Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 52 of 259
Found at i:16373828 original size:27 final size:26
Alignment explanation
Indices: 16373780--16373839 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
16373770 GCGAGGCTGC
*
16373780 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* **
16373807 CAGATATTGTGGCTCAGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
16373833 CAGATAT
1 CAGATAT
16373840 AGATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:16373844 original size:32 final size:33
Alignment explanation
Indices: 16373801--16373864 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
16373791 ACGAAGTCAC
**
16373801 CAGATACAGATAT-TGTGGCTCAGCCACCAGAA
1 CAGATACAGATATATGTGGCGAAGCCACCAGAA
*
16373833 CAGATATAGATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATATATGTGGCGAAGCCACCAGA
16373865 TTGCAGCGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (33 bp):
CAGATACAGATATATGTGGCGAAGCCACCAGAA
Found at i:16374614 original size:27 final size:27
Alignment explanation
Indices: 16374583--16374715 Score: 178
Period size: 27 Copynumber: 4.9 Consensus size: 27
16374573 GGGCAAAATT
* * *
16374583 GTAATTTTACCCCACAAGGGTATATCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
16374610 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
16374637 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
16374664 GTAATTCTATCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
16374691 GTAATTCTACCCTA-AAGGGGTATTT
1 GTAATTCTACCCTACAA-GGGTATTT
16374716 TAGTATTTCT
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.02
27 91 0.98
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCG
Found at i:16381360 original size:27 final size:26
Alignment explanation
Indices: 16381312--16381371 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
16381302 GCGAGGCTGC
*
16381312 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
16381339 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
16381365 CAGATAT
1 CAGATAT
16381372 GTATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:16381416 original size:71 final size:67
Alignment explanation
Indices: 16381339--16381480 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 67
16381329 TCACCAGATA
* * *
16381339 CAGATATTGTGGCTAGGCCACCAGAACAGATATGTATATGTGGCAAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAGATATG----TGTGGCAAAGCCACCAGATTGCAGCGA
16381404 GGCTAC
62 GGCTAC
* * * *
16381410 CAGATATTGTGACGAAGTCACCAGAATAGATATGTGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATGTGTGGCAAAGCCACCAGATTGCAGCGAGGCT
*
16381475 GC
66 AC
16381477 CAGA
1 CAGA
16381481 ACACTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 34 0.54
71 29 0.46
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATGTGTGGCAAAGCCACCAGATTGCAGCGAGGCT
AC
Found at i:16381458 original size:27 final size:26
Alignment explanation
Indices: 16381411--16381461 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
16381401 CGAGGCTACC
*
16381411 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
16381437 AGATATGTGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
16381462 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:16382176 original size:27 final size:27
Alignment explanation
Indices: 16382139--16382243 Score: 165
Period size: 27 Copynumber: 3.9 Consensus size: 27
16382129 GGGTTCTCGG
16382139 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
16382166 TATTTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
16382193 TAATTCTATCCTATAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
16382220 TAATTCTACCCTACAGGGGTATTT
1 TAATTCTACCCTACAGGGGTATTT
16382244 TAGTAATTCT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:16382198 original size:54 final size:54
Alignment explanation
Indices: 16382122--16382255 Score: 191
Period size: 54 Copynumber: 2.5 Consensus size: 54
16382112 GGTAATTTTT
* *
16382122 CCCTA-AAGGGT-TCTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTA
1 CCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
* *
16382174 CCCTACAAGGGTATTTCGGTAATTCTATCCTATAGGGGTATTTCGATAATTCTA
1 CCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
* **
16382228 CCCTACAGGGGTATTTTAGTAATTCTAC
1 CCCTACAAGGGTATTTCGGTAATTCTAC
16382256 AACTTATCTA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 5 0.07
53 6 0.08
54 61 0.85
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (54 bp):
CCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
Found at i:16382250 original size:27 final size:26
Alignment explanation
Indices: 16382138--16382255 Score: 155
Period size: 27 Copynumber: 4.4 Consensus size: 26
16382128 AGGGTTCTCG
16382138 GTAATTCTACCCTACAGGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTC
* *
16382164 GATATTTCTACCCTACAAGGGTATTTC
1 G-TAATTCTACCCTACAGGGGTATTTC
* *
16382191 GGTAATTCTATCCTATAGGGGTATTTC
1 -GTAATTCTACCCTACAGGGGTATTTC
*
16382218 GATAATTCTACCCTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTA-TTTC
16382246 GTAATTCTAC
1 GTAATTCTAC
16382256 AACTTATCTA
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
26 2 0.03
27 72 0.91
28 5 0.06
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (26 bp):
GTAATTCTACCCTACAGGGGTATTTC
Found at i:16384439 original size:50 final size:50
Alignment explanation
Indices: 16384367--16384498 Score: 142
Period size: 52 Copynumber: 2.6 Consensus size: 50
16384357 ATCAGGTACG
* * *
16384367 CATAGTAGTCTGCACTTAGTACTACACATGCGACCT-AACCA-TCTAGTACA
1 CATAGTAGCCTACACTTAGTACTACACATGCGA-CTAAACCATTCTA-AACA
* * * *
16384417 CGTAGTAGCCTACACTTAGTACTACACACGTGACTGAAAACCATTTTAAACA
1 CATAGTAGCCTACACTTAGTACTACACATGCGACT--AAACCATTCTAAACA
*
16384469 CATAGTAGCCTACACATAGTACTACACATG
1 CATAGTAGCCTACACTTAGTACTACACATG
16384499 TGTTCTCACA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
49 2 0.03
50 28 0.41
52 35 0.51
53 3 0.04
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTACACTTAGTACTACACATGCGACTAAACCATTCTAAACA
Found at i:16391660 original size:40 final size:40
Alignment explanation
Indices: 16391577--16391879 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
16391567 TTGAATGCTG
* * * * * *
16391577 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
16391617 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
16391657 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
16391697 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
16391737 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
16391777 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16391817 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16391856 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
16391880 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:16399646 original size:40 final size:40
Alignment explanation
Indices: 16399563--16399865 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
16399553 TTGAATGCTG
* * * * * *
16399563 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
16399603 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
16399643 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
16399683 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
16399723 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
16399763 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16399803 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16399842 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
16399866 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:16408183 original size:15 final size:15
Alignment explanation
Indices: 16408159--16408190 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16408149 TATGCATGCA
*
16408159 AAATATAAAAGACAT
1 AAATACAAAAGACAT
16408174 AAATACAAAAGACAT
1 AAATACAAAAGACAT
16408189 AA
1 AA
16408191 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:16409857 original size:27 final size:27
Alignment explanation
Indices: 16409782--16409858 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
16409772 TGCATACACA
* *
16409782 ACATAAGGGCAAAACAATCATCTTACC
1 ACATAAGGGCAAAATAATCATTTTACC
* *
16409809 ATATAAGGGCAAAATAGTCATTTTACC
1 ACATAAGGGCAAAATAATCATTTTACC
*
16409836 ACATAAGGGAAAAATAATCATTT
1 ACATAAGGGCAAAATAATCATTT
16409859 AATTAAATTG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (27 bp):
ACATAAGGGCAAAATAATCATTTTACC
Found at i:16415497 original size:47 final size:48
Alignment explanation
Indices: 16415426--16415645 Score: 215
Period size: 47 Copynumber: 4.7 Consensus size: 48
16415416 TGGGTAAGGT
* *
16415426 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTTACATCTC-AA
1 GCCGATGACATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAA
* * *
16415473 GTCGATGACATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCGTA
1 GCCGATGACATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCGAA
* *
16415521 GCCGAT-ACATGTCCCAGACAT-ATCTTACACTGGCTTA-AGTCTCGAG
1 GCCGATGACATGTCCCAGACATGGTCTTACACTGGCTTACA-TCTCGAA
* * *
16415567 GCCGATG-CATGTCCCAGATAT-GTCTCACACTAGCTCT-CATCTC-AA
1 GCCGATGACATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGAA
** * *
16415612 TGTTGATGCCATGTCCTAGACATGGTCTTACACT
1 -GCCGATGACATGTCCCAGACATGGTCTTACACT
16415646 TGCTCCAATA
Statistics
Matches: 143, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
45 2 0.01
46 57 0.40
47 69 0.48
48 15 0.10
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
GCCGATGACATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAA
Found at i:16415687 original size:140 final size:141
Alignment explanation
Indices: 16415426--16415691 Score: 328
Period size: 140 Copynumber: 1.9 Consensus size: 141
16415416 TGGGTAAGGT
* * *
16415426 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTTACATCTCAAGTCGATGACATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTCACACTAGCTTACATCTCAAGTCGATGACATGTCCCAG
* * *
16415491 ACATGGTCTTACACTGACTATCATCTCGTAGCCGATACATGTCCCAGACATATCTTACACTGGCT
66 ACATGGTCTTACACTGACTACCATATCGTAGCCAATACATGTCCCAGACATATCTTACACTGGCT
16415556 TAAGTCTCGAG
131 TAAGTCTCGAG
* * * *
16415567 GCCGATG-CATGTCCCAGATAT-GTCTCACACTAGCTCT-CATCTCAATGTTGATGCCATGTCCT
1 GCCGATGCCATGTCCCAGACATGGTCTCACACTAGCT-TACATCTCAA-GTCGATGACATGTCCC
* * *
16415629 AGACATGGTCTTACACTTG-CT-CCAATAAT-GTGGCCAATGCATGTCCCAGACATGTCTTACAC
64 AGACATGGTCTTACAC-TGACTACC-AT-ATCGTAGCCAATACATGTCCCAGACATATCTTACAC
16415691 T
126 T
16415692 AGCCAACAAC
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
139 21 0.20
140 76 0.71
141 10 0.09
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACATGGTCTCACACTAGCTTACATCTCAAGTCGATGACATGTCCCAG
ACATGGTCTTACACTGACTACCATATCGTAGCCAATACATGTCCCAGACATATCTTACACTGGCT
TAAGTCTCGAG
Found at i:16425529 original size:52 final size:51
Alignment explanation
Indices: 16425398--16425529 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 51
16425388 ATGTGTTTTG
* *
16425398 CATTAAATAAAGTCTTGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
* * * *
16425449 -AATAAATTATGACATGCTTTATGTAACTCTCATGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCAT
*
16425500 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
16425530 ATTTGTTCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 34 0.50
51 10 0.15
52 24 0.35
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
Found at i:16427113 original size:29 final size:28
Alignment explanation
Indices: 16427046--16427120 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
16427036 CAAGTCTACA
* * *
16427046 CACATGCATACGGCCCACTAGGCCCAAT
1 CACATTCATATGGCCCATTAGGCCCAAT
*
16427074 CTCATTCATATGGCCCATTAGGCCCAAAT
1 CACATTCATATGGCCCATTAGGCCC-AAT
*
16427103 CACATTCATATTGCCCAT
1 CACATTCATATGGCCCAT
16427121 CTGGACCGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 21 0.52
29 19 0.47
ACGTcount: A:0.28, C:0.35, G:0.13, T:0.24
Consensus pattern (28 bp):
CACATTCATATGGCCCATTAGGCCCAAT
Found at i:16427132 original size:29 final size:29
Alignment explanation
