCATCTGTAAAACCTCAGGGTATGATGTTTTTGCATGAAAATGAGAAATC
1 TATAAAGCCTCCGGGTCATTTGTAAAACCTCAGGGTAGGATGTTTTCACAAGAAAATGAGAAAGC
*
2262583 CATTTTTAAAGTTTCTCATTTAATGTTCTAGAAAATCAAAACCTTCAGGTAATA
66 CATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATCAAAACCTTCAGGTAATA
*
2262637 TATAAAGTCTCCGGGTCATTTGTAAAACCTCAGGGTAGGATGTTTTCACAAGAAAATGAGAAAGC
1 TATAAAGCCTCCGGGTCATTTGTAAAACCTCAGGGTAGGATGTTTTCACAAGAAAATGAGAAAGC
* * * *
2262702 CATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAGCCTTCAGGTCATT
66 CATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATCAAAACCTTCAGGTAATA
* * * *
2262756 TGTAAAGCCTTCGGGTTATTTGTAAAGCCTC
1 TATAAAGCCTCCGGGTCATTTGTAAAACCTC
2262787 CAGGTCATTT
Statistics
Matches: 132, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
119 132 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (119 bp):
TATAAAGCCTCCGGGTCATTTGTAAAACCTCAGGGTAGGATGTTTTCACAAGAAAATGAGAAAGC
CATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATCAAAACCTTCAGGTAATA
Found at i:2262763 original size:20 final size:20
Alignment explanation
Indices: 2262738--2262859 Score: 165
Period size: 20 Copynumber: 6.1 Consensus size: 20
2262728 TCTAGAAAAT
2262738 TAAAGCCTTCAGGTCATTTG
1 TAAAGCCTTCAGGTCATTTG
* *
2262758 TAAAGCCTTCGGGTTATTTG
1 TAAAGCCTTCAGGTCATTTG
*
2262778 TAAAGCCTCCAGGTCATTTG
1 TAAAGCCTTCAGGTCATTTG
* *
2262798 TAAAGCCTCCGGGTCATTTG
1 TAAAGCCTTCAGGTCATTTG
2262818 TAAAGCCTT-AGGGTCATTTG
1 TAAAGCCTTCA-GGTCATTTG
* *
2262838 TAAAGCCTTCGGGTCATCTG
1 TAAAGCCTTCAGGTCATTTG
2262858 TA
1 TA
2262860 TGTCTTTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
20 90 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (20 bp):
TAAAGCCTTCAGGTCATTTG
Found at i:2262783 original size:40 final size:40
Alignment explanation
Indices: 2262738--2262859 Score: 192
Period size: 40 Copynumber: 3.0 Consensus size: 40
2262728 TCTAGAAAAT
*
2262738 TAAAGCCTTCAGGTCATTTGTAAAGCCTTCGGGTTATTTG
1 TAAAGCCTTCAGGTCATTTGTAAAGCCTTCGGGTCATTTG
* *
2262778 TAAAGCCTCCAGGTCATTTGTAAAGCCTCCGGGTCATTTG
1 TAAAGCCTTCAGGTCATTTGTAAAGCCTTCGGGTCATTTG
*
2262818 TAAAGCCTT-AGGGTCATTTGTAAAGCCTTCGGGTCATCTG
1 TAAAGCCTTCA-GGTCATTTGTAAAGCCTTCGGGTCATTTG
2262858 TA
1 TA
2262860 TGTCTTTCAA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (40 bp):
TAAAGCCTTCAGGTCATTTGTAAAGCCTTCGGGTCATTTG
Found at i:2263295 original size:140 final size:140
Alignment explanation
Indices: 2263043--2263314 Score: 454
Period size: 140 Copynumber: 1.9 Consensus size: 140
2263033 AAAATTCGCT
* *
2263043 CTCCAGGGAAGAGTAGTGGAACAAATTTTTCAGCAAAGTATGAGAACTTCACGGAAGAGTAGTGG
1 CTCCAGGGAAGAGTAGTGGAACAAATTTGTCAGCAAAGTATGAGAACTTCACGGAAGAGTAGTGA
* *
2263108 ATTAATCCAAGTTTGAGTCTGAACTTCACGGAAGAGTAGTGAAACAGATTATGTTCAAGTCATTC
66 AGTAATCCAAGTTTGAGTCTGAACTTCACGGAAGAGTAGTGAAACAGATTATATTCAAGTCATTC
2263173 CAAATCTGAA
131 CAAATCTGAA
* *
2263183 CTCCATGGAAGAGTAGTGGAACAGATTTGTCAGCAAAGTATGAGAACTTCACGGAAGAGTAGTGA
1 CTCCAGGGAAGAGTAGTGGAACAAATTTGTCAGCAAAGTATGAGAACTTCACGGAAGAGTAGTGA
* ** *
2263248 AGTAATCCAAGTTTGAGTCTGAAGTTCACTTAAGAGTAGTGAAACAGATTCTATTCAAGTCATTC
66 AGTAATCCAAGTTTGAGTCTGAACTTCACGGAAGAGTAGTGAAACAGATTATATTCAAGTCATTC
2263313 CA
131 CA
2263315 GATCAATCTT
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
140 122 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (140 bp):
CTCCAGGGAAGAGTAGTGGAACAAATTTGTCAGCAAAGTATGAGAACTTCACGGAAGAGTAGTGA
AGTAATCCAAGTTTGAGTCTGAACTTCACGGAAGAGTAGTGAAACAGATTATATTCAAGTCATTC
CAAATCTGAA
Found at i:2263747 original size:17 final size:18
Alignment explanation
Indices: 2263713--2263758 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
2263703 TTATATACGT
2263713 TATTATATATATATAATAA
1 TATTATAT-TATATAATAA
*
2263732 TATTATATTATA-AATAT
1 TATTATATTATATAATAA
2263749 TATTAT-TTAT
1 TATTATATTAT
2263759 GTAGCCCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 10 0.38
18 4 0.15
19 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTATATTATATAATAA
Found at i:2264884 original size:2 final size:2
Alignment explanation
Indices: 2264877--2264917 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2264867 TATTTTAGCC
2264877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2264918 GGTAAATCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2267761 original size:2 final size:2
Alignment explanation
Indices: 2267756--2268017 Score: 157
Period size: 2 Copynumber: 130.0 Consensus size: 2
2267746 ATTGAAAACA
2267756 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
2267798 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AGT TT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * * *
2267840 AT A- AT -T AT AT AT AA AA ACT AT AT TT AT AT -T AT AA ACT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT
* * * *
2267881 A- AT -T AT -T AT AT GCT AT AT AT AT AA AT -T AT GT TT AT AT GA-
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* * * * * *
2267920 ACT AT AT AT AT AA ACT AC AT AT GT AA ACT AT AT AT GT AT AA ACT
1 A-T AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT A-T
* * * * *
2267964 AT AA AA AGT AT AT AGT TT AT AA ACT AT A- AT TT AT AT AT AT AT
1 AT AT AT A-T AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT
2268006 AT AT AT AT AT AT
1 AT AT AT AT AT AT
2268018 TATTCAAAGT
Statistics
Matches: 203, Mismatches: 35, Indels: 44
0.72 0.12 0.16
Matches are distributed among these distances:
1 10 0.05
2 182 0.90
3 11 0.05
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2267929 original size:13 final size:13
Alignment explanation
Indices: 2267893--2267966 Score: 67
Period size: 13 Copynumber: 5.4 Consensus size: 13
2267883 TTATTATATG
2267893 CTATATATATAAA
1 CTATATATATAAA
* * *
2267906 TTATGTTTATATGAA
1 CTA--TATATATAAA
2267921 CTATATATATAAA
1 CTATATATATAAA
* *
2267934 CTACATATGTAAA
1 CTATATATATAAA
2267947 CTATATATGTATAAA
1 CTATATA--TATAAA
2267962 CTATA
1 CTATA
2267967 AAAAGTATAT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
13 27 0.57
15 20 0.43
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (13 bp):
CTATATATATAAA
Found at i:2268141 original size:17 final size:18
Alignment explanation
Indices: 2268119--2268173 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
2268109 TTGAGAAATT
*
2268119 TTGAGAA-TATAGGGAAA
1 TTGAGAATTAGAGGGAAA
2268136 TTGAGAATTTAGAGGGAAA
1 TTGAGAA-TTAGAGGGAAA
*
2268155 TTGGGAAATTTAGAGGGAA
1 TTGAG-AA-TTAGAGGGAA
2268174 TAGAAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 7 0.21
19 13 0.39
20 13 0.39
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (18 bp):
TTGAGAATTAGAGGGAAA
Found at i:2268151 original size:19 final size:20
Alignment explanation
Indices: 2268129--2268173 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
2268119 TTGAGAATAT
2268129 AGGGAAATTGAG-AATTTAG
1 AGGGAAATTGAGAAATTTAG
*
2268148 AGGGAAATTGGGAAATTTAG
1 AGGGAAATTGAGAAATTTAG
2268168 AGGGAA
1 AGGGAA
2268174 TAGAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.22
Consensus pattern (20 bp):
AGGGAAATTGAGAAATTTAG
Found at i:2268421 original size:2 final size:2
Alignment explanation
Indices: 2268416--2268561 Score: 89
Period size: 2 Copynumber: 76.0 Consensus size: 2
2268406 GTATATAAAC
* * * *
2268416 TA TA TA TA TA TA AA CTA TA TA -A AA TA TA TA GTT TA TA AA T- TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * *
2268458 TA -A TT TA TA T- TA -A TA TA GTA TA TA TA TG TA TG TA TA -A CTA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
* *
2268498 -A TA TA -A GTA -A TC TA TA GA T- 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
2268537 TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2268562 GAAATACTAT
Statistics
Matches: 111, Mismatches: 17, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
1 11 0.10
2 94 0.85
3 6 0.05
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2268427 original size:15 final size:15
Alignment explanation
Indices: 2268407--2268436 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2268397 TGTATGTATG
2268407 TATATAAACTATATA
1 TATATAAACTATATA
2268422 TATATAAACTATATA
1 TATATAAACTATATA
2268437 AAATATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
TATATAAACTATATA
Found at i:2268629 original size:7 final size:7
Alignment explanation
Indices: 2268617--2268698 Score: 56
Period size: 7 Copynumber: 11.7 Consensus size: 7
2268607 ATTAAAAAAA
2268617 CCTAAAC
1 CCTAAAC
2268624 CCTAAAC
1 CCTAAAC
*
2268631 CTTAAAC
1 CCTAAAC
**
2268638 TATAAAC
1 CCTAAAC
2268645 CCTAAAC
1 CCTAAAC
**
2268652 TTTAAAC
1 CCTAAAC
* *
2268659 CATACAC
1 CCTAAAC
* *
2268666 GCAAAAC
1 CCTAAAC
* *
2268673 ACAAAAC
1 CCTAAAC
2268680 CCTAAAC
1 CCTAAAC
*
2268687 CATAAAC
1 CCTAAAC
2268694 CCTAA
1 CCTAA
2268699 TGTAAATAGA
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 56 1.00
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (7 bp):
CCTAAAC
Found at i:2268644 original size:21 final size:21
Alignment explanation
Indices: 2268619--2268658 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2268609 TAAAAAAACC
2268619 TAAACCCTAAACCTTAAACTA
1 TAAACCCTAAACCTTAAACTA
*
2268640 TAAACCCTAAACTTTAAAC
1 TAAACCCTAAACCTTAAAC
2268659 CATACACGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACCTTAAACTA
Found at i:2268686 original size:14 final size:14
Alignment explanation
Indices: 2268614--2268698 Score: 66
Period size: 14 Copynumber: 6.1 Consensus size: 14
2268604 TTTATTAAAA
2268614 AAACC-TAAACCCT
1 AAACCATAAACCCT
* **
2268627 AAACCTTAAACTAT
1 AAACCATAAACCCT
* **
2268641 AAACCCTAAACTTT
1 AAACCATAAACCCT
* * *
2268655 AAACCATACACGCA
1 AAACCATAAACCCT
2268669 AAACACA-AAACCCT
1 AAAC-CATAAACCCT
2268683 AAACCATAAACCCT
1 AAACCATAAACCCT
2268697 AA
1 AA
2268699 TGTAAATAGA
Statistics
Matches: 57, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
13 7 0.12
14 48 0.84
15 2 0.04
ACGTcount: A:0.51, C:0.32, G:0.01, T:0.16
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:2268720 original size:20 final size:20
Alignment explanation
Indices: 2268695--2268742 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
2268685 ACCATAAACC
2268695 CTAATGTAAATAGACTAGCA
1 CTAATGTAAATAGACTAGCA
*
2268715 CTAATGTAAATGGACTAGCA
1 CTAATGTAAATAGACTAGCA
2268735 CTAATGTA
1 CTAATGTA
2268743 TATATATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (20 bp):
CTAATGTAAATAGACTAGCA
Found at i:2269223 original size:14 final size:14
Alignment explanation
Indices: 2269185--2269244 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
2269175 CCCTAAACCC
2269185 TAAATCATAAACTA
1 TAAATCATAAACTA
* * *
2269199 TACATCCTAAACTT
1 TAAATCATAAACTA
2269213 TAAATCATAAAC-A
1 TAAATCATAAACTA
*
2269226 CTAAACCATAAACTA
1 -TAAATCATAAACTA
2269241 TAAA
1 TAAA
2269245 CCTTAATGTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
14 36 0.97
15 1 0.03
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAATCATAAACTA
Found at i:2269237 original size:28 final size:28
Alignment explanation
Indices: 2269176--2269244 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
2269166 TTATAGAAAC
** *
2269176 CCTAAACCCTAAATCATAAACTATACAT
1 CCTAAACTATAAATCATAAACTATACAA
*
2269204 CCTAAACTTTAAATCATAAAC-ACTA-AA
1 CCTAAACTATAAATCATAAACTA-TACAA
2269231 CCATAAACTATAAA
1 CC-TAAACTATAAA
2269245 CCTTAATGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 4 0.11
28 31 0.89
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (28 bp):
CCTAAACTATAAATCATAAACTATACAA
Found at i:2275069 original size:7 final size:7
Alignment explanation
Indices: 2275053--2275104 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
2275043 ACCCTAATTA
*
2275053 TAAACTC
1 TAAACCC
2275060 TAAACCC
1 TAAACCC
**
2275067 TAAACTT
1 TAAACCC
2275074 TAAACCC
1 TAAACCC
**
2275081 TAAACGT
1 TAAACCC
*
2275088 TAAACCT
1 TAAACCC
2275095 TAAACCC
1 TAAACCC
2275102 TAA
1 TAA
2275105 TATAAATGGA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.25
Consensus pattern (7 bp):
TAAACCC
Found at i:2275072 original size:14 final size:14
Alignment explanation
Indices: 2275053--2275104 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
2275043 ACCCTAATTA
2275053 TAAACTCTAAACCC
1 TAAACTCTAAACCC
*
2275067 TAAACTTTAAACCC
1 TAAACTCTAAACCC
*
2275081 TAAACGT-TAAACCT
1 TAAAC-TCTAAACCC
*
2275095 TAAACCCTAA
1 TAAACTCTAA
2275105 TATAAATGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 32 0.97
15 1 0.03
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.25
Consensus pattern (14 bp):
TAAACTCTAAACCC
Found at i:2275083 original size:21 final size:21
Alignment explanation
Indices: 2275040--2275104 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
2275030 TCCTAAATCT
*
2275040 TAAACCCT-AA-TTATAAACTC
1 TAAACCCTAAACTT-TAAACCC
2275060 TAAACCCTAAACTTTAAACCC
1 TAAACCCTAAACTTTAAACCC
** *
2275081 TAAACGTTAAACCTTAAACCC
1 TAAACCCTAAACTTTAAACCC
2275102 TAA
1 TAA
2275105 TATAAATGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
20 8 0.21
21 29 0.74
22 2 0.05
ACGTcount: A:0.45, C:0.28, G:0.02, T:0.26
Consensus pattern (21 bp):
TAAACCCTAAACTTTAAACCC
Found at i:2275529 original size:16 final size:16
Alignment explanation
Indices: 2275494--2275576 Score: 96
Period size: 16 Copynumber: 5.2 Consensus size: 16
2275484 TAATATATAA
*
2275494 GTCAGG-TAAATATCAG
1 GTCAGGTTAAA-AACAG
* *
2275510 GTCAGGTTAAAAAAAT
1 GTCAGGTTAAAAACAG
*
2275526 GTCAAGTTAAAAACAG
1 GTCAGGTTAAAAACAG
*
2275542 GTCAGGTTGAAAACAG
1 GTCAGGTTAAAAACAG
*
2275558 GTCAGGTTGAAAACAG
1 GTCAGGTTAAAAACAG
2275574 GTC
1 GTC
2275577 GGGTAATAGC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
16 54 0.93
17 4 0.07
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (16 bp):
GTCAGGTTAAAAACAG
Found at i:2276719 original size:4 final size:4
Alignment explanation
Indices: 2276710--2276736 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2276700 ACTGTTAATT
2276710 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
2276737 TATGTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:2276955 original size:14 final size:14
Alignment explanation
Indices: 2276911--2276947 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2276901 TTTTTATTTA
* *
2276911 TTTAATTTCAGTCC
1 TTTAATTTCATTAC
2276925 TTTAATTTCATTAC
1 TTTAATTTCATTAC
2276939 TTTAATTTC
1 TTTAATTTC
2276948 CTATCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.03, T:0.57
Consensus pattern (14 bp):
TTTAATTTCATTAC
Found at i:2276992 original size:14 final size:14
Alignment explanation
Indices: 2276975--2277004 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2276965 TGCCTTCATT
2276975 TTTTAGTACTTTAA
1 TTTTAGTACTTTAA
*
2276989 TTTTAGTCCTTTAA
1 TTTTAGTACTTTAA
2277003 TT
1 TT
2277005 ATTGAACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.07, T:0.60
Consensus pattern (14 bp):
TTTTAGTACTTTAA
Found at i:2277049 original size:2 final size:2
Alignment explanation
Indices: 2277042--2277071 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2277032 TTTTAGTCCC
2277042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2277072 GCATGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2284296 original size:90 final size:91
Alignment explanation
Indices: 2284180--2284361 Score: 276
Period size: 90 Copynumber: 2.0 Consensus size: 91
2284170 GGGAAATGAT
*
2284180 GCTTGGCCGAATAGGGAGAGAGCTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACAT-
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
*
2284244 GGGGCTGTTCACATGCAAAACACATG
66 GGGGCTGGTCACATGCAAAACACATG
* * * *
2284270 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGTCTAAATGATCCTCATGCAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
* **
2284335 GGGGCTGGTCATATGCAAGGCACATG
66 GGGGCTGGTCACATGCAAAACACATG
2284361 G
1 G
2284362 GTGTTCTAGG
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
90 59 0.72
91 23 0.28
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.21
Consensus pattern (91 bp):
GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
GGGGCTGGTCACATGCAAAACACATG
Found at i:2288691 original size:7 final size:7
Alignment explanation
Indices: 2288657--2288798 Score: 76
Period size: 7 Copynumber: 19.4 Consensus size: 7
2288647 AAGAAGAAGT
2288657 AAAAAGA
1 AAAAAGA
*
2288664 GAAAATGA
1 -AAAAAGA
2288672 AAATAATGA
1 AAA-AA-GA
2288681 AAAAAGA
1 AAAAAGA
2288688 AAAAGAGA
1 AAAA-AGA
*
2288696 GTCAAAAG-
1 --AAAAAGA
2288704 AAAAAGA
1 AAAAAGA
2288711 AAAAAGA
1 AAAAAGA
*
2288718 AAAATGA
1 AAAAAGA
2288725 ATGAAAA-A
1 A--AAAAGA
2288733 ATAAAAGA
1 A-AAAAGA
*
2288741 AAAGAATA
1 AAA-AAGA
** *
2288749 TGAATGA
1 AAAAAGA
*
2288756 AAAAATA
1 AAAAAGA
2288763 AAAAAG-
1 AAAAAGA
*
2288769 AAAAGGA
1 AAAAAGA
2288776 AAAAAG-
1 AAAAAGA
2288782 AAAAAGA
1 AAAAAGA
*
2288789 GAAAAGA
1 AAAAAGA
2288796 AAA
1 AAA
2288799 CTGAAAGGAG
Statistics
Matches: 101, Mismatches: 21, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
6 16 0.16
7 52 0.51
8 20 0.20
9 10 0.10
10 3 0.03
ACGTcount: A:0.75, C:0.01, G:0.17, T:0.08
Consensus pattern (7 bp):
AAAAAGA
Found at i:2288708 original size:6 final size:6
Alignment explanation
Indices: 2288699--2288798 Score: 50
Period size: 6 Copynumber: 16.5 Consensus size: 6
2288689 AAAGAGAGTC
*
2288699 AAAAGA AAAAGAA AAAAGA AAAATG- -AATGA AAAA-A TAAAAG- AAAAGA
1 AAAAGA AAAAG-A AAAAGA AAAA-GA AAAAGA AAAAGA -AAAAGA AAAAGA
* * * *
2288746 ATATGA ATGAAA-A AATA-A AAAAGA AAAGGAA AAAAGA AAAAGA GAAAAGA
1 AAAAGA A--AAAGA AAAAGA AAAAGA AAAAG-A AAAAGA AAAAGA -AAAAGA
2288796 AAA
1 AAA
2288799 CTGAAAGGAG
Statistics
Matches: 72, Mismatches: 10, Indels: 24
0.68 0.09 0.23
Matches are distributed among these distances:
4 1 0.01
5 14 0.19
6 36 0.50
7 20 0.28
8 1 0.01
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (6 bp):
AAAAGA
Found at i:2288717 original size:13 final size:13
Alignment explanation
Indices: 2288679--2288798 Score: 70
Period size: 13 Copynumber: 8.9 Consensus size: 13
2288669 TGAAAATAAT
2288679 GAAAAAAGAAAAA
1 GAAAAAAGAAAAA
2288692 GAGAGTCAAAAGAAAAA
1 GA-A---AAAAGAAAAA
2288709 GAAAAAAGAAAAA
1 GAAAAAAGAAAAA
*
2288722 TG---AATGAAAAA
1 -GAAAAAAGAAAAA
*
2288733 -ATAAAAG-AAAA
1 GAAAAAAGAAAAA
*
2288744 GAATATGAATGAAAAAA
1 GAA-A--AAAG-AAAAA
* *
2288761 TAAAAAAGAAAAG
1 GAAAAAAGAAAAA
2288774 GAAAAAAGAAAAA
1 GAAAAAAGAAAAA
*
2288787 GAGAAAAGAAAA