Indices: 16427046--16427120 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
16427036 CAAGTCTACA
* * * *
16427046 CACATGCATACGGCCCACTAGG-CCCAAT
1 CACATTCATATGGCCCATTAGGACCAAAT
* *
16427074 CTCATTCATATGGCCCATTAGGCCCAAAT
1 CACATTCATATGGCCCATTAGGACCAAAT
*
16427103 CACATTCATATTGCCCAT
1 CACATTCATATGGCCCAT
16427121 CTGGACCGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 18 0.46
29 21 0.54
ACGTcount: A:0.28, C:0.35, G:0.13, T:0.24
Consensus pattern (29 bp):
CACATTCATATGGCCCATTAGGACCAAAT
Found at i:16430897 original size:28 final size:29
Alignment explanation
Indices: 16430854--16430945 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
16430844 CAAGTCTACA
* * *
16430854 CACATGCATATAGCCCACTAGGCCC-AAT
1 CACATTCATATGGCCCACTAAGCCCAAAT
* *
16430882 CTCATTCATATGGCCCATTAAGCCCAAAT
1 CACATTCATATGGCCCACTAAGCCCAAAT
* *
16430911 CACATTCATATGGCTCATCT-AGCCCGAAT
1 CACATTCATATGGCCCA-CTAAGCCCAAAT
16430940 CA-ATTC
1 CACATTC
16430946 CAAGCCATGT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 24 0.45
29 28 0.53
30 1 0.02
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.25
Consensus pattern (29 bp):
CACATTCATATGGCCCACTAAGCCCAAAT
Found at i:16433421 original size:40 final size:40
Alignment explanation
Indices: 16433384--16433608 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
16433374 GCTACTCGTT
* *
16433384 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
16433424 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
16433464 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
16433504 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
16433543 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
16433584 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16433609 CATCATTCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16433568 original size:119 final size:120
Alignment explanation
Indices: 16433386--16433608 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
16433376 TACTCGTTCA
*
16433386 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
16433451 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
16433506 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
16433568 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
16433609 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:16441634 original size:40 final size:40
Alignment explanation
Indices: 16441597--16441821 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
16441587 GCTACTCGTT
* *
16441597 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
16441637 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
16441677 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
16441717 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
16441756 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
16441797 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16441822 CATCATTCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16441781 original size:119 final size:120
Alignment explanation
Indices: 16441599--16441821 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
16441589 TACTCGTTCA
*
16441599 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
16441664 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
16441719 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
16441781 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
16441822 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:16456604 original size:47 final size:47
Alignment explanation
Indices: 16456550--16456743 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
16456540 TTAGGATTTT
** * *
16456550 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
16456597 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
16456644 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
16456691 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
16456738 ATGTGA
1 ATGTGA
16456744 AATATGTATG
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:16456650 original size:22 final size:22
Alignment explanation
Indices: 16456579--16456650 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
16456569 GTATATATGA
16456579 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
16456601 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
16456626 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
16456648 GAT
1 GAT
16456651 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:16456872 original size:98 final size:96
Alignment explanation
Indices: 16456714--16456897 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
16456704 GAACATGCAT
*
16456714 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
*
16456779 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTAAAATATGTATGAGATATGC
16456810 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
**
16456874 CGAATGGCTTGTGTAAAATATGTA
63 CGAATGGCTAATGTAAAATATGTA
16456898 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 51 0.63
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTAAAATATGTATGAGATATGC
Found at i:16456873 original size:50 final size:48
Alignment explanation
Indices: 16456713--16456897 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
16456703 TGAACATGCA
16456713 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
16456761 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
16456809 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
** *
16456859 TATATGTGGTAAAGCCGAATGGCTTGTGTAAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
16456898 GGCGATGTGC
Statistics
Matches: 126, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
47 1 0.01
48 81 0.64
49 4 0.03
50 39 0.31
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:16457089 original size:37 final size:37
Alignment explanation
Indices: 16457046--16457224 Score: 286
Period size: 37 Copynumber: 4.8 Consensus size: 37
16457036 AATATATTCT
*
16457046 GGGTAAGACCCGATGACTACGTGTGGAGATTATATCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
16457083 GGGTAAGACCCAATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
16457120 GGGTAAGACCCGATAACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* * *
16457157 AGGTAAGACCCGATGACTACTTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* *
16457194 GGGTAAGACCCGATAACTTCGTGTGGAGATT
1 GGGTAAGACCCGATGACTACGTGTGGAGATT
16457225 TCGTCTGAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 130 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:16457167 original size:74 final size:74
Alignment explanation
Indices: 16457046--16457309 Score: 314
Period size: 74 Copynumber: 3.4 Consensus size: 74
16457036 AATATATTCT
* * * *
16457046 GGGTAAGACCCGATGACTACGTGTGGAGATTATATCCGGGTAAGACCCAATGACTACGTGTGGAG
1 GGGTAAGACCCGATAACTACGTGTGGAGATTATGTCCAGGTAAGACCCAATGACTACTTGTGGAG
*
16457111 ATTATGTCC
66 ATTTTGTCC
*
16457120 GGGTAAGACCCGATAACTACGTGTGGAGATTATGTCCAGGTAAGACCCGATGACTACTTGTGGAG
1 GGGTAAGACCCGATAACTACGTGTGGAGATTATGTCCAGGTAAGACCCAATGACTACTTGTGGAG
16457185 ATTTTGTCC
66 ATTTTGTCC
* * * *
16457194 GGGTAAGACCCGATAACTTCGTGTGGAGATT-TCGTCTGAGCTAAAGCTCTCGCCGATAATCCGA
1 GGGTAAGACCCGATAACTACGTGTGGAGATTAT-GTC-CAGGT-AAG---AC-CC---AAT--GA
16457258 CTACTTGTGGAGATTTTGTCC
54 CTACTTGTGGAGATTTTGTCC
*
16457279 GGGTAAGACCCGATAACTTCGTGTGGAGATT
1 GGGTAAGACCCGATAACTACGTGTGGAGATT
16457310 TCGTCTGAGC
Statistics
Matches: 167, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
73 1 0.01
74 101 0.60
75 3 0.02
76 3 0.02
79 1 0.01
80 2 0.01
83 2 0.01
85 54 0.32
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (74 bp):
GGGTAAGACCCGATAACTACGTGTGGAGATTATGTCCAGGTAAGACCCAATGACTACTTGTGGAG
ATTTTGTCC
Found at i:16457225 original size:37 final size:37
Alignment explanation
Indices: 16457046--16457310 Score: 278
Period size: 37 Copynumber: 6.9 Consensus size: 37
16457036 AATATATTCT
* * *
16457046 GGGTAAGACCCGATGACTACGTGTGGAGATTATATCC
1 GGGTAAGACCCGATAACTACGTGTGGAGATTTTGTCC
* * *
16457083 GGGTAAGACCCAATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATAACTACGTGTGGAGATTTTGTCC
*
16457120 GGGTAAGACCCGATAACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATAACTACGTGTGGAGATTTTGTCC
* * *
16457157 AGGTAAGACCCGATGACTACTTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATAACTACGTGTGGAGATTTTGTCC
* * *
16457194 GGGTAAGACCCGATAACTTCGTGTGGAGATTTCGTCT
1 GGGTAAGACCCGATAACTACGTGTGGAGATTTTGTCC
* * *
16457231 GAGCTAAAGCTCTCGCCGATAATCCGACTACTTGTGGAGATTTTGTCC
1 G-GGT-AAG---AC-CCGAT-A----ACTACGTGTGGAGATTTTGTCC
*
16457279 GGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GGGTAAGACCCGATAACTACGTGTGGAGATTT
16457311 CGTCTGAGCT
Statistics
Matches: 193, Mismatches: 24, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
37 150 0.78
38 2 0.01
39 3 0.02
41 1 0.01
42 6 0.03
43 6 0.03
44 1 0.01
46 3 0.02
47 2 0.01
48 19 0.10
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (37 bp):
GGGTAAGACCCGATAACTACGTGTGGAGATTTTGTCC
Found at i:16457269 original size:48 final size:48
Alignment explanation
Indices: 16457213--16457342 Score: 129
Period size: 37 Copynumber: 2.9 Consensus size: 48
16457203 CCGATAACTT
16457213 CGTGTGGAGATTTCGTCTGAGCTAAAGCTCTCGCCGATAATCCGACTA
1 CGTGTGGAGATTTCGTCTGAGCTAAAGCTCTCGCCGATAATCCGACTA
* * * * * *
16457261 CTTGTGGAGATTTTGTCCG-GGT-AAG---AC-CCGAT-A----ACTT
1 CGTGTGGAGATTTCGTCTGAGCTAAAGCTCTCGCCGATAATCCGACTA
16457298 CGTGTGGAGATTTCGTCTGAGCTAAAGCTCTCGCCGATAATCCGA
1 CGTGTGGAGATTTCGTCTGAGCTAAAGCTCTCGCCGATAATCCGA
16457343 GTAGAGGTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 22
0.65 0.12 0.24
Matches are distributed among these distances:
37 19 0.32
38 2 0.03
39 3 0.05
41 1 0.02
42 6 0.10
43 6 0.10
44 1 0.02
46 3 0.05
47 2 0.03
48 17 0.28
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.28
Consensus pattern (48 bp):
CGTGTGGAGATTTCGTCTGAGCTAAAGCTCTCGCCGATAATCCGACTA
Found at i:16457314 original size:85 final size:85
Alignment explanation
Indices: 16457171--16457342 Score: 344
Period size: 85 Copynumber: 2.0 Consensus size: 85
16457161 AAGACCCGAT
16457171 GACTACTTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTCGTCTGAGCT
1 GACTACTTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTCGTCTGAGCT
16457236 AAAGCTCTCGCCGATAATCC
66 AAAGCTCTCGCCGATAATCC
16457256 GACTACTTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTCGTCTGAGCT
1 GACTACTTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTCGTCTGAGCT
16457321 AAAGCTCTCGCCGATAATCC
66 AAAGCTCTCGCCGATAATCC
16457341 GA
1 GA
16457343 GTAGAGGTTA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (85 bp):
GACTACTTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTCGTCTGAGCT
AAAGCTCTCGCCGATAATCC
Found at i:16461250 original size:29 final size:29
Alignment explanation
Indices: 16461217--16461316 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
16461207 CATTGAGCCT
*
16461217 AATCATATTCATATGGCCCATTAGGCCCA
1 AATCACATTCATATGGCCCATTAGGCCCA
*
16461246 AATCACCTGT-ATATGGCCCATTAGGCCCA
1 AATCACAT-TCATATGGCCCATTAGGCCCA
*
16461275 AATCACATTTATATGGCCCATTAGGCCC-
1 AATCACATTCATATGGCCCATTAGGCCCA
*
16461303 AGTCACATTCATAT
1 AATCACATTCATAT
16461317 TCATGCTCAC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.20
29 50 0.78
30 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (29 bp):
AATCACATTCATATGGCCCATTAGGCCCA
Found at i:16462840 original size:17 final size:16
Alignment explanation
Indices: 16462818--16462856 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16462808 ATAAAGAAAG
16462818 TTTGGGATTTCAAGATT
1 TTTGGG-TTTCAAGATT
**
16462835 TTTGGGTTTCGGGATT
1 TTTGGGTTTCAAGATT
16462851 TTTGGG
1 TTTGGG
16462857 GTGTTACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.13, C:0.05, G:0.33, T:0.49
Consensus pattern (16 bp):
TTTGGGTTTCAAGATT
Found at i:16463713 original size:14 final size:13
Alignment explanation
Indices: 16463693--16463729 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
16463683 AATACTTGAT
16463693 TTGTTCTTAATTA
1 TTGTTCTTAATTA
16463706 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
16463720 TTGTT-TTAAT
1 TTGTTCTTAAT
16463730 ATTCCAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:16467440 original size:40 final size:40
Alignment explanation
Indices: 16467342--16467604 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
16467332 TCCTCGTTCA
* * * * *
16467342 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
16467381 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
16467421 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
16467461 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
16467501 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
16467541 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
16467581 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
16467605 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:16474063 original size:40 final size:40
Alignment explanation
Indices: 16473965--16474227 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
16473955 TCCTCGTTCA
* * * * *
16473965 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
16474004 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
16474044 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
16474084 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
16474124 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
16474164 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
16474204 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
16474228 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:16479516 original size:20 final size:20
Alignment explanation
Indices: 16479493--16479531 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16479483 AAGACTTCAC
* *
16479493 TTTATTTTTATTTTTATTTG
1 TTTACTTTTATCTTTATTTG
16479513 TTTACTTTTATCTTTATTT
1 TTTACTTTTATCTTTATTT
16479532 ACCTTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTACTTTTATCTTTATTTG
Found at i:16493877 original size:369 final size:370
Alignment explanation
Indices: 16493038--16495777 Score: 5122
Period size: 369 Copynumber: 7.4 Consensus size: 370
16493028 CTTGTCCATT
*
16493038 AAAATTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
16493103 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
16493168 GTAACAACGCCACGTATGATGAATCTTAAAAAATTC-AAAAGACTTGAAAAAAGTTCTATCGATC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
*
16493232 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTA
*
16493297 CGATTCATTTTT-ATATTATTATATTCAAATTACTATTTTTCTATATTAATAATGTTTTATTTTA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTT-TATATTAATAATGTTTTATTTTA
16493361 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
325 ATATTTAATA-TTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
16493408 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
*
16493473 ATAGGCTGGAAACCTGACGGGTTGCCTTTTATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
16493538 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGACC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
*
16493603 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTA
16493668 CGATTCTTTTTTGATATTATTATATTCAAATTACTA-TTTTTATATTAATAATGTTTTATTTTAA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
16493732 TATTTAATATTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
326 TATTTAATATTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
16493777 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
*
16493842 ATAGGCTGGAAACCAGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
16493907 GTAACAAAGCCACGTATGATGAATCTT-AAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
16493971 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTA
16494036 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTA-TTTA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTA-TTTTTTATATTAATAATGTTTTATTTTA
*
16494100 ATATTTAATATTTTAAATTTCTTTAAAAGTTATAACTATTTTTATC
325 ATATTTAATATTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
16494146 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
16494211 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
16494276 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
16494341 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAGTTTACTTAT-AAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTA
16494405 CGATTC-TTTTTGATATTATTATATTCAAATTACTA-TTTTTATATTAATAATG-TTTA-TTTAA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
16494466 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
326 TATTTAATA-TTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
*
16494512 AAAATTACAACAATAGCTGACCTTCTCTCCAAACTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
*
16494577 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTACAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
16494642 GTAACAACTCCACGTATGATGAATCTTAAAAAATTC-AAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
*
16494706 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTA
16494771 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
16494836 TATTTAATATTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
326 TATTTAATATTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
16494881 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
* *
16494946 ATAGGCTGGAAACCTGACAGGTTGCCTTTTATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
16495011 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
*
16495076 TCATTTACTGTTGAATATTTATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTA
16495141 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTA-TTTTTTATATTAATAATGTTTTATTTTA
16495206 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
325 ATATTTAATA-TTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
16495253 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATA-TTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
16495317 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
16495382 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
16495447 TCA-TTACTATTGAATATTTATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTA
16495511 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATG-TTTATTTTAA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
16495575 TATTTAATATTTTAAATTTCTTT-AAAGTTATAACTACTTTTATC
326 TATTTAATATTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
16495619 -AAATTACAACAATAGCTGACCTTCTCTCCAACCTTA-TTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
*
16495682 ATAGGCTGGAAACCTGAC-GGTTGCC-TATATCGAGCTGCAAGATATAATGGATCCTTCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
16495745 GTAACAACGCCACGTATGACGAATCTTAAAAAA
131 GTAACAACGCCACGTATGATGAATCTTAAAAAA
16495778 AAATTTGTTT
Statistics
Matches: 2326, Mismatches: 29, Indels: 37
0.97 0.01 0.02
Matches are distributed among these distances:
363 69 0.03
364 15 0.01
365 169 0.07
366 254 0.11
367 43 0.02
368 201 0.09
369 631 0.27
370 545 0.23
371 294 0.13
372 105 0.05
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (370 bp):
AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTA
CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
TATTTAATATTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
Found at i:16494785 original size:735 final size:740
Alignment explanation
Indices: 16493038--16495777 Score: 5138
Period size: 735 Copynumber: 3.7 Consensus size: 740
16493028 CTTGTCCATT
*
16493038 AAAATTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
16493103 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
16493168 GTAACAACGCCACGTATGATGAATCTTAAAAAATTC-AAAAGACTTGAAAAAAGTTCTATCGATC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
16493232 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
*
16493297 CGATTCATTTTT-ATATTATTATATTCAAATTACTATTTTTCTATATTAATAATGTTTTATTTTA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTT-TATATTAATAATGTTTTATTTTA
16493361 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTATCAAAATTACAACAATAGCT
325 ATATTTAATA-TTTTAAATTTCTTTAAAAGTTATAACTACTTTTATCAAAATTACAACAATAGCT
16493426 GACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGAC
389 GACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGAC
*
16493491 GGGTTGCCTTTTATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATG
454 GGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATG
*
16493556 ATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGACCTCATTTACTATTGAATAT
519 ATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATAT
*
16493621 TTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATT
584 TTATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATT
16493686 ATTATATTCAAATTACTATTTTTATATTAATAATGTTTTATTTTAATATTTAATA-TTTTAAATT
649 ATTATATTCAAATTACTATTTTTATATTAATAATGTTTTATTTTAATATTTAATATTTTTAAATT
16493750 TCTTTAAAAGTTATAACTACTTTTATC
714 TCTTTAAAAGTTATAACTACTTTTATC
16493777 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
*
16493842 ATAGGCTGGAAACCAGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
16493907 GTAACAAAGCCACGTATGATGAATCTT-AAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
*
16493971 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
16494036 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTA-TTTA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTA-TTTTTTATATTAATAATGTTTTATTTTA
*
16494100 ATATTTAATATTTTAAATTTCTTTAAAAGTTATAACTATTTTTATCAAAATTACAACAATAGCTG
325 ATATTTAATATTTTAAATTTCTTTAAAAGTTATAACTACTTTTATCAAAATTACAACAATAGCTG
16494165 ACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACG
390 ACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACG
16494230 GGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGA
455 GGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGA
16494295 TGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATT
520 TGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATT
16494360 TATATAACCTTAATTTATTTCCAGTTTACTTAT-AAAATTAAACTACGATTC-TTTTTGATATTA
585 TATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTA
16494423 TTATATTCAAATTACTATTTTTATATTAATAATG-TTTA-TTTAATATTTAATATTTTTAAATTT
650 TTATATTCAAATTACTATTTTTATATTAATAATGTTTTATTTTAATATTTAATATTTTTAAATTT
16494486 CTTTAAAAGTTATAACTACTTTTATC
715 CTTTAAAAGTTATAACTACTTTTATC
*
16494512 AAAATTACAACAATAGCTGACCTTCTCTCCAAACTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
*
16494577 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTACAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
16494642 GTAACAACTCCACGTATGATGAATCTTAAAAAATTC-AAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
16494706 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
16494771 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
16494836 TATTTAATATTTTAAATTTCTTTAAAAGTTATAACTACTTTTATCAAAATTACAACAATAGCTGA
326 TATTTAATATTTTAAATTTCTTTAAAAGTTATAACTACTTTTATCAAAATTACAACAATAGCTGA
*
16494901 CCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAG
391 CCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGG
*
16494966 GTTGCCTTTTATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGAT
456 GTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGAT
*
16495031 GAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTGTTGAATATTT
521 GAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTT
16495096 ATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTAT
586 ATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTAT
16495161 TATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTAATATTTAATATTTTTAAATT
651 TATATTCAAATTACTA--TTTTTATATTAATAATGTTTTATTTTAATATTTAATATTTTTAAATT
16495226 TCTTTAAAAGTTATAACTACTTTTATC
714 TCTTTAAAAGTTATAACTACTTTTATC
16495253 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATA-TTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
16495317 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
16495382 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
*
16495447 TCA-TTACTATTGAATATTTATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