1 GAAAAAAGAAAA
2288799 CTGAAAGGAG
Statistics
Matches: 83, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
11 12 0.14
12 4 0.05
13 39 0.47
14 5 0.06
15 3 0.04
16 2 0.02
17 18 0.22
ACGTcount: A:0.75, C:0.01, G:0.17, T:0.07
Consensus pattern (13 bp):
GAAAAAAGAAAAA
Found at i:2288739 original size:30 final size:30
Alignment explanation
Indices: 2288671--2288779 Score: 97
Period size: 30 Copynumber: 3.7 Consensus size: 30
2288661 AGAGAAAATG
* *
2288671 AAAAT-AATGAAAAAAGAAAAA-GAGAGTCAA
1 AAAATAAAAGAAAAAAGAAAAATGA-A-TGAA
*
2288701 AAGA-AAAAGAAAAAAGAAAAATGAATGAA
1 AAAATAAAAGAAAAAAGAAAAATGAATGAA
*
2288730 AAAATAAAAG--AAAAG-AATATGAATGAA
1 AAAATAAAAGAAAAAAGAAAAATGAATGAA
2288757 AAAATAAAA-AAGAAAAGGAAAAA
1 AAAATAAAAGAA-AAAA-GAAAAA
2288780 AGAAAAAGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
27 20 0.31
28 5 0.08
29 10 0.15
30 25 0.38
31 5 0.08
ACGTcount: A:0.74, C:0.01, G:0.16, T:0.09
Consensus pattern (30 bp):
AAAATAAAAGAAAAAAGAAAAATGAATGAA
Found at i:2288756 original size:27 final size:28
Alignment explanation
Indices: 2288712--2288779 Score: 93
Period size: 27 Copynumber: 2.4 Consensus size: 28
2288702 AGAAAAAGAA
2288712 AAAAGAAAAATGAATGAAAAAATAAAAG
1 AAAAGAAAAATGAATGAAAAAATAAAAG
*
2288740 AAAAG-AATATGAATGAAAAAATAAAAAAG
1 AAAAGAAAAATGAATGAAAAAAT--AAAAG
2288769 AAAAGGAAAAA
1 AAAA-GAAAAA
2288780 AGAAAAAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 16 0.47
28 5 0.15
29 9 0.26
30 1 0.03
31 3 0.09
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (28 bp):
AAAAGAAAAATGAATGAAAAAATAAAAG
Found at i:2288766 original size:23 final size:24
Alignment explanation
Indices: 2288703--2288772 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 24
2288693 AGAGTCAAAA
2288703 GAAAAAGA-AAAAAGAAAAATGAAT
1 GAAAAA-ATAAAAAGAAAAATGAAT
*
2288727 GAAAAAATAAAAGAAAAGAATATGAAT
1 GAAAAAATAAAA-AGAA-AA-ATGAAT
2288754 GAAAAAATAAAAAAGAAAA
1 GAAAAAAT-AAAAAGAAAA
2288773 GGAAAAAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
23 1 0.03
24 10 0.26
25 3 0.08
26 4 0.10
27 17 0.44
28 4 0.10
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (24 bp):
GAAAAAATAAAAAGAAAAATGAAT
Found at i:2288777 original size:20 final size:20
Alignment explanation
Indices: 2288754--2288798 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
2288744 GAATATGAAT
*
2288754 GAAAAAATAAAAA-AGAAAA
1 GAAAAAAGAAAAAGAGAAAA
2288773 GGAAAAAAGAAAAAGAGAAAA
1 -GAAAAAAGAAAAAGAGAAAA
2288794 GAAAA
1 GAAAA
2288799 CTGAAAGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (20 bp):
GAAAAAAGAAAAAGAGAAAA
Found at i:2288779 original size:21 final size:20
Alignment explanation
Indices: 2288699--2288798 Score: 71
Period size: 23 Copynumber: 4.7 Consensus size: 20
2288689 AAAGAGAGTC
2288699 AAAAGAAAAAGAAAAAAGAAA
1 AAAAG-AAAAGAAAAAAGAAA
2288720 AATGAATGAAAA-AATAAAAGAAA
1 AA--AA-GAAAAGAA-AAAAGAAA
* *
2288743 AGAATATG-AATGAAAAAA-TAA
1 A-AA-A-GAAAAGAAAAAAGAAA
2288764 AAAAGAAAAGGAAAAAAGAAA
1 AAAAGAAAA-GAAAAAAGAAA
*
2288785 AAGAGAAAAGAAAA
1 AAAAGAAAAGAAAA
2288799 CTGAAAGGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 21
0.71 0.06 0.23
Matches are distributed among these distances:
18 1 0.02
19 3 0.05
20 14 0.22
21 15 0.23
22 9 0.14
23 20 0.31
24 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (20 bp):
AAAAGAAAAGAAAAAAGAAA
Found at i:2290564 original size:43 final size:43
Alignment explanation
Indices: 2290517--2290606 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
2290507 CAGAAATTTC
*
2290517 TTCATGATTTTTAAATGAGTTTTTAAAGAAACTAAGTCTGATT
1 TTCATGATTTTTAAATGAATTTTTAAAGAAACTAAGTCTGATT
2290560 TTCATGATTTTTAAATGAATTTTTAAAGAAACTAAGTCTGATT
1 TTCATGATTTTTAAATGAATTTTTAAAGAAACTAAGTCTGATT
2290603 TTCA
1 TTCA
2290607 GGAGTTCCTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (43 bp):
TTCATGATTTTTAAATGAATTTTTAAAGAAACTAAGTCTGATT
Found at i:2290584 original size:55 final size:53
Alignment explanation
Indices: 2290489--2290785 Score: 258
Period size: 55 Copynumber: 5.6 Consensus size: 53
2290479 GATTTTTTTT
* * *
2290489 AGAAACTAAGTCTG-GTTTCAGAAATTTCTTCATGATTTTTAAATGAGTTTTTAA
1 AGAAACTAAGTCTGATTTTCAG-AGTTT-TTGATGATTTTTAAATGAGTTTTTAA
*
2290543 AGAAACTAAGTCTGATTTTC----------ATGATTTTTAAATGAATTTTTAA
1 AGAAACTAAGTCTGATTTTCAGAGTTTTTGATGATTTTTAAATGAGTTTTTAA
* **
2290586 AGAAACTAAGTCTGATTTTCAGGAGTTCCTTGACAATTTTTAAATGA-TCTTTTAA
1 AGAAACTAAGTCTGATTTTCA-GAGTT-TTTGATGATTTTTAAATGAGT-TTTTAA
* *
2290641 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAAA
1 AGAAACTAAGTCTGATTTTCAG-AGTTT-TTGATGATTTTTAAATGAGTTTTT-AA
* * * * * *
2290697 AGAAACTAAGTATAATTTTCAAAATTTTCTTGATGATTTTTAAATGAGCTTTCAA
1 AGAAACTAAGTCTGATTTTC-AGAGTTT-TTGATGATTTTTAAATGAGTTTTTAA
*
2290752 AGAAACTAAGTATGATTTTCAGAGGTTTCTTGAT
1 AGAAACTAAGTCTGATTTTCAGA-GTTT-TTGAT
2290786 ATTATGAATT
Statistics
Matches: 205, Mismatches: 18, Indels: 39
0.78 0.07 0.15
Matches are distributed among these distances:
43 42 0.20
54 18 0.09
55 98 0.48
56 46 0.22
57 1 0.00
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (53 bp):
AGAAACTAAGTCTGATTTTCAGAGTTTTTGATGATTTTTAAATGAGTTTTTAA
Found at i:2290726 original size:56 final size:55
Alignment explanation
Indices: 2290565--2290784 Score: 289
Period size: 55 Copynumber: 4.0 Consensus size: 55
2290555 TGATTTTCAT
* * * *
2290565 GATTTTTAAATGAATTTTTAAAGAAACTAAGTCTGATTTTCAGGAGTTCCTTGAC
1 GATTTTTAAATGAGTTTTTAAAGAAACTAAGTATGATTTTCAGAAGTTTCTTGAC
* *
2290620 AATTTTTAAATGA-TCTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGAC
1 GATTTTTAAATGAGT-TTTTAAAGAAACTAAGTATGATTTTCAGAAGTTTCTTGAC
* * * * *
2290675 GATTTTCAAATGAGTTTTTAAAAGAAACTAAGTATAATTTTCAAAATTTTCTTGAT
1 GATTTTTAAATGAGTTTTT-AAAGAAACTAAGTATGATTTTCAGAAGTTTCTTGAC
* * *
2290731 GATTTTTAAATGAGCTTTCAAAGAAACTAAGTATGATTTTCAGAGGTTTCTTGA
1 GATTTTTAAATGAGTTTTTAAAGAAACTAAGTATGATTTTCAGAAGTTTCTTGA
2290785 TATTATGAAT
Statistics
Matches: 145, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
54 1 0.01
55 96 0.66
56 48 0.33
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.41
Consensus pattern (55 bp):
GATTTTTAAATGAGTTTTTAAAGAAACTAAGTATGATTTTCAGAAGTTTCTTGAC
Found at i:2290736 original size:111 final size:110
Alignment explanation
Indices: 2290565--2290784 Score: 305
Period size: 111 Copynumber: 2.0 Consensus size: 110
2290555 TGATTTTCAT
* * * **
2290565 GATTTTTAAATGAATTTTTAAAGAAACTAAGTCTGATTTTCAGGAGTTCCTTGACAATTTTTAAA
1 GATTTTCAAATGAATTTTTAAAGAAACTAAGTATAATTTTCAAAAGTTCCTTGACAATTTTTAAA
* * *
2290630 TGATCTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGAC
66 TGAGCTTTCAAAGAAACTAAGTATGATTTTCAGAAGTTTCTTGAC
* * * **
2290675 GATTTTCAAATGAGTTTTTAAAAGAAACTAAGTATAATTTTCAAAATTTTCTTGATGATTTTTAA
1 GATTTTCAAATGAATTTTT-AAAGAAACTAAGTATAATTTTCAAAAGTTCCTTGACAATTTTTAA
*
2290740 ATGAGCTTTCAAAGAAACTAAGTATGATTTTCAGAGGTTTCTTGA
65 ATGAGCTTTCAAAGAAACTAAGTATGATTTTCAGAAGTTTCTTGA
2290785 TATTATGAAT
Statistics
Matches: 95, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
110 17 0.18
111 78 0.82
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.41
Consensus pattern (110 bp):
GATTTTCAAATGAATTTTTAAAGAAACTAAGTATAATTTTCAAAAGTTCCTTGACAATTTTTAAA
TGAGCTTTCAAAGAAACTAAGTATGATTTTCAGAAGTTTCTTGAC
Found at i:2290961 original size:42 final size:41
Alignment explanation
Indices: 2290899--2290995 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 41
2290889 GAAGAGTAAG
* * *
2290899 TCCTTCTGGCCATC-AGTAAGTCTTTCGAACATGATGCATAAA
1 TCCTTCGGGCCATCTA-TAAGTATTTCGAACAAGATG-ATAAA
* * *
2290941 TCCTTCGGGTCATCTATAAGTATTTCGAGCAAGATGATAAG
1 TCCTTCGGGCCATCTATAAGTATTTCGAACAAGATGATAAA
*
2290982 TCCTTTGGGCCATC
1 TCCTTCGGGCCATC
2290996 CATTAGACCT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 16 0.35
42 29 0.63
43 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (41 bp):
TCCTTCGGGCCATCTATAAGTATTTCGAACAAGATGATAAA
Found at i:2291536 original size:238 final size:237
Alignment explanation
Indices: 2290893--2291674 Score: 1072
Period size: 238 Copynumber: 3.3 Consensus size: 237
2290883 TTTCTTGAAG
* * *
2290893 AGTAAGTCCTTCTGGCCATCAGTAAGTCTTTCGAACATGATGCATAAATCCTTCGGGTCATCTAT
1 AGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGATCATGATGCTTAAATCCTTCGGGTCATCTAT
* * * *
2290958 AAGTATTTCGAGCAAGATGATAAGTCCTTTGGGCCATCCATTAGACCTTCGGGCAAGATGTTTTC
66 AAGTCTTTCGAGCAAGATGATAAGTCCTTT-GGCTATCCATAAGACCTTCGGGCATGATGTTTTC
* * *
2291023 ACATGATTTTCAAAAAATGATAAAGCGATTTCCAAAGATTATCATTTAAATCTTTTCTAAAAATT
130 ACATGATTTTCAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTAAAAATT
* * * *
2291088 GATTTTTGAAAAGTAGGACAACAATATCTAAAGTTTCTTACTT
195 GATTTTTGAAAAGTAGGAAAACGATTTCCAAAGTTTCTTACTT
* * * * * *
2291131 AGTAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCATGGTGCTTAAATCATTCAGATCATC--T
1 AGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGATCATGATGCTTAAATCCTTCGGGTCATCTAT
**
2291194 AAGTCTTTCGAGCAAGATGATAAGTCCTTTGAGCTATATATAAGACCTTCGGGCATGATGTTTTC
66 AAGTCTTTCGAGCAAGATGATAAGTCCTTTG-GCTATCCATAAGACCTTCGGGCATGATGTTTTC
* * *
2291259 ACATGATTTTCAAAAAATAAGAAAGCGATTTCCAAAGTTTCTCATTTAAATTTTTTCTGAAAATT
130 ACATGATTTTCAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTAAAAATT
* * *
2291324 AATTTTTGAAAAAGTAGGAAAATGATTTCCAAAGTTTCTTACTC
195 GATTTTTG-AAAAGTAGGAAAACGATTTCCAAAGTTTCTTACTT
* * *
2291368 AGTAAGTCCTTTGGGCCATGAGTAAGTCTTTCGATCATGGTGCTTAAATCCTTCGGGTCATCTAT
1 AGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGATCATGATGCTTAAATCCTTCGGGTCATCTAT
2291433 AAGTCTTTCG-GCAAGATGATAAGTCCTTTAGGCTATCCATAAGTA-CTTCGGGCATGATGTTTT
66 AAGTCTTTCGAGCAAGATGATAAGTCCTTT-GGCTATCCATAAG-ACCTTCGGGCATGATGTTTT
*
2291496 CACATGATTTTCAAAAAATGAGAAAGCGATTTCTAAAGTTTCTCATTTAAATCTTTTCTAAAAAT
129 CACATGATTTTCAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTAAAAAT
* *
2291561 TGTTTTTTCTTG-AAAGTAAGAAAACGATTTCCAAAGTTTCTTACTT
194 TG--ATTT-TTGAAAAGTAGGAAAACGATTTCCAAAGTTTCTTACTT
* * * ** * *
2291607 AATAAGTCCTTCGGGCCATCAATAAGTCTTTTGAGT-ATGATGCCCAAATCCTTTGGGCCATCTA
1 AGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGA-TCATGATGCTTAAATCCTTCGGGTCATCTA
2291671 TAAG
65 TAAG
2291675 ACCTTCGGGC
Statistics
Matches: 479, Mismatches: 55, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
235 1 0.00
236 124 0.26
237 84 0.18
238 163 0.34
239 100 0.21
240 4 0.01
241 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (237 bp):
AGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGATCATGATGCTTAAATCCTTCGGGTCATCTAT
AAGTCTTTCGAGCAAGATGATAAGTCCTTTGGCTATCCATAAGACCTTCGGGCATGATGTTTTCA
CATGATTTTCAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTAAAAATTG
ATTTTTGAAAAGTAGGAAAACGATTTCCAAAGTTTCTTACTT
Found at i:2293738 original size:14 final size:14
Alignment explanation
Indices: 2293719--2293754 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2293709 TTTTTATTTA
*
2293719 TTTAATTTCAGTCC
1 TTTAATTTCAGTAC
*
2293733 TTTAATTTCATTAC
1 TTTAATTTCAGTAC
2293747 TTTAATTT
1 TTTAATTT
2293755 TCTATCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTAATTTCAGTAC
Found at i:2293854 original size:2 final size:2
Alignment explanation
Indices: 2293847--2293880 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2293837 TTTTAGTCCC
2293847 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2293881 GCATGTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2304801 original size:54 final size:54
Alignment explanation
Indices: 2304719--2304827 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
2304709 GTTAACAACT
2304719 AATGTTATTAGACTTGAGACTTGTTTAAACGATATCAAAGTGCTTATCACTTGA
1 AATGTTATTAGACTTGAGACTTGTTTAAACGATATCAAAGTGCTTATCACTTGA
2304773 AATGTTATTAGACTTGAGACTTGTTTAAACGATATCAAAGTGCTTATCACTTGA
1 AATGTTATTAGACTTGAGACTTGTTTAAACGATATCAAAGTGCTTATCACTTGA
2304827 A
1 A
2304828 CCAACCTCAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (54 bp):
AATGTTATTAGACTTGAGACTTGTTTAAACGATATCAAAGTGCTTATCACTTGA
Found at i:2308891 original size:60 final size:60
Alignment explanation
Indices: 2308804--2308969 Score: 197
Period size: 60 Copynumber: 2.8 Consensus size: 60
2308794 ACTATAACAT
* * * * * * * *
2308804 TCATTTTAAATTGGTCTTTAAACTTTTGAATACTCCAATTTCATCCCTAAACTGTGACTC
1 TCATTCTAAATTAGTCCTTGAACTTTTGAATATTCAAATTTCATCCCAAAACTATGACTC
* * *
2308864 TCATTCTAAATTAGTCCTTGAAGTTTTGAACATTCAAATTCCATCCCAAAACTATGACTC
1 TCATTCTAAATTAGTCCTTGAACTTTTGAATATTCAAATTTCATCCCAAAACTATGACTC
* * * *
2308924 TCTTTCTAAATTAGTCCCTGAACTTTTGAATATTCTAATTTTATCC
1 TCATTCTAAATTAGTCCTTGAACTTTTGAATATTCAAATTTCATCC
2308970 ATAGATTCAT
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 88 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (60 bp):
TCATTCTAAATTAGTCCTTGAACTTTTGAATATTCAAATTTCATCCCAAAACTATGACTC
Found at i:2313757 original size:61 final size:61
Alignment explanation
Indices: 2313669--2313783 Score: 185
Period size: 61 Copynumber: 1.9 Consensus size: 61
2313659 AAAGGTGGAT
* * *
2313669 ACGACCTTATGTATCATGTCCGGATTAGCACTATAGCGTAAGCTTAGTGTAGGTGGTGGGC
1 ACGACCTTATGTAGCATATCCGGATTAGCACTATAGCGTAAGCTTAGTGCAGGTGGTGGGC
* *
2313730 ACGACCTTATGTGGCATATCCGGATTAGCACTATTGCGTAAGCTTAGTGCAGGT
1 ACGACCTTATGTAGCATATCCGGATTAGCACTATAGCGTAAGCTTAGTGCAGGT
2313784 TTAGCACTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (61 bp):
ACGACCTTATGTAGCATATCCGGATTAGCACTATAGCGTAAGCTTAGTGCAGGTGGTGGGC
Found at i:2313986 original size:47 final size:46
Alignment explanation
Indices: 2313893--2314050 Score: 225
Period size: 47 Copynumber: 3.5 Consensus size: 46
2313883 GTAAGTATGC
* *
2313893 AAATAAGCTTACGAGCTTAT-GAA--T-AATGGCAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTAT-TTTATA
*
2313936 AAATAAGCTTTCGAGCTTATGGAATTTAAATGGTAAGTATGTTTATA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTAT-TTTATA
*
2313983 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTT-ATA
2314030 AAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATG
2314051 CGATAAATGA
Statistics
Matches: 104, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
43 19 0.18
44 3 0.03
46 4 0.04
47 78 0.75
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTATA
Found at i:2314518 original size:20 final size:20
Alignment explanation
Indices: 2314493--2314542 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
2314483 AATGGGGTAT
2314493 CGATTCCCCCTACAGGGAAC
1 CGATTCCCCCTACAGGGAAC
2314513 CGATTCCCCCTACAGGGAAC
1 CGATTCCCCCTACAGGGAAC
2314533 CGATTCCCCC
1 CGATTCCCCC
2314543 ACTGTTCACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.44, G:0.18, T:0.16
Consensus pattern (20 bp):
CGATTCCCCCTACAGGGAAC
Found at i:2315761 original size:30 final size:29
Alignment explanation
Indices: 2315712--2315790 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 29
2315702 ATTTTTAATT
* *
2315712 TTTCCAAAATTATATTTTGATC-CCTAAAC
1 TTTCCAAATTTATAATTTGATCACC-AAAC
*
2315741 TTTCCAAAGTTTATACTTTGATCACCAAAC
1 TTTCCAAA-TTTATAATTTGATCACCAAAC
2315771 TTTACCAAATTTATAATTTG
1 TTT-CCAAATTTATAATTTG
2315791 GTCATTAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 8 0.18
30 29 0.66
31 7 0.16
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (29 bp):
TTTCCAAATTTATAATTTGATCACCAAAC
Found at i:2331439 original size:18 final size:17
Alignment explanation
Indices: 2331404--2331451 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
2331394 CTTTGTTTGG
*
2331404 AGAAAAAATAAGAAAAA
1 AGAAAAAAAAAGAAAAA
*
2331421 AGAAAAAAAAATGAGAAA
1 AGAAAAAAAAA-GAAAAA
*
2331439 AGATAAATAAAAG
1 AGA-AAAAAAAAG
2331452 GAGGGTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 10 0.38
18 9 0.35
19 7 0.27
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (17 bp):
AGAAAAAAAAAGAAAAA
Found at i:2333009 original size:130 final size:129
Alignment explanation
Indices: 2332706--2333022 Score: 357
Period size: 129 Copynumber: 2.4 Consensus size: 129
2332696 TCTGATCTAT
* * * * *
2332706 CCTAGAACACAGTGGAGCATATCTACTTTTCTCATATTTGATCTTTCATGAAGAACAGCGAAGCA
1 CCTAAAACGCAGTGGAGCATATCT--TTTTCTCATATTTGATCTTCCCTGAAGAATAGCGAAGCA
* *
2332771 AATCAACCCCGATTCAGTCTTCCCTAAAGACAACGAAACAAATCAAAGTTTCCATATATGATCTA
64 AATCAACCCCGATTCAATCTTCCCTAAAGACAACGAAACAAATCAAAGTTTCCATATATGATATA
2332836 C
129 C
* * * * * *
2332837 CCTAAAACGCAGCGAAGCAGATCTTTTTCTTAGATTTGATCTTCCCTGAAGAATAGTGAAGCAAA
1 CCTAAAACGCAGTGGAGCATATCTTTTTCTCATATTTGATCTTCCCTGAAGAATAGCGAAGCAAA
* * ** ** *
2332902 TCAATCCCGATTCAATCTTCCCTGAAGAGGA-GTAAAGTGAATCAAAGTTTCCATATCTGATATA
66 TCAACCCCGATTCAATCTTCCCTAAAGACAACG-AAA-CAAATCAAAGTTTCCATATATGATATA
2332966 C
129 C
* * * * *
2332967 CCTTACACTCAGTGGAGCATATCTTTTTATCATATTTAATCTTCCCTGAAAGAATA
1 CCTAAAACGCAGTGGAGCATATCTTTTTCTCATATTTGATCTTCCCTG-AAGAATA
2333023 ATAACTTCCT
Statistics
Matches: 153, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
128 1 0.01
129 64 0.42
130 62 0.41
131 26 0.17
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (129 bp):
CCTAAAACGCAGTGGAGCATATCTTTTTCTCATATTTGATCTTCCCTGAAGAATAGCGAAGCAAA
TCAACCCCGATTCAATCTTCCCTAAAGACAACGAAACAAATCAAAGTTTCCATATATGATATAC
Found at i:2340720 original size:19 final size:21
Alignment explanation
Indices: 2340683--2340725 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
2340673 TAACTTTTTC
*
2340683 TTTTCTCTTTCTTTATTAA-T
1 TTTTCTCTTTCATTATTAACT
2340703 TTTTCTCTTTCATT-TTAACT
1 TTTTCTCTTTCATTATTAACT
2340723 TTT
1 TTT
2340726 ACTTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCTCTTTCATTATTAACT
Found at i:2344017 original size:24 final size:24
Alignment explanation
Indices: 2343990--2344039 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2343980 TGGTGGTTGA
*
2343990 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
2344014 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
2344038 TT
1 TT
2344040 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:2345709 original size:63 final size:65
Alignment explanation
Indices: 2345556--2345714 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
2345546 AATTAAATTG
* *
2345556 AACATCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTGAGCATTTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTCAGCATTTTATGAA
* * *
2345621 AACATCGAATGCATTTGATGCATCGATGCACA-AGTCATGTATCGATGCACTCTGC-TATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCACATA-CCATGCATCGATGCACTCAGCAT-TTTATG
2345683 -A
64 AA
*