16495511 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATG-TTTATTTTAA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
16495575 TATTTAATATTTTAAATTTCTTT-AAAGTTATAACTACTTTTATC-AAATTACAACAATAGCTGA
326 TATTTAATATTTTAAATTTCTTTAAAAGTTATAACTACTTTTATCAAAATTACAACAATAGCTGA
16495638 CCTTCTCTCCAACCTTA-TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGAC-G
391 CCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGG
* *
16495701 GTTGCC-TATATCGAGCTGCAAGATATAATGGATCCTTCCTAGGTGTAACAACGCCACGTATGAC
456 GTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGAT
16495765 GAATCTTAAAAAA
521 GAATCTTAAAAAA
16495778 AAATTTGTTT
Statistics
Matches: 1961, Mismatches: 27, Indels: 31
0.97 0.01 0.02
Matches are distributed among these distances:
734 105 0.05
735 620 0.32
736 117 0.06
737 83 0.04
738 308 0.16
739 320 0.16
740 276 0.14
741 132 0.07
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (740 bp):
AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
TATTTAATATTTTAAATTTCTTTAAAAGTTATAACTACTTTTATCAAAATTACAACAATAGCTGA
CCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGG
GTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGAT
GAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTT
ATATAACCTTAATTTATTTCCAGTTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTAT
TATATTCAAATTACTATTTTTATATTAATAATGTTTTATTTTAATATTTAATATTTTTAAATTTC
TTTAAAAGTTATAACTACTTTTATC
Found at i:16495893 original size:23 final size:23
Alignment explanation
Indices: 16495867--16495931 Score: 94
Period size: 24 Copynumber: 2.8 Consensus size: 23
16495857 ATTATTATTG
*
16495867 AAATATTCTTGTCCGTTTATCAC
1 AAATATTATTGTCCGTTTATCAC
*
16495890 AAATATTATTCTCCGTTTTATCAC
1 AAATATTATTGTCCG-TTTATCAC
*
16495914 AAATATTATCGTCCGTTT
1 AAATATTATTGTCCGTTT
16495932 TACCATTTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 16 0.43
24 21 0.57
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.45
Consensus pattern (23 bp):
AAATATTATTGTCCGTTTATCAC
Found at i:16496153 original size:15 final size:15
Alignment explanation
Indices: 16496109--16496164 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
16496099 AACGACATGT
16496109 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
16496125 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
16496138 ATATTATTTAATTAA
1 ATATTATTTAATTAA
16496153 ATATTATTTAAT
1 ATATTATTTAAT
16496165 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:16496281 original size:9 final size:9
Alignment explanation
Indices: 16496269--16496494 Score: 134
Period size: 9 Copynumber: 24.6 Consensus size: 9
16496259 TATTTGATAT
*
16496269 CATAATTTA
1 CATAACTTA
16496278 CATAACTTA
1 CATAACTTA
* *
16496287 TATAACATA
1 CATAACTTA
*
16496296 TATAACTTA
1 CATAACTTA
16496305 CATAACTTA
1 CATAACTTA
* *
16496314 TATAACATA
1 CATAACTTA
16496323 CATAACTTA
1 CATAACTTA
*
16496332 TATAACTTA
1 CATAACTTA
*
16496341 TATAACTTA
1 CATAACTTA
* *
16496350 GATAA-ATA
1 CATAACTTA
* *
16496358 TATAACTTG
1 CATAACTTA
16496367 CATAACTTA
1 CATAACTTA
16496376 CATAATACTTA
1 CAT-A-ACTTA
* *
16496387 AATATATTTTATA
1 CATA-A--CT-TA
*
16496400 TCATAATTTA
1 -CATAACTTA
16496410 CATAACTTA
1 CATAACTTA
16496419 CATAACTTA
1 CATAACTTA
*
16496428 TATAACTTA
1 CATAACTTA
* *
16496437 GATAA-ATA
1 CATAACTTA
* *
16496445 TATAATTTA
1 CATAACTTA
*
16496454 CATAA-ATA
1 CATAACTTA
* * *
16496462 TATATCATA
1 CATAACTTA
*
16496471 TCATAAATTA
1 -CATAACTTA
16496481 CATAACTTA
1 CATAACTTA
16496490 CATAA
1 CATAA
16496495 TACTTAAATA
Statistics
Matches: 172, Mismatches: 35, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 128 0.74
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:16496291 original size:18 final size:18
Alignment explanation
Indices: 16496269--16496494 Score: 152
Period size: 18 Copynumber: 12.3 Consensus size: 18
16496259 TATTTGATAT
* *
16496269 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
16496287 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
16496305 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
16496323 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
16496341 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* **
16496358 TATAACTTGCATAACTTA
1 CATAACTTATATAACTTA
**
16496376 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
16496400 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
16496419 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
16496437 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
16496454 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
16496471 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
16496490 CATAA
1 CATAA
16496495 TACTTAAATA
Statistics
Matches: 162, Mismatches: 36, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
17 37 0.23
18 92 0.57
19 11 0.07
20 5 0.03
21 4 0.02
22 3 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:16496485 original size:114 final size:114
Alignment explanation
Indices: 16496297--16496518 Score: 304
Period size: 114 Copynumber: 1.9 Consensus size: 114
16496287 TATAACATAT
* * *
16496297 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
* * * *
16496362 ACTTGCATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
16496411 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-A
16496474 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
64 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
16496519 CATAACTAGT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 71 0.76
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:16501669 original size:13 final size:14
Alignment explanation
Indices: 16501653--16501681 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16501643 TTCTAAATAT
16501653 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
16501666 TTATAATTGTTTAA
1 TTATAATTGTTTAA
16501680 TT
1 TT
16501682 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:16502597 original size:42 final size:43
Alignment explanation
Indices: 16502498--16502688 Score: 302
Period size: 42 Copynumber: 4.6 Consensus size: 43
16502488 TTTGTGGGAA
*
16502498 AAACGCCGCTAAAGGCCATGACTTCTAGCGGCGCTTTTTTTCC
1 AAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTTTCC
**
16502541 AAACGCCGCTAAAGGCCATGACTTTTAGCGGCGC-TTTGCTCC
1 AAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTTTCC
16502583 AAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTTTCC
1 AAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTTTCC
* *
16502626 -AACGCCGCTAAAGGACATGA--TTTAGCGGCGCTTCTTTTCC
1 AAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTTTCC
16502666 AAACGCCGCTAAAGG-CATGACTT
1 AAACGCCGCTAAAGGCCATGACTT
16502689 ATTTAACGCC
Statistics
Matches: 137, Mismatches: 7, Indels: 9
0.90 0.05 0.06
Matches are distributed among these distances:
40 24 0.18
41 14 0.10
42 60 0.44
43 39 0.28
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTTTCC
Found at i:16502623 original size:85 final size:83
Alignment explanation
Indices: 16502498--16502688 Score: 305
Period size: 85 Copynumber: 2.3 Consensus size: 83
16502488 TTTGTGGGAA
*
16502498 AAACGCCGCTAAAGGCCATGACTTCTAGCGGCGCTTTTTTTCCAAACGCCGCTAAAGGCCATGAC
1 AAACGCCGCTAAAGGCCATGACTTCTAGCGGCGCTTTTTTTCC-AACGCCGCTAAAGGACATGA-
16502563 TTTTAGCGGCGCTT-TGCTCC
64 -TTTAGCGGCGCTTCTGCTCC
*
16502583 AAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTTTCCAACGCCGCTAAAGGACATGATT
1 AAACGCCGCTAAAGGCCATGACTTCTAGCGGCGCTTTTTTTCCAACGCCGCTAAAGGACATGATT
**
16502648 TAGCGGCGCTTCTTTTCC
66 TAGCGGCGCTTCTGCTCC
16502666 AAACGCCGCTAAAGG-CATGACTT
1 AAACGCCGCTAAAGGCCATGACTT
16502689 ATTTAACGCC
Statistics
Matches: 101, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
82 21 0.21
83 19 0.19
84 19 0.19
85 42 0.42
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (83 bp):
AAACGCCGCTAAAGGCCATGACTTCTAGCGGCGCTTTTTTTCCAACGCCGCTAAAGGACATGATT
TAGCGGCGCTTCTGCTCC
Found at i:16502771 original size:36 final size:38
Alignment explanation
Indices: 16502693--16502805 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 38
16502683 TGACTTATTT
* *
16502693 AACGCCGCTAAAG-CCATGACTTTTA-GCGCGCTTTTTTA
1 AACGCC-CTAAAGACTATGACTTTAACG-GCGCTTTTTTA
*
16502731 AACGCGCT-AAGAC-AT-ACTTTAACGGCGCTTTTTTCA
1 AACGCCCTAAAGACTATGACTTTAACGGCGCTTTTTT-A
* *
16502767 AACGCCCTAAAGGCTATGACTTTAGCGGCGCTTTTTTA
1 AACGCCCTAAAGACTATGACTTTAACGGCGCTTTTTTA
16502805 A
1 A
16502806 TAAACGCCAC
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
35 16 0.25
36 14 0.22
37 7 0.11
38 9 0.14
39 18 0.28
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (38 bp):
AACGCCCTAAAGACTATGACTTTAACGGCGCTTTTTTA
Found at i:16503467 original size:61 final size:62
Alignment explanation
Indices: 16503326--16503468 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 62
16503316 CAAGCTTTAT
*
16503326 TGGGCC-TAAGCCCTATT-CAAAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATC
1 TGGGCCAT-AGCCCTATTAC-AAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATC
* * *
16503388 TGGGTCATAGGCCC--TTACAATATCAGAG-TATACTGGGCC-TAGCCCATATCAGTATCAATC
1 TGGGCCATA-GCCCTATTACAAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAATC
16503448 TGGGCCATAGCCCTATTACAA
1 TGGGCCATAGCCCTATTACAA
16503469 GTCGAGATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
59 4 0.06
60 29 0.41
61 25 0.36
62 7 0.10
63 5 0.07
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (62 bp):
TGGGCCATAGCCCTATTACAAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATC
Found at i:16503543 original size:19 final size:20
Alignment explanation
Indices: 16503501--16503544 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
16503491 CCATATTAAC
** *
16503501 ACAGTTGGACCCATTTCAAT
1 ACAGTTGGACCCATAACAAA
16503521 ACAGTTGG-CCCATAACAAA
1 ACAGTTGGACCCATAACAAA
16503540 ACAGT
1 ACAGT
16503545 CTTATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (20 bp):
ACAGTTGGACCCATAACAAA
Found at i:16505243 original size:27 final size:27
Alignment explanation
Indices: 16505213--16505390 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16505203 ATATTGAGTC
* * * *
16505213 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16505240 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16505267 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16505295 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16505322 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16505349 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16505376 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16505391 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16505352 original size:82 final size:81
Alignment explanation
Indices: 16505234--16505389 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16505224 TGCTATATAA
* *
16505234 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16505299 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16505316 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16505380 CACTTAGTGC
65 CACTTAGTGC
16505390 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16513158 original size:27 final size:27
Alignment explanation
Indices: 16513111--16513287 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
16513101 ATATTGAGTC
* * *
16513111 CGCACA-TCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
16513137 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
*
16513164 CGCACACTTAGCGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** *
16513192 CGCACACTTAGTGCCGCATGGTC-ACTT
1 CGCACACTTAGTGCTACATAGTCAAC-T
* **
16513219 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
16513246 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
16513273 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16513288 GTACAATTTA
Statistics
Matches: 124, Mismatches: 21, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
26 8 0.06
27 93 0.75
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:16513198 original size:55 final size:54