2345684 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
2345715 TCATAGTGCA
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
63 31 0.36
64 4 0.05
65 51 0.59
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTCAGCATTTTATGAA
Found at i:2353688 original size:20 final size:22
Alignment explanation
Indices: 2353641--2353688 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
2353631 ATTCCCCTGT
2353641 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTT-CCCTTCAA
*
2353664 AGGGGGAATCGGTT-CC-TCAA
1 GGGGGGAATCGGTTCCCTTCAA
2353684 GGGGG
1 GGGGG
2353689 ATCGATTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 2 0.09
23 13 0.57
ACGTcount: A:0.19, C:0.21, G:0.42, T:0.19
Consensus pattern (22 bp):
GGGGGGAATCGGTTCCCTTCAA
Found at i:2363030 original size:14 final size:15
Alignment explanation
Indices: 2363005--2363033 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2362995 TTGTTTTTTA
2363005 TGTTTCTGGATTGTT
1 TGTTTCTGGATTGTT
2363020 TGTTT-TGGATTGTT
1 TGTTTCTGGATTGTT
2363034 AAATTCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.03, G:0.28, T:0.62
Consensus pattern (15 bp):
TGTTTCTGGATTGTT
Found at i:2363345 original size:24 final size:24
Alignment explanation
Indices: 2363313--2363375 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
2363303 ATTTAACAAA
2363313 AAGGGGGAGAAGTGTAAAAATGTT
1 AAGGGGGAGAAGTGTAAAAATGTT
*
2363337 AAGGGGGAGAAGTGTAAAAGTGTT
1 AAGGGGGAGAAGTGTAAAAATGTT
* *
2363361 AAAGAGGAGAAGTGT
1 AAGGGGGAGAAGTGT
2363376 TAAAGGGGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.41, C:0.00, G:0.40, T:0.19
Consensus pattern (24 bp):
AAGGGGGAGAAGTGTAAAAATGTT
Found at i:2363375 original size:16 final size:16
Alignment explanation
Indices: 2363354--2363408 Score: 101
Period size: 16 Copynumber: 3.4 Consensus size: 16
2363344 AGAAGTGTAA
*
2363354 AAGTGTTAAAGAGGAG
1 AAGTGTTAAAGGGGAG
2363370 AAGTGTTAAAGGGGAG
1 AAGTGTTAAAGGGGAG
2363386 AAGTGTTAAAGGGGAG
1 AAGTGTTAAAGGGGAG
2363402 AAGTGTT
1 AAGTGTT
2363409 GTAGTAAGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.22
Consensus pattern (16 bp):
AAGTGTTAAAGGGGAG
Found at i:2363868 original size:65 final size:63
Alignment explanation
Indices: 2363749--2363957 Score: 221
Period size: 65 Copynumber: 3.3 Consensus size: 63
2363739 TTTATCAAAG
* * *
2363749 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATTGAATGC
1 TGATGCATCGATGCA-C-ATCCATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATGC
2363811 ATT
61 ATT
* * *
2363814 TCATGCATCGATGCACATACCATGCATCGATGCACTGAGGAT-TTTATGAAAACATCCAATGCAT
1 TGATGCATCGATGCACAT-CCATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
2363878 T
63 T
* * *
2363879 TGATGCATCGATGCACCATCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CATCCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
2363943 TGATGCATCG-TGCAC
1 TGATGCATCGATGCAC
2363958 TCTTAGTGCA
Statistics
Matches: 124, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
62 2 0.02
63 8 0.06
64 41 0.33
65 67 0.54
66 6 0.05
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (63 bp):
TGATGCATCGATGCACATCCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:2365270 original size:90 final size:89
Alignment explanation
Indices: 2365118--2365290 Score: 301
Period size: 90 Copynumber: 1.9 Consensus size: 89
2365108 ACACACCCTT
2365118 TTATATCCAAGTTACCATAATCATATTAGAGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATATCCAAGTTACCATAATCATATTAGAGTTTTATTATTTCAAATTAATTAAATCTATATTTA
* *
2365183 ATTAATTGGAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
* *
2365207 TTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATATCCAAGTTACCATAATCATATTAGAG-TTTTATTATTTCAAATTAATTAAATCTATATTT
2365272 AATTAATTGAAATTAAATA
65 AATTAATTGAAATTAAATA
2365291 TTTGGGATTA
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 29 0.37
90 50 0.63
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (89 bp):
TTATATCCAAGTTACCATAATCATATTAGAGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAAATAATCCTC
Found at i:2372079 original size:90 final size:88
Alignment explanation
Indices: 2371927--2372096 Score: 277
Period size: 90 Copynumber: 1.9 Consensus size: 88
2371917 ACACACCATT
*
2371927 TTATACCCAAGTTACCATAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATACCCAAGTTACCATAATCATATTAGGATTTTATTATTTCAAATTAATTAAATCTATATTTA
*
2371992 ATTAATTAGAATTTAATAATCCTC
66 ATTAATT-GAAATTAATAATCCTC
* * *
2372016 TTATATCCAAGTTACCCTAATCATATTAGTGATTTTATTATTTCAAATTAATTAAATTTATATTT
1 TTATACCCAAGTTACCATAATCATATTAG-GATTTTATTATTTCAAATTAATTAAATCTATATTT
2372081 AATTAATTGAAATTAA
65 AATTAATTGAAATTAA
2372097 ATATTCGAGA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
89 34 0.45
90 41 0.55
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (88 bp):
TTATACCCAAGTTACCATAATCATATTAGGATTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAATAATCCTC
Found at i:2377003 original size:27 final size:28
Alignment explanation
Indices: 2376972--2377029 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
2376962 TAAGAAAGAG
* *
2376972 ATAAAATAAAGAAAAA-GAATAGAGAA-A
1 ATAAAACAAA-AAAAAGGAATAAAGAACA
2376999 ATAAAACAAAAAAAAGGAATAAAGAACA
1 ATAAAACAAAAAAAAGGAATAAAGAACA
2377027 ATA
1 ATA
2377030 CTTCAAGACG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 5 0.19
27 18 0.67
28 4 0.15
ACGTcount: A:0.74, C:0.03, G:0.12, T:0.10
Consensus pattern (28 bp):
ATAAAACAAAAAAAAGGAATAAAGAACA
Found at i:2377009 original size:22 final size:22
Alignment explanation
Indices: 2376945--2377014 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
2376935 ATATATAGCA
*
2376945 AAAG-GAAAAA-ACAAACATAAG
1 AAAGAGAAAAATA-AAACAAAAG
2376966 AAAGAGATAAAATAAAGA-AAAAG
1 AAAGAGA-AAAATAAA-ACAAAAG
*
2376989 AATAGAG-AAAATAAAACAAAAA
1 AA-AGAGAAAAATAAAACAAAAG
2377011 AAAG
1 AAAG
2377015 GAATAAAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
21 7 0.17
22 16 0.39
23 12 0.29
24 6 0.15
ACGTcount: A:0.74, C:0.04, G:0.14, T:0.07
Consensus pattern (22 bp):
AAAGAGAAAAATAAAACAAAAG
Found at i:2379242 original size:55 final size:54
Alignment explanation
Indices: 2379164--2379402 Score: 248
Period size: 54 Copynumber: 4.4 Consensus size: 54
2379154 TGATGTCCTA
* * * **
2379164 AAATAAATTTTGAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTCAATGTCTTTC
1 AAATGAATTTTGAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGT-TTTC
* * *
2379219 AAATGAATTTTGAAATAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATATATTC
1 AAATGAATTTTGAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGTTTTC
* * * * *** *
2379273 AAATTAACTTTGAAAGGAGCTAAGCCTGATTTTCAAAAGTTTCTTGATGTTTAC
1 AAATGAATTTTGAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGTTTTC
*
2379327 AAATGAACTTTT-AAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATAATTGT-
1 AAATGAA-TTTTGAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATG-T--TT-TC
*
2379384 AAATGAATTTTTAAAGAAG
1 AAATGAATTTTGAAAGAAG
2379403 TCAAATTTGA
Statistics
Matches: 150, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
54 83 0.55
55 47 0.31
56 4 0.03
57 16 0.11
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (54 bp):
AAATGAATTTTGAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGTTTTC
Found at i:2379370 original size:108 final size:109
Alignment explanation
Indices: 2379172--2379374 Score: 293
Period size: 108 Copynumber: 1.9 Consensus size: 109
2379162 TAAAATAAAT
*** * *
2379172 TTTGAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTCAATGTCTTTCAAATGAATTTTGAAATAA
1 TTTGAAAGAAACTAAGCCTGATTTTCAAAAGTTTCTCAATGTCTTACAAATGAATTTTGAAAGAA
2379237 GCTAAGCCTAATTTTCAGGGGTTTCTTGATATATTCAAATTAAC
66 GCTAAGCCTAATTTTCAGGGGTTTCTTGATATATTCAAATTAAC
* * **
2379281 TTTGAAAGGAGCTAAGCCTGATTTTCAAAAGTTTCTTGATGT-TTACAAATGAACTTTT-AAAGA
1 TTTGAAAGAAACTAAGCCTGATTTTCAAAAGTTTCTCAATGTCTTACAAATGAA-TTTTGAAAGA
*
2379344 AGCTAAGCCTAATTTTTAGGGGTTTCTTGAT
65 AGCTAAGCCTAATTTTCAGGGGTTTCTTGAT
2379375 GATAATTGTA
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
108 44 0.53
109 39 0.47
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.38
Consensus pattern (109 bp):
TTTGAAAGAAACTAAGCCTGATTTTCAAAAGTTTCTCAATGTCTTACAAATGAATTTTGAAAGAA
GCTAAGCCTAATTTTCAGGGGTTTCTTGATATATTCAAATTAAC
Found at i:2380976 original size:118 final size:117
Alignment explanation
Indices: 2380712--2381188 Score: 573
Period size: 118 Copynumber: 4.1 Consensus size: 117
2380702 GGATAAACAG
* * *
2380712 TCAACATTACCAAT-GAAGCGGTTCATAATGAGAATAACTCATCCGACGAGGGAGAAGAAGTTCA
1 TCAACATTTCCAATGGAAG-AGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCA
* *
2380776 CAATGAGAAGAACTTGTTC-ACCTTTATTCGAATCCATCAAAGAAGGAGGTGGA
65 TAATGAGAAGAACTTGTTCAACC-TTGTTCGAATCCATCAAAGAAGGAGGTGGA
* * * * * *
2380829 TCAACATTTCCGATGGAAGAGTTCGTAATGAGAAGAACTCCTCCTACGAGGGATAATAAGTTCAT
1 TCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCAT
* *
2380894 AATGAGAAGAACTTGTTCAACCGCTGTTCGAATCCATCATAGAAGGAGGTGGA
66 AATGAGAAGAACTTGTTCAACC-TTGTTCGAATCCATCAAAGAAGGAGGTGGA
* * *
2380947 TCAACATTTCCAATGGAAGGGTTCATAATGAGAAGAACTCATCCAACAAGGGAGAAGAAGTTCAT
1 TCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCAT
* * * *
2381012 AATAAGAACAACTTGTTCAACCTTGGTTC-AATTCTATCACAGAAGGAGGTGGA
66 AATGAGAAGAACTTGTTCAACCTT-GTTCGAA-TCCATCAAAGAAGGAGGTGGA
* * ** * * *
2381065 TCAATATTTCCAGTATAAGAGTTCAAAATAAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
1 TCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCAT
* * * * * *
2381130 AATGAGAAGAACCTGTTCAACCTTAGCTCGAGTCCATCACACAAGGAGTTGGA
66 AATGAGAAGAACTTGTTCAACCTT-GTTCGAATCCATCAAAGAAGGAGGTGGA
*
2381183 ACAACA
1 TCAACA
2381189 CCAACCTTGG
Statistics
Matches: 307, Mismatches: 48, Indels: 9
0.84 0.13 0.02
Matches are distributed among these distances:
117 71 0.23
118 235 0.77
119 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (117 bp):
TCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTGTTCGAATCCATCAAAGAAGGAGGTGGA
Found at i:2386377 original size:14 final size:14
Alignment explanation
Indices: 2386339--2386368 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2386329 TAAGTCCTTA
2386339 TATTTATATTTATTT
1 TATTTAT-TTTATTT
2386354 TATTTATTTTATTT
1 TATTTATTTTATTT
2386368 T
1 T
2386369 GTATTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TATTTATTTTATTT
Found at i:2389783 original size:29 final size:28
Alignment explanation
Indices: 2389748--2389807 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
2389738 TCCAACCCGG
*
2389748 AACATATTGCCTCCCCCAAATTAACCTGA
1 AACATATTACCT-CCCCAAATTAACCTGA
** *
2389777 AACATATTACCTCTTCAAATTAATCTGA
1 AACATATTACCTCCCCAAATTAACCTGA
2389805 AAC
1 AAC
2389808 GCTCTACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.28
Consensus pattern (28 bp):
AACATATTACCTCCCCAAATTAACCTGA
Found at i:2391155 original size:55 final size:54
Alignment explanation
Indices: 2391084--2391273 Score: 249
Period size: 55 Copynumber: 3.5 Consensus size: 54
2391074 GTAAATGTAT
* *
2391084 TTTCTAAAGAACCTAAGTCTGATTTTTAAAAGCTTCTTGATGATTTTCAAATGA-C
1 TTTC-AAAGAAACTAAGTCTGATTTTTAAAAG-TTCTTGATGATTTTTAAATGAGC
* *
2391139 TTTTTAAAGAAACTAAGTCTGATTTTTAGAAGTTACTTGATGATTTTTAAATGAGC
1 -TTTCAAAGAAACTAAGTCTGATTTTTAAAAGTT-CTTGATGATTTTTAAATGAGC
* * *
2391195 TTTCAAA-AAACTAAGTCTGATTTTCAAAAGTTTCTTAATTATTTTTAAATGAGC
1 TTTCAAAGAAACTAAGTCTGATTTTTAAAAG-TTCTTGATGATTTTTAAATGAGC
*
2391249 TTTCAAAGAAACTAAGCCTGATTTT
1 TTTCAAAGAAACTAAGTCTGATTTT
2391274 CGGGGGTTTC
Statistics
Matches: 120, Mismatches: 10, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
54 49 0.41
55 67 0.56
56 4 0.03
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (54 bp):
TTTCAAAGAAACTAAGTCTGATTTTTAAAAGTTCTTGATGATTTTTAAATGAGC
Found at i:2391440 original size:53 final size:54
Alignment explanation
Indices: 2391292--2391547 Score: 259
Period size: 53 Copynumber: 4.7 Consensus size: 54
2391282 TCTTTACATG
* * * * * *
2391292 ATGAATTTTTAAAGAAGCTGAGCCTTATTTTCAGGGGTTTCTAGATGATTATTTACA
1 ATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTATTGATG-TT-TTCA-A
* * * * *
2391349 ATGAATTTTTAAAGAAGCTAATCTTGATTTTCAAGGGTTTATTGATGTTTTCAA
1 ATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTATTGATGTTTTCAA
* * * * *
2391403 ATGAA-TTTAAAAGAAGTTAAGCCTAATTTTTAGGGGTTTCTTGATTTTTTTAA
1 ATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTATTGATGTTTTCAA
* ** *
2391456 ATGAA-TTTGAAAGAATATAAGCCTAATTTTTA-GGG-TTACTTAATGTTTTCAA
1 ATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTA-TTGATGTTTTCAA
*
2391508 ATGAATTTTTAAAGAAACTAAGCCTAATTTTTAGGGGTTT
1 ATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTT
2391548 CTTAATCAAA
Statistics
Matches: 167, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
51 2 0.01
52 18 0.11
53 91 0.54
54 9 0.05
55 5 0.03
56 2 0.01
57 40 0.24
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (54 bp):
ATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTATTGATGTTTTCAA
Found at i:2391532 original size:106 final size:110
Alignment explanation
Indices: 2391292--2391550 Score: 314
Period size: 106 Copynumber: 2.4 Consensus size: 110
2391282 TCTTTACATG
* * * *
2391292 ATGAATTTTTAAAGAAGCTGAGCCTTATTTTCAGGGGTTTCTAGATGATTATTTACAATGAATTT
1 ATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGAT-ATTATTTACAATGAATTT
* * * * * *
2391357 TTAAAGAAGCTAATCTTGATTTTCAAGGGTTTATTGATGTTTTCAA
65 TGAAAGAAGATAAGCCTAATTTTCAAGGGTTTATTAATGTTTTCAA
* * *
2391403 ATGAA-TTTAAAAGAAGTTAAGCCTAATTTTTAGGGGTTTCTTGAT-TTTTTTA-AATGAA-TTT
1 ATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATATTATTTACAATGAATTTT
* *
2391464 GAAAGAATATAAGCCTAATTTT-TAGGG-TTACTTAATGTTTTCAA
66 GAAAGAAGATAAGCCTAATTTTCAAGGGTTTA-TTAATGTTTTCAA
*
2391508 ATGAATTTTTAAAGAAACTAAGCCTAATTTTTAGGGGTTTCTT
1 ATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTT
2391551 AATCAAAACT
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
104 3 0.02
105 21 0.16
106 53 0.41
107 6 0.05
108 6 0.05
110 34 0.27
111 5 0.04
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (110 bp):
ATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATATTATTTACAATGAATTTT
GAAAGAAGATAAGCCTAATTTTCAAGGGTTTATTAATGTTTTCAA
Found at i:2392323 original size:139 final size:139
Alignment explanation
Indices: 2392060--2392667 Score: 851
Period size: 139 Copynumber: 4.4 Consensus size: 139
2392050 CAATTCAATT
* * * *
2392060 TTTCCA-TTAGAGAGTTCATATTGAGAAGAACACATCTGATGAGGGAGAAGAAATTCATAATGAG
1 TTTCCAGTT-GAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAG
* * * * * * *
2392124 AAGAACTTATTAAACCTTAGCTCGATTTATCGCATATGGAGTTAAATCAGCAACACCTCACTCTA
65 AAGAACTTGTTCAATCTTAGCTCGATTCATCACATATGGAGTTAAATCAACAACACCTCACTCGA
2392189 GGGATCAACA
130 GGGATCAACA
* * * *
2392199 TTTCCAGTTGAGGGTTCATAATGAGGAA-AACTCATCTGATAAGGGAGAAGCAGTTCATAATGAG
1 TTTCCAGTTGAGAGTTCATAATGA-GAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAG
* * * * * ** *
2392263 AAGAACTTCTTCAGTCTTAGCTCAATTCATTACATATGGAGTTAAATTAGTAACAACTCACTCGA
65 AAGAACTTGTTCAATCTTAGCTCGATTCATCACATATGGAGTTAAATCAACAACACCTCACTCGA
*
2392328 GGGATCAATA
130 GGGATCAACA
* * * *
2392338 TTTCTAATTGAGGGTTTATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGA
1 TTTCCAGTTGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGA
2392403 AGAACTTGTTCAATCTTAGCTCGATTCATCACATATGGAGTTAAATCAACAACACCTCACTCGAG
66 AGAACTTGTTCAATCTTAGCTCGATTCATCACATATGGAGTTAAATCAACAACACCTCACTCGAG
*
2392468 GAATCAACA
131 GGATCAACA
* * *
2392477 TTTCTAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGATAAGAAGTTCATAATGAGA
1 TTTCCAGTTGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGA
* *
2392542 AGAACTTGTTCAATCTTAGTTCGATTCATCACATATGGAGTTAAATCAACAACACCTCACTCAAG
66 AGAACTTGTTCAATCTTAGCTCGATTCATCACATATGGAGTTAAATCAACAACACCTCACTCGAG
*
2392607 GGATCCACA
131 GGATCAACA
* *
2392616 TTTCCAGTGGAGAGTTCATAATGAGAAGAACTTATCCGATGAGGGAGAAGAA
1 TTTCCAGTTGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAA
2392668 CTTGCTCAAC
Statistics
Matches: 419, Mismatches: 47, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
138 3 0.01
139 411 0.98
140 5 0.01
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (139 bp):
TTTCCAGTTGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAATCTTAGCTCGATTCATCACATATGGAGTTAAATCAACAACACCTCACTCGAG
GGATCAACA
Found at i:2394683 original size:94 final size:94
Alignment explanation
Indices: 2394521--2394698 Score: 277
Period size: 94 Copynumber: 1.9 Consensus size: 94
2394511 ACAAGGGGAA
* * *
2394521 GTATCGGTACCATGGATCCAGAATATCAAAATGGTATCGATACTGAAAGGGAGTATCGGTACCAT
1 GTATCGATACCATGGAACCAGAATATAAAAATGGTATCGATACTGAAAGGGAGTATCGGTACCAT
*
2394586 AGTATAGTAGTATCGATACTGATAGAAAG
66 AGTATAGAAGTATCGATACTGATAGAAAG
* * *
2394615 GTATCGATACCATGTAACACAGAATATAAAAATGTTATCGATATTGAAAGGG-GTATCGGTACCA
1 GTATCGATACCATGGAAC-CAGAATATAAAAATGGTATCGATACTGAAAGGGAGTATCGGTACCA
2394679 TAGTATAGAAGTATCGATAC
65 TAGTATAGAAGTATCGATAC
2394699 CAGGTTAGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
94 46 0.61
95 30 0.39
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.26
Consensus pattern (94 bp):
GTATCGATACCATGGAACCAGAATATAAAAATGGTATCGATACTGAAAGGGAGTATCGGTACCAT
AGTATAGAAGTATCGATACTGATAGAAAG
Found at i:2395185 original size:46 final size:46
Alignment explanation
Indices: 2395118--2395419 Score: 507
Period size: 46 Copynumber: 6.6 Consensus size: 46
2395108 TAAAACAAAT
2395118 TCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 TCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
2395164 TCATAACTAAAATGCATGAAAGAATGCATTATGGCATGAAAGGATG
1 TCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
*
2395210 TCATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGAT-
1 TCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
2395255 TCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 T-CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
2395302 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 TCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
*
2395348 CCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 TCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
2395394 CCCTAACTAAAATGCATGAAAGGATG
1 TCATAACTAAAATGCATGAAAGGATG
2395420 TCATAAATTA
Statistics
Matches: 242, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