Alignment explanation
Indices: 16513131--16513283 Score: 173
Period size: 55 Copynumber: 2.8 Consensus size: 54
16513121 TGCTATATAA
* * *
16513131 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGCGC-TACATAG
1 TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGCGCAT-CATAG
** * ** * *
16513185 TCAAACTCGCACACTTAGTGCCGCATGGTCACTTCGCACACTTAGTGCATCATAT
1 TC-AACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGCGCATCATAG
**
16513240 TCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAG
1 TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAG
16513284 TGCTGTACAA
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
54 37 0.46
55 43 0.53
56 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGCGCATCATAG
Found at i:16513256 original size:82 final size:81
Alignment explanation
Indices: 16513136--16513286 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
16513126 TATAATCAAC
* *
16513136 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGCGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGCGCAACATAGTCAAA-TCGCACACTT
16513201 AGTGCCGCATGGTCACT
65 AGTGCCGCATGGTCACT
* ** *
16513218 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGCGCAACATAGTCAAATCGCACACTT
16513282 AGTGC
65 AGTGC
16513287 TGTACAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 16 0.26
82 46 0.74
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGCGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCACT
Found at i:16522315 original size:16 final size:16
Alignment explanation
Indices: 16522296--16522328 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
16522286 AGTATGACAC
16522296 ATGGATTTCTTGTTTA
1 ATGGATTTCTTGTTTA
16522312 ATGGATTTCTTGTTTA
1 ATGGATTTCTTGTTTA
16522328 A
1 A
16522329 GTTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (16 bp):
ATGGATTTCTTGTTTA
Found at i:16523312 original size:17 final size:17
Alignment explanation
Indices: 16523263--16523312 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
16523253 TGTTATAATG
* *
16523263 TATGCTAATTAGATTCT
1 TATGTTAATTAGATTTT
*
16523280 TAT-TT-ATAAGGATTTT
1 TATGTTAATTA-GATTTT
16523296 TATGTTAATTAGATTTT
1 TATGTTAATTAGATTTT
16523313 ATTATAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 11 0.42
18 3 0.12
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (17 bp):
TATGTTAATTAGATTTT
Found at i:16523537 original size:20 final size:21
Alignment explanation
Indices: 16523500--16523541 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
16523490 ATAAATATTG
16523500 AATTACAAAATATATAAAATA
1 AATTACAAAATATATAAAATA
*
16523521 AATTATAAAAT-TATAAAATA
1 AATTACAAAATATATAAAATA
16523541 A
1 A
16523542 TTTAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AATTACAAAATATATAAAATA
Found at i:16532253 original size:3 final size:3
Alignment explanation
Indices: 16532245--16532288 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
16532235 ATGTTAACTC
16532245 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16532289 TTGAAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:16534720 original size:22 final size:23
Alignment explanation
Indices: 16534695--16534737 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
16534685 AGAACCGAAT
*
16534695 TATACAT-AAATAAATTTAAATA
1 TATACATAAAAAAAATTTAAATA
*
16534717 TATATATAAAAAAAATTTAAA
1 TATACATAAAAAAAATTTAAA
16534738 AGAGAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TATACATAAAAAAAATTTAAATA
Found at i:16536556 original size:45 final size:45
Alignment explanation
Indices: 16536461--16536557 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
16536451 GGTGGCTAAA
** *
16536461 ATCTGCTCCATAGCCGATACATGGAGATAAGACTTGCCATTTCTG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTTAACATTTCAG
16536506 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAAC-TTTCAG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGA-CT-TAACATTTCAG
16536552 -TCTGCT
1 ATCTGCT
16536558 TCTTGCAACT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
45 38 0.81
46 7 0.15
47 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTTAACATTTCAG
Found at i:16536936 original size:176 final size:176
Alignment explanation
Indices: 16536208--16536937 Score: 1113
Period size: 176 Copynumber: 4.1 Consensus size: 176
16536198 TAGCCTTACA
** * * * * * *
16536208 GCAACTTCAAGAAGATAAGGTTTGTGA-CTTCAACCTGCTCCACTACAATTTCAGGGAGACAAAG
1 GCAACTTCAAGAAGATAAGACTTGT-ATCTTCAACCTGCT-CTCTGCAACTTCAGAGAGATAAGG
* *
16536272 TCGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCGATCTGCTC
64 TTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTC
* *
16536337 CATAGCTGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCT
129 CATAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCT
* * * * * *
16536385 GCAACTTCAGGAAGATAAGACCTATATCTTCAACCTGCGCTCTTGCTACCTCAGAGAGATAAGGT
1 GCAACTTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTC-TGCAACTTCAGAGAGATAAGGT
*
16536450 TGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTTGCCAT-TTCTGATCTGCTC
65 TGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTC-GATCTGCTC
** *
16536514 CATAGCCGATACATGGAGATAAGATCTATAACTTTCAGTCTGCTTCTT
129 CATAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCT
* * * *
16536562 GCAACTTAAAGAAGATAAGACTAGTGTCTTCAACCTGCTCTTTGCAACTTCAGAGAGATAAGGTT
1 GCAACTTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGTT
* *
16536627 GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGATCTACTCCA
66 GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCA
*
16536692 TAGCCGATACATGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCT
131 TAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCT
*
16536738 GCAACTTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAATTTCAGAGAGATAAGGTT
1 GCAACTTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGTT
*
16536803 GGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCA
66 GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCA
* *
16536868 TAGCCGATACATGGAGATAAGATCTGCAATTTTCAGTTTGCTTCCT
131 TAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCT
16536914 GCAACTTCAAGAAGATAAGACTTG
1 GCAACTTCAAGAAGATAAGACTTG
16536938 CGTATTAAGC
Statistics
Matches: 503, Mismatches: 46, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
176 319 0.63
177 184 0.37
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (176 bp):
GCAACTTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGTT
GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCA
TAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCT
Found at i:16536964 original size:353 final size:353
Alignment explanation
Indices: 16536274--16536979 Score: 1096
Period size: 353 Copynumber: 2.0 Consensus size: 353
16536264 AGACAAAGTC
*
16536274 GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCGATCTGCTCCA
1 GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCGATCTACTCCA
* * *
16536339 TAGCTGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAG
66 TAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAG
*
16536404 ACCTATATCTTCAACCTGCGCTCTTGCTACCTCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTC
131 ACCTATATCTTCAACCTGCGCTCTTGCAACCTCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTC
* *
16536469 CATAGCCGATACATGGAGATAAGACTTGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGAT
196 CATAGCCAATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGAT
* * * * *
16536534 AAGATCTATAACTTTCAGTCTGCTTCTTGCAACTTAAAGAAGATAAGACTAGTGTCTTCAACCTG
261 AAGATCTACAACTTTCAGTCTGCTTCCTGCAACTTAAAGAAGATAAGACTAGCGTATTCAACATG
* *
16536599 CTCTTTGCAACTTC-AGAGAGATAAGGTT
326 CTCATAGCAACTTCAAG-GAGATAAGGTT
* *
16536627 GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGATCTACTCCA
1 GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCGATCTACTCCA
*
16536692 TAGCCGATACATGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAG
66 TAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAG
* * * **
16536757 ACTTGTATCTTCAACCTGCTCTC-TGCAATTTCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTC
131 ACCTATATCTTCAACCTGCGCTCTTGCAACCTCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTC
16536821 CATAGCCAATACATGGAGATAAGACTCGCCATCTTC-GATCTGCTCCATAGCCGATACATGGAGA
196 CATAGCCAATACATGGAGATAAGACTCGCCAT-TTCTGATCTGCTCCATAGCCGATACATGGAGA
* * * * *
16536885 TAAGATCTGCAATTTTCAGTTTGCTTCCTGCAACTTCAAGAAGATAAGACTTGCGTATT-AAGCA
260 TAAGATCTACAACTTTCAGTCTGCTTCCTGCAACTTAAAGAAGATAAGACTAGCGTATTCAA-CA
*
16536949 TGTTCCATAGCAACTTCAAGGAGATAAGGTT
324 TGCT-CATAGCAACTTCAAGGAGATAAGGTT
16536980 TGTAATCTTC
Statistics
Matches: 321, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
351 2 0.01
352 150 0.47
353 167 0.52
354 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (353 bp):
GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCGATCTACTCCA
TAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAG
ACCTATATCTTCAACCTGCGCTCTTGCAACCTCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTC
CATAGCCAATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGAT
AAGATCTACAACTTTCAGTCTGCTTCCTGCAACTTAAAGAAGATAAGACTAGCGTATTCAACATG
CTCATAGCAACTTCAAGGAGATAAGGTT
Found at i:16549410 original size:3 final size:3
Alignment explanation
Indices: 16549402--16549470 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
16549392 AATAACAAAG
16549402 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16549450 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
16549471 AGTAATTCAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16555768 original size:40 final size:40
Alignment explanation
Indices: 16555713--16555896 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
16555703 ATTTGAATGA
* *
16555713 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGATTT
*
16555753 TATCCGGGCTAAGTCCCGAAGGCATTTATGCAAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGATTT
* * *
16555793 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGATTT
* * * *
16555833 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGATTT
* *
16555873 TACCCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCA
16555897 ATTGTGCTTG
Statistics
Matches: 135, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
40 132 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGATTT
Found at i:16555851 original size:80 final size:80
Alignment explanation
Indices: 16555712--16555923 Score: 250
Period size: 80 Copynumber: 2.7 Consensus size: 80
16555702 CATTTGAATG
* * * * *
16555712 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
*
16555777 TTTATGCAAG-TGATT
66 TTTATGCAAGTTG-CT
*
16555792 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
* *
16555856 ATTTGTGCGAGTTGCT
65 ATTTATGCAAGTTGCT
* * * ** *
16555872 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAA
16555924 ATTCCGAAGA
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
79 8 0.07
80 100 0.88
81 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTATGCAAGTTGCT
Found at i:16558731 original size:28 final size:28
Alignment explanation
Indices: 16558669--16558763 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
16558659 TATTAAGTCT
*
16558669 GCACACTCAGTGCTATATAATC-AACTC
1 GCACACTTAGTGCTATATAATCAAACTC
16558696 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTC
* * * *
16558724 GCACACTTAGTGCTGTACAATTTAAACCC
1 GCACACTTAGTGCTATATAA-TCAAACTC
16558753 GCACACTTAGT
1 GCACACTTAGT
16558764 ACCAATCTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.34
28 23 0.38
29 17 0.28
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTC
Found at i:16566560 original size:27 final size:26
Alignment explanation
Indices: 16566543--16566612 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
16566533 ATATTAAGTC
16566543 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
16566570 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
16566598 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