45 1 0.00
46 241 1.00
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (46 bp):
TCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
Found at i:2395457 original size:92 final size:88
Alignment explanation
Indices: 2395119--2395466 Score: 403
Period size: 92 Copynumber: 3.8 Consensus size: 88
2395109 AAAACAAATT
*
2395119 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAACTAAAATGCATGAA
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAATG-CAT-A-T-AAATGCATGAA
* * *
2395184 AGAATGCATTATGGCATGAAAGGATGT
62 AGGATGCATTAAGGCATGAAAGGATGC
* * *
2395211 CATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATTCCATAACTAAAATGCATGAA
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA-GAATGCAT-A-T-AAATGCATGAA
2395276 AGGATGCATTAAGGCATGAAAGGATGC
62 AGGATGCATTAAGGCATGAAAGGATGC
* * *
2395303 CATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAA
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAATG-CAT-A-T-AAATGCATGAA
2395368 AGGATGCATTAAGGCATGAAAGGATGC
62 AGGATGCATTAAGGCATGAAAGGATGC
* * *
2395395 CCTAACTAAAATGCATGAAAGGATGTCATAAATTAAATGCATGAAAGAATGCAT-T-AAGGCATG
1 CATAACTAAAATGCATGAAAGGATG-C----ATT-AAGGCATGAAAGAATGCATATAAATGCATG
2395458 AAAGGATGC
60 AAAGGATGC
2395467 CATAAATTAA
Statistics
Matches: 229, Mismatches: 19, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
91 2 0.01
92 203 0.89
93 3 0.01
94 1 0.00
97 6 0.03
98 14 0.06
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.22
Consensus pattern (88 bp):
CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAATGCATATAAATGCATGAAAGGA
TGCATTAAGGCATGAAAGGATGC
Found at i:2395457 original size:138 final size:135
Alignment explanation
Indices: 2395119--2395466 Score: 459
Period size: 138 Copynumber: 2.5 Consensus size: 135
2395109 AAAACAAATT
* * *
2395119 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAACTAAAATGCATGAA
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAATGCCAT-A-T-AAAGGCATGAA
* * * *
2395184 AGAATGCATTATGGCATGAAAGGATGTCATAACTAAAATGCATGAAATGATGCATTAAGGCATGA
63 AGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGA
*
2395249 AAGGATTC
128 AAGGATGC
* *
2395257 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGAA
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAATGCCAT--AT-AAAGGCATGAA
2395322 AGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGA
63 AGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGA
2395387 AAGGATGC
128 AAGGATGC
* *
2395395 CCTAACTAAAATGCATGAAAGGATGTCATAAATTAAATGCATGAAAGAATG-CAT-T-AAGGCAT
1 CATAACTAAAATGCATGAAAGGATG-C----ATT-AAGGCATGAAAGAATGCCATATAAAGGCAT
2395457 GAAAGGATGC
60 GAAAGGATGC
2395467 CATAAATTAA
Statistics
Matches: 192, Mismatches: 11, Indels: 14
0.88 0.05 0.06
Matches are distributed among these distances:
138 168 0.88
139 3 0.02
140 1 0.01
143 6 0.03
144 14 0.07
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.22
Consensus pattern (135 bp):
CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAATGCCATATAAAGGCATGAAAGG
ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAG
GATGC
Found at i:2395485 original size:72 final size:72
Alignment explanation
Indices: 2395197--2395478 Score: 300
Period size: 72 Copynumber: 4.0 Consensus size: 72
2395187 ATGCATTATG
* * *
2395197 GCATGAAAGGATGTCATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATTCCATAA
1 GCATGAAAGGATGTCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
*
2395262 CTAAAAT
66 ATAAAAT
* *
2395269 GCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATG
1 GCATGAAAGGATGTCATAAATAAAATGCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATG
*
2395328 -CAT---T--AAG
60 CCATAAATAAAAT
* * *
2395335 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCCTAA
1 GCATGAAAGGATGTCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
*
2395400 CTAAAAT
66 ATAAAAT
* *
2395407 GCATGAAAGGATGTCATAAATTAAATGCATGAAAGAATGCATTAAGGCATGAAAGGATGCCATAA
1 GCATGAAAGGATGTCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
*
2395472 ATTAAAT
66 ATAAAAT
2395479 TAATGAATAA
Statistics
Matches: 176, Mismatches: 16, Indels: 36
0.77 0.07 0.16
Matches are distributed among these distances:
66 44 0.25
67 8 0.05
68 3 0.02
70 3 0.02
71 9 0.05
72 109 0.62
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (72 bp):
GCATGAAAGGATGTCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
ATAAAAT
Found at i:2401583 original size:19 final size:19
Alignment explanation
Indices: 2401561--2401609 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
2401551 TTGATATAAA
*
2401561 TTTTTTGTCTTTATCAAAT
1 TTTTTTGTCTTTACCAAAT
2401580 TTTTTTG-CTTTACCAAAT
1 TTTTTTGTCTTTACCAAAT
*
2401598 TGTTTTTTTCTT
1 T-TTTTTGTCTT
2401610 AAATTTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 12 0.46
20 3 0.12
ACGTcount: A:0.16, C:0.12, G:0.06, T:0.65
Consensus pattern (19 bp):
TTTTTTGTCTTTACCAAAT
Found at i:2402079 original size:2 final size:2
Alignment explanation
Indices: 2402072--2402097 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2402062 TTATAAATAA
2402072 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2402098 TTAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2403428 original size:13 final size:14
Alignment explanation
Indices: 2403404--2403437 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
2403394 TAATAAAATT
2403404 AAATAAAGTTAAAA
1 AAATAAAGTTAAAA
2403418 AAATAAA-TTAAAA
1 AAATAAAGTTAAAA
*
2403431 AAGTAAA
1 AAATAAA
2403438 AACATCTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (14 bp):
AAATAAAGTTAAAA
Found at i:2404436 original size:13 final size:13
Alignment explanation
Indices: 2404410--2404465 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
2404400 TCGGGCTTTG
* *
2404410 TAATATTATTTAA
1 TAATAATATATAA
2404423 TAATAATATATAA
1 TAATAATATATAA
* *
2404436 TATTACTATATAATA
1 TAATAATATAT-A-A
2404451 TAATAATATATAA
1 TAATAATATATAA
2404464 TA
1 TA
2404466 TAAATGTCAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
13 23 0.66
14 2 0.06
15 10 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATAATATATAA
Found at i:2404460 original size:15 final size:15
Alignment explanation
Indices: 2404422--2404468 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
2404412 ATATTATTTA
2404422 ATAATAATATATAAT
1 ATAATAATATATAAT
*
2404437 AT--TACTATATAAT
1 ATAATAATATATAAT
2404450 ATAATAATATATAAT
1 ATAATAATATATAAT
2404465 ATAA
1 ATAA
2404469 ATGTCACTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 12 0.43
15 16 0.57
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAATAATATATAAT
Found at i:2404704 original size:47 final size:46
Alignment explanation
Indices: 2404647--2404850 Score: 145
Period size: 47 Copynumber: 4.5 Consensus size: 46
2404637 CGTGCTCCTG
* * *
2404647 CTTCACTACTCTTTTGTGAAGGCTGAGGA-TGACTTGAAAATGATTTA
1 CTTCACTACTCTTCTGTGAAGGCTGA--ATTGACTTGAAAATAATCTA
* *
2404694 CTTCACTACTCTTCTGTGAATGTTGAATTGACTTGAAAATAATCTA
1 CTTCACTACTCTTCTGTGAAGGCTGAATTGACTTGAAAATAATCTA
* * * * *
2404740 ATTCCACTACTCTTCCGTGAA-GAT-CA-T-AC-TCAAAATTGAAT-TA
1 CTT-CACTACTCTTCTGTGAAGGCTGAATTGACTTGAAAA-T-AATCTA
* * *
2404783 CTTCACTACTCTT-TCGTGAAGGTTGAATTGACTTGAGAAGAATCTA
1 CTTCACTACTCTTCT-GTGAAGGCTGAATTGACTTGAAAATAATCTA
* * *
2404829 ATTCCACTATTCTTCCGTGAAG
1 CTT-CACTACTCTTCTGTGAAG
2404851 ATCAGATTCA
Statistics
Matches: 124, Mismatches: 20, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
42 20 0.16
43 9 0.07
44 5 0.04
45 6 0.05
46 26 0.21
47 58 0.47
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (46 bp):
CTTCACTACTCTTCTGTGAAGGCTGAATTGACTTGAAAATAATCTA
Found at i:2404808 original size:89 final size:88
Alignment explanation
Indices: 2404683--2404854 Score: 274
Period size: 89 Copynumber: 1.9 Consensus size: 88
2404673 GGATGACTTG
* * *
2404683 AAAATGATTTACTTCACTACTCTTCTGTGAATGTTGAATTGACTTGAAAATAATCTAATTCCACT
1 AAAATGAATTACTTCACTACTCTTCTGTGAAGGTTGAATTGACTTGAAAAGAATCTAATTCCACT
2404748 ACTCTTCCGTGAAGATCATACTC
66 ACTCTTCCGTGAAGATCATACTC
*
2404771 AAAATTGAATTACTTCACTACTCTT-TCGTGAAGGTTGAATTGACTTGAGAAGAATCTAATTCCA
1 AAAA-TGAATTACTTCACTACTCTTCT-GTGAAGGTTGAATTGACTTGAAAAGAATCTAATTCCA
*
2404835 CTATTCTTCCGTGAAGATCA
64 CTACTCTTCCGTGAAGATCA
2404855 GATTCAAAGT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
88 5 0.06
89 72 0.94
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (88 bp):
AAAATGAATTACTTCACTACTCTTCTGTGAAGGTTGAATTGACTTGAAAAGAATCTAATTCCACT
ACTCTTCCGTGAAGATCATACTC
Found at i:2404975 original size:20 final size:20
Alignment explanation
Indices: 2404947--2405085 Score: 197
Period size: 20 Copynumber: 7.0 Consensus size: 20
2404937 CTGATAGATT
* * *
2404947 ACCCAAAGGATTTATAAATG
1 ACCCGAAGGCTTTACAAATG
2404967 ACCCGAAGGCTTTACAAATG
1 ACCCGAAGGCTTTACAAATG
* *
2404987 ACCCGGAGGCTTTACAAATA
1 ACCCGAAGGCTTTACAAATG
*
2405007 ACCCAAAGGCTTTACAAATG
1 ACCCGAAGGCTTTACAAATG
* *
2405027 ACCCGAAGGTTTTACAAACG
1 ACCCGAAGGCTTTACAAATG
*
2405047 ACCCAAAGGCTTTACAAATG
1 ACCCGAAGGCTTTACAAATG
2405067 ACCCGAAGGCTTTACAAAT
1 ACCCGAAGGCTTTACAAAT
2405086 TCGTGGGAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 104 1.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