16566613 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:16566606 original size:28 final size:28
Alignment explanation
Indices: 16566543--16566640 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
16566533 ATATTAAGTC
*
16566543 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
16566570 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
16566598 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
16566627 CGCACACTTAGTGC
1 CGCACACTTAGTGC
16566641 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:16568866 original size:42 final size:42
Alignment explanation
Indices: 16568819--16568964 Score: 168
Period size: 42 Copynumber: 3.3 Consensus size: 42
16568809 CAGAGTTCAA
16568819 CTATGGTCTTACATATCTTCACATAAT-GATGCCATAGCCCAG
1 CTATGGTCTTACATATCTTCACAT-ATCGATGCCATAGCCCAG
* * *
16568861 CTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAG
1 CTATGGTCTTACATATCTTCACATATCGATGCCATAGCCCAG
* *
16568903 CTATGGTCTTATACGTAATCACATATCACATATCGATACCATAGCCCAG
1 CTATGGTC-T-TACAT-AT--C-T-TCACATATCGATGCCATAGCCCAG
16568952 CTATGGTCTTACA
1 CTATGGTCTTACA
16568965 CGGATGCCAT
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
41 2 0.02
42 44 0.51
43 1 0.01
44 3 0.03
45 2 0.02
47 3 0.03
48 2 0.02
49 30 0.34
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
CTATGGTCTTACATATCTTCACATATCGATGCCATAGCCCAG
Found at i:16568938 original size:49 final size:49
Alignment explanation
Indices: 16568872--16569129 Score: 206
Period size: 47 Copynumber: 5.2 Consensus size: 49
16568862 TATGGTCTTA
* *
16568872 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTATACGTAAT
1 CACATA-TCACATCTCGATGCCATAGCCCAGCTATGGTCTTATACGTAAT
* * * *
16568922 CACATATCACATATCGATACCATAGCCCAGCTATGGTCTTACACG-GAT
1 CACATATCACATCTCGATGCCATAGCCCAGCTATGGTCTTATACGTAAT
* * * *
16568970 GC-CATATCACA-CT-GATGCCATATCCTAGATATGGTCTTATACAGTAGT
1 -CACATATCACATCTCGATGCCATAGCCCAGCTATGGTCTTATAC-GTAAT
* * * * *
16569018 -ATATATCACA-CT-GATGCCATATCCCAGATATGGTCTTATACGGAAG
1 CACATATCACATCTCGATGCCATAGCCCAGCTATGGTCTTATACGTAAT
* * ** * *
16569064 CACATAATCACATCTCTCCGATGCTATAGCTCAGCTGGGGTCTCATACGGAAAT
1 CACAT-ATCACA--TCT-CGATGCCATAGCCCAGCTATGGTCTTATAC-GTAAT
16569118 CACATATCACAT
1 CACATATCACAT
16569130 GTTGCCATGG
Statistics
Matches: 169, Mismatches: 27, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
46 26 0.15
47 43 0.25
48 18 0.11
49 37 0.22
50 6 0.04
51 3 0.02
53 28 0.17
54 8 0.05
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (49 bp):
CACATATCACATCTCGATGCCATAGCCCAGCTATGGTCTTATACGTAAT
Found at i:16568986 original size:16 final size:16
Alignment explanation
Indices: 16568962--16568993 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16568952 CTATGGTCTT
16568962 ACACGGATGCCATATC
1 ACACGGATGCCATATC
*
16568978 ACACTGATGCCATATC
1 ACACGGATGCCATATC
16568994 CTAGATATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (16 bp):
ACACGGATGCCATATC
Found at i:16576480 original size:47 final size:47
Alignment explanation
Indices: 16576426--16576619 Score: 262
Period size: 47 Copynumber: 4.1 Consensus size: 47
16576416 TTAGGATTTT
** * *
16576426 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
16576473 ATGTGATGACTGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
16576520 ATGTGATGAATGCGAGCATGCATATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
16576567 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
16576614 ATGTGA
1 ATGTGA
16576620 AATATGTATG
Statistics
Matches: 127, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 127 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:16576651 original size:48 final size:48
Alignment explanation
Indices: 16576590--16576773 Score: 280
Period size: 48 Copynumber: 3.8 Consensus size: 48
16576580 GAACATGCAT
16576590 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
* *
16576638 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAATGAGATAAGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
* **
16576686 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATTT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGC
*
16576736 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
16576774 GGCGATGTGC
Statistics
Matches: 123, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.64
49 4 0.03
50 38 0.31
51 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:16576755 original size:98 final size:96
Alignment explanation
Indices: 16576590--16576771 Score: 294
Period size: 98 Copynumber: 1.9 Consensus size: 96
16576580 GAACATGCAT
*
16576590 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGCATATGTGGTAAAGCCGA
16576655 ATGGCTAATGTGAAATATGAATGAGATAAGC
66 ATGGCTAATGTGAAATATGAATGAGATAAGC
**
16576686 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATTTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGCATATGTGGTAAAGC
*
16576750 CGAATGGCTAGTGTGAAATATG
63 CGAATGGCTAATGTGAAATATG
16576772 TAGGCGATGT
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
95 1 0.01
96 27 0.34
97 2 0.03
98 49 0.62
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGCATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGAATGAGATAAGC
Found at i:16576969 original size:37 final size:37
Alignment explanation
Indices: 16576919--16577000 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 37
16576909 GGAAATATAT
16576919 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
16576956 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
16576993 TCCGGGTA
1 TCCGGGTA
16577001 TGTGACAGCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:16578323 original size:69 final size:70
Alignment explanation
Indices: 16578191--16578323 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
16578181 TAGTTTATTA
* * * * *
16578191 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
16578256 CTTAG
66 CTTAG
*
16578261 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTTCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
16578324 GTTATGTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 34 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:16580161 original size:48 final size:48
Alignment explanation
Indices: 16580090--16580377 Score: 477
Period size: 48 Copynumber: 6.0 Consensus size: 48
16580080 CACAAGATTA
16580090 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
16580138 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
16580186 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * *
16580234 GGATATGTATATGTAGTAAAGCCGAATGGCTAATGTGAAATGTATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA--TATGTATG
*
16580284 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * * *
16580332 AGATACGTATATGTGGTAAAGTCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
16580378 GGAGGTGTGG
Statistics
Matches: 227, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
48 183 0.81
50 44 0.19
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:16580363 original size:146 final size:144
Alignment explanation
Indices: 16580091--16580377 Score: 484
Period size: 146 Copynumber: 2.0 Consensus size: 144
16580081 ACAAGATTAA
* *
16580091 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
1 GATATGTATATGTAGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTA
* *
16580156 AAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
66 AAGCCGAATGGCTAATGTGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAAGGGCTAATG
16580221 TGAAATATGTATGG
131 TGAAATATGTATGG
16580235 GATATGTATATGTAGTAAAGCCGAATGGCTAATGTGAAATGTATATATGAGATATGTATATGTGG
1 GATATGTATATGTAGTAAAGCCGAATGGCTAATGTGAAA--TATATATGAGATATGTATATGTGG
* * *
16580300 TAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATACGTATATGTGGTAAAGTCGAAGGGCTAG
64 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAAGGGCTAA
*
16580365 TGTGAAGTATGTA
129 TGTGAAATATGTA
16580378 GGAGGTGTGG
Statistics
Matches: 133, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
144 38 0.29
146 95 0.71
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (144 bp):
GATATGTATATGTAGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTA
AAGCCGAATGGCTAATGTGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAAGGGCTAATG
TGAAATATGTATGG
Found at i:16580563 original size:37 final size:37
Alignment explanation
Indices: 16580513--16580627 Score: 169
Period size: 37 Copynumber: 3.1 Consensus size: 37
16580503 ACATGAAACT
16580513 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
16580550 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
* * * * *
16580587 TGGAGAT-TTTGTCCGGGTAAGACCTGATAACTTCGTG
1 TGGAAATATAT-TCCGGGTAAGACCCGATGACTACGTG
16580624 TGGA
1 TGGA
16580628 GATTTCATCT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 2 0.03
37 70 0.97
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (37 bp):
TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
Found at i:16581964 original size:40 final size:40
Alignment explanation
Indices: 16581906--16582175 Score: 413
Period size: 40 Copynumber: 6.8 Consensus size: 40
16581896 AGTTAGATAC
*
16581906 CCGGGCTAAGTCCTGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
*
16581946 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
* * *
16581986 CCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
16582026 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
* *
16582066 CCGGGCTAGGT-CCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
* *
16582105 CCGGGCTAGGT-CCGAAGAGCATTCGAGCTGGTG-T-TAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
* *
16582142 CCGGGCTAAGTCTCGAAGAGCATTCATGCTGGTG
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
16582176 ATGTGTATTC
Statistics
Matches: 214, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
37 13 0.06
38 20 0.09
39 60 0.28
40 121 0.57
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
Found at i:16584597 original size:69 final size:70
Alignment explanation
Indices: 16584465--16584597 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
16584455 TAGTTTATTA
* * * * *
16584465 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
16584530 CTTAG
66 CTTAG
16584535 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
16584598 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:16586556 original size:48 final size:48
Alignment explanation
Indices: 16586350--16586587 Score: 354
Period size: 48 Copynumber: 5.0 Consensus size: 48
16586340 GCACAAGATA
16586350 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
16586398 AGATATGTATATGTGGT-AAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
16586445 GGATATGTATATGTAGTAAAG-CGAATAGCTAATGTGAAATGTATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA--TATGTATG
*
16586494 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * * *
16586542 AGATACGTATATGTGGTAAAGTCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
16586588 GGAGGTGTGG
Statistics
Matches: 173, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
47 62 0.36
48 69 0.40
49 26 0.15
50 16 0.09
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:16601215 original size:43 final size:43
Alignment explanation
Indices: 16601168--16601261 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
16601158 CCTAGACAAT
* * * *
16601168 GTCTTACACGAAATC-GATTAATGATGCCAATGTTTCAAACATG
1 GTCTTACACGAAATCTCAAT-ATAATGCCAATGTCTCAAACATG
* *
16601211 GTCTTACACGTAATCTCAATATAATGCCAATGTCTCAGACATG
1 GTCTTACACGAAATCTCAATATAATGCCAATGTCTCAAACATG
16601254 GTCTTACA
1 GTCTTACA
16601262 TGTAATTACA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 42 0.95
44 2 0.05
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (43 bp):
GTCTTACACGAAATCTCAATATAATGCCAATGTCTCAAACATG
Found at i:16602392 original size:13 final size:13
Alignment explanation
Indices: 16602374--16602399 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16602364 TCACACTTAC
16602374 GTAATCACATGCT
1 GTAATCACATGCT
16602387 GTAATCACATGCT
1 GTAATCACATGCT
16602400 AAAACTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