ACCCGAAGGCTTTACAAATG
Found at i:2405505 original size:248 final size:247
Alignment explanation
Indices: 2405062--2405637 Score: 947
Period size: 248 Copynumber: 2.3 Consensus size: 247
2405052 AAGGCTTTAC
* * *
2405062 AAATGACCCGAAGGCTTTACAAATTCGTGGGAATTAATTTAATGGGTAAGAAACTTCTTACTTTT
1 AAATGACCCGAAGGATTTACAAATTCGTGGGAAATAATTTACT-GGTAAGAAACTTCTTACTTTT
* *
2405127 CAAAAATTTCATTTTCTAGATCATTAAATGAGAAACTTTAAAAATCGCTTTCTCATTTTTATGAG
65 CAAAAATTTCATTTTCTAGAACATTAAATGAGAAACTTTAAAAATCACTTTCTCATTTTTATGAG
* *
2405192 AAAATCATATGTGAACATCCTACCCAAAGGTTTGACGGACGGCCCTAAGGACTTATCAACTGGCT
130 AAAATCATATGTGAACATCCTACCCAAAGATTTGACAGACGGCCCTAAGGACTTATCAACTGGCT
2405257 CGAAAGACTGATAGATGACCCGAAGGTTTTAACATCATG-TTCAAAAGACTTAA
195 CGAAAGACTGATAGATGACCCGAAGGTTTTAACATCATGCTT-AAAAGACTTAA
*
2405310 AGAATGACCTGAAGGATTTACAAATTCGTGGGAAATAATTTACTGGTAAGAAACTTCTTACTTTT
1 A-AATGACCCGAAGGATTTACAAATTCGTGGGAAATAATTTACTGGTAAGAAACTTCTTACTTTT
* *
2405375 CAAAAATTTCATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTATGCG
65 CAAAAATTTCATTTTCTAGAACATTAAATGAGAAACTTTAAAAATCACTTTCTCATTTTTATGAG
* *
2405440 AAAATCATATGTGAACATCCTACCCAAAGATTTGACAGATGGCCCTAAGGACTTATCATCTGGCT
130 AAAATCATATGTGAACATCCTACCCAAAGATTTGACAGACGGCCCTAAGGACTTATCAACTGGCT
* *
2405505 CGAAAGACTGATAGATGACCTGAAGGTTTTAACATCATGCTTAAAAGACTTAC
195 CGAAAGACTGATAGATGACCCGAAGGTTTTAACATCATGCTTAAAAGACTTAA
* * * *
2405558 AAATGACCCAAAAGATTTACAAATTCGTGGGAAATAACTTACGGGGTAAGAAACTTCTTACTTTT
1 AAATGACCCGAAGGATTTACAAATTCGTGGGAAATAATTTAC-TGGTAAGAAACTTCTTACTTTT
2405623 CAAAAATTTCATTTT
65 CAAAAATTTCATTTT
2405638 TGGAAAAGAT
Statistics
Matches: 306, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
247 37 0.12
248 229 0.75
249 40 0.13
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (247 bp):
AAATGACCCGAAGGATTTACAAATTCGTGGGAAATAATTTACTGGTAAGAAACTTCTTACTTTTC
AAAAATTTCATTTTCTAGAACATTAAATGAGAAACTTTAAAAATCACTTTCTCATTTTTATGAGA
AAATCATATGTGAACATCCTACCCAAAGATTTGACAGACGGCCCTAAGGACTTATCAACTGGCTC
GAAAGACTGATAGATGACCCGAAGGTTTTAACATCATGCTTAAAAGACTTAA
Found at i:2408523 original size:14 final size:14
Alignment explanation
Indices: 2408504--2408531 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2408494 TTTTGTAATG
2408504 TCACAAAAGATACC
1 TCACAAAAGATACC
2408518 TCACAAAAGATACC
1 TCACAAAAGATACC
2408532 CCACGTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.29, G:0.07, T:0.14
Consensus pattern (14 bp):
TCACAAAAGATACC
Found at i:2410583 original size:4 final size:4
Alignment explanation
Indices: 2410574--2410627 Score: 108
Period size: 4 Copynumber: 13.5 Consensus size: 4
2410564 TAAATATAAA
2410574 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2410622 TATG TA
1 TATG TA
2410628 AAGGGTGTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:2414709 original size:15 final size:15
Alignment explanation
Indices: 2414681--2414725 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
2414671 ACGAATCTAA
2414681 AAAAATAATTTTTAAAC
1 AAAAATAA--TTTAAAC
* *
2414698 AACAATAATTTAAAG
1 AAAAATAATTTAAAC
2414713 AAAAATAATTTAA
1 AAAAATAATTTAA
2414726 TTTAATCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 18 0.72
17 7 0.28
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (15 bp):
AAAAATAATTTAAAC
Found at i:2415343 original size:60 final size:60
Alignment explanation
Indices: 2415279--2415391 Score: 136
Period size: 60 Copynumber: 1.9 Consensus size: 60
2415269 GTCCTCCAAC
** ** *
2415279 TATAGGGTAAAACTTTGTTGAGTCTTTTGACTATTAAAAGTTATAAAATAGTCCCTCGAT
1 TATAGGGTAAAACTTTGTTGAGTCCCTCAACTATTAAAAATTATAAAATAGTCCCTCGAT
*** * *
2415339 TATAGGGTGTTATTTTTTTGAGTCCCTCAACTATTAAAAATTATAAAATAGTC
1 TATAGGGTAAAACTTTGTTGAGTCCCTCAACTATTAAAAATTATAAAATAGTC
2415392 ACCTAACTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 43 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (60 bp):
TATAGGGTAAAACTTTGTTGAGTCCCTCAACTATTAAAAATTATAAAATAGTCCCTCGAT
Found at i:2423165 original size:29 final size:28
Alignment explanation
Indices: 2423098--2423167 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 28
2423088 TTTGTTTAGT
2423098 TCCCTAACTATTAAAAGTTACAAAATAG
1 TCCCTAACTATTAAAAGTTACAAAATAG
* *
2423126 TCCATCGACTATTAAAAGTTACAAAATAG
1 TCCCT-AACTATTAAAAGTTACAAAATAG
2423155 TCACCTAACTATT
1 TC-CCTAACTATT
2423168 TTTATGTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 4 0.11
29 30 0.83
30 2 0.06
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (28 bp):
TCCCTAACTATTAAAAGTTACAAAATAG
Found at i:2423714 original size:42 final size:41
Alignment explanation
Indices: 2423661--2423760 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 41
2423651 ATGTGTGTAG
* * *
2423661 AATATATATATATATATATAATATGTA-ATAAAGTAAAAATAAT
1 AATAAATATATATATATAAAATAT-TAGAT--AGAAAAAATAAT
*
2423704 AA-AAATATATACATATAAAATATTAGATAGAAAAAATAAT
1 AATAAATATATATATATAAAATATTAGATAGAAAAAATAAT
*
2423744 AATAAA-ATAAATATATA
1 AATAAATATATATATATA
2423761 CATACTAACT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
40 22 0.45
41 5 0.10
42 20 0.41
43 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (41 bp):
AATAAATATATATATATAAAATATTAGATAGAAAAAATAAT
Found at i:2423723 original size:16 final size:16
Alignment explanation
Indices: 2423702--2423764 Score: 53
Period size: 15 Copynumber: 4.1 Consensus size: 16
2423692 AGTAAAAATA
2423702 ATAAAAATATATACAT
1 ATAAAAATATATACAT
*
2423718 AT-AAAATAT-TAGAT
1 ATAAAAATATATACAT
*
2423732 AGAAAAA-ATAATA-AT
1 ATAAAAATAT-ATACAT
*
2423747 AAAATAAATATATACAT
1 ATAA-AAATATATACAT
2423764 A
1 A
2423765 CTAACTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
14 7 0.18
15 16 0.42
16 10 0.26
17 5 0.13
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (16 bp):
ATAAAAATATATACAT
Found at i:2423918 original size:16 final size:16
Alignment explanation
Indices: 2423890--2423932 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
2423880 AAGTAACAAT
2423890 AATAACAAATAATAAAA
1 AATAA-AAATAATAAAA
* *
2423907 AATAAGAATAATAAAT
1 AATAAAAATAATAAAA
2423923 AATAAAAATA
1 AATAAAAATA
2423933 TATGGTTGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (16 bp):
AATAAAAATAATAAAA
Found at i:2425524 original size:106 final size:106
Alignment explanation
Indices: 2425396--2426388 Score: 1736
Period size: 106 Copynumber: 9.4 Consensus size: 106
2425386 GTACTATTCC
* * *
2425396 GAGTCCAATATCCTCCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
2425461 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
2425502 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
2425567 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2425608 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
2425673 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
2425714 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
2425779 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
2425820 GAGTCCAATATCCTTCGCTGTGAAGTT-AAATTTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAA-TTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
2425884 ACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
2425926 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
2425991 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGGGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
2426032 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGGTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
2426097 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCTTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
2426138 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
2426203 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2426244 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
2426309 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
2426350 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
2426389 AGGTAAAACC
Statistics
Matches: 839, Mismatches: 46, Indels: 4
0.94 0.05 0.00
Matches are distributed among these distances:
105 3 0.00
106 833 0.99
107 3 0.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:2427144 original size:9 final size:9
Alignment explanation
Indices: 2427121--2427167 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
2427111 CGCCTTATTT
2427121 TCTTTTCT-
1 TCTTTTCTC
2427129 T-TTTTCTC
1 TCTTTTCTC
2427137 TCTTTTCTC
1 TCTTTTCTC
2427146 -CTTTT-TC
1 TCTTTTCTC
*
2427153 TCTTTTTTC
1 TCTTTTCTC
2427162 TCTTTT
1 TCTTTT
2427168 TTCCAATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
7 8 0.23
8 12 0.34
9 15 0.43
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (9 bp):
TCTTTTCTC
Found at i:2427152 original size:18 final size:17
Alignment explanation
Indices: 2427121--2427168 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
2427111 CGCCTTATTT
2427121 TCTTTTCT-TTTTTCTC
1 TCTTTTCTCTTTTTCTC
2427137 TCTTTTCTCCTTTTTCTC
1 TCTTTTCT-CTTTTTCTC
*
2427155 TTTTTTCTCTTTTT
1 TCTTTTCTCTTTTT
2427169 TCCAATTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 8 0.28
17 6 0.21
18 15 0.52
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (17 bp):
TCTTTTCTCTTTTTCTC
Done.