GTAATCACATGCT
Found at i:16604430 original size:24 final size:24
Alignment explanation
Indices: 16604383--16604430 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16604373 TTTTGAGCAA
* **
16604383 TTTAATTTTTTTCTTTTATGTTCT
1 TTTAACTTTTTTCTTTTACATTCT
*
16604407 TTTAACTTTTTTCTTTTCCATTCT
1 TTTAACTTTTTTCTTTTACATTCT
16604431 CTTCTGCTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.12, C:0.15, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTAACTTTTTTCTTTTACATTCT
Found at i:16613131 original size:23 final size:24
Alignment explanation
Indices: 16613083--16613137 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
16613073 TTCTTTGTAT
16613083 TAAACTCATTTTAACACACATATCA
1 TAAA-TCATTTTAACACACATATCA
* *
16613108 TAAATCATTTTCAC-CACATTTCA
1 TAAATCATTTTAACACACATATCA
*
16613131 TACATCA
1 TAAATCA
16613138 CAAGTATAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 14 0.52
24 9 0.33
25 4 0.15
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAATCATTTTAACACACATATCA
Found at i:16615216 original size:37 final size:37
Alignment explanation
Indices: 16615166--16615244 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
16615156 TTATTACGAA
* *
16615166 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
16615203 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
16615240 GTCTT
1 GTCTT
16615245 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:16615441 original size:47 final size:47
Alignment explanation
Indices: 16615363--16615801 Score: 608
Period size: 47 Copynumber: 9.1 Consensus size: 47
16615353 CCCTTCGGGA
* * * * * * *
16615363 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
16615410 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16615457 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16615504 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16615551 CTTATCACATATATGCACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16615598 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16615645 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACAT---C-----GG-C--C-ATTAGGC
* *
16615704 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16615751 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16615798 CTTA
1 CTTA
16615802 CTATCATTTC
Statistics
Matches: 357, Mismatches: 23, Indels: 24
0.88 0.06 0.06
Matches are distributed among these distances:
47 307 0.86
50 2 0.01
51 2 0.01
55 2 0.01
56 2 0.01
59 42 0.12
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16615702 original size:59 final size:59
Alignment explanation
Indices: 16615636--16615753 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
16615626 ATCACATCGG
16615636 CTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 CTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
16615695 CTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 CTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
16615754 ATCACATATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (59 bp):
CTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
Found at i:16615712 original size:106 final size:107
Alignment explanation
Indices: 16615589--16615805 Score: 409
Period size: 106 Copynumber: 2.0 Consensus size: 107
16615579 ATCACATCGG
16615589 CTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
1 CTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
*
16615654 CATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT-
66 CATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
16615695 CTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
1 CTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
*
16615760 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 CATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
16615802 CTAT
1 CTAT
16615806 CATTTCATAT
Statistics
Matches: 108, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
106 104 0.96
107 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (107 bp):
CTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
CATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:16618836 original size:19 final size:19
Alignment explanation
Indices: 16618814--16618851 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16618804 AAATGACGAG
16618814 GTATGAATTAGCTTGAGTT
1 GTATGAATTAGCTTGAGTT
16618833 GTATGAATTAGCTTGAGTT
1 GTATGAATTAGCTTGAGTT
16618852 TTATTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.42
Consensus pattern (19 bp):
GTATGAATTAGCTTGAGTT
Found at i:16624996 original size:32 final size:33
Alignment explanation
Indices: 16624925--16625002 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 33
16624915 CATGGAATCC
*
16624925 ATAGAGTAAGTCCGTCGGGATAGTAAATAGGGA
1 ATAGAGTAAGTCCGTCGGGATAGTAAACAGGGA
* * **
16624958 ACAGAGTAAG-CCG-CTGGACTAGTAAACATTGA
1 ATAGAGTAAGTCCGTCGGGA-TAGTAAACAGGGA
16624990 ATAGAGTAAGTCC
1 ATAGAGTAAGTCC
16625003 ACCAGGACAG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
31 4 0.11
32 22 0.59
33 11 0.30
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (33 bp):
ATAGAGTAAGTCCGTCGGGATAGTAAACAGGGA
Found at i:16626681 original size:163 final size:163
Alignment explanation
Indices: 16626386--16626724 Score: 473
Period size: 163 Copynumber: 2.1 Consensus size: 163
16626376 CCCGTGTCTC
* * * *
16626386 AGGCCATGTAGCTTTCGAACTAGAGATACACGGTCATGTTATAGCCTGTGTCCTCACCCGTGTAA
1 AGGCCGTGTAACTTTCGAACTAGAGACACACGGTCATGTTATAGCCTGTGTCATCACCCGTGTAA
* ** *
16626451 CTCACTGAGTAGGGTCACACGGTTGTGTCACACGCCCGTGTGTCAAGCCGTGTAACTTTCAAAAT
66 CTCACTGAGTAGGGTCACAAGGCCGTGTCACACGCCCGTGTGTCAAGCCATGTAACTTTCAAAAT
* * *
16626516 AGCCCTACACGCCTATGTACCAGGTAGTGTGCT
131 AGCCCTACACACCCATGTACCAGGTAGCGTGCT
* * * *
16626549 AGGCTGTGTAACTTTTGAACTAGAGACACACGGTCGTGTTCTAGCCTGTGTCATCACCCGTGTAA
1 AGGCCGTGTAACTTTCGAACTAGAGACACACGGTCATGTTATAGCCTGTGTCATCACCCGTGTAA
* ** *
16626614 CTCACTGAGTAGGGTCACAAGGCCGTGTCACACGCCCGTGTGTCAGGTTATGTAACTCTT-GAAA
66 CTCACTGAGTAGGGTCACAAGGCCGTGTCACACGCCCGTGTGTCAAGCCATGTAACT-TTCAAAA
* *
16626678 TAGCCCTACACACCCGTGTGCCAGGTAGCGTGCT
130 TAGCCCTACACACCCATGTACCAGGTAGCGTGCT
16626712 AGGCCGTGTAACT
1 AGGCCGTGTAACT
16626725 GTCTGACTTG
Statistics
Matches: 153, Mismatches: 22, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
163 151 0.99
164 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (163 bp):
AGGCCGTGTAACTTTCGAACTAGAGACACACGGTCATGTTATAGCCTGTGTCATCACCCGTGTAA
CTCACTGAGTAGGGTCACAAGGCCGTGTCACACGCCCGTGTGTCAAGCCATGTAACTTTCAAAAT
AGCCCTACACACCCATGTACCAGGTAGCGTGCT
Found at i:16640153 original size:29 final size:29
Alignment explanation
Indices: 16640084--16640190 Score: 105
Period size: 29 Copynumber: 3.8 Consensus size: 29
16640074 TCCACATACC
* * *
16640084 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAACCATA
16640112 T-TCA-ATGGCCCATTAGGCCCAAACCACT-
1 TGT-ATATGGCCCATTAGGCCCAAACCA-TA
*
16640140 TGTATATGGCCCATTAGGCCCAAATCATA
1 TGTATATGGCCCATTAGGCCCAAACCATA
* **
16640169 TTTATATGGCCTGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
16640191 GTCACATTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
27 15 0.23
28 9 0.14
29 42 0.64
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAACCATA
Found at i:16646435 original size:20 final size:22
Alignment explanation
Indices: 16646405--16646452 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
16646395 GAATATGCTG
*
16646405 TAAACTGAAAG-TTTTTGATAGA
1 TAAA-TGAAAGATTATTGATAGA
16646427 -AAATGAAAGATTATTGATAGA
1 TAAATGAAAGATTATTGATAGA
16646448 TAAAT
1 TAAAT
16646453 CACTTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (22 bp):
TAAATGAAAGATTATTGATAGA
Found at i:16647148 original size:33 final size:33
Alignment explanation
Indices: 16647102--16647233 Score: 171
Period size: 33 Copynumber: 4.1 Consensus size: 33
16647092 CCTAAAAGGT
*
16647102 TACA-TTTGAAAAGGTTATGTACACTTTGTGTG
1 TACACTTTGAAAAGGTTATGTATACTTTGTGTG
*
16647134 TACACTTTGAAAAGGTTATGTATACTTCGTGTG
1 TACACTTTGAAAAGGTTATGTATACTTTGTGTG
* * *
16647167 TACAC-TTGAAAAGGTTAGGTATACTCTGTGTA
1 TACACTTTGAAAAGGTTATGTATACTTTGTGTG
**
16647199 TAC-CATTTGAAAAGGAAATGTATACTTTGTGTG
1 TACAC-TTTGAAAAGGTTATGTATACTTTGTGTG
16647232 TA
1 TA
16647234 TTGCTTGAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
31 1 0.01
32 30 0.35
33 55 0.64
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (33 bp):
TACACTTTGAAAAGGTTATGTATACTTTGTGTG
Found at i:16647197 original size:65 final size:65
Alignment explanation
Indices: 16647102--16647233 Score: 176
Period size: 65 Copynumber: 2.0 Consensus size: 65
16647092 CCTAAAAGGT
* * * * **
16647102 TACATTTGAAAAGGTTATGTACACTTTGTGTGTA-CACTTTGAAAAGGTTATGTATACTTCGTGT
1 TACACTTGAAAAGGTTAGGTACACTCTGTGTATACCA-TTTGAAAAGGAAATGTATACTTCGTGT
16647166 G
65 G
* *
16647167 TACACTTGAAAAGGTTAGGTATACTCTGTGTATACCATTTGAAAAGGAAATGTATACTTTGTGTG
1 TACACTTGAAAAGGTTAGGTACACTCTGTGTATACCATTTGAAAAGGAAATGTATACTTCGTGTG
16647232 TA
1 TA
16647234 TTGCTTGAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 56 0.97
66 2 0.03
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (65 bp):
TACACTTGAAAAGGTTAGGTACACTCTGTGTATACCATTTGAAAAGGAAATGTATACTTCGTGTG
Found at i:16649468 original size:58 final size:56
Alignment explanation
Indices: 16649346--16649487 Score: 133
Period size: 58 Copynumber: 2.5 Consensus size: 56
16649336 TCAGTGTTCC
* * * *
16649346 TTTCCAAATGAATTCATTTCTCATTTTCATTTCCATTTTGGAGAAAACCACATTTA
1 TTTCCAAATGATTTCATTTCTTATTTTCATTTCCATTTTGGAGAAAACCACAATCA
* * ** ***
16649402 TTTACAAATGATTTCATTTCTGTATTTTGATTTTTATTTTTGGAGAAAACTTTAATCA
1 TTTCCAAATGATTTCATTTCT-TATTTTCATTTCCA-TTTTGGAGAAAACCACAATCA
16649460 TTTCCAAATG-TTTACTATTTCTTTATTT
1 TTTCCAAATGATTT-C-ATTTC-TTATTT
16649488 CACCATTTCT
Statistics
Matches: 69, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
56 19 0.28
57 13 0.19
58 26 0.38
59 10 0.14
60 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (56 bp):
TTTCCAAATGATTTCATTTCTTATTTTCATTTCCATTTTGGAGAAAACCACAATCA
Found at i:16651937 original size:304 final size:301
Alignment explanation
Indices: 16651353--16651939 Score: 682
Period size: 301 Copynumber: 1.9 Consensus size: 301
16651343 TTAGGGAGAA
* ** * *
16651353 GAATTTTCCATTGCTTGTTCTTGACATTTGATCCATATTTCAGGGCCTTTCTTCACTATTAGCCA
1 GAATTTTCCATTGCTTGTTCTAGACATTCAATCCATAGTTCAGGGCCTTTCCTCACTATTAGCCA
*** ** * *
16651418 ATTCTGTTGGTTGATGGAACCTAGCTGTATGGGAAATATACGCAAATCCTTCTTATTACAGTTGT
66 ATTCTGCAAGTTGATGGAACCTAGCTGTATAAGAAATATACGCAAATCCTCCTTATCACAGTTGT
** * * * *
16651483 ACAAGATGGTAACCAGAACGAATTGTTGATAGCTTTTGCCATTATGGAGAAAGAGAACATGGAAT
131 ACAAGATAATAACCAGAACGAACTGCTGATAGCTTTTGCAATTATGGAAAAAGAGAACATGGAAT
16651548 TGTGGAAAAAAAATTGACAAACTTGCAGAAGCATGTTGTTAGACAAGATAACATTTACTTGATTT
196 TGTGGAAAAAAAATTGACAAACTTGCAGAAGCATGTTGTTAGACAAGATAACATTTACTTGATTT
* *
16651613 TCGATCGATCAAAGGGGCTCATTGTGACAATTAGGTGTTCT
261 CCAATCGATCAAAGGGGCTCATTGTGACAATTAGGTGTTCT
* * *
16651654 GAATTTTCCATTGCTTGTTCTAGATATTCAATCCATACGTT-AGGGTCTTTCCTCACTATTAGTC
1 GAATTTTCCATTGCTTGTTCTAGACATTCAATCCATA-GTTCAGGGCCTTTCCTCACTATTAGCC
* * * * *
16651718 GATTGTGCAAGTTGATGGAA-CTTGACTGTATTAAGAAATATAGGCAAATCCTCCTTATCGCAGT
65 AATTCTGCAAGTTGATGGAACCTAG-CTGTA-TAAGAAATATACGCAAATCCTCCTTATCACAGT
* * *
16651782 TGTACAAGATAATAA-CTGAAACGTACTGCTGATAGCTTTTGCAAATTGTGGAAAAAGAGAACAT
128 TGTACAAGATAATAACCAG-AACGAACTGCTGATAGCTTTTGC-AATTATGGAAAAAGAGAACAT
***** * * * * *
16651846 GGAATTGT-GACAATTTTTCTTGACAAAGTTG-AGGAGGCATGTTGTTAGGCAAGATAGCATTTG
191 GGAATTGTGGA-AA-AAAAATTGACAAACTTGCA-GAAGCATGTTGTTAGACAAGATAACATTTA
16651909 CTTGATTTCCAAT-GAATCAAAGGGGCTCATT
253 CTTGATTTCCAATCG-ATCAAAGGGGCTCATT
16651940 ACGAGGATTA
Statistics
Matches: 236, Mismatches: 41, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
300 3 0.01
301 75 0.32
302 64 0.27
303 30 0.13
304 64 0.27
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (301 bp):
GAATTTTCCATTGCTTGTTCTAGACATTCAATCCATAGTTCAGGGCCTTTCCTCACTATTAGCCA
ATTCTGCAAGTTGATGGAACCTAGCTGTATAAGAAATATACGCAAATCCTCCTTATCACAGTTGT
ACAAGATAATAACCAGAACGAACTGCTGATAGCTTTTGCAATTATGGAAAAAGAGAACATGGAAT
TGTGGAAAAAAAATTGACAAACTTGCAGAAGCATGTTGTTAGACAAGATAACATTTACTTGATTT
CCAATCGATCAAAGGGGCTCATTGTGACAATTAGGTGTTCT
Found at i:16655429 original size:20 final size:21
Alignment explanation
Indices: 16655406--16655446 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16655396 ATTATGTTCT
*
16655406 TTCC-ATTTAAATAAATAACA
1 TTCCTATTTAAAAAAATAACA
16655426 TTCCTATTTAAAAAAATAACA
1 TTCCTATTTAAAAAAATAACA
16655447 ATTATTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (21 bp):
TTCCTATTTAAAAAAATAACA
Found at i:16656137 original size:20 final size:21
Alignment explanation
Indices: 16656112--16656150 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
16656102 AATAACACAT
16656112 AAATTCTACACA-AAAAAAAC
1 AAATTCTACACATAAAAAAAC
16656132 AAATTCTACACATAAAAAA
1 AAATTCTACACATAAAAAA
16656151 TAACAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (21 bp):
AAATTCTACACATAAAAAAAC
Found at i:16659819 original size:35 final size:30
Alignment explanation
Indices: 16659744--16659800 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
16659734 ATTAAATGGC
16659744 ATGAAATGTATATGAAATAGTATGTTTGGT
1 ATGAAATGTATATGAAATAGTATGTTTGGT
16659774 ATGAAATGTATATGAAATAGTATGTTT
1 ATGAAATGTATATGAAATAGTATGTTT
16659801 TGGCTGGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.40
Consensus pattern (30 bp):
ATGAAATGTATATGAAATAGTATGTTTGGT
Found at i:16660212 original size:43 final size:43
Alignment explanation
Indices: 16660164--16660259 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
16660154 GACCTGGTAC
*
16660164 ACAGGCGTGTGTGGCCACTTTGAAGGGCACACGGGCTAGACAT
1 ACAGGCGTGTGCGGCCACTTTGAAGGGCACACGGGCTAGACAT
*
16660207 ACAGGCGTGTGCGGCCACTTTGAAGGTCACACGGGCTAGACAT
1 ACAGGCGTGTGCGGCCACTTTGAAGGGCACACGGGCTAGACAT
16660250 ACAGGCGTGT
1 ACAGGCGTGT
16660260 CGTCGGCCGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.23, C:0.24, G:0.34, T:0.19
Consensus pattern (43 bp):
ACAGGCGTGTGCGGCCACTTTGAAGGGCACACGGGCTAGACAT
Found at i:16663391 original size:12 final size:12
Alignment explanation
Indices: 16663374--16663398 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16663364 ATGTAAGTGA
16663374 TCTTGATGATTT
1 TCTTGATGATTT
16663386 TCTTGATGATTT
1 TCTTGATGATTT
16663398 T
1 T
16663399 TTTTGGTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:16664262 original size:47 final size:45
Alignment explanation
Indices: 16664117--16664425 Score: 162
Period size: 47 Copynumber: 6.6 Consensus size: 45
16664107 GAGGGCTAGA
* *
16664117 GTAAGACATGTCTGGGACATGCATCAGCC-ACATTATGATTGCCAGT
1 GTAAGACATGTCTGGGACATGCATCAGCCTA-A-GATGATAGCCAGT
* * * * *
16664163 GTAAGACCATGTTTGGGACATGGCATC-GACGTAGAGATCAGT-GCTAGA
1 GTAAGA-CATGTCTGGGACAT-GCATCAG-CCTA-AGATGA-TAGCCAGT
16664211 GTAAGACATGTCTGGGACATGCATCAGCCTCAACGATGATAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCAGCCT-AA-GATGATAGCCAGT
* * * * *
16664258 GTAAGACGTGTCTGAGACATGCATC-GGCTAAGCTTCG-T-GCTAGT
1 GTAAGACATGTCTGGGACATGCATCAGCCTAAG-AT-GATAGCCAGT
* * * * * * * *
16664302 ATAAGACATGTATGGAACATGCATCAGTACGTATACACGAGAGCTAGT
1 GTAAGACATGTCTGGGACATGCATCAG--CCTA-AGATGATAGCCAGT
* ** * * *
16664350 GTAAGACCATGTCTGGGATATGGCATTGGCCTCAATAAAGATAGCCGGT
1 GTAAGA-CATGTCTGGGACAT-GCATCAGCCT-AA-GATGATAGCCAGT
16664399 GTAAGACCATGTCTGGGACATGGCATC
1 GTAAGA-CATGTCTGGGACAT-GCATC
16664426 GGCAACTTAA
Statistics
Matches: 200, Mismatches: 42, Indels: 39
0.71 0.15 0.14
Matches are distributed among these distances:
44 26 0.13
45 5 0.03
46 20 0.10
47 62 0.31
48 34 0.17
49 48 0.24
50 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGCATCAGCCTAAGATGATAGCCAGT
Found at i:16664277 original size:94 final size:91
Alignment explanation
Indices: 16664111--16664328 Score: 262
Period size: 94 Copynumber: 2.4 Consensus size: 91
16664101 TTATATGAGG
** * *
16664111 GCTAGAGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATTGCCAGTGTAAGACCATGTT
1 GCTAGAGTAAGACATGTCTGGGACATGCATCAGCCACACGATGATAGCCAGTGTAAGACCATGTC
*
16664176 TGGGACATGGCATCGACGTAGAG-ATCAGT
66 TGAGACAT-GCATCGAC-TA-AGCATC-GT
* *
16664205 GCTAGAGTAAGACATGTCTGGGACATGCATCAGCCTCAACGATGATAGCCAGTGTAAGA-CGTGT
1 GCTAGAGTAAGACATGTCTGGGACATGCATCAGCCAC-ACGATGATAGCCAGTGTAAGACCATGT
* *
16664269 CTGAGACATGCATCGGCTAAGCTTCGT
65 CTGAGACATGCATCGACTAAGCATCGT
* *
16664296 GCTAGTA-TAAGACATGTATGGAACATGCATCAG
1 GCTAG-AGTAAGACATGTCTGGGACATGCATCAG
16664329 TACGTATACA
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 33 0.30
92 5 0.05
93 7 0.06
94 47 0.43
95 18 0.16
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (91 bp):
GCTAGAGTAAGACATGTCTGGGACATGCATCAGCCACACGATGATAGCCAGTGTAAGACCATGTC
TGAGACATGCATCGACTAAGCATCGT
Found at i:16665313 original size:37 final size:37
Alignment explanation
Indices: 16665250--16665351 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
16665240 AGCTCAGACG
* * *
16665250 AAATCTCCACACGAAGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
16665287 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
16665324 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
16665352 TAGAGCTCGG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:16665548 original size:47 final size:47
Alignment explanation
Indices: 16665470--16665645 Score: 246
Period size: 47 Copynumber: 3.7 Consensus size: 47
16665460 CCCTTCGGGA
* ** * * *
16665470 CTTATCACATTTATACACTTTCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
* * *
16665517 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
16665564 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
16665611 CTTATCACATATATACA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
16665646 AGAATCCTAA
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 1 0.01
47 115 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
Found at i:16670911 original size:40 final size:40
Alignment explanation
Indices: 16670810--16670954 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
16670800 TACTCGAATG
* *
16670810 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
16670851 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
16670891 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
16670931 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
16670955 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:16678035 original size:12 final size:12
Alignment explanation
Indices: 16678018--16678042 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16678008 ATGTAAGTGA
16678018 TCTTGATGATTT
1 TCTTGATGATTT
16678030 TCTTGATGATTT
1 TCTTGATGATTT
16678042 T
1 T
16678043 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:16678558 original size:56 final size:56
Alignment explanation
Indices: 16678472--16678586 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
16678462 ACAAGGGATG
16678472 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
16678528 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
16678584 ATG
1 ATG
16678587 AAACATGTTG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:16678598 original size:40 final size:40
Alignment explanation
Indices: 16678543--16678626 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
16678533 CAAAACATGT
16678543 CATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAG
1 CATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAG
16678583 CATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAG
1 CATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAG
16678623 CATG
1 CATG
16678627 GGCAAAACAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.46, C:0.06, G:0.23, T:0.25
Consensus pattern (40 bp):
CATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAG
Found at i:16678651 original size:96 final size:95
Alignment explanation
Indices: 16678487--16678681 Score: 372
Period size: 96 Copynumber: 2.0 Consensus size: 95
16678477 CAAAACATGT
16678487 CATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAAACATGTCATGAAACA
1 CATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAAACATGTCATGAAACA
16678552 TGTTGTGTTAATGGAAGAATAAAATAAGAAG
66 TGTTGTGTTAATGGAAGAAT-AAATAAGAAG
*
16678583 CATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATGGGCAAAACATGTCATGAAACA
1 CATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAAACATGTCATGAAACA
16678648 TGTTGTGTTAATGGAAGAATAAATAAGAAG
66 TGTTGTGTTAATGGAAGAATAAATAAGAAG
16678678 CATG
1 CATG
16678682 GGCAATAAAC
Statistics
Matches: 98, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
95 14 0.14
96 84 0.86
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.24
Consensus pattern (95 bp):
CATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAAACATGTCATGAAACA
TGTTGTGTTAATGGAAGAATAAATAAGAAG
Found at i:16680058 original size:40 final size:40
Alignment explanation
Indices: 16679820--16680044 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
16679810 TCGAATGATG
* * * *
16679820 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
16679860 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16679900 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16679939 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16679979 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
16680020 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16680045 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 119 0.73
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16680066 original size:119 final size:119
Alignment explanation
Indices: 16679820--16680077 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
16679810 TCGAATGATG
* *
16679820 TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTGACCATATCCGGACTAAGATCCAAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATTT
* **
16679885 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * ** *
16679939 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGG-ATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCAAAGGCAT
* * * *
16680002 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
16680059 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
16680078 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.70
120 32 0.27
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:16681651 original size:30 final size:30
Alignment explanation
Indices: 16681606--16681663 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16681596 CTTTCGAGCA
* *
16681606 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTATCAAAGTC
*
16681636 TAGGGGCAAAGTGGTCATTTTATCAAAG
1 TAGGGGCAAAATGGTCATTTTATCAAAG
16681664 ATGTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTATCAAAGTC
Found at i:16682072 original size:47 final size:47
Alignment explanation
Indices: 16682007--16682317 Score: 205
Period size: 47 Copynumber: 6.6 Consensus size: 47
16681997 GAGGGCTAGA
* *
16682007 GTAAGA-CATGTTTGGGACATGCATCAGCCATATTATGATAGCCAGT
1 GTAAGACCATGTCTGGGACATGCATCGGCCATATTATGATAGCCAGT
* * * * *
16682053 GTAAGACCATGTCTGGGACATGGCATTGGTGCAGA-GATGAGT-GCTAGT
1 GTAAGACCATGTCTGGGACAT-GCATCGG-CCATATTATGA-TAGCCAGT
**
16682101 GTAAGA-CATGTCTGGGACATGCATCGGCC-TCAACGATGATAGCCAGT
1 GTAAGACCATGTCTGGGACATGCATCGGCCAT--ATTATGATAGCCAGT
* * *
16682148 GTAAGA-CGTGTCTGGGACATGCATCGGCTA-AGCTT-T-AT-GCTAGT
1 GTAAGACCATGTCTGGGACATGCATCGGCCATA--TTATGATAGCCAGT
* * * * * *
16682192 GTAAGACTA-GTCTGGGACATGCATTGGTACATATATACGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGCATCGG-CCATAT-TATGATAGCCAGT
* * ** * *
16682240 GTAAGACCATGTCTGAGATATGGCATCAACC-TCGATAAAGATAGCCAGT
1 GTAAGACCATGTCTGGGACAT-GCATCGGCCAT--ATTATGATAGCCAGT
16682289 GTAAGACCATGTCTGGGACATGGCATCGG
1 GTAAGACCATGTCTGGGACAT-GCATCGG
16682318 TAACTTCACC
Statistics
Matches: 205, Mismatches: 38, Indels: 41
0.72 0.13 0.14
Matches are distributed among these distances:
44 29 0.14
45 6 0.03
46 16 0.08
47 65 0.32
48 35 0.17
49 48 0.23
50 6 0.03
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (47 bp):
GTAAGACCATGTCTGGGACATGCATCGGCCATATTATGATAGCCAGT
Done.